Locus 2921

Sequence ID 3L_DroMel_CAF1
Location 8,326,071 – 8,326,182
Length 111
Max. P 0.970313
window4558 window4559

overview

Window 8

Location 8,326,071 – 8,326,182
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.09
Mean single sequence MFE -37.37
Consensus MFE -29.53
Energy contribution -28.90
Covariance contribution -0.63
Combinations/Pair 1.31
Mean z-score -2.46
Structure conservation index 0.79
SVM decision value 1.23
SVM RNA-class probability 0.933260
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8326071 111 + 23771897
GGAUGUGCCCCGGAUCAA---UUAGUGGGUUGAAGUGAAUCUUGGGCGAUGGAUGU-UCGUUGUUGUU-UUUUGUGAUCUGAUCUGGG-GCACAU-AUUGAUCUGCUC--UGGCAAAUGC
..((((((((((((((((---(((..(((((......)))))..((((((((....-))))))))...-.....)))).)))))))))-))))))-.......(((..--..)))..... ( -37.70)
>DroSec_CAF1 4914 114 + 1
GGAUGUGCCCCGGAUCAA---UUAUUGGGUUGAAGUGAAUCUUGGGCGAUGGAUGU-UCGUUGUUGUU-UUUUGUGAUCUGAUCUGGG-GCACAUGACUGACUUGCUCUUUGGCAAAUGC
..((((((((((((((((---((((.(((((......)))))..((((((((....-))))))))...-....))))).)))))))))-)))))).......(((((....))))).... ( -39.60)
>DroSim_CAF1 4907 114 + 1
GGAUGUGCCCCGGAUCAA---UUAGUGGGUUGAAGUGAAUCUUGGGCGAUGGAUGU-UCGUUGUUGUU-UUUUGUGAUCUGAUCUGGG-GCACAUGACUGACUUGCUCUUUGGCAAAUGC
..((((((((((((((((---(((..(((((......)))))..((((((((....-))))))))...-.....)))).)))))))))-)))))).......(((((....))))).... ( -38.90)
>DroEre_CAF1 4965 108 + 1
GGAUGUGCCCCAGAUCAA---UUAGUGGGUUGAAGUGAAUCUUGGGCGAUGGAUGU-UCGUUGUUA----UUUGUGAUCUGAUCUGGG-GCACAU-AUUGAUUUGCUA--UGGCAAAUGC
..((((((((((((((((---(((..(((((......)))))..((((((((....-)))))))).----....)))).)))))))))-))))))-....((((((..--..)))))).. ( -41.50)
>DroYak_CAF1 5004 108 + 1
GGAUGUGCCCCAGAUCAA---UUAGUGGGUUGAAGUGAAUCUUGGGCGAUGGAUGU-UCGUUGUUA----UUUGUGAUCUGAUCUGGG-GCACAU-AUUGACUUGCUC--UGGCACAUGC
..((((((((((((((((---(((..(((((......)))))..((((((((....-)))))))).----....)))).)))))))))-))))))-.......(((..--..)))..... ( -38.20)
>DroAna_CAF1 5740 116 + 1
AAUUGUUAUCCCGGUCGAGAUUCAAGGGAUUGGAAUCA-UUUGAGGCUAAGAGCGUAUUGUUGUUGACUGUGUGUGACUCGACCUGGACGCACAA-UUUGACAUGACC--UGGCUAAUGC
((((((..(((.(((((((.(((((....))))).(((-(....((.(((.(((.....))).))).))....))))))))))).)))...))))-))..........--.......... ( -28.30)
>consensus
GGAUGUGCCCCGGAUCAA___UUAGUGGGUUGAAGUGAAUCUUGGGCGAUGGAUGU_UCGUUGUUGUU_UUUUGUGAUCUGAUCUGGG_GCACAU_AUUGACUUGCUC__UGGCAAAUGC
..(((((((((((((((.........(((((......)))))..((((((((.....))))))))..............))))))))).))))))........((((....))))..... (-29.53 = -28.90 +  -0.63)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,326,071 – 8,326,182
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.09
Mean single sequence MFE -29.58
Consensus MFE -21.02
Energy contribution -20.97
Covariance contribution -0.05
Combinations/Pair 1.26
Mean z-score -4.19
Structure conservation index 0.71
SVM decision value 1.66
SVM RNA-class probability 0.970313
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8326071 111 - 23771897
GCAUUUGCCA--GAGCAGAUCAAU-AUGUGC-CCCAGAUCAGAUCACAAAA-AACAACAACGA-ACAUCCAUCGCCCAAGAUUCACUUCAACCCACUAA---UUGAUCCGGGGCACAUCC
(.((((((..--..)))))))...-((((((-(((.((((((.........-........(((-.......))).....((......))..........---)))))).))))))))).. ( -29.10)
>DroSec_CAF1 4914 114 - 1
GCAUUUGCCAAAGAGCAAGUCAGUCAUGUGC-CCCAGAUCAGAUCACAAAA-AACAACAACGA-ACAUCCAUCGCCCAAGAUUCACUUCAACCCAAUAA---UUGAUCCGGGGCACAUCC
(.((((((......)))))))....((((((-(((.((((((.........-........(((-.......))).....((......))..........---)))))).))))))))).. ( -29.30)
>DroSim_CAF1 4907 114 - 1
GCAUUUGCCAAAGAGCAAGUCAGUCAUGUGC-CCCAGAUCAGAUCACAAAA-AACAACAACGA-ACAUCCAUCGCCCAAGAUUCACUUCAACCCACUAA---UUGAUCCGGGGCACAUCC
(.((((((......)))))))....((((((-(((.((((((.........-........(((-.......))).....((......))..........---)))))).))))))))).. ( -29.30)
>DroEre_CAF1 4965 108 - 1
GCAUUUGCCA--UAGCAAAUCAAU-AUGUGC-CCCAGAUCAGAUCACAAA----UAACAACGA-ACAUCCAUCGCCCAAGAUUCACUUCAACCCACUAA---UUGAUCUGGGGCACAUCC
(.((((((..--..)))))))...-((((((-((((((((((........----......(((-.......))).....((......))..........---)))))))))))))))).. ( -33.60)
>DroYak_CAF1 5004 108 - 1
GCAUGUGCCA--GAGCAAGUCAAU-AUGUGC-CCCAGAUCAGAUCACAAA----UAACAACGA-ACAUCCAUCGCCCAAGAUUCACUUCAACCCACUAA---UUGAUCUGGGGCACAUCC
.....(((..--..))).......-((((((-((((((((((........----......(((-.......))).....((......))..........---)))))))))))))))).. ( -30.90)
>DroAna_CAF1 5740 116 - 1
GCAUUAGCCA--GGUCAUGUCAAA-UUGUGCGUCCAGGUCGAGUCACACACAGUCAACAACAAUACGCUCUUAGCCUCAAA-UGAUUCCAAUCCCUUGAAUCUCGACCGGGAUAACAAUU
((....))..--..........((-((((..((((.(((((((.......................((.....)).((((.-.(((....)))..))))..))))))).)))).)))))) ( -25.30)
>consensus
GCAUUUGCCA__GAGCAAGUCAAU_AUGUGC_CCCAGAUCAGAUCACAAAA_AACAACAACGA_ACAUCCAUCGCCCAAGAUUCACUUCAACCCACUAA___UUGAUCCGGGGCACAUCC
(.((((((......)))))))....((((((.(((.((((((..................(((........))).....((......)).............)))))).))))))))).. (-21.02 = -20.97 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:03 2006