Locus 7127

Sequence ID 3L_DroMel_CAF1
Location 19,176,274 – 19,176,511
Length 237
Max. P 0.859804
window11569 window11570

overview

Window 9

Location 19,176,274 – 19,176,394
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.33
Mean single sequence MFE -27.74
Consensus MFE -24.67
Energy contribution -24.87
Covariance contribution 0.20
Combinations/Pair 1.10
Mean z-score -1.18
Structure conservation index 0.89
SVM decision value 0.04
SVM RNA-class probability 0.553812
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19176274 120 + 23771897
UAUGGCUCUUUCUAUGCUCCGUUCUUCAUUAUUACUUAUCGCUUGGGCAAUGGCAGUCAAAUUGCUUCUGGGCCAAGCACUCUCUGUUUGGCCAUCACAUUAGAGCUGCAUAAAGUUUCC
...((..(((..(((((...(((((...............((....))(((((((((...))))).....(((((((((.....)))))))))....))))))))).))))))))...)) ( -30.00)
>DroSec_CAF1 4792 120 + 1
UAUGGCUUUCUCUACGCUCCGUUCUUCAUUAUUACUUAUCGCUUGGGCAAUGGCAGUCAAAUUGCUUCUGGGCCAAACACUCUCCGUUUGGCCAUCACAUUAGAGCUGCAUAAAGUUUCC
....((...(((((.((((((((.((((...............)))).))))).))).............((((((((.......)))))))).......)))))..))........... ( -27.06)
>DroSim_CAF1 7829 120 + 1
UAUGGCUUUCUCUACGCUCCGUUCUUCAUUAUUACUUAUCGCUUGGGCAAUGGCAGUCAAAUUGCUUCUGGGCCAAGCACUCUCCGUUUGACCAUCACAUUAGAGCUGCAUAAAGUUUCC
...((((((......((((.....................((((((.(...((((((...))))))....).))))))..........((.....)).....)))).....))))))... ( -23.70)
>DroEre_CAF1 7538 120 + 1
UACGGCUAUUACUACGCUCCGUUCUUCAUUAUUACUUAACGCUUGGGCAAUGGCAGUCAAAUUGCUUCUCGGCCAAGCACUCUCUGUUUGGCCAUCACAUUAGAGCUGCAUAAAGUUUCC
..(((((........((((((((..............))))...))))(((((((((...))))).....(((((((((.....)))))))))....))))..)))))............ ( -29.44)
>DroYak_CAF1 9618 120 + 1
UAUGGCUAUUUCUACGCUCCGUUCUUUAUUAUUACUUAACGCUUGGGCAAUGGCAGUCAAAUUGCUUCUCGGCCAAGCACUCUCUGUUUGGCCAUCACAUUAGAGCUGCAUAAAGUUUCC
...((((........((.(((..(.(((........))).)..)))))(((((((((...))))).....(((((((((.....)))))))))....))))..))))............. ( -28.50)
>consensus
UAUGGCUAUUUCUACGCUCCGUUCUUCAUUAUUACUUAUCGCUUGGGCAAUGGCAGUCAAAUUGCUUCUGGGCCAAGCACUCUCUGUUUGGCCAUCACAUUAGAGCUGCAUAAAGUUUCC
..(((((((......((.(((......................)))))(((((((((...))))).....((((((((.......))))))))....)))))))))))............ (-24.67 = -24.87 +   0.20)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 19,176,394 – 19,176,511
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -36.79
Consensus MFE -31.87
Energy contribution -32.51
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.48
Structure conservation index 0.87
SVM decision value 0.82
SVM RNA-class probability 0.859804
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19176394 117 - 23771897
UUUCGAUGGCGUGCUCCAA---UGUUUUCCAGCCCGAGUAACUGCGACUCGCCGGCUAACCGCACCUUUUUAACCCUUUACUUCAGCGGUUGGGGACUAAAAGCAGAACGACAUCGAACC
.(((((((.((((((....---.(((..(.(((((((((.......)))))..))))((((((......................)))))))..)))....)))...))).))))))).. ( -34.85)
>DroSec_CAF1 4912 117 - 1
UUUCGAUGGCGUGCUCCAA---UGUUUUCCAGCCCGAGUAACAGCGACUCGCCGGCUAACCGCACCUUUUUAACCCUUUACCUCAGCGGUUUGGGGCUAAAAGCAGAACGACAUCGAACC
.(((((((.(((.((.(..---(((.....(((((((((.......)))))..))))....)))...(((((.((((..(((.....)))..)))).)))))).)).))).))))))).. ( -35.60)
>DroSim_CAF1 7949 117 - 1
UUUCGAUGGCGUGCUCCAA---UGUUUUCCAGCCCGAGUAACUGCGACUCGCCUGCUAACCGCACCUUUUUAACCCUUUACCUCAGCGGUUGGGGGCUAAAAGCAGAACGACAUCGAACC
.(((((((.(((.......---((((((..(((((((((.......)))).....((((((((......................))))))))))))).))))))..))).))))))).. ( -38.95)
>DroEre_CAF1 7658 117 - 1
UUUGGAUGGCGUGCUCCAA---UGUUUUCCAGCCCGAGUUACGGCGACUCUCCGGCUAACCGCACCUUUUUAACCCUUUGCCUCAGCGGUUGGGGGCUGAAAGCAGAACGACAUCGAACC
.((.((((.(((.......---(((((((.((((((((((.....))))).....((((((((......................))))))))))))))))))))..))).)))).)).. ( -39.85)
>DroYak_CAF1 9738 120 - 1
UUUGGAUGGCGUGCUCCAACCGUGUUUUCCAGCCUGAGUUACUGCGACUCUCCGGCUAACCGCACCUUUUUAACCCUUUACCUCAGCGGUUGGGGGCUAAAAGCAGAACGACAUCGAACC
.((.((((.(((.((.(....((((.....((((.(((((.....)))))...))))....))))..(((((.((((..(((.....)))..)))).)))))).)).))).)))).)).. ( -34.70)
>consensus
UUUCGAUGGCGUGCUCCAA___UGUUUUCCAGCCCGAGUAACUGCGACUCGCCGGCUAACCGCACCUUUUUAACCCUUUACCUCAGCGGUUGGGGGCUAAAAGCAGAACGACAUCGAACC
.(((((((.(((..........((((((..(((((((((.......)))).....((((((((......................))))))))))))).))))))..))).))))))).. (-31.87 = -32.51 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:40 2006