Locus 4646

Sequence ID	2L_DroMel_CAF1
Location	13,304,724 – 13,304,823
Length	99
Max. P	0.996543

overview

Window 0

Location	13,304,724 – 13,304,823
Length	99
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	76.86
Mean single sequence MFE	-45.67
Consensus MFE	-26.45
Energy contribution	-26.82
Covariance contribution	0.36
Combinations/Pair	1.22
Mean z-score	-3.61
Structure conservation index	0.58
SVM decision value	2.71
SVM RNA-class probability	0.996543
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13304724 99 + 22407834
CUAAAA-ACUAACCACUGUGCUCAUGCC-----------------AAAUGGCGCUCCUCCUCGCAGAUGGCACUGCGCGUCGCCUCGCACUGGGCACAGUGCUUCUCCAGAAACUUC
......-......((((((((((((((.-----------------....((((......(.(((((......))))).).))))..))).)))))))))))................ ( -32.50)
>DroVir_CAF1 21155 112 + 1
CUUAA--ACUAACCACUGUGCGCGUGCGAAUCG--GCCGC-CGCCAGGUGGCGCUGCUCCUCGUUGACGGCUUGACGCGCGGCCUCGCAUUGCGCACAGUGCUUCUCCAGAAACUUC
.....--......((((((((((((((((...(--(((((-((((....)))((((.((......)))))).....).))))))))))).)))))))))))................ ( -50.50)
>DroPse_CAF1 22611 115 + 1
CUAAA--GCUAACCACUGUGCCCGCCCCCGCCCCCGCCAUCAGCGAGGUGGCGCUGCUCCUCGCUGAUGGCGUUGCGCGUCGCCUCGCACUGGGCACAGUGCUUCUCCAAAAACUUC
.....--......((((((((((......((...((((((((((((((.(((...)))))))))))))))))..))(((......)))...))))))))))................ ( -57.60)
>DroGri_CAF1 21033 112 + 1
CUUAA--ACUAACCACUGUGCGCGUGAGAUUCU--GCCGU-CGCCAGAUGGCGCUGCUCUUCGCUGACCGCGAGACGCGCCGCCUCACAUUGCGCACAGUGCUUCUCCAGAAACUUC
.....--......(((((((((((((((.....--(((((-(....))))))((.(((((.(((.....)))))).))))...)))))...))))))))))................ ( -44.80)
>DroMoj_CAF1 24168 112 + 1
CUUAA--ACUAACCACUGUGCGCAUGCGUUUCG--GCCGC-CGCCAGAUGGCGCUGCUCCUCGCUGACAGCCUGUCGUGCCGCCUCGCAUUGCGCACAGUGCUUCUCCAGAAACUUC
.....--......(((((((((((((((...((--((((.-((((....)))((((.((......))))))..).)).))))...)))).)))))))))))................ ( -46.20)
>DroAna_CAF1 18473 103 + 1
CUAAAACUCUAACCACUGGACUCAGGCGCG--------------GAGGUGGCGCUGCUCCUCGCUAAUGGCGCUGCGCGUCGCCUCGCACUGGGCACAGUGCUUCUCCAGAAACUUC
.............(((((..(((((..(((--------------.(((((((((.((....(((.....)))..)))))))))))))).)))))..)))))................ ( -42.40)
>consensus
CUAAA__ACUAACCACUGUGCGCAUGCGAGUC___GCCG__CGCCAGAUGGCGCUGCUCCUCGCUGACGGCGUGGCGCGCCGCCUCGCACUGCGCACAGUGCUUCUCCAGAAACUUC
.............((((((((((((((........((.....))..((.((((.(((.....((.....)).....))).))))))))).)))))))))))................ (-26.45 = -26.82 +   0.36)

alignment

secondary structure

dotplot

Window 1

Location	13,304,724 – 13,304,823
Length	99
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	76.86
Mean single sequence MFE	-47.33
Consensus MFE	-26.20
Energy contribution	-28.23
Covariance contribution	2.03
Combinations/Pair	1.23
Mean z-score	-2.23
Structure conservation index	0.55
SVM decision value	1.33
SVM RNA-class probability	0.942489
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13304724 99 - 22407834
GAAGUUUCUGGAGAAGCACUGUGCCCAGUGCGAGGCGACGCGCAGUGCCAUCUGCGAGGAGGAGCGCCAUUU-----------------GGCAUGAGCACAGUGGUUAGU-UUUUAG
.......((((((((.((((((((...((((.(((((.(.(((((......)))))....)...))))...)-----------------.))))..)))))))).)...)-)))))) ( -35.80)
>DroVir_CAF1 21155 112 - 1
GAAGUUUCUGGAGAAGCACUGUGCGCAAUGCGAGGCCGCGCGUCAAGCCGUCAACGAGGAGCAGCGCCACCUGGCG-GCGGC--CGAUUCGCACGCGCACAGUGGUUAGU--UUAAG
...(((((....)))))(((((((((..(((((((((((((.((....((....))..))))..((((....))))-)))))--)...))))).))))))))).......--..... ( -50.90)
>DroPse_CAF1 22611 115 - 1
GAAGUUUUUGGAGAAGCACUGUGCCCAGUGCGAGGCGACGCGCAACGCCAUCAGCGAGGAGCAGCGCCACCUCGCUGAUGGCGGGGGCGGGGGCGGGCACAGUGGUUAGC--UUUAG
.........((..((.((((((((((.(((((......)))))..((((((((((((((.((...))..))))))))))))))...((....)))))))))))).))..)--).... ( -62.20)
>DroGri_CAF1 21033 112 - 1
GAAGUUUCUGGAGAAGCACUGUGCGCAAUGUGAGGCGGCGCGUCUCGCGGUCAGCGAAGAGCAGCGCCAUCUGGCG-ACGGC--AGAAUCUCACGCGCACAGUGGUUAGU--UUAAG
...(((((....)))))(((((((((...((((((.(((((.((((((.....))).)))...))))).((((.(.-..).)--))).))))))))))))))).......--..... ( -48.90)
>DroMoj_CAF1 24168 112 - 1
GAAGUUUCUGGAGAAGCACUGUGCGCAAUGCGAGGCGGCACGACAGGCUGUCAGCGAGGAGCAGCGCCAUCUGGCG-GCGGC--CGAAACGCAUGCGCACAGUGGUUAGU--UUAAG
...(((((....)))))((((((((((.((((...((((.((.(..((((((......)).))))(((....))))-.))))--))...)))))))))))))).......--..... ( -50.20)
>DroAna_CAF1 18473 103 - 1
GAAGUUUCUGGAGAAGCACUGUGCCCAGUGCGAGGCGACGCGCAGCGCCAUUAGCGAGGAGCAGCGCCACCUC--------------CGCGCCUGAGUCCAGUGGUUAGAGUUUUAG
.(((.((((((.....(((((..(.((((((((((.(..((((.((.((........)).)).))))).))).--------------)))).))).)..))))).)))))).))).. ( -36.00)
>consensus
GAAGUUUCUGGAGAAGCACUGUGCCCAAUGCGAGGCGACGCGCAACGCCAUCAGCGAGGAGCAGCGCCACCUGGCG__CGGC___GAAGCGCACGCGCACAGUGGUUAGU__UUAAG
...(((((....)))))(((((((((.(((((.((((..((....(((.....)))....))..)))).....((.....)).......)))))))))))))).............. (-26.20 = -28.23 +   2.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:31 2006