Locus 5696

Sequence ID	3R_DroMel_CAF1
Location	14,927,047 – 14,927,395
Length	348
Max. P	0.999136

overview

Window 0

Location	14,927,047 – 14,927,166
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.52
Mean single sequence MFE	-19.63
Consensus MFE	-17.89
Energy contribution	-18.69
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.15
Structure conservation index	0.91
SVM decision value	0.06
SVM RNA-class probability	0.563822
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927047 119 + 27905053
-UUUCAACAAGCAUUCCACGCAUGGCCAUCAAAGUAAAUUACUUAAUUUAUGCCUCAAAAUGUGUCGUCGAGCGGGCGGCACUUUCUACCUCUGCCACCCAACAAAACAAAAAAAAAAUA
-.........((...(.(((((((((.......(((((((....)))))))))).....)))))).)....))(((.((((...........)))).))).................... ( -21.41)
>DroSec_CAF1 57055 112 + 1
-UUUCAACAAGCAUUCCACGCAUGGCCAUCAAAGUAAAUUACUUAAUUUAUGCCUCAAAAUGUGUCGUCGAGCGGGCGGCACUUUCUAUCUCUGCCACCCAACAA-------CAAAAAUA
-.........((...(.(((((((((.......(((((((....)))))))))).....)))))).)....))(((.((((...........)))).))).....-------........ ( -21.41)
>DroSim_CAF1 55729 112 + 1
-UUUCAACAAGCAUUCCACGCAUGGCCAUCAAAGUAAAUUACUUAAUUUAUGCCUCAAAAUGUGUCGUCGAGCGGGCGGCACUUUCUACCUCUGCCACCCAACAA-------CAAAAAUA
-.........((...(.(((((((((.......(((((((....)))))))))).....)))))).)....))(((.((((...........)))).))).....-------........ ( -21.41)
>DroEre_CAF1 53623 102 + 1
-UUUCAACAAGCAUUCCACGCAUGGCCAUCAAAGUAAAUUACUUAAUUUAUGCCUCAAAAUGUGUCGUCGAGCGGGCGGCACUUUCUA------CCACCCAAC-----------AAAAUA
-.........((.......))..(((.......(((((((....)))))))))).......((((((((.....))))))))......------.........-----------...... ( -17.01)
>DroYak_CAF1 60440 105 + 1
UUUUCAACAAGCAUUCCACGCAUGACCAUCAAAGUAAAUUACUUAAUUUAUGCCUCAAAAUGUGUCGUCGAGCGGGCGGCACUUUCUA------CCACCCAAC---------CAAAAAUA
...................((((((......(((((...)))))...))))))........((((((((.....))))))))......------.........---------........ ( -16.90)
>consensus
_UUUCAACAAGCAUUCCACGCAUGGCCAUCAAAGUAAAUUACUUAAUUUAUGCCUCAAAAUGUGUCGUCGAGCGGGCGGCACUUUCUA_CUCUGCCACCCAACAA_______CAAAAAUA
..........((...(.((((((..........(((((((....)))))))........)))))).)....))(((.((((...........)))).))).................... (-17.89 = -18.69 +   0.80)

alignment

secondary structure

dotplot

Window 1

Location	14,927,126 – 14,927,246
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.59
Mean single sequence MFE	-26.12
Consensus MFE	-21.00
Energy contribution	-23.00
Covariance contribution	2.00
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.80
SVM decision value	0.85
SVM RNA-class probability	0.866754
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927126 120 + 27905053
ACUUUCUACCUCUGCCACCCAACAAAACAAAAAAAAAAUACAAAGCGGUUCUUGCGUAAGCGAUUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGUGUGUACUU
.....................................((((((((..((((((((....))))........((((((.....)))))).((....)).))))....))))))))...... ( -27.30)
>DroSec_CAF1 57134 109 + 1
ACUUUCUAUCUCUGCCACCCAACAA-------CAAAAAUACAAA----UUCUUGCGUAAGCGAUUUUAAACGCAUGCAAAACGCGUGCAGCAAAAGCAGGGCAAACUUUUGUGUGUACUU
.........((((((..........-------............----...((((....))))........((((((.....)))))).......))))))................... ( -22.60)
>DroSim_CAF1 55808 113 + 1
ACUUUCUACCUCUGCCACCCAACAA-------CAAAAAUACAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGUGUGUACUU
.........................-------.....((((((((..((((((((....))))........((((((.....)))))).((....)).))))....))))))))...... ( -27.20)
>DroEre_CAF1 53702 101 + 1
ACUUUCUA------CCACCCAAC-----------AAAAUACAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUCUUGU--GUACUU
........------.........-----------...((((((((..((((((((....))))........((((((.....)))))).((....)).))))...)).))))--)).... ( -26.30)
>DroYak_CAF1 60520 103 + 1
ACUUUCUA------CCACCCAAC---------CAAAAAUACAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGU--GUACUU
........------.........---------.....((((((((..((((((((....))))........((((((.....)))))).((....)).))))....))))))--)).... ( -27.20)
>consensus
ACUUUCUA_CUCUGCCACCCAACAA_______CAAAAAUACAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGUGUGUACUU
.................(((...............................((((....))))........((((((.....)))))).((....)).)))................... (-21.00 = -23.00 +   2.00)

alignment

secondary structure

dotplot

Window 2

Location	14,927,166 – 14,927,281
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	84.34
Mean single sequence MFE	-29.75
Consensus MFE	-22.00
Energy contribution	-22.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.02
Structure conservation index	0.74
SVM decision value	0.87
SVM RNA-class probability	0.871205
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927166 115 + 27905053
CAAAGCGGUUCUUGCGUAAGCGAUUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGUGUGUACUUAUGUAUGAAUGUAUGUAU----AU-UGUUACAUCAGAUUU
.......((((.((((((((...........((((((.....)))))).((....))...(((.((....)).))).)))))))).))))(.(((((.----..-...))))))...... ( -30.00)
>DroSim_CAF1 55841 116 + 1
CAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGUGUGUACUUAUGUAUG----UAUGUAUAUACAUCAGUUACAUCAGAUUU
.......((((((((....))))........((((((.....)))))).((....)).)))).((((..(((((((((.(((....)----)).)))))))))..))))........... ( -35.20)
>DroEre_CAF1 53725 95 + 1
CAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUCUUGU--GUACUUAUAU---------------------AGUUACAUCAGAU--
.......((((((((....))))........((((((.....)))))).((....)).))))....(((.((--(((((.....---------------------)).))))).))).-- ( -27.60)
>DroYak_CAF1 60545 95 + 1
CAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGU--GUACUUAUAU---------------------GGUUACAUCAGAU--
.......((((((((....))))........((((((.....)))))).((....)).))))...((..(((--(.(((.....---------------------)))))))..))..-- ( -26.20)
>consensus
CAAAGCGGUUCUUGCGUAAGCGACUUUAAACGCAUGCAAAACGCGUGCAGCGAAAGCAGGGCAAACUUUUGU__GUACUUAUAU_____________________AGUUACAUCAGAU__
....(((....((((((..(((........)))))))))..)))((((.((....))...((((....))))..)))).......................................... (-22.00 = -22.00 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	14,927,206 – 14,927,321
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	84.79
Mean single sequence MFE	-32.08
Consensus MFE	-26.82
Energy contribution	-26.82
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.72
Structure conservation index	0.84
SVM decision value	2.25
SVM RNA-class probability	0.991170
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927206 115 + 27905053
ACGCGUGCAGCGAAAGCAGGGCAAACUUUUGUGUGUACUUAUGUAUGAAUGUAUGUAU----AU-UGUUACAUCAGAUUUUCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAG
..(((((((((....))((..((.((....)).))..))..........)))))))..----..-......(((((..(((((.((((((.....)))))))))))....)))))..... ( -33.00)
>DroSim_CAF1 55881 116 + 1
ACGCGUGCAGCGAAAGCAGGGCAAACUUUUGUGUGUACUUAUGUAUG----UAUGUAUAUACAUCAGUUACAUCAGAUUUUCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAG
....((.(.((....)).).)).((((..(((((((((.(((....)----)).)))))))))..))))..(((((..(((((.((((((.....)))))))))))....)))))..... ( -38.50)
>DroEre_CAF1 53765 95 + 1
ACGCGUGCAGCGAAAGCAGGGCAAACUCUUGU--GUACUUAUAU---------------------AGUUACAUCAGAU--UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAG
....(((((((....))((((....))))..)--))))......---------------------......(((((((--(.((((((((.....)))))))).)))...)))))..... ( -28.80)
>DroYak_CAF1 60585 95 + 1
ACGCGUGCAGCGAAAGCAGGGCAAACUUUUGU--GUACUUAUAU---------------------GGUUACAUCAGAU--UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAG
....((.(.((....)).).))...(((((((--(.(((.....---------------------))))))(((((((--(.((((((((.....)))))))).)))...)))))))))) ( -28.00)
>consensus
ACGCGUGCAGCGAAAGCAGGGCAAACUUUUGU__GUACUUAUAU_____________________AGUUACAUCAGAU__UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAG
....((((.((....))...((((....))))..)))).................................(((((......((((((((.....)))))))).......)))))..... (-26.82 = -26.82 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	14,927,206 – 14,927,321
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	84.79
Mean single sequence MFE	-28.45
Consensus MFE	-26.25
Energy contribution	-26.25
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.89
Structure conservation index	0.92
SVM decision value	2.85
SVM RNA-class probability	0.997405
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927206 115 - 27905053
CUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGAAAAUCUGAUGUAACA-AU----AUACAUACAUUCAUACAUAAGUACACACAAAAGUUUGCCCUGCUUUCGCUGCACGCGU
....((((((....(((((((((((.....)))))))))))...)))))).....-..----................................((.(((...((....)).))).)).. ( -27.00)
>DroSim_CAF1 55881 116 - 1
CUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGAAAAUCUGAUGUAACUGAUGUAUAUACAUA----CAUACAUAAGUACACACAAAAGUUUGCCCUGCUUUCGCUGCACGCGU
....((((((....(((((((((((.....)))))))))))...))))))..(((.((((((.......----.)))))).)))..........((.(((...((....)).))).)).. ( -32.60)
>DroEre_CAF1 53765 95 - 1
CUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA--AUCUGAUGUAACU---------------------AUAUAAGUAC--ACAAGAGUUUGCCCUGCUUUCGCUGCACGCGU
....((((((...((((((((((((.....))))))))))--)))))))).....---------------------..........--......((.(((...((....)).))).)).. ( -27.10)
>DroYak_CAF1 60585 95 - 1
CUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA--AUCUGAUGUAACC---------------------AUAUAAGUAC--ACAAAAGUUUGCCCUGCUUUCGCUGCACGCGU
....((((((...((((((((((((.....))))))))))--)))))))).....---------------------..........--......((.(((...((....)).))).)).. ( -27.10)
>consensus
CUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA__AUCUGAUGUAACU_____________________ACAUAAGUAC__ACAAAAGUUUGCCCUGCUUUCGCUGCACGCGU
....((((((.....((((((((((.....))))))))))....))))))............................................((.(((...((....)).))).)).. (-26.25 = -26.25 +  -0.00)

alignment

secondary structure

dotplot

Window 5

Location	14,927,246 – 14,927,361
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	80.68
Mean single sequence MFE	-32.27
Consensus MFE	-23.72
Energy contribution	-24.84
Covariance contribution	1.13
Combinations/Pair	1.07
Mean z-score	-2.20
Structure conservation index	0.73
SVM decision value	1.48
SVM RNA-class probability	0.957505
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927246 115 + 27905053
AUGUAUGAAUGUAUGUAU----AU-UGUUACAUCAGAUUUUCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGACGAACAGCUCCAUCUUUGGACUUUGCUCCCCCCGG
..(((..(((((....))----))-)..)))(((((..(((((.((((((.....)))))))))))....)))))....((((......))))((((....))))............... ( -29.70)
>DroSim_CAF1 55921 114 + 1
AUGUAUG----UAUGUAUAUACAUCAGUUACAUCAGAUUUUCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCGGGGCGAGCAGCUCCAUUUUUGGACUUUGCUCC--ACGG
(((((((----(....))))))))..(((..(((((..(((((.((((((.....)))))))))))....)))))...)))(((((((..((.((((....)))))))))))))--.... ( -38.30)
>DroEre_CAF1 53803 95 + 1
AUAU---------------------AGUUACAUCAGAU--UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGGCGAGCCACUCAAUUCUUGGACUUUGCUCC--CCGG
....---------------------......(((((((--(.((((((((.....)))))))).)))...))))).....(((((.((((...((........))....)))))--)))) ( -30.10)
>DroYak_CAF1 60623 95 + 1
AUAU---------------------GGUUACAUCAGAU--UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGGCGAGUAGCUCAAUUCUUGGACUUUGCUCC--CCGG
....---------------------......(((((((--(.((((((((.....)))))))).)))...))))).....(((((.((((((..((.....))..))..)))))--)))) ( -31.00)
>consensus
AUAU_____________________AGUUACAUCAGAU__UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGGCGAGCAGCUCAAUUCUUGGACUUUGCUCC__CCGG
...............................(((((......((((((((.....)))))))).......))))).....((((..((((((.((((....))))..))))))...)))) (-23.72 = -24.84 +   1.13)

alignment

secondary structure

dotplot

Window 6

Location	14,927,246 – 14,927,361
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	80.68
Mean single sequence MFE	-34.60
Consensus MFE	-25.74
Energy contribution	-26.30
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-3.25
Structure conservation index	0.74
SVM decision value	3.39
SVM RNA-class probability	0.999136
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927246 115 - 27905053
CCGGGGGGAGCAAAGUCCAAAGAUGGAGCUGUUCGUCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGAAAAUCUGAUGUAACA-AU----AUACAUACAUUCAUACAU
...(((.(((((...((((....))))..))))).)))......((((((....(((((((((((.....)))))))))))...)))))).....-..----.................. ( -35.50)
>DroSim_CAF1 55921 114 - 1
CCGU--GGAGCAAAGUCCAAAAAUGGAGCUGCUCGCCCCGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGAAAAUCUGAUGUAACUGAUGUAUAUACAUA----CAUACAU
..((--((.((..((((((....)))).))....)).))))...((((((....(((((((((((.....)))))))))))...))))))....((((((((....)))----))).)). ( -37.20)
>DroEre_CAF1 53803 95 - 1
CCGG--GGAGCAAAGUCCAAGAAUUGAGUGGCUCGCCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA--AUCUGAUGUAACU---------------------AUAU
..((--(((((...(..((.....))..).)))).)))......((((((...((((((((((((.....))))))))))--)))))))).....---------------------.... ( -33.90)
>DroYak_CAF1 60623 95 - 1
CCGG--GGAGCAAAGUCCAAGAAUUGAGCUACUCGCCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA--AUCUGAUGUAACC---------------------AUAU
..((--((((...((..((.....))..)).))).)))......((((((...((((((((((((.....))))))))))--)))))))).....---------------------.... ( -31.80)
>consensus
CCGG__GGAGCAAAGUCCAAAAAUGGAGCUGCUCGCCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA__AUCUGAUGUAACU_____________________ACAU
......(((......))).......((((((......)))))).((((((.....((((((((((.....))))))))))....)))))).............................. (-25.74 = -26.30 +   0.56)

alignment

secondary structure

dotplot

Window 7

Location	14,927,281 – 14,927,395
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.63
Mean single sequence MFE	-30.78
Consensus MFE	-26.18
Energy contribution	-27.10
Covariance contribution	0.92
Combinations/Pair	1.11
Mean z-score	-2.16
Structure conservation index	0.85
SVM decision value	2.04
SVM RNA-class probability	0.986297
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927281 114 + 27905053
UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGACGAACAGCUCCAUCUUUGGACUUUGCUCCCCCCGGCAAAUCAAUACCAAC------UACCAAAUCGUAAAUAAUU
..((((((((.....))))))))........((((....((((......))))((((....))))..(((((......)))))))))........------................... ( -28.20)
>DroSec_CAF1 57283 118 + 1
UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGGCGAGCAGCUCCAUUUUUGGACUUUGCUCC--ACGGUAAAUCAAUACGCACAACGAGUACCAAAUCUUAAAUAAUU
..((((((((.....))))))))........((((....((((.(.((((((.((((....))))..)))))))--.))))..))))................................. ( -30.50)
>DroSim_CAF1 55957 116 + 1
UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCGGGGCGAGCAGCUCCAUUUUUGGACUUUGCUCC--ACGGCAAAUCAAUACCCACAACGAGUACCAAAG--UAAAUAAUU
..((((((((.....))))))))..................(((((.....)))))..((((((..((((((..--..))))))....(((.(.....).)))))))))--......... ( -31.10)
>DroEre_CAF1 53820 112 + 1
UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGGCGAGCCACUCAAUUCUUGGACUUUGCUCC--CCGGCAAAUCAAUACCAAC------UGCCACAUCGUAAGUAAUU
..((((((((.....))))))))........((((....((((((.((((...((........))....)))))--)))))..))))........------................... ( -31.60)
>DroYak_CAF1 60640 112 + 1
UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGGCGAGUAGCUCAAUUCUUGGACUUUGCUCC--CCGGCAAAUCAAUACCAAC------UACCACAUCGUAAAUAAUU
..((((((((.....))))))))........((((....((((((.((((((..((.....))..))..)))))--)))))..))))........------................... ( -32.50)
>consensus
UCCCAGUGACACGGGGUCACUGGAAAUUAACUGAUAAAAGCUGGGCGAGCAGCUCCAUUUUUGGACUUUGCUCC__CCGGCAAAUCAAUACCAAC______UACCAAAUCGUAAAUAAUU
..((((((((.....))))))))........((((....(((((..((((((.((((....))))..))))))...)))))..))))................................. (-26.18 = -27.10 +   0.92)

alignment

secondary structure

dotplot

Window 8

Location	14,927,281 – 14,927,395
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.63
Mean single sequence MFE	-34.92
Consensus MFE	-25.46
Energy contribution	-26.38
Covariance contribution	0.92
Combinations/Pair	1.10
Mean z-score	-1.68
Structure conservation index	0.73
SVM decision value	0.07
SVM RNA-class probability	0.570828
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14927281 114 - 27905053
AAUUAUUUACGAUUUGGUA------GUUGGUAUUGAUUUGCCGGGGGGAGCAAAGUCCAAAGAUGGAGCUGUUCGUCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA
..........(((..(((.------..(((((......)))))(((.(((((...((((....))))..))))).))).)))...))).......((((((((((.....)))))))))) ( -36.10)
>DroSec_CAF1 57283 118 - 1
AAUUAUUUAAGAUUUGGUACUCGUUGUGCGUAUUGAUUUACCGU--GGAGCAAAGUCCAAAAAUGGAGCUGCUCGCCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA
.............((((((...((((.(((((......)))...--.(((((...((((....))))..))))))).))))...)))))).....((((((((((.....)))))))))) ( -34.90)
>DroSim_CAF1 55957 116 - 1
AAUUAUUUA--CUUUGGUACUCGUUGUGGGUAUUGAUUUGCCGU--GGAGCAAAGUCCAAAAAUGGAGCUGCUCGCCCCGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA
.........--..(..((((((.....))))))..)......((--((.((..((((((....)))).))....)).))))..............((((((((((.....)))))))))) ( -33.50)
>DroEre_CAF1 53820 112 - 1
AAUUACUUACGAUGUGGCA------GUUGGUAUUGAUUUGCCGG--GGAGCAAAGUCCAAGAAUUGAGUGGCUCGCCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA
..........((((.(((.------...((((......))))((--(((((...(..((.....))..).)))).))).)))..)))).......((((((((((.....)))))))))) ( -37.10)
>DroYak_CAF1 60640 112 - 1
AAUUAUUUACGAUGUGGUA------GUUGGUAUUGAUUUGCCGG--GGAGCAAAGUCCAAGAAUUGAGCUACUCGCCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA
..........((((....(------(((((((......))))((--((((...((..((.....))..)).))).)))))))..)))).......((((((((((.....)))))))))) ( -33.00)
>consensus
AAUUAUUUACGAUUUGGUA______GUUGGUAUUGAUUUGCCGG__GGAGCAAAGUCCAAAAAUGGAGCUGCUCGCCCAGCUUUUAUCAGUUAAUUUCCAGUGACCCCGUGUCACUGGGA
..........(((..(((..........((((......)))).....(((((...((((....))))..))))).....)))...))).......((((((((((.....)))))))))) (-25.46 = -26.38 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:05 2006