Locus 917

Sequence ID	3L_DroMel_CAF1
Location	2,776,890 – 2,776,985
Length	95
Max. P	0.913616

overview

Window 1

Location	2,776,890 – 2,776,985
Length	95
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	76.57
Mean single sequence MFE	-40.08
Consensus MFE	-24.58
Energy contribution	-27.22
Covariance contribution	2.64
Combinations/Pair	1.21
Mean z-score	-1.87
Structure conservation index	0.61
SVM decision value	1.09
SVM RNA-class probability	0.913616
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2776890 95 + 23771897
AUUUUAUUUGGCUGC---------GGAGGACCAAGUAAGCCAGGCUCGGUCUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------((((((((..((..(((.((((.((.((.....(((.....)))..)).)).)))).))).)))))))))).)))))... ( -41.30)
>DroVir_CAF1 12827 91 + 1
AUUUUGUUUGGUUGUCCGCCCGGCGGUGGCGGCAAUAGACCCGGCUCCGUCUUGAUAUAUUGCCCGUGAUAGUCCUGACCGC-UG-------CCCGGCG-----
.........((....))(((.((((((((.(((((((((..((....))..))....)))))))((.(.....).)).))))-))-------)).))).----- ( -30.10)
>DroSec_CAF1 22205 95 + 1
AUUUUAUUUGGCUGU---------GGAGGACCAAGUAAGCCGGGCUCGGUCUUGAUGUACUGCGAAUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------((((((((..((..((((((((.((.((..................)).)).)))))))).)))))))))).)))))... ( -43.17)
>DroEre_CAF1 23830 95 + 1
AUUUUGUUGGGCUGC---------GGAGGACCCAGUAAACCGGGCUCGGUCUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------(((((((((.....((((((((.((.((.....(((.....)))..)).)).)))))))).).)))))))).)))))... ( -47.60)
>DroYak_CAF1 21468 95 + 1
AUUUUGUUCGGCUGC---------GGAGGACCAAGUAAACCGGGCUCCGUUUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------((((((((..((..((((((((.......(((.(((.....)))...)))..)))))))).)))))))))).)))))... ( -41.70)
>DroAna_CAF1 12850 87 + 1
AUUUUGUUGGGCUGC---------GGCGGCCCCAGCAGGCCCGGCUCGGUCUUGAUGUACUGACCGUGGUAUUCUUGGCCGGG-----AUGCACCGGCGGC---
...(((((((((((.---------..))).))))))))((((((.((((((.....).)))))))).))).......(((((.-----.....)))))...--- ( -36.60)
>consensus
AUUUUGUUUGGCUGC_________GGAGGACCAAGUAAACCGGGCUCGGUCUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((.........((((((((......((((((((.((.((.....(((.....)))..)).)).))))))))...)))))))).)))))... (-24.58 = -27.22 +   2.64)

alignment

secondary structure

dotplot

Window 2

Location	2,776,890 – 2,776,985
Length	95
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	76.57
Mean single sequence MFE	-32.52
Consensus MFE	-17.11
Energy contribution	-17.95
Covariance contribution	0.84
Combinations/Pair	1.29
Mean z-score	-1.89
Structure conservation index	0.53
SVM decision value	0.50
SVM RNA-class probability	0.761941
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2776890 95 - 23771897
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAGACCGAGCCUGGCUUACUUGGUCCUCC---------GCAGCCAAAUAAAAU
...((.((.(((((((((.....((((((((.......((((..((........))))))))))))))...)))))))))---------)).)).......... ( -35.01)
>DroVir_CAF1 12827 91 - 1
-----CGCCGGG-------CA-GCGGUCAGGACUAUCACGGGCAAUAUAUCAAGACGGAGCCGGGUCUAUUGCCGCCACCGCCGGGCGGACAACCAAACAAAAU
-----((((.((-------(.-(.(((..(........).(((((((.(((....((....))))).)))))))))).).))).))))................ ( -29.40)
>DroSec_CAF1 22205 95 - 1
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCAUUCGCAGUACAUCAAGACCGAGCCCGGCUUACUUGGUCCUCC---------ACAGCCAAAUAAAAU
...((.(..(((((((((...((((((..((.((..................)).))..))))))......)))))))))---------.).)).......... ( -31.37)
>DroEre_CAF1 23830 95 - 1
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAGACCGAGCCCGGUUUACUGGGUCCUCC---------GCAGCCCAACAAAAU
...((.((.((((((((...(((((((..((.((..................)).))..)))))))......))))))))---------)).)).......... ( -35.87)
>DroYak_CAF1 21468 95 - 1
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAAACGGAGCCCGGUUUACUUGGUCCUCC---------GCAGCCGAACAAAAU
...((.((.(((((((((..((((((((((........))....((........)).).))))))).....)))))))))---------)).)).......... ( -33.40)
>DroAna_CAF1 12850 87 - 1
---GCCGCCGGUGCAU-----CCCGGCCAAGAAUACCACGGUCAGUACAUCAAGACCGAGCCGGGCCUGCUGGGGCCGCC---------GCAGCCCAACAAAAU
---((.(((((.....-----.)))))...........(((((..........))))).)).((((.(((.((.....))---------)))))))........ ( -30.10)
>consensus
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAGACCGAGCCCGGCUUACUGGGUCCUCC_________GCAGCCAAACAAAAU
.........((((((((....((((((...(.....)............((......)))))))).......))))))))........................ (-17.11 = -17.95 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:23 2006