Locus 1814

Sequence ID 2R_DroMel_CAF1
Location 6,789,551 – 6,789,689
Length 138
Max. P 0.884052
window3010 window3011

overview

Window 0

Location 6,789,551 – 6,789,649
Length 98
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 82.72
Mean single sequence MFE -30.96
Consensus MFE -20.48
Energy contribution -20.64
Covariance contribution 0.16
Combinations/Pair 1.15
Mean z-score -1.82
Structure conservation index 0.66
SVM decision value 0.24
SVM RNA-class probability 0.650940
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6789551 98 + 20766785
CACAGCUGUGCGGACCAGAACGCCAGUCAAGUGGCAAACGGAAUGUGCACGCACUGCCG--------CAAGUAAUAGCGGAAAGAU-----UGAAACAAAGAACUCCGCAU
....((((.(((........)))))))...((((((........(((....))))))))--------)........(((((....(-----(......))....))))).. ( -26.90)
>DroSec_CAF1 39699 98 + 1
CACAGCUGUGCGGACCAGAACGCCAGCCAAGUGGCAAAUGGAAUGUGCACGCACUGCCG--------CAAGCAAUGGCGGAAAGAU-----UGAAACAAAGAACUCCGCAU
....(((.(((((.(((....((((......))))...)))...(((....)))..)))--------)))))....(((((....(-----(......))....))))).. ( -30.50)
>DroSim_CAF1 48613 98 + 1
CACAGCUGUGCGGACCAGAACGCCAGCCAAGUGGCAAAUGGAAUGUGCACGCACUGCCG--------CAAGCAAUAGCGGAAAGAU-----UGAAACAAAGAACUCCGCAU
....(((.(((((.(((....((((......))))...)))...(((....)))..)))--------)))))....(((((....(-----(......))....))))).. ( -30.70)
>DroEre_CAF1 42264 100 + 1
CACAGCUGUGCGGACCAGAACGCCAGCCAAGUGGCAAAAGGAAUGUGCACGCACUGCCGGC-----------AAUUGCGCCAAGAACGAACUCAGACAAUCAGCGCCACAU
....((((.(((........)))))))...(((((....((...(((....)))..))(((-----------......))).......................))))).. ( -31.60)
>DroYak_CAF1 47464 111 + 1
CACAGCUGUGCGGACCAGAACGCCAGCCAAGUGGCAAAAGGAAUGUGCACGCACUGCCAGCGAUCGGGCAGCGAUCGCGCCGAGAAUGUACUGAAACAAAGAACUGCACAU
.(((((((.(((........)))))))....((((....((...(((....)))..)).(((((((.....)))))))))))....)))...................... ( -35.10)
>consensus
CACAGCUGUGCGGACCAGAACGCCAGCCAAGUGGCAAAAGGAAUGUGCACGCACUGCCG________CAAGCAAUAGCGGAAAGAU_____UGAAACAAAGAACUCCGCAU
(((.((((.(((........)))))))...)))......((...(((....)))..))..................(((((.......................))))).. (-20.48 = -20.64 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 6,789,587 – 6,789,689
Length 102
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 82.98
Mean single sequence MFE -37.39
Consensus MFE -28.19
Energy contribution -27.55
Covariance contribution -0.64
Combinations/Pair 1.19
Mean z-score -2.04
Structure conservation index 0.75
SVM decision value 0.93
SVM RNA-class probability 0.884052
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6789587 102 - 20766785
UGAGUGAUGCAUGUUGCGCAUACGCAACGUGGCCAGAUGCAUGCGGAGUUCUUUGUUUCA-----AUCUUUCCGCUAUUACUUG--------CGGCAGUGCGUGCACAUUCCGUU
.(((((...(((((((((....)))))))))......(((((((((((........))).-----......((((........)--------)))...))))))))))))).... ( -34.80)
>DroSec_CAF1 39735 102 - 1
UGAGUGAUGCAUGUUGUGCAUACGCAACGUGGCCAGAUGCAUGCGGAGUUCUUUGUUUCA-----AUCUUUCCGCCAUUGCUUG--------CGGCAGUGCGUGCACAUUCCAUU
.(((((.(((((((..(((...(((((((((((.((((....(((((....)))))....-----))))....)))).)).)))--------)))))..)))))))))))).... ( -34.70)
>DroSim_CAF1 48649 102 - 1
UGAGUGAUGCAUGUUGCGCAUACGCAACGUGGCCAGAUGCAUGCGGAGUUCUUUGUUUCA-----AUCUUUCCGCUAUUGCUUG--------CGGCAGUGCGUGCACAUUCCAUU
.(((((.(((((((((((....))))))((.(((....(((.((((((....(((...))-----)...))))))...)))...--------.)))...)))))))))))).... ( -36.30)
>DroEre_CAF1 42300 104 - 1
UGAGUGAUGCAUGUUGCGCAUACGCAACGUGGCCAGUUGCAUGUGGCGCUGAUUGUCUGAGUUCGUUCUUGGCGCAAUU-----------GCCGGCAGUGCGUGCACAUUCCUUU
.(((((.(((((((.(((((((.(((((.......))))).))).))))..((((((.(((......)))((((....)-----------))))))))))))))))))))).... ( -38.60)
>DroYak_CAF1 47500 115 - 1
UGAGUGAUGCAUGUUGCGCAUACGCAACGUGGCCAGAUGCAUGUGCAGUUCUUUGUUUCAGUACAUUCUCGGCGCGAUCGCUGCCCGAUCGCUGGCAGUGCGUGCACAUUCCUUU
.(((((...(((((((((....)))))))))((((((...((((((..............))))))))).)))(((..(((((((.(....).)))))))..))).))))).... ( -42.54)
>consensus
UGAGUGAUGCAUGUUGCGCAUACGCAACGUGGCCAGAUGCAUGCGGAGUUCUUUGUUUCA_____AUCUUUCCGCUAUUGCUUG________CGGCAGUGCGUGCACAUUCCAUU
.(((((...(((((((((....)))))))))......(((((((((((.....................))))((...................))...)))))))))))).... (-28.19 = -27.55 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:47 2006