Locus 167

Sequence ID 2R_DroMel_CAF1
Location 1,426,988 – 1,427,136
Length 148
Max. P 0.626814
window373 window374

overview

Window 3

Location 1,426,988 – 1,427,096
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.45
Mean single sequence MFE -36.82
Consensus MFE -21.48
Energy contribution -23.08
Covariance contribution 1.60
Combinations/Pair 1.17
Mean z-score -1.95
Structure conservation index 0.58
SVM decision value 0.10
SVM RNA-class probability 0.581886
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1426988 108 - 20766785
UGCUCGUUGACUGGUUGCUGACGGCAUUGGAACUUUUAGUGCUAUUUUUGAUUUUCUCCGUUCGUUUUACGGCCGGAGAACAGCGGGAGGAAUA------------CAGGCAAAUUAACA
(((..((...((..((((((..(((((((((...)))))))))..........(((((((..((.....))..)))))))))))))..))...)------------)..)))........ ( -35.30)
>DroSec_CAF1 45428 108 - 1
UGCUCGUUGACUGGUUGCUGACGGCAUUGGCACUUUUAGUGCUAUUUUUGAUUUUCUCCGUUCGUUUUACGGCCGGAGAACGGCGGGAGGAGUA------------CGGGCAAAUUAACA
(((((((...((..((((((.(((...((((((.....))))))...)))...(((((((..((.....))..)))))))))))))..))...)------------))))))........ ( -40.50)
>DroSim_CAF1 50485 108 - 1
UGCUCGUUGACUGGUUGCUGACGGCAUUGGCACUUUUAGUGCUAUUUUUGAUUUUCUCCGUUCGUUUUACGGCCGGAGAACGGCGGGAGGAGUA------------CAGGCAAAUUAACA
(((..((...((..((((((.(((...((((((.....))))))...)))...(((((((..((.....))..)))))))))))))..))...)------------)..)))........ ( -35.60)
>DroEre_CAF1 43501 118 - 1
UGCUCGCUGACUGGUUGCCAUCGGCAUAGGCACUUUUAGUGCUAUUUUUGAUUUUCUCCGUUGGUUUCAGGGCCGGCGAGCAGCGGGG--UAUGCUCGCACUCGCACAAGCGAAUUAACA
(((((((((.((((..((((.(((....(((((.....)))))......(.....).))).)))).))))...)))))))))(((((.--....)))))..((((....))))....... ( -45.20)
>DroYak_CAF1 48089 99 - 1
GGCU---------GUUGCUGACGGCAUUGACACUUUUAGUGCUAUUUUUGAUUUCCUCCGUUCAUUUUACGGCCGGAGAACAGCGGGGGGAAUG------------CAGGUUAAUUAACA
....---------((((.((((((((((((.....))))))))....(((((((((((((((..((((.......))))..)))))))))))).------------)))))))..)))). ( -27.50)
>consensus
UGCUCGUUGACUGGUUGCUGACGGCAUUGGCACUUUUAGUGCUAUUUUUGAUUUUCUCCGUUCGUUUUACGGCCGGAGAACAGCGGGAGGAAUA____________CAGGCAAAUUAACA
..(((((((.............((((((((.....))))))))..........(((((((..((.....))..))))))))))))))................................. (-21.48 = -23.08 +   1.60)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,427,016 – 1,427,136
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.57
Mean single sequence MFE -34.01
Consensus MFE -20.09
Energy contribution -21.14
Covariance contribution 1.05
Combinations/Pair 1.14
Mean z-score -2.78
Structure conservation index 0.59
SVM decision value 0.19
SVM RNA-class probability 0.626814
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1427016 120 + 20766785
UUCUCCGGCCGUAAAACGAACGGAGAAAAUCAAAAAUAGCACUAAAAGUUCCAAUGCCGUCAGCAACCAGUCAACGAGCAUACUUUUAUGGGCAGGCCUCGGUAUUUAUACCCGAUUUUU
.((((((..((.....))..))))))(((((.......((..(((((((....(((((((..((.....))..))).)))))))))))...)).......((((....)))).))))).. ( -32.10)
>DroSec_CAF1 45456 120 + 1
UUCUCCGGCCGUAAAACGAACGGAGAAAAUCAAAAAUAGCACUAAAAGUGCCAAUGCCGUCAGCAACCAGUCAACGAGCAUACUUUUAUGGGCAGGCCUCGGUAUUUUUAGGCGAUUUUU
(((((((..((.....))..)))))))....((((((.((.(((((((((((.(((((((..((.....))..))).))))........(((....))).))))))))))))).)))))) ( -41.60)
>DroSim_CAF1 50513 120 + 1
UUCUCCGGCCGUAAAACGAACGGAGAAAAUCAAAAAUAGCACUAAAAGUGCCAAUGCCGUCAGCAACCAGUCAACGAGCAUACUUUUAUGGGCAGGCCUCGGUAUUUAUACCCGAUUUUU
.((((((..((.....))..))))))(((((.......((((.....)))).(((((((...((..(((......(((....)))...)))....))..))))))).......))))).. ( -32.20)
>DroEre_CAF1 43539 119 + 1
CUCGCCGGCCCUGAAACCAACGGAGAAAAUCAAAAAUAGCACUAAAAGUGCCUAUGCCGAUGGCAACCAGUCAGCGAGCAUACUUUUAUGGGCAGG-CCGGGUAUUUAUACCCGAUUUUU
...(((.(((((((((......................((((.....)))).(((((((.((((.....)))).)).))))).))))).)))).))-)((((((....))))))...... ( -39.50)
>DroYak_CAF1 48117 104 + 1
UUCUCCGGCCGUAAAAUGAACGGAGGAAAUCAAAAAUAGCACUAAAAGUGUCAAUGCCGUCAGCAAC---------AGCCCAAUUCAAUG-------CUCGGUAUUUAUACCCGAUUUUU
..(((((..(((...)))..)))))((((((.......((((.....)))).(((((((..((((..---------............))-------))))))))).......)))))). ( -24.64)
>consensus
UUCUCCGGCCGUAAAACGAACGGAGAAAAUCAAAAAUAGCACUAAAAGUGCCAAUGCCGUCAGCAACCAGUCAACGAGCAUACUUUUAUGGGCAGGCCUCGGUAUUUAUACCCGAUUUUU
.((((((..((.....))..))))))(((((.......((((.....)))).(((((((...((.............))..........(((....)))))))))).......))))).. (-20.09 = -21.14 +   1.05)

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 09:30:52 2006