Locus 3784

Sequence ID X_DroMel_CAF1
Location 10,023,369 – 10,023,513
Length 144
Max. P 0.911599
window6213 window6214

overview

Window 3

Location 10,023,369 – 10,023,475
Length 106
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 82.75
Mean single sequence MFE -19.03
Consensus MFE -16.07
Energy contribution -16.07
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.84
SVM decision value 1.08
SVM RNA-class probability 0.911599
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10023369 106 - 22224390
UCUAGUCUGGCGAAACAGUUUGGUCUCUAAACUUUUCACUCAGACAAAACUAAACACCCACAACCCAUCCUCCAUCCGAAAAUGCUAUCCCUUGCCGGCUUA-CAGC
....((((((.((((.(((((((...))))))))))).).)))))..............................(((.....((........)))))....-.... ( -17.40)
>DroEre_CAF1 30594 94 - 1
UCUAGUCUGGCGAAACAGUUUGGUCUCUAAACUUUUCACUCAGACAAAACU-CCAA---AC------UC--CCCCCACAAAAUGCUAUCCUUUGCCGGCAUA-CAGC
....((((((.((((.(((((((...))))))))))).).)))))......-....---..------..--..........(((((..........))))).-.... ( -18.40)
>DroYak_CAF1 27620 100 - 1
UCUAGUCUGGCGAAACAGUUUGGUCUCUAAACUUUUCACUCAGACAAAGCA-ACCACCCGC------UCCGCCCCCCUAAAAUGCUAUCCCUUGCCGGCUUGCCAGC
....((((((.((((.(((((((...))))))))))).).)))))...(((-(((....((------...))...........((........)).)).)))).... ( -21.30)
>consensus
UCUAGUCUGGCGAAACAGUUUGGUCUCUAAACUUUUCACUCAGACAAAACU_ACCACCCAC______UCC_CCCCCCCAAAAUGCUAUCCCUUGCCGGCUUA_CAGC
....((((((.((((.(((((((...))))))))))).).)))))......................................(((..........)))........ (-16.07 = -16.07 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 10,023,407 – 10,023,513
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 75.19
Mean single sequence MFE -23.88
Consensus MFE -13.23
Energy contribution -13.85
Covariance contribution 0.62
Combinations/Pair 1.10
Mean z-score -2.08
Structure conservation index 0.55
SVM decision value 0.86
SVM RNA-class probability 0.867651
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10023407 106 - 22224390
UGC--AGCAGGAAAACAUCAUUUACAAGCCGAUGAAACUUUCUAGUCUGGCGAA---ACAGUUUGGUCU-CUAAACUUUUCACUCAGACAAAACUAAACACCC--------ACAACCCAU
...--....(((((...(((((........)))))...))))).((((((.(((---(.(((((((...-))))))))))).).)))))..............--------......... ( -20.20)
>DroAna_CAF1 22483 105 - 1
UGCGGGGCAGGAAAACAUCAUUUACAAGCCGAUGAAAGUUUCCA--CUUGCCAGUUUCCAGCUCCGUCUGCGAAACUUUUCACUUUG------CA-AUCAGCCAGUUGGGGGC------U
.....(((((((((...(((((........)))))...))))).--..))))(((..(((((((.(..((((((.........))))------))-..).)..))))))..))------) ( -30.40)
>DroEre_CAF1 30630 96 - 1
UGC--UGCAGGAAAACAUCAUUUACAAACCGAUGAAACUUUCUAGUCUGGCGAA---ACAGUUUGGUCU-CUAAACUUUUCACUCAGACAAAACU-CCAA-----------AC------U
...--....(((...((((...........))))..........((((((.(((---(.(((((((...-))))))))))).).))))).....)-))..-----------..------. ( -20.90)
>DroYak_CAF1 27659 99 - 1
UGC--UGCAGGAAAACAUCAUUUACAAGCCGAUGAAACUUUCUAGUCUGGCGAA---ACAGUUUGGUCU-CUAAACUUUUCACUCAGACAAAGCA-ACCACCC--------GC------U
(((--(...(((((...(((((........)))))...))))).((((((.(((---(.(((((((...-))))))))))).).)))))..))))-.......--------..------. ( -24.00)
>consensus
UGC__UGCAGGAAAACAUCAUUUACAAGCCGAUGAAACUUUCUAGUCUGGCGAA___ACAGUUUGGUCU_CUAAACUUUUCACUCAGACAAAACA_ACCACCC________AC______U
(((...)))(((((...(((((........)))))...))))).((((((.(((.....(((((((....))))))).))).).)))))............................... (-13.23 = -13.85 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:22 2006