Locus 982

Sequence ID X_DroMel_CAF1
Location 2,840,278 – 2,840,383
Length 105
Max. P 0.974454
window1586 window1587

overview

Window 6

Location 2,840,278 – 2,840,383
Length 105
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 85.21
Mean single sequence MFE -29.52
Consensus MFE -21.45
Energy contribution -21.57
Covariance contribution 0.12
Combinations/Pair 1.04
Mean z-score -2.76
Structure conservation index 0.73
SVM decision value 1.73
SVM RNA-class probability 0.974454
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2840278 105 + 22224390
UGUUUCUGCAGC--AGAAGGAGCAGCGCAACAGCAACACAUCUGCAGCACAGCUGCUCCUCAGAGUUCGUCAGAGGUCAGACUGCGAAAAAGAUGUGAAAAAAAAGA-
..((((.(((((--.((.((((((((......(((.......)))......)))))))))).((.(((....))).)).).))))))))..................- ( -32.00)
>DroSec_CAF1 228202 98 + 1
UGUUUCUGCAGU--AGAAGCAGC-----AACAGCAACACAUCUGCAGCACAGCUGCUCCUCAGAGUUCGUCGGAGGUCAGACUGCUAAAAAGAUGUGAAAAAAAA---
((((.((((...--....)))).-----))))....(((((((..((((...(((..((((.((.....)).)))).)))..))))....)))))))........--- ( -30.90)
>DroSim_CAF1 201092 98 + 1
UGUUUCUGCAGC--AGAAGCAGC-----AUCAGCAACACAUCUGCAGCACAGCUGCUCCUCAGAGUUCGUCGGAGGUCAGACUGCGAAAAAGAUGUGAAAAAAAA---
((((((((...)--)))))))((-----....))..(((((((....(.((((((..((((.((.....)).)))).))).))).)....)))))))........--- ( -32.80)
>DroEre_CAF1 248477 92 + 1
UGUUUCUGCAGCAA----------------CAGCAAGACAUCUGCAGCACAGCUGCUCCACAGAGUUCGUCAGAGGUCAGACUGCGAAAAAGAUGUUGAAAAAAAAAA
..(((((((.....----------------..))).((((((((((((...))))).........((((.(((........)))))))..)))))))))))....... ( -22.40)
>consensus
UGUUUCUGCAGC__AGAAGCAGC_____AACAGCAACACAUCUGCAGCACAGCUGCUCCUCAGAGUUCGUCAGAGGUCAGACUGCGAAAAAGAUGUGAAAAAAAA___
(((....)))..........................(((((((....(.((((((..((((.((.....)).)))).))).))).)....)))))))........... (-21.45 = -21.57 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 2,840,278 – 2,840,383
Length 105
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 85.21
Mean single sequence MFE -28.88
Consensus MFE -22.30
Energy contribution -23.05
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.77
SVM decision value 0.86
SVM RNA-class probability 0.868964
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2840278 105 - 22224390
-UCUUUUUUUUCACAUCUUUUUCGCAGUCUGACCUCUGACGAACUCUGAGGAGCAGCUGUGCUGCAGAUGUGUUGCUGUUGCGCUGCUCCUUCU--GCUGCAGAAACA
-..........(((((((.(..(((((.(((.((((.((.....)).))))..))))))))..).))))))).....(((...((((..(....--)..)))).))). ( -31.90)
>DroSec_CAF1 228202 98 - 1
---UUUUUUUUCACAUCUUUUUAGCAGUCUGACCUCCGACGAACUCUGAGGAGCAGCUGUGCUGCAGAUGUGUUGCUGUU-----GCUGCUUCU--ACUGCAGAAACA
---........(((((((.....((((.(((.((((.((.....)).))))..))))))).....))))))).....(((-----.((((....--...)))).))). ( -30.60)
>DroSim_CAF1 201092 98 - 1
---UUUUUUUUCACAUCUUUUUCGCAGUCUGACCUCCGACGAACUCUGAGGAGCAGCUGUGCUGCAGAUGUGUUGCUGAU-----GCUGCUUCU--GCUGCAGAAACA
---........(((((((.(..(((((.(((.((((.((.....)).))))..))))))))..).))))))).......(-----((.((....--)).)))...... ( -30.10)
>DroEre_CAF1 248477 92 - 1
UUUUUUUUUUCAACAUCUUUUUCGCAGUCUGACCUCUGACGAACUCUGUGGAGCAGCUGUGCUGCAGAUGUCUUGCUG----------------UUGCUGCAGAAACA
....................(((((((........))).)))).((((..(((((((...((.......))...))))----------------)).)..)))).... ( -22.90)
>consensus
___UUUUUUUUCACAUCUUUUUCGCAGUCUGACCUCCGACGAACUCUGAGGAGCAGCUGUGCUGCAGAUGUGUUGCUGUU_____GCUGCUUCU__GCUGCAGAAACA
...........(((((((....(((((.(((.((((.((.....)).))))..))))))))....)))))))((((.......................))))..... (-22.30 = -23.05 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:35 2006