Locus 2803

Sequence ID	2R_DroMel_CAF1
Location	9,760,599 – 9,760,692
Length	93
Max. P	0.946719

overview

Window 7

Location	9,760,599 – 9,760,692
Length	93
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	75.18
Mean single sequence MFE	-29.13
Consensus MFE	-20.50
Energy contribution	-20.17
Covariance contribution	-0.33
Combinations/Pair	1.30
Mean z-score	-1.20
Structure conservation index	0.70
SVM decision value	0.64
SVM RNA-class probability	0.807254
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9760599 93 + 20766785
--GCUUGUUAUUUUUACUCGACAGGCGAAGUUCGCACGCUCGGCACGCUUUGCUUCGAACUGCACUCGGCAAUUGCCGAACAGACUCGUCGUGUA
--............(((.(((((((((((((..((.(....)))..)))))))))....(((...(((((....))))).)))....)))).))) ( -29.10)
>DroPse_CAF1 7046 94 + 1
UAUCCUAUUAUGUG-UAUCCACAGGUGAGGUACGCACGCUCGGCACGCUUUGUUUCGAGCUGCACUCGGCCAUUGCCGAGCAAACACGUCGCGUG
..........((((-....)))).((((.((..(((.((((((.((.....)).))))))))).((((((....)))))).....)).))))... ( -32.80)
>DroSec_CAF1 4263 85 + 1
---C-UGUUAUCUU-A-----CAGGCGAAGUUCGCACGCUCGGCACGCUUUGCUUCGAGCUGCACUCGGCAAUUGCCGAACAGACUCGUCGUGUA
---.-........(-(-----(((((((.(((.(((.((((((((.....)))..))))))))..(((((....)))))...)))))))).)))) ( -31.00)
>DroMoj_CAF1 5624 82 + 1
-------UUAUUGU------UUAGGUGAAGUGCGUAUGCUGGGCACCCUUUGCUUUGAGCUGCAUUCAGCAAUUGCUGAACACACGCGACGCGUA
-------.......------.((.(((..(((.(((.((((((((.....)))))..)))))).((((((....))))))....)))..))).)) ( -21.90)
>DroAna_CAF1 7627 87 + 1
---UUUGGCCUUU-----CCCCAGGUGAGGUUCGUACGCUCGGCACUCUCUGCUUCGAACUGCACUCGGCUAUUGCCGAACAGACCCGGCGUGUG
---...((((((.-----((...)).))))))..(((((.(((...(((.(((........))).(((((....)))))..))).)))))))).. ( -27.20)
>DroPer_CAF1 7121 94 + 1
UAUCCUAUUAUGUG-UAUCCACAGGUGAGGUACGCACGCUCGGCACGCUUUGUUUCGAGCUGCACUCGGCCAUUGCCGAGCAAACACGUCGCGUG
..........((((-....)))).((((.((..(((.((((((.((.....)).))))))))).((((((....)))))).....)).))))... ( -32.80)
>consensus
___C_UGUUAUUUU____CCACAGGUGAAGUUCGCACGCUCGGCACGCUUUGCUUCGAGCUGCACUCGGCAAUUGCCGAACAGACACGUCGCGUA
.....................((.((((.(...(((.((((((((.....)))..))))))))..(((((....))))).......).)))).)) (-20.50 = -20.17 +  -0.33)

alignment

secondary structure

dotplot

Window 8

Location	9,760,599 – 9,760,692
Length	93
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	75.18
Mean single sequence MFE	-30.95
Consensus MFE	-19.07
Energy contribution	-18.38
Covariance contribution	-0.69
Combinations/Pair	1.36
Mean z-score	-1.90
Structure conservation index	0.62
SVM decision value	1.37
SVM RNA-class probability	0.946719
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9760599 93 - 20766785
UACACGACGAGUCUGUUCGGCAAUUGCCGAGUGCAGUUCGAAGCAAAGCGUGCCGAGCGUGCGAACUUCGCCUGUCGAGUAAAAAUAACAAGC--
(((.(((((((.(((((((((....)))))..)))))))((((....((((((...))))))...))))....)))).)))............-- ( -30.20)
>DroPse_CAF1 7046 94 - 1
CACGCGACGUGUUUGCUCGGCAAUGGCCGAGUGCAGCUCGAAACAAAGCGUGCCGAGCGUGCGUACCUCACCUGUGGAUA-CACAUAAUAGGAUA
.((((.((.(((..(((((((....))))))))))(((((..((.....))..))))))))))).(((....((((....-))))....)))... ( -35.60)
>DroSec_CAF1 4263 85 - 1
UACACGACGAGUCUGUUCGGCAAUUGCCGAGUGCAGCUCGAAGCAAAGCGUGCCGAGCGUGCGAACUUCGCCUG-----U-AAGAUAACA-G---
((((.(.((((....((((((....))))))(((((((((..((.....))..))))).))))...))))).))-----)-)........-.--- ( -27.60)
>DroMoj_CAF1 5624 82 - 1
UACGCGUCGCGUGUGUUCAGCAAUUGCUGAAUGCAGCUCAAAGCAAAGGGUGCCCAGCAUACGCACUUCACCUAA------ACAAUAA-------
...((...((.((((((((((....)))))))))))).....))...(((((....((....))....)))))..------.......------- ( -24.90)
>DroAna_CAF1 7627 87 - 1
CACACGCCGGGUCUGUUCGGCAAUAGCCGAGUGCAGUUCGAAGCAGAGAGUGCCGAGCGUACGAACCUCACCUGGGG-----AAAGGCCAAA---
....(.((((((..(((((((....)))..((((.(((((..((.....))..)))))))))))))...)))))).)-----..........--- ( -31.80)
>DroPer_CAF1 7121 94 - 1
CACGCGACGUGUUUGCUCGGCAAUGGCCGAGUGCAGCUCGAAACAAAGCGUGCCGAGCGUGCGUACCUCACCUGUGGAUA-CACAUAAUAGGAUA
.((((.((.(((..(((((((....))))))))))(((((..((.....))..))))))))))).(((....((((....-))))....)))... ( -35.60)
>consensus
CACACGACGAGUCUGUUCGGCAAUUGCCGAGUGCAGCUCGAAGCAAAGCGUGCCGAGCGUGCGAACCUCACCUGUGG____AAAAUAACA_G___
......(((.((..(((((((....)))))))((((((((..((.....))..))))).))).......)).))).................... (-19.07 = -18.38 +  -0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:51 2006