Locus 3438

Sequence ID X_DroMel_CAF1
Location 9,198,435 – 9,198,534
Length 99
Max. P 0.821379
window5635 window5636

overview

Window 5

Location 9,198,435 – 9,198,534
Length 99
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 76.05
Mean single sequence MFE -24.77
Consensus MFE -12.77
Energy contribution -13.77
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.18
Structure conservation index 0.52
SVM decision value 0.00
SVM RNA-class probability 0.534438
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9198435 99 + 22224390
--UCGGGGGUCUCAAACAGACUGCUUAAUUGCUAUUUUGGU-UUCGUUUCAUGUGCUAAUUGUGCACAUGCUAUGCAAAUUUGUUGCUCCCU---UGGCCUUCUA
--..((((((..(((.((((..((......))...))))((-(((((..(((((((.......)))))))..))).)))))))..)))))).---.......... ( -28.40)
>DroYak_CAF1 23781 101 + 1
AUUCGGGGCUCUCAAACGGACUGCUUAAUUGCUAUUUUGGU-UUCGUUUCAUGUGCUAAUUGUGCACAUGCUAUGCAAAUUUGUUGCUCCCU---UGGCCUUCUC
....(((((...(((.((((..((......))...))))((-(((((..(((((((.......)))))))..))).)))))))..)))))..---.......... ( -24.70)
>DroAna_CAF1 30092 86 + 1
------------------GCUGGCCUAAUUGCUAUUUUGGUUUUCGUUUCAUGUGCUAAUUGUGCACAUGGUAUGCAAAUU-AUUAUUCCCAGACAGCCCUCCUA
------------------((((((......)).....((((((.(((.((((((((.......)))))))).))).)))))-)...........))))....... ( -21.20)
>consensus
__UCGGGG_UCUCAAAC_GACUGCUUAAUUGCUAUUUUGGU_UUCGUUUCAUGUGCUAAUUGUGCACAUGCUAUGCAAAUUUGUUGCUCCCU___UGGCCUUCUA
....(((...............((......))............(((..(((((((.......)))))))..))).............))).............. (-12.77 = -13.77 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 9,198,435 – 9,198,534
Length 99
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 76.05
Mean single sequence MFE -21.33
Consensus MFE -14.12
Energy contribution -14.23
Covariance contribution 0.11
Combinations/Pair 1.07
Mean z-score -1.63
Structure conservation index 0.66
SVM decision value 0.68
SVM RNA-class probability 0.821379
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9198435 99 - 22224390
UAGAAGGCCA---AGGGAGCAACAAAUUUGCAUAGCAUGUGCACAAUUAGCACAUGAAACGAA-ACCAAAAUAGCAAUUAAGCAGUCUGUUUGAGACCCCCGA--
..........---.(((.((((.....))))....(((((((.......))))))).......-.........((......)).((((.....)))).)))..-- ( -21.50)
>DroYak_CAF1 23781 101 - 1
GAGAAGGCCA---AGGGAGCAACAAAUUUGCAUAGCAUGUGCACAAUUAGCACAUGAAACGAA-ACCAAAAUAGCAAUUAAGCAGUCCGUUUGAGAGCCCCGAAU
..........---.(((.((((.....))))....(((((((.......))))))).......-.........((..((((((.....))))))..))))).... ( -23.50)
>DroAna_CAF1 30092 86 - 1
UAGGAGGGCUGUCUGGGAAUAAU-AAUUUGCAUACCAUGUGCACAAUUAGCACAUGAAACGAAAACCAAAAUAGCAAUUAGGCCAGC------------------
......((((((.((.((((...-.)))).)).))(((((((.......)))))))........................))))...------------------ ( -19.00)
>consensus
UAGAAGGCCA___AGGGAGCAACAAAUUUGCAUAGCAUGUGCACAAUUAGCACAUGAAACGAA_ACCAAAAUAGCAAUUAAGCAGUC_GUUUGAGA_CCCCGA__
..............((..((((.....))))....(((((((.......))))))).........))......((......))...................... (-14.12 = -14.23 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:32 2006