Locus 96

Sequence ID	2R_DroMel_CAF1
Location	1,345,928 – 1,346,305
Length	377
Max. P	0.999013

overview

Window 9

Location	1,345,928 – 1,346,035
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.35
Mean single sequence MFE	-35.10
Consensus MFE	-33.34
Energy contribution	-33.98
Covariance contribution	0.64
Combinations/Pair	1.06
Mean z-score	-2.04
Structure conservation index	0.95
SVM decision value	3.33
SVM RNA-class probability	0.999013
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1345928 107 + 20766785
------------AAACCCCAAACCAAACACGUUUGGGCCUCAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUG-GCCAUCUAUGGACAGCUUGGGUUGUCUAUGCCUGGCAGCAGC
------------(((((((((.(((((....)))))......(((......))).......))))).))))..(((.-((((..((((((((((....))))))))))..)))).))).. ( -35.70)
>DroSec_CAF1 64218 108 + 1
------------AAACCCCAAACCAAACACGUUCGGGCCCCAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUGGGCCAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGC
------------....(((.(((.......))).)))..((((((...(((.(.(........)).)))...))))))((((..((((((((((....))))))))))..))))...... ( -32.50)
>DroSim_CAF1 42408 107 + 1
------------AAACCCCAAACCAAACACGUUCGGGCCCCAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUG-GCCAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGC
------------(((((((((..((((...((.(((.............))).))..))))))))).))))..(((.-((((..((((((((((....))))))))))..)))).))).. ( -32.42)
>DroEre_CAF1 45507 119 + 1
ACCCCAAGCCCCAAACCCCAAACCAAACACGUUUGGGCCUCGUGUUUUACUGCACUUUUUGUUGCGAGUUUUAUGUG-GCCAUCUAUGGACAGCUUUGGCUGUCUAUGCCUGGCGGCAGC
.......((..((((.(((((((.......)))))))....((((......))))..))))..))........(((.-((((..((((((((((....))))))))))..)))).))).. ( -41.60)
>DroYak_CAF1 32825 107 + 1
------------AAACCCCAAACCAAACACGUUUGGGCCCCAUGUUUUAGUGCACUUUUUGUUGAGAGUUUUAUGUG-GCCAUCUUUGGACAGCUUUGGCUGUCUAUGCCUGGCAGCAGC
------------....(((((((.......))))))).............(((((((((....))))))........-((((....((((((((....))))))))....)))).))).. ( -33.30)
>consensus
____________AAACCCCAAACCAAACACGUUUGGGCCCCAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUG_GCCAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGC
................(((((((.......)))))))............((((((((((....)))))).........((((..((((((((((....))))))))))..)))).)))). (-33.34 = -33.98 +   0.64)

alignment

secondary structure

dotplot

Window 0

Location	1,345,956 – 1,346,075
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.87
Mean single sequence MFE	-33.90
Consensus MFE	-29.38
Energy contribution	-29.46
Covariance contribution	0.08
Combinations/Pair	1.09
Mean z-score	-1.49
Structure conservation index	0.87
SVM decision value	0.82
SVM RNA-class probability	0.857886
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1345956 119 + 20766785
CAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUG-GCCAUCUAUGGACAGCUUGGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGCU
...........((......((.((((.((....(((.-((((..((((((((((....))))))))))..)))).))))))))).))(((((..(..........)..)))))....)). ( -33.10)
>DroSec_CAF1 64246 119 + 1
CAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUGGGCCAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGC-
(((((...(((.(.(........)).)))...))))).((((..((((((((((....))))))))))..))))((((((((((......))))...............))))))....- ( -32.56)
>DroSim_CAF1 42436 118 + 1
CAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUG-GCCAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGC-
(((((...(((.(.(........)).)))...)))))-((((..((((((((((....))))))))))..))))((((((((((......))))...............))))))....- ( -32.56)
>DroEre_CAF1 45547 118 + 1
CGUGUUUUACUGCACUUUUUGUUGCGAGUUUUAUGUG-GCCAUCUAUGGACAGCUUUGGCUGUCUAUGCCUGGCGGCAGCCCCGCCACAAUGGCUCUUAUUUUAUGUUCGUUGCUUAGC-
.((((......)))).....((.(((((.....(((.-((((..((((((((((....))))))))))..)))).))).....(((.....)))............))))).)).....- ( -40.10)
>DroYak_CAF1 32853 116 + 1
CAUGUUUUAGUGCACUUUUUGUUGAGAGUUUUAUGUG-GCCAUCUUUGGACAGCUUUGGCUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUUUU--UUGUUCGUUGCUUAGC-
...........(((.........(((((.((((((((-((......((((((((....)))))))).....(((....)))..))))).))))).))))).--........))).....- ( -31.17)
>consensus
CAUGUUUUACUGCACUUUUUGUUGGGAGUUUUAUGUG_GCCAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGC_
...........((((((((....)))))).........((((..((((((((((....))))))))))..))))((((((((((......))))...............))))))..)). (-29.38 = -29.46 +   0.08)

alignment

secondary structure

dotplot

Window 1

Location	1,345,995 – 1,346,114
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	94.63
Mean single sequence MFE	-30.12
Consensus MFE	-26.68
Energy contribution	-26.68
Covariance contribution	-0.00
Combinations/Pair	1.06
Mean z-score	-1.89
Structure conservation index	0.89
SVM decision value	2.22
SVM RNA-class probability	0.990487
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1345995 119 + 20766785
CAUCUAUGGACAGCUUGGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGCUGUAGCUGUAAAAAUCAUUUUAUGAGUUUGCAUAAAAUUU
....((((((((((....))))))))))...(((.(((((...((.(((((..(........)..))).)).))...))))).))).........((((((((......)))))))).. ( -30.50)
>DroSec_CAF1 64286 113 + 1
CAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGC------UGUAAAAAUCAUUUUAUGAGUUUGCAUAAAAUUU
.....(((((((((....)))))))))((..(((((((((((((......))))...........))).))))))..))------..........((((((((......)))))))).. ( -28.00)
>DroSim_CAF1 42475 113 + 1
CAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGC------UGUAAAAAUCAUUUUAUGAGUUUGCAUAAAAUUU
.....(((((((((....)))))))))((..(((((((((((((......))))...........))).))))))..))------..........((((((((......)))))))).. ( -28.00)
>DroEre_CAF1 45586 113 + 1
CAUCUAUGGACAGCUUUGGCUGUCUAUGCCUGGCGGCAGCCCCGCCACAAUGGCUCUUAUUUUAUGUUCGUUGCUUAGC------UGUAAAAAUCAUUUUAUGAGUUUGCAUAAAAUUU
.....(((((((((....)))))))))(((((((((.....))))))....)))....(((((((((.....((((...------.((((((....))))))))))..))))))))).. ( -34.70)
>DroYak_CAF1 32892 111 + 1
CAUCUUUGGACAGCUUUGGCUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUUUU--UUGUUCGUUGCUUAGC------UGUAAAAAUCAUUUUAUGAGUUUGCAUAAAAUUU
......((((((((....)))))))).((..(((((((((((((......)))).......--..))).))))))..))------..........((((((((......)))))))).. ( -29.40)
>consensus
CAUCUAUGGACAGCUUUGGUUGUCUAUGCCUGGCAGCAGCCCCGCCACAAUGGGUCUUAUUUUUUGUUCGUUGCUUAGC______UGUAAAAAUCAUUUUAUGAGUUUGCAUAAAAUUU
.....(((((((((....)))))))))((..(((((((((((((......))))...........))).))))))..))................((((((((......)))))))).. (-26.68 = -26.68 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	1,346,075 – 1,346,188
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	97.09
Mean single sequence MFE	-23.26
Consensus MFE	-22.88
Energy contribution	-22.72
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.84
Structure conservation index	0.98
SVM decision value	2.82
SVM RNA-class probability	0.997216
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1346075 113 - 20766785
AAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACAAAAUUUUAUGCAAACUCAUAAAAUGAUUUUUACAGCUAC
....((((....))))((((......(((((....)))))..)))).............((((((((((.((.....(((((((......))))))))).))))))).))).. ( -25.50)
>DroSec_CAF1 64365 108 - 1
AAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACAAAAUUUUAUGCAAACUCAUAAAAUGAUUUUUACA-----
....((((....))))((((......(((((....)))))..))))................(((((((.((.....(((((((......))))))))).))))))).----- ( -22.80)
>DroSim_CAF1 42554 108 - 1
AAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACAAAAUUUUAUGCAAACUCAUAAAAUGAUUUUUACA-----
....((((....))))((((......(((((....)))))..))))................(((((((.((.....(((((((......))))))))).))))))).----- ( -22.80)
>DroEre_CAF1 45665 108 - 1
AAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCACCGGGCACAAUAAACAUGGGCGUGAAAACCACAAAAUUUUAUGCAAACUCAUAAAAUGAUUUUUACA-----
....((((....))))((((......(((((....)))))..))))................(((((((.((.....(((((((......))))))))).))))))).----- ( -21.70)
>DroYak_CAF1 32969 108 - 1
AAUUGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGAGCACAAUAAACAUGGGCGUGAAAACCACAAAAUUUUAUGCAAACUCAUAAAAUGAUUUUUACA-----
....((((....))))((((......(((((....)))))..))))................(((((((.((.....(((((((......))))))))).))))))).----- ( -23.50)
>consensus
AAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACAAAAUUUUAUGCAAACUCAUAAAAUGAUUUUUACA_____
....((((....))))((((......(((((....)))))..))))................(((((((.((.....(((((((......))))))))).)))))))...... (-22.88 = -22.72 +  -0.16)

alignment

secondary structure

dotplot

Window 3

Location	1,346,114 – 1,346,225
Length	111
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	94.83
Mean single sequence MFE	-31.16
Consensus MFE	-27.88
Energy contribution	-27.72
Covariance contribution	-0.16
Combinations/Pair	1.12
Mean z-score	-1.55
Structure conservation index	0.89
SVM decision value	1.35
SVM RNA-class probability	0.945025
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1346114 111 - 20766785
---UCAGCUGAUGCGGCUUAGCCUGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACA
---...(((.((((((((......)))))...............((((....))))((((......(((((....)))))..)))).........))).)))(((.....))). ( -30.30)
>DroSec_CAF1 64399 111 - 1
---UCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACA
---...(((.(((.......(((((.((................((((....))))..........(((((....))))))))))))........))).)))(((.....))). ( -32.16)
>DroSim_CAF1 42588 114 - 1
UCCUCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACA
......(((.(((.......(((((.((................((((....))))..........(((((....))))))))))))........))).)))(((.....))). ( -32.16)
>DroEre_CAF1 45699 110 - 1
---UCCACUGAUGCGGCUCAGCCUGGCUGGA-ACAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCACCGGGCACAAUAAACAUGGGCGUGAAAACCACA
---............(((((((((((.....-............((((....))))..........(((((....))))).))))))..........)))))(((.....))). ( -29.80)
>DroYak_CAF1 33003 111 - 1
---UCAGCUGAUACGGCUUAGCCCAGCUGGAAAUAAAAUCAAUUGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGAGCACAAUAAACAUGGGCGUGAAAACCACA
---..(((((...)))))..(((((...................((((....))))((((......(((((....)))))..))))...........)))))(((.....))). ( -31.40)
>consensus
___UCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGCAGCGGGCACAAUAAACAUGGGCGUGAAAACCACA
.....(((((...)))))..(((((...................((((....))))((((......(((((....)))))..))))...........)))))(((.....))). (-27.88 = -27.72 +  -0.16)

alignment

secondary structure

dotplot

Window 4

Location	1,346,148 – 1,346,265
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	86.94
Mean single sequence MFE	-44.28
Consensus MFE	-33.48
Energy contribution	-34.56
Covariance contribution	1.08
Combinations/Pair	1.09
Mean z-score	-2.08
Structure conservation index	0.76
SVM decision value	0.89
SVM RNA-class probability	0.874496
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1346148 117 + 20766785
GCAGCAUAUGCUGCCAUUGUCGAGGACGUUGUCGUCUAUUGAUUUUAUUUCCAGCCAGGCUAAGCCGCAUCAGCUGA---GCGGCUUCGCCCGAAUUCUGUGACGUCCAGGGUUCAGGGU
(((((....)))))....((((((((((....))))).)))))..........(((.(((.(((((((.((....))---))))))).))).((((((((.(....)))))))))..))) ( -46.70)
>DroSec_CAF1 64433 117 + 1
GCAGCAUAUGCUGCCAUUGUCGAGGACGUUGUCGUCUAUUGAUUUUAUUUCCAGCCGGGCUAAGCCGCAUCAGCUGA---GCGGCUUCGCCCGAAUUCUGUGACGUCCAGGGUUGAGGGU
(((((....)))))....((((((((((....))))).)))))...(((..(((((((((.(((((((.((....))---))))))).)))).....(((.(....)))))))))..))) ( -49.20)
>DroSim_CAF1 42622 120 + 1
GCAGCAUAUGCUGCCAUUGUCGAGGACGUUGUCGUCUAUUGAUUUUAUUUCCAGCCGGGCUAAGCCGCAUCAGCUGAGGAGCGGCUUCGCCCGAAUUCUGUGACGUCCAGGGUUGAGGGC
(((((....)))))....((((((((((....))))).)))))......(((...(((((.(((((((..(......)..))))))).)))))(((((((.(....))))))))..))). ( -48.30)
>DroEre_CAF1 45733 110 + 1
GCAGCAUAUGCUGCCAUUGUCGAGGACGUUGUCGUCUAUUGAUUUUGU-UCCAGCCAGGCUGAGCCGCAUCAGUGGA------GCUUCGCUCGAAUUCUGUGACUU---CUCCCAGGGGC
(((((....)))))((..((((((((((....))))).)))))..))(-((.(((.(((((...((((....)))))------)))).))).)))(((((.((...---.)).))))).. ( -36.30)
>DroYak_CAF1 33037 114 + 1
GCAGCAUAUGCUGCCAUUGUCGAGGACGUUGUCGUCAAUUGAUUUUAUUUCCAGCUGGGCUAAGCCGUAUCAGCUGA---ACGGCUUCGCACCAAUUCUGGGACUU---GGGCUAGGAAU
(((((....))))).....(((((((((....))))............((((((.(((((.(((((((.((....))---))))))).)).)))...)))))))))---))......... ( -40.90)
>consensus
GCAGCAUAUGCUGCCAUUGUCGAGGACGUUGUCGUCUAUUGAUUUUAUUUCCAGCCGGGCUAAGCCGCAUCAGCUGA___GCGGCUUCGCCCGAAUUCUGUGACGUCCAGGGUUAAGGGU
(((((....)))))....((((((((((....))))).)))))......(((((.(((((.(((((((.((....))...))))))).)))))....))).))................. (-33.48 = -34.56 +   1.08)

alignment

secondary structure

dotplot

Window 5

Location	1,346,148 – 1,346,265
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.94
Mean single sequence MFE	-38.56
Consensus MFE	-33.42
Energy contribution	-34.34
Covariance contribution	0.92
Combinations/Pair	1.07
Mean z-score	-2.00
Structure conservation index	0.87
SVM decision value	1.56
SVM RNA-class probability	0.964054
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1346148 117 - 20766785
ACCCUGAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGC---UCAGCUGAUGCGGCUUAGCCUGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGC
..((........))..(((.(((...((((((.(((((((---((....)).))))))).)))))))))...............((((....))))...)))....(((((....))))) ( -41.10)
>DroSec_CAF1 64433 117 - 1
ACCCUCAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGC---UCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGC
..((........))..(((.(((...((((((.(((((((---((....)).))))))).)))))))))...............((((....))))...)))....(((((....))))) ( -43.30)
>DroSim_CAF1 42622 120 - 1
GCCCUCAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGCUCCUCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGC
..((........))..(((.(((...((((((.(((((((..(......)..))))))).)))))))))...............((((....))))...)))....(((((....))))) ( -42.70)
>DroEre_CAF1 45733 110 - 1
GCCCCUGGGAG---AAGUCACAGAAUUCGAGCGAAGC------UCCACUGAUGCGGCUCAGCCUGGCUGGA-ACAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGC
.((....))..---..(((......(((.(((.(.((------(((.(....).))...))).).))).))-)...........((((....))))...)))....(((((....))))) ( -28.40)
>DroYak_CAF1 33037 114 - 1
AUUCCUAGCCC---AAGUCCCAGAAUUGGUGCGAAGCCGU---UCAGCUGAUACGGCUUAGCCCAGCUGGAAAUAAAAUCAAUUGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGC
...........---..(((((((...(((.((.(((((((---((....)).))))))).))))).))))..............((((....))))...)))....(((((....))))) ( -37.30)
>consensus
ACCCUCAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGC___UCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUCAAUAGACGACAACGUCCUCGACAAUGGCAGCAUAUGCUGC
................(((.(((....(((((.(((((((...((....)).))))))).))))).)))...............((((....))))...)))....(((((....))))) (-33.42 = -34.34 +   0.92)

alignment

secondary structure

dotplot

Window 6

Location	1,346,188 – 1,346,305
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.58
Mean single sequence MFE	-35.27
Consensus MFE	-24.90
Energy contribution	-25.66
Covariance contribution	0.76
Combinations/Pair	1.22
Mean z-score	-1.52
Structure conservation index	0.71
SVM decision value	0.03
SVM RNA-class probability	0.549971
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1346188 117 - 20766785
UUAGACCAGCGCGUACAUACAAGAAAUGCACAACCACUGAACCCUGAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGC---UCAGCUGAUGCGGCUUAGCCUGGCUGGAAAUAAAAUC
.....(((((((((...........))))........(((..((........))...))).......(((((.(((((((---((....)).))))))).)))))))))).......... ( -36.60)
>DroSec_CAF1 64473 117 - 1
UUAGACCGGCGCGUACCCACAAGAAAUGCACAACCACUGAACCCUCAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGC---UCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUC
.....(((((((((...........))))........(((..((........))...))).......(((((.(((((((---((....)).))))))).)))))))))).......... ( -38.10)
>DroSim_CAF1 42662 120 - 1
UUAGAGCAGCGCGUACCCACAAAAAAUGCACAACCACUGAGCCCUCAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGCUCCUCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUC
......((((((((.((..........((.((.....)).))..........)))))).........(((((.(((((((..(......)..))))))).)))))))))........... ( -36.35)
>DroEre_CAF1 45773 110 - 1
UCAGACCGGCGCGUAAACACAACUCGUAUGCCAGCACUGAGCCCCUGGGAG---AAGUCACAGAAUUCGAGCGAAGC------UCCACUGAUGCGGCUCAGCCUGGCUGGA-ACAAAAUC
.....((((((((((...........)))))(((..(((((((.(.(((((---...((.(.(....)..).))..)------))).)....).))))))).)))))))).-........ ( -32.60)
>DroYak_CAF1 33077 114 - 1
UUAGUCCGGCGCGUACACACAAGAAAUGCACAUCCGCUGAAUUCCUAGCCC---AAGUCCCAGAAUUGGUGCGAAGCCGU---UCAGCUGAUACGGCUUAGCCCAGCUGGAAAUAAAAUC
....((((((((((...........))))..(((.(((((((..((.((((---((.((...)).)))).))..))..))---))))).)))..(((...)))..))))))......... ( -32.70)
>consensus
UUAGACCGGCGCGUACACACAAGAAAUGCACAACCACUGAACCCUCAACCCUGGACGUCACAGAAUUCGGGCGAAGCCGC___UCAGCUGAUGCGGCUUAGCCCGGCUGGAAAUAAAAUC
.....(((((((((...........))))......................................(((((.(((((((...((....)).))))))).)))))))))).......... (-24.90 = -25.66 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:27:04 2006