Locus 6997

Sequence ID	X_DroMel_CAF1
Location	17,516,107 – 17,516,223
Length	116
Max. P	0.881910

overview

Window 9

Location	17,516,107 – 17,516,223
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	91.16
Mean single sequence MFE	-31.92
Consensus MFE	-24.52
Energy contribution	-24.68
Covariance contribution	0.16
Combinations/Pair	1.03
Mean z-score	-1.62
Structure conservation index	0.77
SVM decision value	0.21
SVM RNA-class probability	0.634392
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17516107 116 + 22224390
UGUUCAAAAAUGCCUGUUUGGGAUGCGGUUGAGCGGACAGCUCUGAUGCCUUGUAAGUGUCCGUAUAACGACCACAACAAGAGCCCCCAACACAUCUUCAAUGGCAUUACCUUUUU
........((((((.(((..(((((.(...((((.....))))....(((((((..(((..((.....))..))).))))).))......).)))))..)))))))))........ ( -32.00)
>DroSec_CAF1 7016 115 + 1
UUUUCAAAAAUGCCUCUUUGGGAUGCGGUUGAGCGGACAGCUCUGAUGCCUUGUAAGUGUCCGUAUAACGACCACAACAAGAGCC-CCAACACAUCUUCAAUGGCAUUACCUUUUU
........((((((...((((((((.(...((((.....))))((..(((((((..(((..((.....))..))).))))).)).-.)).).)))).)))).))))))........ ( -32.40)
>DroSim_CAF1 5332 114 + 1
UUUUCAAAAAUGCCUCUUUGGGAUGCGGUUGAGCGGACAGCUCUGAUGCCUUGUAAGUGUCCGUAUAACGACCACAACAAGAGCC-CCAACACAUCUUCAAUGGCAUUACCUU-UU
........((((((...((((((((.(...((((.....))))((..(((((((..(((..((.....))..))).))))).)).-.)).).)))).)))).)))))).....-.. ( -32.40)
>DroEre_CAF1 5019 115 + 1
AGUCGAAGUAAGCUUGUUUGGGAUGUGGUGGAGCGGACAUCUCUGAUGCCUUGUAAGUGUCCGUAUAACGACCACAACAAGAGCC-CCAACACAUCUUCAAUGGCAUUACCUUUUU
.......(((((((...((((((((((.(((.((((.((((...))))))((((..(((..((.....))..))).))))..)).-))).)))))).)))).))).))))...... ( -33.60)
>DroYak_CAF1 5306 114 + 1
UGUUUAA-UAAGGUUUUCAGGGAUGUGGUCGAGCGGACAACUCUGAUGCCUUGUAAGUGUCCGCAUAACGACCACAACAAGAGCC-CCAACACAUCUUCAAUGGCAUUACCUCUUU
((((...-.(((((.....(((.((((((((.(((((((.((...((.....)).)))))))))....)))))))).......))-)......)))))....)))).......... ( -29.20)
>consensus
UGUUCAAAAAUGCCUCUUUGGGAUGCGGUUGAGCGGACAGCUCUGAUGCCUUGUAAGUGUCCGUAUAACGACCACAACAAGAGCC_CCAACACAUCUUCAAUGGCAUUACCUUUUU
...................(((((((.((((((((((....))))..(((((((..(((..((.....))..))).))))).))............)))))).))))).))..... (-24.52 = -24.68 +   0.16)

alignment

secondary structure

dotplot

Window 0

Location	17,516,107 – 17,516,223
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	91.16
Mean single sequence MFE	-36.82
Consensus MFE	-27.40
Energy contribution	-27.24
Covariance contribution	-0.16
Combinations/Pair	1.08
Mean z-score	-2.36
Structure conservation index	0.74
SVM decision value	0.92
SVM RNA-class probability	0.881910
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17516107 116 - 22224390
AAAAAGGUAAUGCCAUUGAAGAUGUGUUGGGGGCUCUUGUUGUGGUCGUUAUACGGACACUUACAAGGCAUCAGAGCUGUCCGCUCAACCGCAUCCCAAACAGGCAUUUUUGAACA
.....((.....)).(..(((((((.((((((((.(((((.(((..((.....))..)))..)))))))....((((.....)))).......))))))....)))))))..)... ( -37.30)
>DroSec_CAF1 7016 115 - 1
AAAAAGGUAAUGCCAUUGAAGAUGUGUUGG-GGCUCUUGUUGUGGUCGUUAUACGGACACUUACAAGGCAUCAGAGCUGUCCGCUCAACCGCAUCCCAAAGAGGCAUUUUUGAAAA
.....((.....)).(..(((((((.((((-(((.(((((.(((..((.....))..)))..)))))))....((((.....))))........)))))....)))))))..)... ( -36.60)
>DroSim_CAF1 5332 114 - 1
AA-AAGGUAAUGCCAUUGAAGAUGUGUUGG-GGCUCUUGUUGUGGUCGUUAUACGGACACUUACAAGGCAUCAGAGCUGUCCGCUCAACCGCAUCCCAAAGAGGCAUUUUUGAAAA
..-..((.....)).(..(((((((.((((-(((.(((((.(((..((.....))..)))..)))))))....((((.....))))........)))))....)))))))..)... ( -36.60)
>DroEre_CAF1 5019 115 - 1
AAAAAGGUAAUGCCAUUGAAGAUGUGUUGG-GGCUCUUGUUGUGGUCGUUAUACGGACACUUACAAGGCAUCAGAGAUGUCCGCUCCACCACAUCCCAAACAAGCUUACUUCGACU
....((((((.((..(((..((((((.(((-(((.(((((.(((..((.....))..)))..)))))(((((...)))))..)))))).)))))).)))....))))))))..... ( -37.40)
>DroYak_CAF1 5306 114 - 1
AAAGAGGUAAUGCCAUUGAAGAUGUGUUGG-GGCUCUUGUUGUGGUCGUUAUGCGGACACUUACAAGGCAUCAGAGUUGUCCGCUCGACCACAUCCCUGAAAACCUUA-UUAAACA
...(((((.....(((.......)))(..(-((.......((((((((....((((((((((...........))).))))))).)))))))).)))..)..))))).-....... ( -36.20)
>consensus
AAAAAGGUAAUGCCAUUGAAGAUGUGUUGG_GGCUCUUGUUGUGGUCGUUAUACGGACACUUACAAGGCAUCAGAGCUGUCCGCUCAACCGCAUCCCAAACAGGCAUUUUUGAACA
.....((.....))......((((((......((.(((((.(((..((.....))..)))..)))))))....((((.....))))...))))))..................... (-27.40 = -27.24 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:39 2006