Locus 7461

Sequence ID 3L_DroMel_CAF1
Location 20,020,492 – 20,020,589
Length 97
Max. P 0.849453
window12124 window12125

overview

Window 4

Location 20,020,492 – 20,020,589
Length 97
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 73.34
Mean single sequence MFE -20.47
Consensus MFE -9.85
Energy contribution -9.30
Covariance contribution -0.55
Combinations/Pair 1.22
Mean z-score -1.93
Structure conservation index 0.48
SVM decision value 0.78
SVM RNA-class probability 0.849453
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20020492 97 + 23771897
UAUGCAUUAUUUAUGCAAAAGUUGGUGGCCAAUAAAAUGGCAAACGGUUUGAAAAAGC-AUA-CAAGCCAAGUGCUUGGAAUGAAAAUAUCG-GUUUUGG
..(((((.....)))))((((..((((((((......)))).....((((....))))-...-(((((.....))))).........)))).-.)))).. ( -22.40)
>DroVir_CAF1 12297 90 + 1
UAUGCAUAAUUUAUGCAAAACUAACAAAGCAAUAAAAUGCU-----GCAAU-AAAAGCGAUAGCAAAAUAAGUAAUGAAAAGCGAGAGAUAC----CUAC
..((((((...))))))..(((.....((((......))))-----.....-....((....))......)))...................----.... ( -10.00)
>DroSec_CAF1 12261 97 + 1
UAUGCAUUAUUUAUGCAAAACUUGGUGGCCAAUAAAAUGGCAAACGGUAUCAAAAAGC-AUA-CAAACCAAGUGCUUGGAAAGGAAAUAUGG-CUUUCGG
..(((((.....)))))..(((((((.((((......)))).....((((........-)))-)..))))))).....(((((.........-))))).. ( -22.90)
>DroSim_CAF1 6921 97 + 1
UAUGCAUUAUUUAUGCAAAACUUUGUGGCCAAUAAAAUGGCAAGCGGUAUGAAAAAGC-AUA-CAAACCAAGUGCUUGCAAAGGAAAUAUGG-CUUUCGG
..(((((.....)))))...((((((.((((......))))((((((((((......)-)))-)........)))))))))))((((.....-.)))).. ( -22.50)
>DroEre_CAF1 11782 85 + 1
UGUGCAUUAUUUAUGCAAAACUCGGUGGCCAACAAAAUGGCAAACGCUAUGAAAG---------------AAUGCUUGUAGAGAAAAUACAGCGUUUUGG
..(((((.....)))))......((((((((......))))...)))).....((---------------((((((.(((.......))))))))))).. ( -20.00)
>DroYak_CAF1 13786 98 + 1
UGUGCAUUAUUUAUGCAAAACUUGGUGGCCAAUAAAAUGGCAACCGGCAUGGAAAAGC-AUA-CAAAACAAGUGCUUGUAAAGAAAAUAUAGGGUUUUGG
(((((.((.(((((((......((((.((((......)))).))))))))))).))))-)))-((((((.....((((((.......)))))))))))). ( -25.00)
>consensus
UAUGCAUUAUUUAUGCAAAACUUGGUGGCCAAUAAAAUGGCAAACGGUAUGAAAAAGC_AUA_CAAACCAAGUGCUUGGAAAGAAAAUAUAG_GUUUUGG
..(((((.....)))))..........((((......))))........................................................... ( -9.85 =  -9.30 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,020,492 – 20,020,589
Length 97
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 73.34
Mean single sequence MFE -17.28
Consensus MFE -9.32
Energy contribution -8.77
Covariance contribution -0.55
Combinations/Pair 1.22
Mean z-score -1.73
Structure conservation index 0.54
SVM decision value 0.69
SVM RNA-class probability 0.823176
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20020492 97 - 23771897
CCAAAAC-CGAUAUUUUCAUUCCAAGCACUUGGCUUG-UAU-GCUUUUUCAAACCGUUUGCCAUUUUAUUGGCCACCAACUUUUGCAUAAAUAAUGCAUA
.......-.((......(((..(((((.....)))))-.))-).....)).........((((......))))..........(((((.....))))).. ( -15.50)
>DroVir_CAF1 12297 90 - 1
GUAG----GUAUCUCUCGCUUUUCAUUACUUAUUUUGCUAUCGCUUUU-AUUGC-----AGCAUUUUAUUGCUUUGUUAGUUUUGCAUAAAUUAUGCAUA
((((----(((...............)))))))...((((.(((....-...))-----((((......))))..).))))..((((((...)))))).. ( -13.26)
>DroSec_CAF1 12261 97 - 1
CCGAAAG-CCAUAUUUCCUUUCCAAGCACUUGGUUUG-UAU-GCUUUUUGAUACCGUUUGCCAUUUUAUUGGCCACCAAGUUUUGCAUAAAUAAUGCAUA
..(((((-.........))))).....(((((((..(-(((-........)))).....((((......)))).)))))))..(((((.....))))).. ( -19.40)
>DroSim_CAF1 6921 97 - 1
CCGAAAG-CCAUAUUUCCUUUGCAAGCACUUGGUUUG-UAU-GCUUUUUCAUACCGCUUGCCAUUUUAUUGGCCACAAAGUUUUGCAUAAAUAAUGCAUA
......(-(..(((((....((((((.(((((((..(-(((-(......))))).))).((((......))))....)))))))))).)))))..))... ( -19.00)
>DroEre_CAF1 11782 85 - 1
CCAAAACGCUGUAUUUUCUCUACAAGCAUU---------------CUUUCAUAGCGUUUGCCAUUUUGUUGGCCACCGAGUUUUGCAUAAAUAAUGCACA
...(((((((((..................---------------.....)))))))))((((......))))..........(((((.....))))).. ( -16.80)
>DroYak_CAF1 13786 98 - 1
CCAAAACCCUAUAUUUUCUUUACAAGCACUUGUUUUG-UAU-GCUUUUCCAUGCCGGUUGCCAUUUUAUUGGCCACCAAGUUUUGCAUAAAUAAUGCACA
.........................(((.((((((((-((.-((........)).(((.((((......)))).)))......)))).)))))))))... ( -19.70)
>consensus
CCAAAAC_CUAUAUUUCCUUUACAAGCACUUGGUUUG_UAU_GCUUUUUCAUACCGUUUGCCAUUUUAUUGGCCACCAAGUUUUGCAUAAAUAAUGCAUA
...........................................................((((......))))..........(((((.....))))).. ( -9.32 =  -8.77 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:42 2006