Locus 31

Sequence ID	Bsubt.0
Location	3,363,369 – 3,363,480
Length	111
Max. P	0.999441

overview

Window 6

Location	3,363,369 – 3,363,477
Length	108
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	58.14
Mean single sequence MFE	-29.76
Consensus MFE	-11.30
Energy contribution	-10.98
Covariance contribution	-0.32
Combinations/Pair	1.55
Mean z-score	-3.03
Structure conservation index	0.38
SVM decision value	2.11
SVM RNA-class probability	0.988132
Prediction	RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3363369 108 + 4214630/0-120
AAGAAAAGCCUUUCUGCACACUUGAGCAGAAAGGCUUAUAUAAAAU----GCCUUUCUCUCAUCUUUCAAAGCUGAACGCUUCGUGUGAAUUGGCACCAUUUC-AA-CA-GUG-----UU
..((((.(((......(((((.((((.((((((((...........----)))))))))))).......((((.....)))).)))))....)))....))))-..-..-...-----.. ( -30.70)
>Blich.0 3302282 113 + 4222334/0-120
GAAAAAAGCCUUUCUGCACACAUGAGCAGAAAGGCUUUGGAAAAGUCUGGGCCUUUCUCUCAUCUUUCAAAGCAUAACGCUUCGCGUGAAUUGGCACCAUUUC-AA-CACGUG-----UU
(((((((((((((((((........)))))))))))))(((((.((....)).)))))......)))).((((.....))))((((((((.((....)).)))-..-.)))))-----.. ( -35.40)
>Banth.0 4073923 106 + 5227293/0-120
AUAAAAACCCCCUCUUCAC-UUUGAAGAGGGGAACAU---AAUUGU-----UCCUCCUCUUAUUAUGCAAAACAUU-CGUUUUGCAGGUAUUAGCACCGUUUC-AAACAUUUCGU---UU
..........(((((((..-...)))))))((((((.---...)))-----)))...........((((((((...-.))))))))(((......))).....-...........---.. ( -29.90)
>Bhalo.0 3590655 113 + 4202352/0-120
CAAAAAAACCUUUCCGC---CAUGAGCAGAAAGGAAUGUUUUACGUCU--UCCCUUCUCUCAUCUCUCAAAGCAU--CGCUUUGCAGGAAUUAGCACCUUUUCCAAGCGAUUUGCUGCUU
...............((---.(((((.((((.((((((.....)))..--))).))))))))).......(((((--(((((....((((..........))))))))))..)))))).. ( -25.20)
>Bclau.0 2740129 106 - 4303871/0-120
UGAAAAACACCCGUUCCGGGAUUGGAAAGGGUGUUGUUUUCACGAAAU---GAAUCCCCUUAUCUGCCAAAGUU---CCCUUUGCUGGAUUUAGCACCUUUUC--AUCGCAA------UG
((((((((((((.(((((....))))).))))))..)))))).(..((---(((....((.((((..(((((..---..)))))..))))..))......)))--))..)..------.. ( -27.60)
>consensus
AAAAAAACCCUUUCUGCAC_CUUGAGCAGAAAGGCAUUUUAAAAGU_U___CCCUUCUCUCAUCUUUCAAAGCAU__CGCUUUGCAGGAAUUAGCACCAUUUC_AA_CACGUG_____UU
......................((((.((((((((...............))))))))))))((...((((((.....))))))...))............................... (-11.30 = -10.98 +  -0.32)

alignment

secondary structure

dotplot

Window 7

Location	3,363,369 – 3,363,477
Length	108
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	58.14
Mean single sequence MFE	-33.00
Consensus MFE	-14.80
Energy contribution	-13.48
Covariance contribution	-1.32
Combinations/Pair	1.67
Mean z-score	-2.73
Structure conservation index	0.45
SVM decision value	2.59
SVM RNA-class probability	0.995569
Prediction	RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3363369 108 + 4214630/0-120
AA-----CAC-UG-UU-GAAAUGGUGCCAAUUCACACGAAGCGUUCAGCUUUGAAAGAUGAGAGAAAGGC----AUUUUAUAUAAGCCUUUCUGCUCAAGUGUGCAGAAAGGCUUUUCUU
..-----...-..-..-(((..((((((..(((.((((((((.....)))))).....)).)))...)))----)))......((((((((((((.(....).))))))))))))))).. ( -33.70)
>Blich.0 3302282 113 + 4222334/0-120
AA-----CACGUG-UU-GAAAUGGUGCCAAUUCACGCGAAGCGUUAUGCUUUGAAAGAUGAGAGAAAGGCCCAGACUUUUCCAAAGCCUUUCUGCUCAUGUGUGCAGAAAGGCUUUUUUC
..-----....((-..-(((.(((.(((..(((((.((((((.....))))))...).)))).....))))))...)))..))((((((((((((.(....).))))))))))))..... ( -36.60)
>Banth.0 4073923 106 + 5227293/0-120
AA---ACGAAAUGUUU-GAAACGGUGCUAAUACCUGCAAAACG-AAUGUUUUGCAUAAUAAGAGGAGGA-----ACAAUU---AUGUUCCCCUCUUCAAA-GUGAAGAGGGGGUUUUUAU
((---((....(((((-.....((((....))))((((((((.-...))))))))............))-----)))...---.....(((((((((...-..))))))))))))).... ( -31.90)
>Bhalo.0 3590655 113 + 4202352/0-120
AAGCAGCAAAUCGCUUGGAAAAGGUGCUAAUUCCUGCAAAGCG--AUGCUUUGAGAGAUGAGAGAAGGGA--AGACGUAAAACAUUCCUUUCUGCUCAUG---GCGGAAAGGUUUUUUUG
((((.....(((((((.(...(((........))).).)))))--)).((((..(..(((((((((((((--(...........))))))))).))))).---.)..))))))))..... ( -32.90)
>Bclau.0 2740129 106 - 4303871/0-120
CA------UUGCGAU--GAAAAGGUGCUAAAUCCAGCAAAGGG---AACUUUGGCAGAUAAGGGGAUUC---AUUUCGUGAAAACAACACCCUUUCCAAUCCCGGAACGGGUGUUUUUCA
..------.....((--((((.(((.((..(((...(((((..---..)))))...)))...)).))).---.))))))(((((..((((((.((((......)))).))))))))))). ( -29.90)
>consensus
AA_____CAAGUG_UU_GAAAAGGUGCUAAUUCCCGCAAAGCG__AUGCUUUGAAAGAUGAGAGAAAGG___A_ACUUUAAAAAAGCCUUUCUGCUCAAG_GUGCAGAAAGGCUUUUUUU
....................................((((((.....)))))).................................(((((((((........)))))))))........ (-14.80 = -13.48 +  -1.32)

alignment

secondary structure

dotplot

Window 8

Location	3,363,369 – 3,363,480
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	72.39
Mean single sequence MFE	-37.40
Consensus MFE	-23.81
Energy contribution	-23.13
Covariance contribution	-0.68
Combinations/Pair	1.27
Mean z-score	-2.80
Structure conservation index	0.64
SVM decision value	3.61
SVM RNA-class probability	0.999441
Prediction	RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3363369 111 + 4214630/52-172
CUCUUAUCAAGAGAGGUGGAGGGAAGUGCCCUAUGAAGC-CCGGCAACCAUCAA-----CAC-UG-UU-GAAAUGGUGCCAAUUCACACGAAGCGUUCAGCUUUGAAAGAUGAGAGAAAG
((((((((..(((.(((..((((.....)))).....))-).((((.(((((((-----(..-.)-))-))..)))))))..)))...((((((.....))))))...)))))))).... ( -40.00)
>Blich.0 3302282 112 + 4222334/52-172
CUCUUAUCCAGAGAGGUGGAGGGAAGUGCCCUAUGAAAC-CCGGCAACCAUCAA-----CACGUG-UU-GAAAUGGUGCCAAUUCACGCGAAGCGUUAUGCUUUGAAAGAUGAGAGAAAG
((((((((..(((.(((..((((.....)))).....))-).((((.(((((((-----(....)-))-))..)))))))..)))...((((((.....))))))...)))))))).... ( -39.30)
>Banth.0 4073923 114 + 5227293/52-172
CUCUUAUUGAGAGCGGUGGAGGGAAAGGCCCUGUGAAAC-CCGGCAACCUUCAA---ACGAAAUGUUU-GAAACGGUGCUAAUACCUGCAAAACG-AAUGUUUUGCAUAAUAAGAGGAGG
(((((((((.....((((.((((.....)))).......-..((((.(((((((---((.....))))-)))..))))))..))))((((((((.-...))))))))))))))))).... ( -37.70)
>Bhalo.0 3590655 117 + 4202352/52-172
CUCUUAUCAUGAGAGGUGGAGGGACUGGCCCGAUGAAGC-CCAGCAACCGCCAAGCAGCAAAUCGCUUGGAAAAGGUGCUAAUUCCUGCAAAGCG--AUGCUUUGAGAGAUGAGAGAAGG
((((((((.........((((((.((..........)))-))((((.((.((((((........))))))....))))))...)))..((((((.--..))))))...)))))))).... ( -40.10)
>Bclau.0 2740129 109 - 4303871/52-172
CUCUUAUAACGAGAAGCGGAGGGACUGGCCCAAUGAAGCUUCAGCAACCAUUCA------UUGCGAU--GAAAAGGUGCUAAAUCCAGCAAAGGG---AACUUUGGCAGAUAAGGGGAUU
(((((((.....(((((...(((.....)))......)))))((((.((.((((------(....))--)))..))))))........(((((..---..)))))....))))))).... ( -29.90)
>consensus
CUCUUAUCAAGAGAGGUGGAGGGAAGGGCCCUAUGAAGC_CCGGCAACCAUCAA_____CAAGUG_UU_GAAAAGGUGCUAAUUCCCGCAAAGCG__AUGCUUUGAAAGAUGAGAGAAAG
((((((((.........((((((.....)))...........((((.((.........................))))))...)))..((((((.....))))))...)))))))).... (-23.81 = -23.13 +  -0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:17:46 2006