Locus 6171

Sequence ID 2R_DroMel_CAF1
Location 19,404,384 – 19,404,500
Length 116
Max. P 0.783707
window9885 window9886

overview

Window 5

Location 19,404,384 – 19,404,500
Length 116
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 85.41
Mean single sequence MFE -21.00
Consensus MFE -16.36
Energy contribution -17.05
Covariance contribution 0.69
Combinations/Pair 1.10
Mean z-score -1.79
Structure conservation index 0.78
SVM decision value 0.57
SVM RNA-class probability 0.783707
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19404384 116 + 20766785
AUACAUAUUCUAAGUUACCUGAUUACUGCCACAAGUAUCAAGUUAGAUGCAUUA-AAACUACCCAAGACUGUAGAAUAACUACAAUUAGUUGAUAAUAUCGAGAACAGUAUUCAGUU
..................((((.(((((......(((((......)))))((((-...((((........))))..((((((....)))))).))))........))))).)))).. ( -20.20)
>DroSec_CAF1 7694 116 + 1
AUACAUAUUCUAAGUUACCUGAUUACUGCCACAAGUAUCAAGUUAGAUGCAUUA-AAACUACCCAAGACUGUAGACUAACUACAAUAAGUUAGUAGUAUCGAGAACAGUAUUCAGUU
..................((((.(((((......(((((......)))))....-...((((........))))(((((((......)))))))...........))))).)))).. ( -23.80)
>DroSim_CAF1 7711 115 + 1
AUACAUAAUCUAAGUUACCUGAUUACUGCCACAAGUAUCAAGUUAGAUGCAUUA--AACUACCCAAGACUGUAGACUAACCACAAUUAGUUAGUAGUAUCGAGAACAGUAUUCAGUU
..................((((.(((((......(((((......)))))....--...........((((..((((((......))))))..))))........))))).)))).. ( -22.40)
>DroYak_CAF1 7703 113 + 1
AUA----UAACAAGUUACCUGAUUACUGCUACAUGUAUAGAACUAUAUGAAGUACCAACCAACCAAUGCCGUAGAAUAACUACAAUAAGUUAACAAUAACGAGAACAGUAUUCAGUU
...----...........((((.(((((((.((((((......)))))).))..................((((.....)))).....((((....)))).....))))).)))).. ( -17.60)
>consensus
AUACAUAUUCUAAGUUACCUGAUUACUGCCACAAGUAUCAAGUUAGAUGCAUUA_AAACUACCCAAGACUGUAGAAUAACUACAAUAAGUUAAUAAUAUCGAGAACAGUAUUCAGUU
..................((((.(((((......(((((......)))))........................(((((((......)))))))...........))))).)))).. (-16.36 = -17.05 +   0.69)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,404,384 – 19,404,500
Length 116
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 85.41
Mean single sequence MFE -25.23
Consensus MFE -24.10
Energy contribution -22.35
Covariance contribution -1.75
Combinations/Pair 1.33
Mean z-score -1.41
Structure conservation index 0.96
SVM decision value 0.53
SVM RNA-class probability 0.769633
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19404384 116 - 20766785
AACUGAAUACUGUUCUCGAUAUUAUCAACUAAUUGUAGUUAUUCUACAGUCUUGGGUAGUUU-UAAUGCAUCUAACUUGAUACUUGUGGCAGUAAUCAGGUAACUUAGAAUAUGUAU
..((((.(((((((..(((...((((((...(((((((.....))))))).((((((.((..-....)))))))).)))))).))).))))))).)))).................. ( -25.90)
>DroSec_CAF1 7694 116 - 1
AACUGAAUACUGUUCUCGAUACUACUAACUUAUUGUAGUUAGUCUACAGUCUUGGGUAGUUU-UAAUGCAUCUAACUUGAUACUUGUGGCAGUAAUCAGGUAACUUAGAAUAUGUAU
..((((.(((((((..(((.((((((.....(((((((.....)))))))....))))))..-......(((......)))..))).))))))).)))).................. ( -26.30)
>DroSim_CAF1 7711 115 - 1
AACUGAAUACUGUUCUCGAUACUACUAACUAAUUGUGGUUAGUCUACAGUCUUGGGUAGUU--UAAUGCAUCUAACUUGAUACUUGUGGCAGUAAUCAGGUAACUUAGAUUAUGUAU
..((((.(((((((..(((.((((((.....(((((((.....)))))))....)))))).--......(((......)))..))).))))))).)))).................. ( -26.00)
>DroYak_CAF1 7703 113 - 1
AACUGAAUACUGUUCUCGUUAUUGUUAACUUAUUGUAGUUAUUCUACGGCAUUGGUUGGUUGGUACUUCAUAUAGUUCUAUACAUGUAGCAGUAAUCAGGUAACUUGUUA----UAU
..((((.(((((((..(((......(((((..((((((.....))))))....)))))(((((.(((......))).))).))))).))))))).))))((((....)))----).. ( -22.70)
>consensus
AACUGAAUACUGUUCUCGAUACUACUAACUAAUUGUAGUUAGUCUACAGUCUUGGGUAGUUU_UAAUGCAUCUAACUUGAUACUUGUGGCAGUAAUCAGGUAACUUAGAAUAUGUAU
..((((.(((((((..(((.((((((.....(((((((.....)))))))....)))))).........(((......)))..))).))))))).)))).................. (-24.10 = -22.35 +  -1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:37 2006