Locus 7627

Sequence ID 2L_DroMel_CAF1
Location 21,175,568 – 21,175,710
Length 142
Max. P 0.848285
window12257 window12258 window12259

overview

Window 7

Location 21,175,568 – 21,175,670
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 83.73
Mean single sequence MFE -37.93
Consensus MFE -24.66
Energy contribution -25.58
Covariance contribution 0.92
Combinations/Pair 1.26
Mean z-score -2.24
Structure conservation index 0.65
SVM decision value 0.02
SVM RNA-class probability 0.544132
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21175568 102 + 22407834
UGGGCGAAUUCUAUAAGCCCGCACCCAGUGACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGUGAGUCUGCUUGGUAUGCUCCUACCCCUGAUAU
.((((...........))))......(((((((((.(((((.((((((((((.....))))))).)))....))))).))))).)))).............. ( -39.30)
>DroSec_CAF1 12845 102 + 1
UGGGCGAAUUCUAUAAGCCCGCACCCAGUUACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGUGGGUCUGCUUUAUAUGCCCCUACCCCUGAUAU
.(((((.((....((..(((((.((........(((......)))(((((((.....))))))).)).)))))..))....)).)))))............. ( -39.10)
>DroSim_CAF1 13122 102 + 1
UGGGCGAAUUCUAUAAGCCCGCACCCAGUUACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGUGGGUCUGCUUUAUAUGCCCCUACCCCUGAUAU
.(((((.((....((..(((((.((........(((......)))(((((((.....))))))).)).)))))..))....)).)))))............. ( -39.10)
>DroEre_CAF1 14396 100 + 1
UGGACGAAUUCAAUAAGCCCGCACCCAGUGACC-GCCAGACAGCCGGCAGACGAACAGUCUGCCUGGUGAGGG-CUGGUUGGUAUGCCCCUACUCCUGAAGU
.((.((...(((((.(((((.((((........-((......)).(((((((.....))))))).)))).)))-)).)))))..)))).............. ( -36.00)
>DroYak_CAF1 14250 102 + 1
UGGGCGAAUUCAAUAAACCCGCACCCAGUGACCAGCCAGACAGCCGGCAGACGAACAAUCUGCCUGGUGAGGGUCUGGUUGGUAUGCCCCUACCCCUGAAAU
.(((((.............(((.....)))(((((((((((.(((((((((.......)))))).)))....))))))))))).)))))............. ( -42.90)
>DroAna_CAF1 12565 93 + 1
UGCCAGGAUUCAAUAAGCCCGCACCCAGUGAACUCCCAGACAGCCGGCAGACAA-----UUGUCUGGGCAGGGUCUAGUCGGUACAGUCCGACUCC----AU
.....(((.....((..(((.(((...)))....(((((((((..(.....)..-----)))))))))..)))..))(((((......))))))))----.. ( -31.20)
>consensus
UGGGCGAAUUCAAUAAGCCCGCACCCAGUGACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGAGGGUCUGCUUGGUAUGCCCCUACCCCUGAUAU
.(((((.............(((.....)))......(((((.((((((((((.....))))))).)))....))))).......)))))............. (-24.66 = -25.58 +   0.92)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,175,568 – 21,175,670
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 83.73
Mean single sequence MFE -40.08
Consensus MFE -27.62
Energy contribution -28.59
Covariance contribution 0.97
Combinations/Pair 1.29
Mean z-score -1.82
Structure conservation index 0.69
SVM decision value -0.04
SVM RNA-class probability 0.511949
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21175568 102 - 22407834
AUAUCAGGGGUAGGAGCAUACCAAGCAGACUCACGCCAGGCAGACUGUUCGUCUGCCGGCUGUCUGGCCGGUCACUGGGUGCGGGCUUAUAGAAUUCGCCCA
.......((((.(((...((..((((...(.(((.((((((((((.....))))))(((((....)))))....))))))).).)))).))...))))))). ( -39.20)
>DroSec_CAF1 12845 102 - 1
AUAUCAGGGGUAGGGGCAUAUAAAGCAGACCCACGCCAGGCAGACUGUUCGUCUGCCGGCUGUCUGGCCGGUAACUGGGUGCGGGCUUAUAGAAUUCGCCCA
.......((((..(..(.(((((.((.((((((.(((.(((((((.....)))))))((((....)))))))...))))).)..))))))))..)..)))). ( -43.20)
>DroSim_CAF1 13122 102 - 1
AUAUCAGGGGUAGGGGCAUAUAAAGCAGACCCACGCCAGGCAGACUGUUCGUCUGCCGGCUGUCUGGCCGGUAACUGGGUGCGGGCUUAUAGAAUUCGCCCA
.......((((..(..(.(((((.((.((((((.(((.(((((((.....)))))))((((....)))))))...))))).)..))))))))..)..)))). ( -43.20)
>DroEre_CAF1 14396 100 - 1
ACUUCAGGAGUAGGGGCAUACCAACCAG-CCCUCACCAGGCAGACUGUUCGUCUGCCGGCUGUCUGGC-GGUCACUGGGUGCGGGCUUAUUGAAUUCGUCCA
.............((((....(((..((-(((.((((.(((((((.....)))))))(((((.....)-))))....)))).)))))..))).....)))). ( -42.70)
>DroYak_CAF1 14250 102 - 1
AUUUCAGGGGUAGGGGCAUACCAACCAGACCCUCACCAGGCAGAUUGUUCGUCUGCCGGCUGUCUGGCUGGUCACUGGGUGCGGGUUUAUUGAAUUCGCCCA
....(((.((((......)))).(((((.((..((((.(((((((.....))))))))).))...)))))))..)))((.((((((((...)))))))))). ( -39.20)
>DroAna_CAF1 12565 93 - 1
AU----GGAGUCGGACUGUACCGACUAGACCCUGCCCAGACAA-----UUGUCUGCCGGCUGUCUGGGAGUUCACUGGGUGCGGGCUUAUUGAAUCCUGGCA
..----(((.((((.(((((((..((((((...((((((((..-----..)))))..))).)))))).((....)).))))))).....)))).)))..... ( -33.00)
>consensus
AUAUCAGGGGUAGGGGCAUACCAACCAGACCCACGCCAGGCAGACUGUUCGUCUGCCGGCUGUCUGGCCGGUCACUGGGUGCGGGCUUAUAGAAUUCGCCCA
.............((((.........((.(((.((((.(((((((.....)))))))((((....))))........)))).)))))..........)))). (-27.62 = -28.59 +   0.97)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,175,595 – 21,175,710
Length 115
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 73.85
Mean single sequence MFE -33.16
Consensus MFE -20.04
Energy contribution -20.60
Covariance contribution 0.56
Combinations/Pair 1.20
Mean z-score -1.58
Structure conservation index 0.60
SVM decision value 0.78
SVM RNA-class probability 0.848285
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21175595 115 + 22407834
GUGACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGUGAGUCUGCUUGGUAUGCUCCUACCCCUGAUAUCUUCCUCUCAUUUCGUAGUCCCGCUCCUCUUAACCCCUAA
((((((((.(((((.((((((((((.....))))))).)))....))))).)))))......((((...(((..........)))....))))...)))................ ( -34.20)
>DroSec_CAF1 12872 110 + 1
GUUACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGUGGGUCUGCUUUAUAUGCCCCUACCCCUGAUAUCCUCCUCUCCUUUCGUAGUCCCCCUCCUCUUAAGU-----
......((...(((.((((((((((.....))))))).)))(((((...((.......)).)))))..........................)))..))...........----- ( -30.20)
>DroSim_CAF1 13149 110 + 1
GUUACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGUGGGUCUGCUUUAUAUGCCCCUACCCCUGAUAUCCUCCUCUCCUUUCGUAGUCCCCCUCCUCUUAAGU-----
......((...(((.((((((((((.....))))))).)))(((((...((.......)).)))))..........................)))..))...........----- ( -30.20)
>DroEre_CAF1 14423 108 + 1
GUGACC-GCCAGACAGCCGGCAGACGAACAGUCUGCCUGGUGAGGG-CUGGUUGGUAUGCCCCUACUCCUGAAGUGUUCUUCCCGUGGUUUAGCCCCACUCCUCCCAAAU-----
((((((-(((((.(.((((((((((.....))))))).)))...).-)))).))))......(((..((.((((....))))....))..)))...)))...........----- ( -36.20)
>DroYak_CAF1 14277 110 + 1
GUGACCAGCCAGACAGCCGGCAGACGAACAAUCUGCCUGGUGAGGGUCUGGUUGGUAUGCCCCUACCCCUGAAAUUUUCUUUCCCUGCUUUAGUCCCACUCCUCCCAAAU-----
((((((((((((((.(((((((((.......)))))).)))....)))))))))))............(((((...............)))))...)))...........----- ( -35.56)
>DroAna_CAF1 12592 94 + 1
GUGAACUCCCAGACAGCCGGCAGACAA-----UUGUCUGGGCAGGGUCUAGUCGGUACAGUCCGACUCC----AUCCCCCGC--C-----AGGUCCUGUACCACUAAAAA-----
(((.....((((((((..(.....)..-----))))))))(((((..((((((((......))))))..----.........--.-----))..)))))..)))......----- ( -32.60)
>consensus
GUGACCGGCCAGACAGCCGGCAGACGAACAGUCUGCCUGGCGAGGGUCUGCUUGGUAUGCCCCUACCCCUGAUAUCCUCCUCUCCUUUCGUAGUCCCACUCCUCUUAAAU_____
.........(((((.((((((((((.....))))))).)))....)))))................................................................. (-20.04 = -20.60 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:25 2006