Locus 8082

Sequence ID	X_DroMel_CAF1
Location	20,119,489 – 20,119,640
Length	151
Max. P	0.837180

overview

Window 6

Location	20,119,489 – 20,119,607
Length	118
Sequences	3
Columns	118
Reading direction	forward
Mean pairwise identity	80.51
Mean single sequence MFE	-45.44
Consensus MFE	-36.49
Energy contribution	-37.43
Covariance contribution	0.95
Combinations/Pair	1.06
Mean z-score	-1.28
Structure conservation index	0.80
SVM decision value	0.01
SVM RNA-class probability	0.540913
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20119489 118 + 22224390
AGCGCCAAAGAGCAAAGUGCGCCUACAACAUGGCCAUCCCACCAAGUAGGAAUCCAAUGGGGCGGUGGUCUGCAGCCCACGGGCCGUGUGCCAUGGGCCCAACUGGGCGUGGCAGCAG
.((((((....((..(((..(((((..((((((((.(((.((...)).)))......((((((((....))))..))))..))))))))....)))))...)))..)).)))).)).. ( -48.10)
>DroSec_CAF1 21336 118 + 1
AGCGCCAAAGAGCAAAGUGCGCGUACAACAUGUCCAACCCACCAAGUAGGCAUCCAGUGGGGCGGUGGCCUGCAGCCCACGGGCCGUGUGCCAUGGGCCCAACUGGGCGUGGCAGCAG
.((((((....((.......((.(((...................))).))..((((((((.(.(((((.(((.(((....))).))).))))).).))).))))))).)))).)).. ( -49.61)
>DroYak_CAF1 260 94 + 1
AGCGCCAAAGAGCAAAGUGCGCCUACAACAUGC----UCCACCAAGCAGGAAUCCAGUGGGGGGGCGG--------------------UGCCGUGGGCCCAACUGGGCGUGGCAGCAG
.((((((....((..(((..((((((.((.(((----(((.(((....((...))..))).)))))))--------------------)...))))))...)))..)).)))).)).. ( -38.60)
>consensus
AGCGCCAAAGAGCAAAGUGCGCCUACAACAUGCCCA_CCCACCAAGUAGGAAUCCAGUGGGGCGGUGG_CUGCAGCCCACGGGCCGUGUGCCAUGGGCCCAACUGGGCGUGGCAGCAG
.((((((....((.....))((...................((.....))...((((((((.(.(((((.(((.(((....))).))).))))).).))).))))))).)))).)).. (-36.49 = -37.43 +   0.95)

alignment

secondary structure

dotplot

Window 7

Location	20,119,529 – 20,119,640
Length	111
Sequences	3
Columns	113
Reading direction	forward
Mean pairwise identity	82.49
Mean single sequence MFE	-42.90
Consensus MFE	-38.29
Energy contribution	-39.23
Covariance contribution	0.95
Combinations/Pair	1.06
Mean z-score	-1.42
Structure conservation index	0.89
SVM decision value	0.74
SVM RNA-class probability	0.837180
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20119529 111 + 22224390
ACCAAGUAGGAAUCCAAUGGGGCGGUGGUCUGCAGCCCACGGGCCGUGUGCCAUGGGCCCAACUGGGCGUGGCAGCAGGACAAAAA--GGGAACGUGUUAAGCCGGCCACAUU
.((.....))..((((.((((.(.(((((..((.(((....))).))..))))).).))))..)))).(((((.((..((((....--(....).))))..))..)))))... ( -45.50)
>DroSec_CAF1 21376 111 + 1
ACCAAGUAGGCAUCCAGUGGGGCGGUGGCCUGCAGCCCACGGGCCGUGUGCCAUGGGCCCAACUGGGCGUGGCAGCAGGACAAAAA--GGGAACGUGUUAAGCCGGCCACAUU
.........((..((((((((.(.(((((.(((.(((....))).))).))))).).))).)))))))(((((.((..((((....--(....).))))..))..)))))... ( -50.80)
>DroYak_CAF1 296 93 + 1
ACCAAGCAGGAAUCCAGUGGGGGGGCGG--------------------UGCCGUGGGCCCAACUGGGCGUGGCAGCAGGACAAGAACGGGGAACGUGUUAAGCCGGCCACAUU
.((.....))..((((((.(((..(((.--------------------...)))...))).)))))).(((((....((......(((.....)))......)).)))))... ( -32.40)
>consensus
ACCAAGUAGGAAUCCAGUGGGGCGGUGG_CUGCAGCCCACGGGCCGUGUGCCAUGGGCCCAACUGGGCGUGGCAGCAGGACAAAAA__GGGAACGUGUUAAGCCGGCCACAUU
.((.....))..(((((((((.(.(((((.(((.(((....))).))).))))).).))).)))))).(((((.((..((((......(....).))))..))..)))))... (-38.29 = -39.23 +   0.95)

alignment

secondary structure

dotplot

Window 8

Location	20,119,529 – 20,119,640
Length	111
Sequences	3
Columns	113
Reading direction	reverse
Mean pairwise identity	82.49
Mean single sequence MFE	-36.50
Consensus MFE	-33.07
Energy contribution	-32.93
Covariance contribution	-0.13
Combinations/Pair	1.10
Mean z-score	-0.79
Structure conservation index	0.91
SVM decision value	0.15
SVM RNA-class probability	0.605588
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20119529 111 - 22224390
AAUGUGGCCGGCUUAACACGUUCCC--UUUUUGUCCUGCUGCCACGCCCAGUUGGGCCCAUGGCACACGGCCCGUGGGCUGCAGACCACCGCCCCAUUGGAUUCCUACUUGGU
...(((((.(((...(((.......--....)))...))))))))..(((((.((((...(((....(((((....)))))....)))..)))).)))))...((.....)). ( -37.40)
>DroSec_CAF1 21376 111 - 1
AAUGUGGCCGGCUUAACACGUUCCC--UUUUUGUCCUGCUGCCACGCCCAGUUGGGCCCAUGGCACACGGCCCGUGGGCUGCAGGCCACCGCCCCACUGGAUGCCUACUUGGU
...(((((.(((...(((.......--....)))...))))))))..(((((.((((...((((...(((((....)))))...))))..)))).)))))..(((.....))) ( -46.00)
>DroYak_CAF1 296 93 - 1
AAUGUGGCCGGCUUAACACGUUCCCCGUUCUUGUCCUGCUGCCACGCCCAGUUGGGCCCACGGCA--------------------CCGCCCCCCCACUGGAUUCCUGCUUGGU
...(((((.(((...(((.(.........).)))...))))))))..(((((.(((....((...--------------------.))...))).)))))...((.....)). ( -26.10)
>consensus
AAUGUGGCCGGCUUAACACGUUCCC__UUUUUGUCCUGCUGCCACGCCCAGUUGGGCCCAUGGCACACGGCCCGUGGGCUGCAG_CCACCGCCCCACUGGAUUCCUACUUGGU
...(((((.(((...(((.(.........).)))...))))))))..(((((.((((...(((....(((((....)))))....)))..)))).)))))...((.....)). (-33.07 = -32.93 +  -0.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:02 2006