Locus 7406

Sequence ID 3L_DroMel_CAF1
Location 19,920,979 – 19,921,099
Length 120
Max. P 0.962208
window12029 window12030

overview

Window 9

Location 19,920,979 – 19,921,099
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.67
Mean single sequence MFE -41.21
Consensus MFE -29.95
Energy contribution -29.82
Covariance contribution -0.13
Combinations/Pair 1.26
Mean z-score -2.30
Structure conservation index 0.73
SVM decision value 1.54
SVM RNA-class probability 0.962208
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19920979 120 + 23771897
CCGAGCAGCAUGUCCAGCUGCUCCUGCUGCACGUGCAGCAAUUGCUGUCCGUCGAGGACGAGUCAAGUCUGCCCAAUGCAGAUGGGCAAUCAGUAUCAAUGUCCAGCCAACGGAAGCAAC
..(((((((.......))))))).((((((....)))))).(((((.(((((.(.((((((......))((((((.......))))))............))))...).)))))))))). ( -47.00)
>DroSec_CAF1 56717 111 + 1
CCGAGCA---------GCUGCUCCUGCUGCACGUGCAGCAAUUGCUAUCCGUCGAGGACGAGUCAAGUCUGUCCAAUGGAGAUGGGCAAUCAGUAUCAAUGUCCAGCCAACGGAAGCAAC
..((((.---------...)))).((((((....)))))).(((((.(((((...((((.((......))))))..(((...((((((...........)))))).))))))))))))). ( -42.70)
>DroSim_CAF1 44054 111 + 1
CCGAGCA---------GCUGCUCCUGCUGCACGUGCAGCAAUUGCUAUCCGUCGAGGACGAGUCAAGUCUGUCCAAUGCAGAUGGGCAAUCAGUAUCAAUGUCCAGCCAACGGAAGCAAC
..((((.---------...)))).((((((....)))))).(((((.(((((.(.((((.((......))))))........((((((...........))))))..).)))))))))). ( -38.90)
>DroEre_CAF1 56226 120 + 1
CCGAGCAACAUGUCCGGCUGCUCCUGCUGCACGUGCAGCAGUUGCUGUCCGUCAAGGACAACCCAAGUCUGUCCAAUGCAGAUGGGCAAUCAGUACCAAAGUCCAGCCCACGGAAGCAAC
..(((((.(......)..)))))(((((((....)))))))(((((((((.....))))...((..((((((.....))))))((((..................))))..)).))))). ( -42.47)
>DroYak_CAF1 64120 120 + 1
CCGAGCAACAUGUCCAGCUGCUCUUGCUGCACGUGCAGCAGUUGCUGUCCGUCAAGGACAACUCAAGUCUGUCAAAUGCAGAUGGGUAAUCAGUAUCAAAGUCCAGCCAACGGAAGCAAC
..(((((.(.......).))))).((((((....))))))((((((.(((((...((((.......((((((.....)))))).((((.....))))...)))).....))))))))))) ( -41.30)
>DroAna_CAF1 48224 105 + 1
CCCAGCAACCUUUCAAGUUGUUGCAGCUGCACCUGCAGCAAUUGCUGUCCGUCAAGGCCACCGCCAUACCGACCGAUGCCCCCGG--------------CGGCCAGCAAGUGUAA-CCAG
..(((((((.......)))))))..(((((....)))))..((((((.(((((..(((....)))....(....)........))--------------))).))))))......-.... ( -34.90)
>consensus
CCGAGCAACAUGUCCAGCUGCUCCUGCUGCACGUGCAGCAAUUGCUGUCCGUCAAGGACAACUCAAGUCUGUCCAAUGCAGAUGGGCAAUCAGUAUCAAUGUCCAGCCAACGGAAGCAAC
..(((((...........))))).((((((....)))))).(((((.(((((...((((..........((((((.......))))))............)))).....)))))))))). (-29.95 = -29.82 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,920,979 – 19,921,099
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.67
Mean single sequence MFE -45.67
Consensus MFE -34.79
Energy contribution -35.43
Covariance contribution 0.64
Combinations/Pair 1.25
Mean z-score -1.98
Structure conservation index 0.76
SVM decision value 1.33
SVM RNA-class probability 0.943134
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19920979 120 - 23771897
GUUGCUUCCGUUGGCUGGACAUUGAUACUGAUUGCCCAUCUGCAUUGGGCAGACUUGACUCGUCCUCGACGGACAGCAAUUGCUGCACGUGCAGCAGGAGCAGCUGGACAUGCUGCUCGG
((((((((((((((..((((............((((((.......))))))((......)))))))))))))).))))))((((((....)))))).(((((((.......))))))).. ( -55.20)
>DroSec_CAF1 56717 111 - 1
GUUGCUUCCGUUGGCUGGACAUUGAUACUGAUUGCCCAUCUCCAUUGGACAGACUUGACUCGUCCUCGACGGAUAGCAAUUGCUGCACGUGCAGCAGGAGCAGC---------UGCUCGG
((((((((((((((..((((............((.(((.......))).))((......)))))))))))))).))))))((((((....)))))).((((...---------.)))).. ( -40.60)
>DroSim_CAF1 44054 111 - 1
GUUGCUUCCGUUGGCUGGACAUUGAUACUGAUUGCCCAUCUGCAUUGGACAGACUUGACUCGUCCUCGACGGAUAGCAAUUGCUGCACGUGCAGCAGGAGCAGC---------UGCUCGG
((((((((((((((..((((.......(..((.((......))))..)...((......)))))))))))))).))))))((((((....)))))).((((...---------.)))).. ( -41.10)
>DroEre_CAF1 56226 120 - 1
GUUGCUUCCGUGGGCUGGACUUUGGUACUGAUUGCCCAUCUGCAUUGGACAGACUUGGGUUGUCCUUGACGGACAGCAACUGCUGCACGUGCAGCAGGAGCAGCCGGACAUGUUGCUCGG
.((((((((((((((.((((....)).))....)))).....((..((((((.(....))))))).))))))).)))))(((((((....)))))))(((((((.......))))))).. ( -49.40)
>DroYak_CAF1 64120 120 - 1
GUUGCUUCCGUUGGCUGGACUUUGAUACUGAUUACCCAUCUGCAUUUGACAGACUUGAGUUGUCCUUGACGGACAGCAACUGCUGCACGUGCAGCAAGAGCAGCUGGACAUGUUGCUCGG
(((((((((((..(..((((..((((....))))....(((((....).))))........)))))..))))).))))))((((((....)))))).(((((((.......))))))).. ( -45.50)
>DroAna_CAF1 48224 105 - 1
CUGG-UUACACUUGCUGGCCG--------------CCGGGGGCAUCGGUCGGUAUGGCGGUGGCCUUGACGGACAGCAAUUGCUGCAGGUGCAGCUGCAACAACUUGAAAGGUUGCUGGG
(..(-(.((..((((((.(((--------------.(((((.(((((.((.....))))))).))))).))).))))))..(((((....)))))................)).))..). ( -42.20)
>consensus
GUUGCUUCCGUUGGCUGGACAUUGAUACUGAUUGCCCAUCUGCAUUGGACAGACUUGACUCGUCCUCGACGGACAGCAAUUGCUGCACGUGCAGCAGGAGCAGCUGGACAUGUUGCUCGG
((((((((((((((..((((...............(((.......)))...((......)))))))))))))).))))))((((((....)))))).(((((((.......))))))).. (-34.79 = -35.43 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:11 2006