Locus 6711

Sequence ID 2L_DroMel_CAF1
Location 18,743,185 – 18,743,280
Length 95
Max. P 0.952736
window10717 window10718

overview

Window 7

Location 18,743,185 – 18,743,280
Length 95
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 78.45
Mean single sequence MFE -31.12
Consensus MFE -15.05
Energy contribution -16.77
Covariance contribution 1.72
Combinations/Pair 1.08
Mean z-score -2.41
Structure conservation index 0.48
SVM decision value 1.43
SVM RNA-class probability 0.952736
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18743185 95 + 22407834
GGAUGGCAGUUGUUGCUGCUGCGGC----------------UGCUGCUGCGCCUAAUGCAAAAAUUCGAUCAGCUGCAUUUUGCAGAUCUCGACCCAUAUUUUUGCUAUAU
((..((((((.(((((....)))))----------------.))))))...))....((((((((((((....((((.....))))...)))).....))))))))..... ( -33.00)
>DroPse_CAF1 14981 95 + 1
GGAUGGCUG--GCUGCU--------CGCUGCUG------GCUGCUGCUGCGCCUAAUGCAAAAAUUCGAUCAGCUGCAUUUUGCAGAUCUCGACCCAUAUUUUUGCUAUAU
((..(((..--((....--------....))..------)))((....)).))....((((((((((((....((((.....))))...)))).....))))))))..... ( -27.70)
>DroGri_CAF1 16409 95 + 1
GGAUGGCAGUUUG----GG------AGC---A-GUUGAUGUUGUUGUUGCGCAAAAUGCAAAAAUUCGAUCAGCUGCAUUGU-GAGAUCUCGACCCAUAUUU-UGCCAUAC
..(((((((..((----((------.((---(-((((((...(((.(((((.....))))).)))...)))))))))....(-((....))).))))....)-)))))).. ( -34.20)
>DroEre_CAF1 7041 95 + 1
GGAUGGCAGUUGUUGCUGCUGCG----------------GCUGCUGCUGCGCCUAAUGCAAAAAUUCGAUCAGCUGCAUUUUGCAGAUCUCGACCCAUAUUUUUGCUAUAU
((..((((((.(((((....)))----------------)).))))))...))....((((((((((((....((((.....))))...)))).....))))))))..... ( -33.00)
>DroPer_CAF1 14334 95 + 1
GGAUGGCUG--GCUGUU--------CGCUGCUG------GCUGCUGCUGCGCCUAAUGCAAAAAUUCGAUCAGCUGCAUUUUGCAGAUCUCGACCCAUAUUUUUGCUAUAU
((..(((..--((....--------....))..------)))((....)).))....((((((((((((....((((.....))))...)))).....))))))))..... ( -27.70)
>consensus
GGAUGGCAGUUGCUGCUG________GC___________GCUGCUGCUGCGCCUAAUGCAAAAAUUCGAUCAGCUGCAUUUUGCAGAUCUCGACCCAUAUUUUUGCUAUAU
....(((.((.((.((..........................)).)).)))))....((((((((((((....((((.....))))...)))).....))))))))..... (-15.05 = -16.77 +   1.72)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,743,185 – 18,743,280
Length 95
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 78.45
Mean single sequence MFE -26.57
Consensus MFE -15.17
Energy contribution -15.97
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.57
SVM decision value 0.63
SVM RNA-class probability 0.804582
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18743185 95 - 22407834
AUAUAGCAAAAAUAUGGGUCGAGAUCUGCAAAAUGCAGCUGAUCGAAUUUUUGCAUUAGGCGCAGCAGCA----------------GCCGCAGCAGCAACAACUGCCAUCC
.....((((((((.(.((((.((..((((.....)))))))))).)))))))))....(((((....)).----------------)))...((((......))))..... ( -27.70)
>DroPse_CAF1 14981 95 - 1
AUAUAGCAAAAAUAUGGGUCGAGAUCUGCAAAAUGCAGCUGAUCGAAUUUUUGCAUUAGGCGCAGCAGCAGC------CAGCAGCG--------AGCAGC--CAGCCAUCC
.....((((((((.(.((((.((..((((.....)))))))))).)))))))))....(((((.((.((...------..)).)).--------.)).))--)........ ( -28.10)
>DroGri_CAF1 16409 95 - 1
GUAUGGCA-AAAUAUGGGUCGAGAUCUC-ACAAUGCAGCUGAUCGAAUUUUUGCAUUUUGCGCAACAACAACAUCAAC-U---GCU------CC----CAAACUGCCAUCC
..((((((-.....((((..((....))-.....((((.((((.......((((.......)))).......)))).)-)---)).------))----))...)))))).. ( -22.94)
>DroEre_CAF1 7041 95 - 1
AUAUAGCAAAAAUAUGGGUCGAGAUCUGCAAAAUGCAGCUGAUCGAAUUUUUGCAUUAGGCGCAGCAGCAGC----------------CGCAGCAGCAACAACUGCCAUCC
.....((((((((.(.((((.((..((((.....)))))))))).)))))))))....(((((....)).))----------------)...((((......))))..... ( -27.70)
>DroPer_CAF1 14334 95 - 1
AUAUAGCAAAAAUAUGGGUCGAGAUCUGCAAAAUGCAGCUGAUCGAAUUUUUGCAUUAGGCGCAGCAGCAGC------CAGCAGCG--------AACAGC--CAGCCAUCC
.....((((((((.(.((((.((..((((.....)))))))))).)))))))))....(((((.((....))------..)).((.--------....))--..))).... ( -26.40)
>consensus
AUAUAGCAAAAAUAUGGGUCGAGAUCUGCAAAAUGCAGCUGAUCGAAUUUUUGCAUUAGGCGCAGCAGCAGC___________GC________CAGCAACAACUGCCAUCC
.....((((((((.(.((((.((..((((.....)))))))))).)))))))))....(((...........................................))).... (-15.17 = -15.97 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:11 2006