Locus 7

Sequence ID Bsubt.0
Location 3,128,197 – 3,128,305
Length 108
Max. P 0.993502
window17 window18

overview

Window 7

Location 3,128,197 – 3,128,305
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 53.96
Mean single sequence MFE -29.12
Consensus MFE -12.78
Energy contribution -11.65
Covariance contribution -1.13
Combinations/Pair 1.55
Mean z-score -2.96
Structure conservation index 0.44
SVM decision value 2.40
SVM RNA-class probability 0.993502
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3128197 108 + 4214630/0-120
AAAACCUUUUCC------AUCGAGGAAAGGGUUUGGUCU--U-UGUGCCUUUCAC-UCUUAUCGCUCAAGGA-AUCAUACAA-CCUUGCAACAGGUUAGCACCUUGGUUGUCUCACUCAG
.(((((((((((------.....)))))))))))(((((--(-((.((..(....-....)..)).))))).-)))..((((-((.(((.........)))....))))))......... ( -28.40)
>Blich.0 3080386 112 + 4222334/0-120
AAAACCUUUUCCUAUUC-GGUGAGGAAAGGGUCUGGUAU--UGCGUGCCUUUCAC-UCUUAUCGCUCAAGGU-AUUGAACA--CCUUGCAUCAGGUUAGCACCGUAGUUGUCUCAGA-AA
....(((((((((....-....)))))))))(((((.((--(((((((..((((.-...((((......)))-).)))).(--(((......))))..))).))))))....)))))-.. ( -29.30)
>Bhalo.0 3427305 93 + 4202352/0-120
AAAACCCUUUUCCAUU---AUGAGGAAAAGGGUUAAU-U--AACAUACCUUUCGCCUCUUAUCUUUCAAGGC-AACG------CCUUGC---AGGUUAGCACCUU------UUCA-----
..(((((((((((...---....)))))))))))...-.--............((.....((((..((((((-...)------))))).---))))..)).....------....----- ( -26.10)
>Bclau.0 3008296 86 + 4303871/0-120
AAGCCCUUUUCC-------AUGAGGAAAAGGGCUGUC----CAUUUACCUUUCGCCUCUUAUCUUCCAGAAC-GCCGAGCA--UUCUGC---AGGUUAGCACC-----------------
.(((((((((((-------....)))))))))))...----............((.....((((..(((((.-((...)).--))))).---))))..))...----------------- ( -27.10)
>Banth.0 4553493 112 + 5227293/0-120
AAAACCUUUCCUACUUUAUAUAGAGGAAAGGUUUAAUUUGCUACUUGCAUACUGCUUUUUGCCCUUCGCUCUUAUCGUUCGAGACCUGU---AGCCUCGCACAG-----GUUUUAGCACC
.(((((((((((.((......)))))))))))))....((((....((.....((.....)).....))...........(((((((((---.((...))))))-----))))))))).. ( -32.70)
>Bcere.0 4541111 112 + 5224283/0-120
AAAACCUUUCCUACAUAAUAGAGAGGAAAGGUUUAAUUUGCUACUUGCAUACUGCUUUUUGCCCUUCGCUCUUAUCGUUCGAGACCUGU---AGCCUCGCACAG-----GUUUUAGCACC
.(((((((((((.(........))))))))))))....((((....((.....((.....)).....))...........(((((((((---.((...))))))-----))))))))).. ( -31.10)
>consensus
AAAACCUUUUCC__UU___AUGAGGAAAAGGUUUAAU_U__UACUUGCCUUUCGC_UCUUAUCCUUCAAGGU_AUCGUACA__CCCUGC___AGGUUAGCACCG_____GUUUCAG____
.(((((((((((...........)))))))))))...................................................................................... (-12.78 = -11.65 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,128,197 – 3,128,305
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 53.96
Mean single sequence MFE -30.42
Consensus MFE -13.22
Energy contribution -10.92
Covariance contribution -2.30
Combinations/Pair 1.65
Mean z-score -2.32
Structure conservation index 0.43
SVM decision value 2.17
SVM RNA-class probability 0.989539
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3128197 108 + 4214630/0-120
CUGAGUGAGACAACCAAGGUGCUAACCUGUUGCAAGG-UUGUAUGAU-UCCUUGAGCGAUAAGA-GUGAAAGGCACA-A--AGACCAAACCCUUUCCUCGAU------GGAAAAGGUUUU
((..(((..((((((.((((....)))).......))-)))).....-.((((..((.......-))..))))))).-.--))...(((((.(((((.....------))))).))))). ( -27.90)
>Blich.0 3080386 112 + 4222334/0-120
UU-UCUGAGACAACUACGGUGCUAACCUGAUGCAAGG--UGUUCAAU-ACCUUGAGCGAUAAGA-GUGAAAGGCACGCA--AUACCAGACCCUUUCCUCACC-GAAUAGGAAAAGGUUUU
..-...............(((((.((((......)))--)((((((.-...)))))).......-......)))))...--.....(((((.((((((....-....)))))).))))). ( -26.60)
>Bhalo.0 3427305 93 + 4202352/0-120
-----UGAA------AAGGUGCUAACCU---GCAAGG------CGUU-GCCUUGAAAGAUAAGAGGCGAAAGGUAUGUU--A-AUUAACCCUUUUCCUCAU---AAUGGAAAAGGGUUUU
-----....------((.(((((..((.---....))------..((-(((((.........)))))))..))))).))--.-...(((((((((((....---...))))))))))).. ( -28.80)
>Bclau.0 3008296 86 + 4303871/0-120
-----------------GGUGCUAACCU---GCAGAA--UGCUCGGC-GUUCUGGAAGAUAAGAGGCGAAAGGUAAAUG----GACAGCCCUUUUCCUCAU-------GGAAAAGGGCUU
-----------------(((....))).---.(((((--(((...))-))))))............(....).......----...(((((((((((....-------))))))))))). ( -32.00)
>Banth.0 4553493 112 + 5227293/0-120
GGUGCUAAAAC-----CUGUGCGAGGCU---ACAGGUCUCGAACGAUAAGAGCGAAGGGCAAAAAGCAGUAUGCAAGUAGCAAAUUAAACCUUUCCUCUAUAUAAAGUAGGAAAGGUUUU
..(((((....-----.(((.((((((.---....)))))).)))......(((....((.....))....)))...)))))....(((((((((((((......)).))))))))))). ( -34.00)
>Bcere.0 4541111 112 + 5224283/0-120
GGUGCUAAAAC-----CUGUGCGAGGCU---ACAGGUCUCGAACGAUAAGAGCGAAGGGCAAAAAGCAGUAUGCAAGUAGCAAAUUAAACCUUUCCUCUCUAUUAUGUAGGAAAGGUUUU
..(((((....-----.(((.((((((.---....)))))).)))......(((....((.....))....)))...)))))....((((((((((((........).))))))))))). ( -33.20)
>consensus
____CUGAAAC_____CGGUGCUAACCU___GCAAGG__UGAACGAU_ACCUUGAAAGAUAAGA_GCGAAAGGCAAGUA__A_AUCAAACCUUUUCCUCAU___AA__GGAAAAGGUUUU
...................((((..(((......)))......((.......)).................))))...........(((((((((((...........))))))))))). (-13.22 = -10.92 +  -2.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:15:04 2006