Locus 7527

Sequence ID 2L_DroMel_CAF1
Location 20,893,665 – 20,893,756
Length 91
Max. P 0.669236
window12098 window12099

overview

Window 8

Location 20,893,665 – 20,893,756
Length 91
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 75.35
Mean single sequence MFE -30.13
Consensus MFE -9.11
Energy contribution -10.69
Covariance contribution 1.58
Combinations/Pair 1.12
Mean z-score -2.36
Structure conservation index 0.30
SVM decision value 0.11
SVM RNA-class probability 0.589241
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20893665 91 + 22407834
UAAUCACUGGCCACAAUGGGUUAAUCGU-----CAAUUGCCAAAGACGAGGCCC---AAGUAAUGCCACAACAAUUAUGGGGG----UGGCUUGUGGCGGCUA
.........((((((((((((...((((-----(..........))))).))))---)......(((((..(.......)..)----)))))))))))..... ( -33.80)
>DroPse_CAF1 86500 87 + 1
UAAUCAUUGGACACAAUGGGUUAAUCGCCCCGACAAUUGACA--GACCAGACCCCGAAAGACAUGCCACAA-AAUGUUGUGGG----CGGCGUG---------
...((((((....)))))).....(((((((((((.(((...--...)))....(....)...........-..))))).)))----)))....--------- ( -22.20)
>DroSec_CAF1 76809 75 + 1
----------------UUGGUUAAUCGG-----CAAUUGCCAGAGACGAGGCCC---AAGUAAUGCCACAACAAUUAUGUGGG----UGACUUGUGGCGGCUA
----------------.(((((....((-----(....))).........((((---((((....(((((.......))))).----..))))).)))))))) ( -23.60)
>DroSim_CAF1 80894 91 + 1
UAAUCACUGGCCACAAUGGGUUAAUCGU-----CGAUUGCCAGAGACGAGGCCC---AAGUAAUGCCACAACAAUUAUGUGGG----UGACUUGUGGCGGCUA
.......(((((....(((((...((((-----(..........))))).))))---)......(((((((((....)))((.----...))))))))))))) ( -32.60)
>DroEre_CAF1 78541 90 + 1
UUAUGGCUGGCCAGCAUGGGUUAAUCGU-----CGACUGCCAGAGACGAGGCCC---AAGUAAUGCCACAACAAUUAUGUGGG----UGGCUUG-AGUGGUUA
.......((((((((.(((((...((((-----(..........))))).))))---).))...(((((.(((....)))..)----))))...-..)))))) ( -30.10)
>DroYak_CAF1 69629 95 + 1
UAAUCACUGGCCACAUUGGGUUAAUCGU-----CGAUUGCCAGAGACGAGGCCC---AAGUAUUGCCACAACUAUUAUGUGGGUGGGUGGCUUGUGGUGGUUA
((((((((((((((.((((((...((((-----(..........))))).))))---))......((((.((......))..))))))))))...)))))))) ( -38.50)
>consensus
UAAUCACUGGCCACAAUGGGUUAAUCGU_____CAAUUGCCAGAGACGAGGCCC___AAGUAAUGCCACAACAAUUAUGUGGG____UGGCUUGUGGCGGCUA
........((((.....((((...(((...................))).))))...........(((((.......)))))................)))). ( -9.11 = -10.69 +   1.58)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,893,665 – 20,893,756
Length 91
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 75.35
Mean single sequence MFE -24.80
Consensus MFE -12.09
Energy contribution -12.62
Covariance contribution 0.53
Combinations/Pair 1.17
Mean z-score -1.85
Structure conservation index 0.49
SVM decision value 0.29
SVM RNA-class probability 0.669236
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20893665 91 - 22407834
UAGCCGCCACAAGCCA----CCCCCAUAAUUGUUGUGGCAUUACUU---GGGCCUCGUCUUUGGCAAUUG-----ACGAUUAACCCAUUGUGGCCAGUGAUUA
.....(((((((((((----(...((....))..)))))......(---(((..(((((..(....)..)-----))))....)))))))))))......... ( -29.70)
>DroPse_CAF1 86500 87 - 1
---------CACGCCG----CCCACAACAUU-UUGUGGCAUGUCUUUCGGGGUCUGGUC--UGUCAAUUGUCGGGGCGAUUAACCCAUUGUGUCCAAUGAUUA
---------..(((((----((.((((....-))))))).......((((.(..(((..--..)))..).)))))))).......(((((....))))).... ( -20.80)
>DroSec_CAF1 76809 75 - 1
UAGCCGCCACAAGUCA----CCCACAUAAUUGUUGUGGCAUUACUU---GGGCCUCGUCUCUGGCAAUUG-----CCGAUUAACCAA----------------
.....(((.(((((..----.(((((.......)))))....))))---))))........((((....)-----))).........---------------- ( -20.80)
>DroSim_CAF1 80894 91 - 1
UAGCCGCCACAAGUCA----CCCACAUAAUUGUUGUGGCAUUACUU---GGGCCUCGUCUCUGGCAAUCG-----ACGAUUAACCCAUUGUGGCCAGUGAUUA
.....(((.(((((..----.(((((.......)))))....))))---))))...(((.(((((.....-----(((((......))))).))))).))).. ( -28.10)
>DroEre_CAF1 78541 90 - 1
UAACCACU-CAAGCCA----CCCACAUAAUUGUUGUGGCAUUACUU---GGGCCUCGUCUCUGGCAGUCG-----ACGAUUAACCCAUGCUGGCCAGCCAUAA
........-...((((----(..(((....))).)))))......(---(((..(((((..........)-----))))....))))...(((....)))... ( -21.70)
>DroYak_CAF1 69629 95 - 1
UAACCACCACAAGCCACCCACCCACAUAAUAGUUGUGGCAAUACUU---GGGCCUCGUCUCUGGCAAUCG-----ACGAUUAACCCAAUGUGGCCAGUGAUUA
.......(((..(((((....(((((.......)))))......((---(((..(((((..........)-----))))....))))).)))))..))).... ( -27.70)
>consensus
UAGCCGCCACAAGCCA____CCCACAUAAUUGUUGUGGCAUUACUU___GGGCCUCGUCUCUGGCAAUCG_____ACGAUUAACCCAUUGUGGCCAGUGAUUA
............(((......(((((.......)))))...........(((((........)))(((((......)))))..))......)))......... (-12.09 = -12.62 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:00 2006