Locus 5712

Sequence ID 3L_DroMel_CAF1
Location 15,594,725 – 15,594,842
Length 117
Max. P 0.989699
window9038 window9039

overview

Window 8

Location 15,594,725 – 15,594,842
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.04
Mean single sequence MFE -29.90
Consensus MFE -24.78
Energy contribution -25.18
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.35
Structure conservation index 0.83
SVM decision value 0.14
SVM RNA-class probability 0.603856
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15594725 117 + 23771897
AUGUCACGACCCGUCACUCAUACGCACUGUUGUCUGGCCGUACGUGAGUGACGUUUCGCGGUUUGAUAAAGACACUCGUUACGCCUCCAGAAAAAAA---AGGAAUUUCACCAAAAGGAA
......(((..(((((((((((((..(........)..)))..))))))))))..))).(((.((((..........)))).)))(((.........---.)))......((....)).. ( -26.40)
>DroSec_CAF1 17990 117 + 1
AUGGGACGACCCGUCACUCAUACGCACUGUUGUCUGGCCGUACGUGAGUGACGUUUCGCGGUUUGAUAAAGACACUCGUUACUCCUUCAGAAAAAAA---AAGAAUUUCACCGAAAGGAA
..(((((((..(((((((((((((..(........)..)))..))))))))))..)))..((((.....)))).........))))...........---..........((....)).. ( -30.60)
>DroSim_CAF1 18022 120 + 1
AUGUCACGACCCGUCACUCAUACGCACUGUUGUCUGGCCGUACGUGAGUGACGUUUCGCGGUUUGAUAAAGACACUCGUUACUCCUCCAAAAAAAAAAUAAAGAAUUUCACCGAAAGGAA
....(.(((..(((((((((((((..(........)..)))..))))))))))..))).)((((.....)))).....................................((....)).. ( -28.40)
>DroEre_CAF1 18164 116 + 1
AUGUCACGACCCGUCACUCAUACGCACUGUUGUCUGGCAUUACGUGAGUGACGUUUCGUGGUUUGAUAAAGACACUCUUUACUUCUCCAGAAAAAA----AAUAAUUUCACCGAAAGGAA
...((((((..((((((((((......((((....))))....))))))))))..)))))).....(((((.....)))))........((((...----.....)))).((....)).. ( -32.20)
>DroYak_CAF1 19381 115 + 1
AUGUCACGACCCGUCACUCAUACGCACUGUUGUCUGGCAUUCCGUGAGUGACGUUUCGUGGUUUGAUAAAGACUCUCUUUACUUCUCCAGAAA-AA----AAUAAUUUCACCGAAAGGAA
...((((((..((((((((((......((((....))))....))))))))))..)))))).....(((((.....)))))........((((-..----.....)))).((....)).. ( -31.90)
>consensus
AUGUCACGACCCGUCACUCAUACGCACUGUUGUCUGGCCGUACGUGAGUGACGUUUCGCGGUUUGAUAAAGACACUCGUUACUCCUCCAGAAAAAAA___AAGAAUUUCACCGAAAGGAA
......(((..((((((((..(((.((.(((....))).)).)))))))))))..)))..((((.....)))).....................................((....)).. (-24.78 = -25.18 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,594,725 – 15,594,842
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.04
Mean single sequence MFE -36.98
Consensus MFE -30.08
Energy contribution -30.76
Covariance contribution 0.68
Combinations/Pair 1.13
Mean z-score -2.42
Structure conservation index 0.81
SVM decision value 2.18
SVM RNA-class probability 0.989699
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15594725 117 - 23771897
UUCCUUUUGGUGAAAUUCCU---UUUUUUUCUGGAGGCGUAACGAGUGUCUUUAUCAAACCGCGAAACGUCACUCACGUACGGCCAGACAACAGUGCGUAUGAGUGACGGGUCGUGACAU
.....(((((((((..(((.---.........)))((((.......))))))))))))).(((((..((((((((((((((............))))))..))))))))..))))).... ( -38.50)
>DroSec_CAF1 17990 117 - 1
UUCCUUUCGGUGAAAUUCUU---UUUUUUUCUGAAGGAGUAACGAGUGUCUUUAUCAAACCGCGAAACGUCACUCACGUACGGCCAGACAACAGUGCGUAUGAGUGACGGGUCGUCCCAU
((((((.(((.((((.....---..)))).)))))))))......................((((..((((((((((((((............))))))..))))))))..))))..... ( -35.30)
>DroSim_CAF1 18022 120 - 1
UUCCUUUCGGUGAAAUUCUUUAUUUUUUUUUUGGAGGAGUAACGAGUGUCUUUAUCAAACCGCGAAACGUCACUCACGUACGGCCAGACAACAGUGCGUAUGAGUGACGGGUCGUGACAU
........((((((((((.(((((((((.....))))))))).))))...))))))....(((((..((((((((((((((............))))))..))))))))..))))).... ( -39.60)
>DroEre_CAF1 18164 116 - 1
UUCCUUUCGGUGAAAUUAUU----UUUUUUCUGGAGAAGUAAAGAGUGUCUUUAUCAAACCACGAAACGUCACUCACGUAAUGCCAGACAACAGUGCGUAUGAGUGACGGGUCGUGACAU
........((((((..((((----((((..((.....)).))))))))..))))))....(((((..(((((((((((((.((........)).)))))..))))))))..))))).... ( -37.30)
>DroYak_CAF1 19381 115 - 1
UUCCUUUCGGUGAAAUUAUU----UU-UUUCUGGAGAAGUAAAGAGAGUCUUUAUCAAACCACGAAACGUCACUCACGGAAUGCCAGACAACAGUGCGUAUGAGUGACGGGUCGUGACAU
....((((((.((((.....----))-)).))))))..((((((.....)))))).....(((((..(((((((((....(((((........).)))).)))))))))..))))).... ( -34.20)
>consensus
UUCCUUUCGGUGAAAUUCUU___UUUUUUUCUGGAGGAGUAACGAGUGUCUUUAUCAAACCGCGAAACGUCACUCACGUACGGCCAGACAACAGUGCGUAUGAGUGACGGGUCGUGACAU
...(((((((.((((..........)))).))))))).......................(((((..((((((((((((((.(........).))))))..))))))))..))))).... (-30.08 = -30.76 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:23 2006