Locus 3

Sequence ID	Banth.0
Location	4,195,182 – 4,195,284
Length	102
Max. P	0.987387

overview

Window 7

Location	4,195,182 – 4,195,284
Length	102
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	59.47
Mean single sequence MFE	-26.59
Consensus MFE	-6.89
Energy contribution	-6.67
Covariance contribution	-0.22
Combinations/Pair	1.29
Mean z-score	-2.51
Structure conservation index	0.26
SVM decision value	0.65
SVM RNA-class probability	0.810908
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4195182 102 + 5227293/0-120
AAAAACUCCCGCCCC-UAUAAA-------------AGGGACGAGAGUUA---ACUCGCGAUACCACCCUAAUUAUGAAUUGAUUGCUAUACGAAUCAAUUCAUCACCUC-AUGGUGCCGU
...(((((.((.(((-(.....-------------)))).)).))))).---....(((.(((((........(((((((((((........)))))))))))......-.))))).))) ( -30.86)
>Bcere.0 4142216 102 + 5224283/0-120
AAAAACUCCCGCCCC-UAUAAA-------------AGGGACGAGAGUUA---ACUCGCGAUACCACCCUAAUUAUGAAUUGAUUACUAUAUGAAUCAAUUCAUCACCUC-AUGGUGCCGU
...(((((.((.(((-(.....-------------)))).)).))))).---....(((.(((((........(((((((((((........)))))))))))......-.))))).))) ( -30.76)
>Bsubt.0 2800084 105 + 4214630/0-120
AAAAGCCCUCCCCCUAUGCAAACCAACGUUUACACAGGGACGAGAGCUG---UCUCGCGGUACCACCCUGAUUACGGGC--AU-------UCAUGCG-CCCGUCACCUU--UAACCCUGU
...(((.(((.((((.((.((((....)))).)).))))..))).))).---..(((.((.....)).)))..((((((--..-------......)-)))))......--......... ( -28.10)
>Blich.0 2757871 114 + 4222334/0-120
AAAAGCCCCCGCCCCAUGCAAAC-AACGUUUACACAGGGACGAGAGCUCC--UCUCGCGGUACCACCCUGAUUAUGUGC--GUAACAAAACGAAACG-CCCAUCACCUUGAUAUCCGAAU
..........((.....))....-..((..(((((((((.((((((...)--))))).(....).)))))...(((.((--((...........)))-).))).....)).))..))... ( -21.90)
>Bhalo.0 2839289 88 - 4202352/0-120
AAAAAGCCCUCUCCCUUAUGAA--------------GGGACGAGAGCUGAAGUCACGCGGUACCACCCUAAUUAUGGA--------------CAUAGGUCCAUCACUUU--AAG--CCUU
....(((.((((((((.....)--------------)))).))).)))(((((.....((.....))......(((((--------------(....)))))).)))))--...--.... ( -23.90)
>Bclau.0 2586831 95 - 4303871/0-120
AAAAACUCCUCCCUAGAAAGAA--------------GGGACGAGAUGUCUGUUCACGCGGUACCACCCUCAUUAUGGCGCGAU---------UGUAGCGCCACCACUUU--CAUACCUUU
.....(((.(((((.......)--------------)))).)))..((((((....)))).))...........((((((...---------....)))))).......--......... ( -24.00)
>consensus
AAAAACCCCCCCCCC_UAUAAA_____________AGGGACGAGAGCUA___UCUCGCGGUACCACCCUAAUUAUGGAC__AU________GAAUCG_UCCAUCACCUU__UAGCCCCGU
....................................(((.(((((.......))))).(....).))).....(((((....................)))))................. ( -6.89 =  -6.67 +  -0.22)

alignment

secondary structure

dotplot

Window 8

Location	4,195,182 – 4,195,284
Length	102
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	59.47
Mean single sequence MFE	-39.40
Consensus MFE	-13.81
Energy contribution	-12.98
Covariance contribution	-0.83
Combinations/Pair	1.55
Mean z-score	-3.66
Structure conservation index	0.35
SVM decision value	2.08
SVM RNA-class probability	0.987387
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4195182 102 + 5227293/0-120
ACGGCACCAU-GAGGUGAUGAAUUGAUUCGUAUAGCAAUCAAUUCAUAAUUAGGGUGGUAUCGCGAGU---UAACUCUCGUCCCU-------------UUUAUA-GGGGCGGGAGUUUUU
.((..(((((-..(((.((((((((((((.....).))))))))))).)))...)))))..)).....---.(((((((((((((-------------.....)-))))))))))))... ( -40.90)
>Bcere.0 4142216 102 + 5224283/0-120
ACGGCACCAU-GAGGUGAUGAAUUGAUUCAUAUAGUAAUCAAUUCAUAAUUAGGGUGGUAUCGCGAGU---UAACUCUCGUCCCU-------------UUUAUA-GGGGCGGGAGUUUUU
.((..(((((-..(((.((((((((((((.....).))))))))))).)))...)))))..)).....---.(((((((((((((-------------.....)-))))))))))))... ( -40.20)
>Bsubt.0 2800084 105 + 4214630/0-120
ACAGGGUUA--AAGGUGACGGG-CGCAUGA-------AU--GCCCGUAAUCAGGGUGGUACCGCGAGA---CAGCUCUCGUCCCUGUGUAAACGUUGGUUUGCAUAGGGGGAGGGCUUUU
.....(((.--..(((.(((((-((.....-------.)--)))))).)))...(((....)))..))---)(((((((.(((((((((((((....))))))))))))))))))))... ( -47.80)
>Blich.0 2757871 114 + 4222334/0-120
AUUCGGAUAUCAAGGUGAUGGG-CGUUUCGUUUUGUUAC--GCACAUAAUCAGGGUGGUACCGCGAGA--GGAGCUCUCGUCCCUGUGUAAACGUU-GUUUGCAUGGGGCGGGGGCUUUU
...(((.(((((...((((.((-(((..(.....)..))--)).)...))))...))))))))....(--((((((((((((((.((((((((...-))))))))))))))))))))))) ( -46.60)
>Bhalo.0 2839289 88 - 4202352/0-120
AAGG--CUU--AAAGUGAUGGACCUAUG--------------UCCAUAAUUAGGGUGGUACCGCGUGACUUCAGCUCUCGUCCC--------------UUCAUAAGGGAGAGGGCUUUUU
....--(((--((....((((((....)--------------)))))..)))))(((....)))........(((((((.((((--------------(.....)))))))))))).... ( -29.90)
>Bclau.0 2586831 95 - 4303871/0-120
AAAGGUAUG--AAAGUGGUGGCGCUACA---------AUCGCGCCAUAAUGAGGGUGGUACCGCGUGAACAGACAUCUCGUCCC--------------UUCUUUCUAGGGAGGAGUUUUU
...(((((.--(..((.(((((((....---------...))))))).)).....).)))))..............(((.((((--------------(.......))))).)))..... ( -31.00)
>consensus
ACGGGACUA__AAGGUGAUGGA_CGAUUC________AU__AUCCAUAAUUAGGGUGGUACCGCGAGA___CAGCUCUCGUCCCU_____________UUUAUA_GGGGCGGGAGUUUUU
.............(((.(((((....................))))).)))...(((....)))........(((((((.((((.....................)))).)))))))... (-13.81 = -12.98 +  -0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:14:53 2006