Locus 6361

Sequence ID 3L_DroMel_CAF1
Location 17,013,404 – 17,013,516
Length 112
Max. P 0.962371
window10189 window10190

overview

Window 9

Location 17,013,404 – 17,013,516
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 67.34
Mean single sequence MFE -16.93
Consensus MFE -10.08
Energy contribution -10.97
Covariance contribution 0.89
Combinations/Pair 1.14
Mean z-score -1.80
Structure conservation index 0.60
SVM decision value 1.54
SVM RNA-class probability 0.962371
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17013404 112 + 23771897
GUUUGCUCCUGUUUGCACACUUGUUUCGCUUUUUAUUUGCAUUUUGC-----CCCAACCAUUUUACCAUUUUUUUUGUUUUU-GUUUCGCGGAGCAAACAAAUCCACGUACU--UCAGUU
(((((((((((...(((..........((.........)).......-----..............((.......))....)-))..)).))))))))).............--...... ( -16.50)
>DroSec_CAF1 2351 101 + 1
GUUUGCUCCUGUUUGCACACUUGUUUCGCUUUUUAUUUGCAUUUUGC-----UCCACC----------UUU-UUUUGUUUUU-AUUUCGCGGAGCAAACAAAUCCACGUACU--UCAGUU
(((((((((.((..(((....)))...)).........((.....))-----......----------...-..........-.......))))))))).............--...... ( -16.60)
>DroEre_CAF1 2242 90 + 1
GUUUGCUCCUAUUUGCACACUUGUUUCGCUUCUUAUUUGCAUUUUCA------CCACU----------UUU-UGUU-----------UCGGGAGCAAACAAAUCCACGUACU--UCAGUU
((((((((((....(((....)))...((.........)).......------.....----------...-....-----------..)))))))))).............--...... ( -17.00)
>DroYak_CAF1 2305 106 + 1
GUUUGCUCCUAUUUGCACACUUGUUUCGCUUCUUAUUUGCAUUUUCCCCUUUUCCACU----------UUU-UGUUAUUUUU-UCUUCGGGGAGCAAACAAAUCCACGUACU--UCAGUU
(((((((((....((((.....(........).....)))).................----------...-..........-.(....)))))))))).............--...... ( -17.50)
>DroAna_CAF1 1865 92 + 1
GUUUGCUCCUAUUUGCACAUUUGUUUCACAUUUUAUUUGCAUCUUAC-----CCC-C---------------UUUUGUUUU-------UGGGAGCAAACAAAUCCACGUACUCUCCGGCU
(((((((((((..((((.((.((.....))....)).))))......-----...-.---------------.........-------)))))))))))..................... ( -17.90)
>DroPer_CAF1 8052 90 + 1
GACUGUUUAUAUUUGCACACUUGUUUCACCCCC---------CCCGC-----UCCUACCCUGU----AUUA-UCUUGUGUUUCGGUCGGAGGUGCAAACAAAUCCAACA-----------
....................((((((((((((.---------.(((.-----...(((...(.----....-.)..)))...)))..)).)))).))))))........----------- ( -16.10)
>consensus
GUUUGCUCCUAUUUGCACACUUGUUUCGCUUCUUAUUUGCAUUUUGC_____UCCACC__________UUU_UUUUGUUUUU___UUCGGGGAGCAAACAAAUCCACGUACU__UCAGUU
(((((((((.....(((....)))...((.........))..................................................)))))))))..................... (-10.08 = -10.97 +   0.89)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,013,404 – 17,013,516
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 67.34
Mean single sequence MFE -20.37
Consensus MFE -8.65
Energy contribution -9.52
Covariance contribution 0.86
Combinations/Pair 1.20
Mean z-score -2.06
Structure conservation index 0.42
SVM decision value 1.39
SVM RNA-class probability 0.949716
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17013404 112 - 23771897
AACUGA--AGUACGUGGAUUUGUUUGCUCCGCGAAAC-AAAAACAAAAAAAAUGGUAAAAUGGUUGGG-----GCAAAAUGCAAAUAAAAAGCGAAACAAGUGUGCAAACAGGAGCAAAC
......--.............(((((((((((....(-((...((...............)).)))..-----((.....)).........))........(((....)))))))))))) ( -18.26)
>DroSec_CAF1 2351 101 - 1
AACUGA--AGUACGUGGAUUUGUUUGCUCCGCGAAAU-AAAAACAAAA-AAA----------GGUGGA-----GCAAAAUGCAAAUAAAAAGCGAAACAAGUGUGCAAACAGGAGCAAAC
..(((.--.((((....(((((((((((((((.....-..........-...----------.)))))-----))))...)))))).....((.......))))))...)))........ ( -22.21)
>DroEre_CAF1 2242 90 - 1
AACUGA--AGUACGUGGAUUUGUUUGCUCCCGA-----------AACA-AAA----------AGUGG------UGAAAAUGCAAAUAAGAAGCGAAACAAGUGUGCAAAUAGGAGCAAAC
......--.............(((((((((((.-----------.((.-...----------.))..------))....((((........((.......)).))))....))))))))) ( -16.50)
>DroYak_CAF1 2305 106 - 1
AACUGA--AGUACGUGGAUUUGUUUGCUCCCCGAAGA-AAAAAUAACA-AAA----------AGUGGAAAAGGGGAAAAUGCAAAUAAGAAGCGAAACAAGUGUGCAAAUAGGAGCAAAC
.(((..--....(((...((((((((((((((.....-..........-...----------.........)))))....)))))))))..))).....))).(((........)))... ( -20.33)
>DroAna_CAF1 1865 92 - 1
AGCCGGAGAGUACGUGGAUUUGUUUGCUCCCA-------AAAACAAAA---------------G-GGG-----GUAAGAUGCAAAUAAAAUGUGAAACAAAUGUGCAAAUAGGAGCAAAC
.((((.....(((((..((((((((((((((.-------.........---------------)-)))-----))))...))))))...))))).......)).)).............. ( -20.70)
>DroPer_CAF1 8052 90 - 1
-----------UGUUGGAUUUGUUUGCACCUCCGACCGAAACACAAGA-UAAU----ACAGGGUAGGA-----GCGGG---------GGGGGUGAAACAAGUGUGCAAAUAUAAACAGUC
-----------(((...((((((((.(((((((..(((...(((....-....----.....)).)..-----.))).---------)))))))))))))))..)))............. ( -24.22)
>consensus
AACUGA__AGUACGUGGAUUUGUUUGCUCCCCGAA___AAAAACAAAA_AAA__________GGUGGA_____GCAAAAUGCAAAUAAAAAGCGAAACAAGUGUGCAAAUAGGAGCAAAC
.....................(((((((((.................................................(((.........))).......(((....)))))))))))) ( -8.65 =  -9.52 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:29 2006