Locus 7031

Sequence ID	3L_DroMel_CAF1
Location	19,031,838 – 19,031,999
Length	161
Max. P	0.907683

overview

Window 5

Location	19,031,838 – 19,031,940
Length	102
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	77.52
Mean single sequence MFE	-29.13
Consensus MFE	-10.71
Energy contribution	-12.47
Covariance contribution	1.75
Combinations/Pair	1.20
Mean z-score	-2.85
Structure conservation index	0.37
SVM decision value	1.05
SVM RNA-class probability	0.907683
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19031838 102 - 23771897
UGUUGUCCA-U-GCCCCCAAAAUGGGCGUGGCAUGGGCAUAACUGCUGAGAUUU--UUCCCUUUUGGUUUUUGUUAGCGUAAGAAGAUACAAACCAUUUUACAUAU
...((((((-(-((((((.....)))...))))))))))...............--........((((((.((((..(....)..)))).)))))).......... ( -30.90)
>DroSec_CAF1 165587 99 - 1
UGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCAUGGGCCAAACUGCUGAGAUUU--UUCCCUUUUGGUUUUUGUUAGCGUAA---GAUACAAACCAUUUUACAUAU
.((((((((-(-((((((.....)))...)))))))))..))).(((((.(...--..((.....))....).)))))((((---(((.......))))))).... ( -32.60)
>DroSim_CAF1 174671 99 - 1
UGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCAUGGGCAUAACUGCUGAGAUUU--UUCCCUUUUGGUUUUUGUUAGCGUAA---GAUACAAACCAUUUUACAUAU
...((((((-(-((((((.....)))...)))))))))).....(((((.(...--..((.....))....).)))))((((---(((.......))))))).... ( -34.00)
>DroEre_CAF1 166881 99 - 1
UGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCGUGGGAAUAACUGCUGAGAUUUGUUUCCUUUUUGGUUUUUGUUAGCGUAA---GAU--AAAAGAUUUUACAUAU
((((.((((-(-((((((.....)))...))))))))))))...(((((.(.......((.....))....).)))))((((---(((--.....))))))).... ( -30.60)
>DroYak_CAF1 188344 99 - 1
UGUUGCCCA-CGGCCCCCGAAAUGUGCGUGCCAUGGGCAUAACUGCUGAGAUUU-UUUCCUUUUUGGUUUUUGUUAGCAUUA---GAU--AAACAAUUUUACAUAU
(((((((((-.(((.(.((.....)).).))).))))).....((((((.(...-...((.....))....).))))))...---...--.))))........... ( -23.30)
>DroMoj_CAF1 190192 80 - 1
UGUUAUUGAACGGCCCUCGCA---GCCGAGGCGAGGGCGUAAAUU---AG-UUU--UUACAUUUAAG------------U-----GAAACACACAAUUUUCCUUAU
............((((((((.---......))))))))(((((..---..-..)--))))...((((------------.-----((((........)))))))). ( -23.40)
>consensus
UGUUGCCCA_U_GCCCCCAAAAUGGGCGUGGCAUGGGCAUAACUGCUGAGAUUU__UUCCCUUUUGGUUUUUGUUAGCGUAA___GAUACAAACCAUUUUACAUAU
...((((((...((((((.....)))...))).)))))).....(((((.(.......((.....))....).)))))............................ (-10.71 = -12.47 +   1.75)

alignment

secondary structure

dotplot

Window 6

Location	19,031,873 – 19,031,974
Length	101
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	82.82
Mean single sequence MFE	-33.38
Consensus MFE	-18.79
Energy contribution	-21.52
Covariance contribution	2.72
Combinations/Pair	1.04
Mean z-score	-3.55
Structure conservation index	0.56
SVM decision value	0.88
SVM RNA-class probability	0.873491
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19031873 101 + 23771897
AAAACCAAAAGGGAA--AAAUCUCAGCAGUUAUGCCCAUGCCACGCCCAUUUUGGGGGC-A-UGGACAACAAAUGCGCUGCCUGGCAGCAAAAUUUCG-AUUCCAU
...........((((--........(((....((.(((((((...(((.....))))))-)-))).)).....)))(((((...))))).........-.)))).. ( -32.40)
>DroSec_CAF1 165619 101 + 1
AAAACCAAAAGGGAA--AAAUCUCAGCAGUUUGGCCCAUGCCACGCCCAUUUUGGGGGC-A-UGGGCAACAAAUGCGCUGCCUGGCAGCAAAAUUUCG-AUUCCAU
...........((((--........(((.(((((((((((((...(((.....))))))-)-)))))..)))))))(((((...))))).........-.)))).. ( -39.00)
>DroSim_CAF1 174703 101 + 1
AAAACCAAAAGGGAA--AAAUCUCAGCAGUUAUGCCCAUGCCACGCCCAUUUUGGGGGC-A-UGGGCAACAAAUGCGCUGCCUGGCAGCAAAAUUUCG-AUUCCAU
...........((((--........(((....((((((((((...(((.....))))))-)-)))))).....)))(((((...))))).........-.)))).. ( -39.50)
>DroEre_CAF1 166911 103 + 1
AAAACCAAAAAGGAAACAAAUCUCAGCAGUUAUUCCCACGCCACGCCCAUUUUGGGGGC-A-UGGGCAACAAACGCGCUGCCUGGCAGCCAAAUUUCG-AUUCCAU
...........((((.(........((.(((...((((.(((...(((.....))))))-.-)))).....)))))(((((...)))))........)-.)))).. ( -28.10)
>DroYak_CAF1 188374 103 + 1
AAAACCAAAAAGGAAA-AAAUCUCAGCAGUUAUGCCCAUGGCACGCACAUUUCGGGGGCCG-UGGGCAACACAUGCGCUGCCUGGCAGCAAAAUUUCG-AUUCCAU
...........((((.-........(((((..((((((((((.(.(........).)))))-))))))..)).)))(((((...))))).........-.)))).. ( -37.00)
>DroMoj_CAF1 190214 92 + 1
----CUUAAAUGUAA--AAA-CU---AAUUUACGCCCUCGCCUCGGC---UGCGAGGGCCGUUCAAUAACAAUUCUGCUGCCUGGCAGCCAA-UUUCGUUUUCCAU
----.......((((--(..-..---..)))))((((((((......---.)))))))).................(((((...)))))...-............. ( -24.30)
>consensus
AAAACCAAAAGGGAA__AAAUCUCAGCAGUUAUGCCCAUGCCACGCCCAUUUUGGGGGC_A_UGGGCAACAAAUGCGCUGCCUGGCAGCAAAAUUUCG_AUUCCAU
...........((((..........(((....((((((.(((...(((.....))))))...)))))).....)))(((((...)))))...........)))).. (-18.79 = -21.52 +   2.72)

alignment

secondary structure

dotplot

Window 7

Location	19,031,873 – 19,031,974
Length	101
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	82.82
Mean single sequence MFE	-36.93
Consensus MFE	-22.50
Energy contribution	-24.05
Covariance contribution	1.55
Combinations/Pair	1.18
Mean z-score	-3.13
Structure conservation index	0.61
SVM decision value	0.71
SVM RNA-class probability	0.830096
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19031873 101 - 23771897
AUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGUCCA-U-GCCCCCAAAAUGGGCGUGGCAUGGGCAUAACUGCUGAGAUUU--UUCCCUUUUGGUUUU
..(((..-.(((((((((((((...)))))(((.((((.(((((-(-((((((.....)))...))))))))))))).))).)))))))--))))........... ( -38.30)
>DroSec_CAF1 165619 101 - 1
AUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCAUGGGCCAAACUGCUGAGAUUU--UUCCCUUUUGGUUUU
..(((..-.(((((((((((((...)))))(((((((..(((((-(-((((((.....)))...))))))))))))).))).)))))))--))))........... ( -39.50)
>DroSim_CAF1 174703 101 - 1
AUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCAUGGGCAUAACUGCUGAGAUUU--UUCCCUUUUGGUUUU
..(((..-.(((((((((((((...)))))(((.((((.(((((-(-((((((.....)))...))))))))))))).))).)))))))--))))........... ( -41.00)
>DroEre_CAF1 166911 103 - 1
AUGGAAU-CGAAAUUUGGCUGCCAGGCAGCGCGUUUGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCGUGGGAAUAACUGCUGAGAUUUGUUUCCUUUUUGGUUUU
..((((.-((((.(((.(((((...)))))(((.(((((.((((-(-((((((.....)))...))))))))))))).))).))).)))).))))........... ( -38.60)
>DroYak_CAF1 188374 103 - 1
AUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUGUGUUGCCCA-CGGCCCCCGAAAUGUGCGUGCCAUGGGCAUAACUGCUGAGAUUU-UUUCCUUUUUGGUUUU
..((((.-.(((((((((((((...)))))(((.((..((((((-.(((.(.((.....)).).))).))))))..))))).)))))))-)))))........... ( -34.20)
>DroMoj_CAF1 190214 92 - 1
AUGGAAAACGAAA-UUGGCUGCCAGGCAGCAGAAUUGUUAUUGAACGGCCCUCGCA---GCCGAGGCGAGGGCGUAAAUU---AG-UUU--UUACAUUUAAG----
......(((((..-...(((((...)))))....))))).(((((..((((((((.---......))))))))(((((..---..-..)--)))).))))).---- ( -30.00)
>consensus
AUGGAAU_CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGCCCA_U_GCCCCCAAAAUGGGCGUGGCAUGGGCAUAACUGCUGAGAUUU__UUCCCUUUUGGUUUU
..((((....((((((((((((...)))))(((.((((.(((((...((((((.....)))...))).))))))))).))).)))))))..))))........... (-22.50 = -24.05 +   1.55)

alignment

secondary structure

dotplot

Window 8

Location	19,031,908 – 19,031,999
Length	91
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	82.59
Mean single sequence MFE	-27.27
Consensus MFE	-17.70
Energy contribution	-18.98
Covariance contribution	1.28
Combinations/Pair	1.17
Mean z-score	-1.77
Structure conservation index	0.65
SVM decision value	0.02
SVM RNA-class probability	0.544421
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19031908 91 - 23771897
UCCACUUUUUACAAGCUAAUGCGAAAUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGUCCA-U-GCCCCCAAAAUGGGCGUGGCAU
.............(((.((((((((((.....-....)))))(((((...)))))))))).)))(.(((-(-((((.......))))))))).. ( -28.50)
>DroSec_CAF1 165654 91 - 1
UCCACUUUUUACAAGCUAAUGCGAAAUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCAU
.((((........(((.((((((((((.....-....)))))(((((...)))))))))).)))(((((-(-.........))))))))))... ( -29.00)
>DroSim_CAF1 174738 91 - 1
UCCACUUUUUACACGCUAAUGCGAAAUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCAU
....................(((((((.....-....)))))))((((.(((((((....))))))).(-(-((((.......)))))))))). ( -28.40)
>DroEre_CAF1 166948 91 - 1
UUCACUUUUUACAAGCUAAUGCGAAAUGGAAU-CGAAAUUUGGCUGCCAGGCAGCGCGUUUGUUGCCCA-U-GCCCCCAAAAUGGGCGUGGCGU
.............((((((..(((.......)-))....))))))(((.(((((((....))))))).(-(-((((.......))))))))).. ( -29.90)
>DroYak_CAF1 188410 92 - 1
UCCACUUUUUACAAGCUAAUGCGAAAUGGAAU-CGAAAUUUUGCUGCCAGGCAGCGCAUGUGUUGCCCA-CGGCCCCCGAAAUGUGCGUGCCAU
..............((....))...((((...-((..((((((..(((.(((((((....)))))))..-.)))...))))))...))..)))) ( -25.60)
>DroMoj_CAF1 190241 81 - 1
------UUGUACAUGGAAA---AAUAUGGAAAACGAAA-UUGGCUGCCAGGCAGCAGAAUUGUUAUUGAACGGCCCUCGCA---GCCGAGGCGA
------.....((((....---..)))).....((...-((((((((..(((..(((........)))....)))...)))---)))))..)). ( -22.20)
>consensus
UCCACUUUUUACAAGCUAAUGCGAAAUGGAAU_CGAAAUUUUGCUGCCAGGCAGCGCAUUUGUUGCCCA_U_GCCCCCAAAAUGGGCGUGGCAU
....................(((((((..........)))))))((((((((((((....))))))).....((((.......)))).))))). (-17.70 = -18.98 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:02 2006