Locus 7147

Sequence ID X_DroMel_CAF1
Location 17,942,995 – 17,943,104
Length 109
Max. P 0.997614
window11670 window11671

overview

Window 0

Location 17,942,995 – 17,943,104
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.93
Mean single sequence MFE -31.42
Consensus MFE -10.81
Energy contribution -14.01
Covariance contribution 3.20
Combinations/Pair 1.21
Mean z-score -2.35
Structure conservation index 0.34
SVM decision value 1.04
SVM RNA-class probability 0.904896
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17942995 109 + 22224390
AAU----AAAUAGUCACGAUUGUGCGCCCCCACCGAGACCCAAAUAUAUGCUUCU-GUAUAUAUAUAUGGGUAGG-----GGGGCACGAGGUGGUUGU-UGUUUUGUGAAACAGUCAAGU
...----.((((..(((..((((((.(((((......(((((.((((((((....-))))))))...))))).))-----))))))))).)))..)))-)((((....))))........ ( -40.60)
>DroPse_CAF1 4984 98 + 1
AAU----AAAUAGACACGAAAGCAUGC----------------ACAUAUGCGAAUACUAUGCACACAUUGGCACGCACAGAGAGAAAGAGA-GAAAGUGUG-UUUUUGGAACAGUCAAAU
...----.....(((......(((((.----------------...)))))..............((..(((((((...............-....)))))-))..)).....))).... ( -16.41)
>DroSec_CAF1 3134 109 + 1
AAU----AAAUAGUCACGAUUGUGCGCCCCCACCGAGACCCACAUAUAUGCUUCU-GUAUAUAUAUAUGGGUAGG-----GGGGCACGAGGUGGUUGU-UGUUUUGUGAAACAGUCAAGU
...----.((((..(((..((((((.(((((......(((((.((((((((....-))))))))...))))).))-----))))))))).)))..)))-)((((....))))........ ( -40.60)
>DroEre_CAF1 3092 109 + 1
AAU----AAAUAGUCACGAUUGUGCGCCCCCACCGAGACCCACAUAUAUGCUUCU-GUAUAUAUAUAUGGGCAGG-----GGGGCACGAGGUGGUUGU-UGUUUUGUGAAACAGUCAAGU
...----.((((..(((..((((((.(((((.....(.((((.((((((((....-))))))))...))))).))-----))))))))).)))..)))-)((((....))))........ ( -38.30)
>DroYak_CAF1 3071 109 + 1
AAU----AAAUAGUCACGAUUUUGCGCCCCCACAGAGACCCACAUAUAUGCUUCU-GUAUAUAUACAUGGGCAGG-----GGGGCACUAGGUGGUUGU-UGUUUUGUGAAACAGUCAAGU
...----((((((..((.((((.(.((((((.....(.((((.((((((((....-))))))))...)))))..)-----))))).).)))).))..)-)))))................ ( -32.30)
>DroAna_CAF1 3034 98 + 1
AAUUGUAAAAUAGUCACGAUUGUGUGUGCACACCCACACUAACAUAUAUAUUUCU-GUAUAUAUAUAUAGAUCGG-----GG--CACA-GG-------------UGUGAGAAAGUCAUGU
.............(((((.(((((((....).(((...(((..((((((((....-))))))))...)))...))-----))--))))-).-------------)))))........... ( -20.30)
>consensus
AAU____AAAUAGUCACGAUUGUGCGCCCCCACCGAGACCCACAUAUAUGCUUCU_GUAUAUAUAUAUGGGCAGG_____GGGGCACGAGGUGGUUGU_UGUUUUGUGAAACAGUCAAGU
.................((((((..(((((........((((.((((((((.....))))))))...)))).........)))))((((..(........)..))))...)))))).... (-10.81 = -14.01 +   3.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,942,995 – 17,943,104
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.93
Mean single sequence MFE -28.33
Consensus MFE -15.13
Energy contribution -16.99
Covariance contribution 1.87
Combinations/Pair 1.37
Mean z-score -2.86
Structure conservation index 0.53
SVM decision value 2.89
SVM RNA-class probability 0.997614
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17942995 109 - 22224390
ACUUGACUGUUUCACAAAACA-ACAACCACCUCGUGCCCC-----CCUACCCAUAUAUAUAUAC-AGAAGCAUAUAUUUGGGUCUCGGUGGGGGCGCACAAUCGUGACUAUUU----AUU
..(((..(((((....)))))-...........(((((((-----((((((((.((((((....-......)))))).)))))...)).)))))))).)))............----... ( -30.30)
>DroPse_CAF1 4984 98 - 1
AUUUGACUGUUCCAAAAA-CACACUUUC-UCUCUUUCUCUCUGUGCGUGCCAAUGUGUGCAUAGUAUUCGCAUAUGU----------------GCAUGCUUUCGUGUCUAUUU----AUU
.((((.......)))).(-(((......-...........(((((((..(....)..))))))).....((((....----------------..))))....))))......----... ( -17.70)
>DroSec_CAF1 3134 109 - 1
ACUUGACUGUUUCACAAAACA-ACAACCACCUCGUGCCCC-----CCUACCCAUAUAUAUAUAC-AGAAGCAUAUAUGUGGGUCUCGGUGGGGGCGCACAAUCGUGACUAUUU----AUU
..(((..(((((....)))))-...........(((((((-----(((((((((((((((....-......))))))))))))...)).)))))))).)))............----... ( -34.20)
>DroEre_CAF1 3092 109 - 1
ACUUGACUGUUUCACAAAACA-ACAACCACCUCGUGCCCC-----CCUGCCCAUAUAUAUAUAC-AGAAGCAUAUAUGUGGGUCUCGGUGGGGGCGCACAAUCGUGACUAUUU----AUU
..(((..(((((....)))))-...........(((((((-----(((((((((((((((....-......))))))))))))...)).)))))))).)))............----... ( -34.50)
>DroYak_CAF1 3071 109 - 1
ACUUGACUGUUUCACAAAACA-ACAACCACCUAGUGCCCC-----CCUGCCCAUGUAUAUAUAC-AGAAGCAUAUAUGUGGGUCUCUGUGGGGGCGCAAAAUCGUGACUAUUU----AUU
.......(((((....)))))-...........(((((((-----((.((((((((((((....-......))))))))))))....).))))))))................----... ( -32.00)
>DroAna_CAF1 3034 98 - 1
ACAUGACUUUCUCACA-------------CC-UGUG--CC-----CCGAUCUAUAUAUAUAUAC-AGAAAUAUAUAUGUUAGUGUGGGUGUGCACACACAAUCGUGACUAUUUUACAAUU
.(((((......((((-------------((-((..--(.-----.......((((((((((..-....))))))))))..)..)))))))).........))))).............. ( -21.26)
>consensus
ACUUGACUGUUUCACAAAACA_ACAACCACCUCGUGCCCC_____CCUACCCAUAUAUAUAUAC_AGAAGCAUAUAUGUGGGUCUCGGUGGGGGCGCACAAUCGUGACUAUUU____AUU
.................................(((((((........((((((((((((...........)))))))))))).......)))))))....................... (-15.13 = -16.99 +   1.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:16 2006