Locus 9893

Sequence ID 3R_DroMel_CAF1
Location 26,414,968 – 26,415,059
Length 91
Max. P 0.775053
window15780 window15781

overview

Window 0

Location 26,414,968 – 26,415,059
Length 91
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.06
Mean single sequence MFE -25.88
Consensus MFE -18.53
Energy contribution -20.03
Covariance contribution 1.50
Combinations/Pair 1.21
Mean z-score -1.99
Structure conservation index 0.72
SVM decision value 0.54
SVM RNA-class probability 0.775053
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26414968 91 + 27905053
UUGAUGAAAAUCAAAUAUCUUGGACGU---------GAAGGUCGAAGAUUGAAUGCCCUUCUCCUGGGAUUUCCCCAGGGGAAACCCUCUUUACCUUCUC
(((((....))))).............---------((((((.(((((..(......)((((((((((.....))))))))))....))))))))))).. ( -30.30)
>DroSec_CAF1 7211 91 + 1
UUGAUGAAAAUCAAAUAUCUUGGACGU---------GAAGGUCGAAGAUUGAAUGCCCUUCUCCUGGGAUUUCCACGCGGAAAACCUUCUUUACCUUCUC
(((((....))))).............---------((((((.(((((..(....(((.......))).(((((....))))).)..))))))))))).. ( -24.10)
>DroSim_CAF1 7065 91 + 1
UUGAUAAAAAUCAAAUAUCUUGGACGU---------GAAGGUCGAAGAUUGAAUGCCCUUCUCCUGGGAUUUCCACGGGGAAAACCUUCUUUACCUUCUC
(((((....))))).............---------((((((.(((((..(....(((.......))).(((((....))))).)..))))))))))).. ( -21.60)
>DroEre_CAF1 9963 91 + 1
UUGAUGAAAAUCAAGUGUCUUUGCCAC---------GAAGGCCGAAGAUGGAAUGCCCUUCUACUGGGGUUUCCACGGGGAAAACCUUCUUUACCUUCUC
(((((....)))))(((.......)))---------(((((..((((((((((.(((((......)))))))))).(((.....)))))))).))))).. ( -30.00)
>DroYak_CAF1 7290 91 + 1
UUGAUGAAAAUCAAAUAUCGUGGGUAU---------GAAGGCCGAAGGUUGAAUGCCCUUCUCCUGGGAUUUCCACGGGGAAAACCUUCUUCACCUUCUC
(((((....))))).....(.((((..---------(((((..(((((........)))))(((((((....)).)))))....)))))...)))).).. ( -28.40)
>DroAna_CAF1 7507 100 + 1
CUAAUGAAAAUCAGACAACUUUUACAGGGAUUAGAUCGAGGUCGAAGAUUGCUUGCCCUUCUCCGGGUAGUUCCAUAGGGAAAAGCAUCUCCACCUUCUC
.....................................(((((.((.(((.((((((((......))))..((((....))))))))))))).)))))... ( -20.90)
>consensus
UUGAUGAAAAUCAAAUAUCUUGGACAU_________GAAGGUCGAAGAUUGAAUGCCCUUCUCCUGGGAUUUCCACGGGGAAAACCUUCUUUACCUUCUC
(((((....)))))......................((((((.(((((.......(((.......))).(((((....)))))....))))))))))).. (-18.53 = -20.03 +   1.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 26,414,968 – 26,415,059
Length 91
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 82.06
Mean single sequence MFE -25.04
Consensus MFE -17.07
Energy contribution -17.38
Covariance contribution 0.31
Combinations/Pair 1.20
Mean z-score -1.39
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26414968 91 - 27905053
GAGAAGGUAAAGAGGGUUUCCCCUGGGGAAAUCCCAGGAGAAGGGCAUUCAAUCUUCGACCUUC---------ACGUCCAAGAUAUUUGAUUUUCAUCAA
..((((((...(((((((...((((((.....)))))).(((.....)))))))))).))))))---------.............(((((....))))) ( -28.30)
>DroSec_CAF1 7211 91 - 1
GAGAAGGUAAAGAAGGUUUUCCGCGUGGAAAUCCCAGGAGAAGGGCAUUCAAUCUUCGACCUUC---------ACGUCCAAGAUAUUUGAUUUUCAUCAA
..((((((...(((((((.(((..(.((....))).)))(((.....)))))))))).))))))---------.............(((((....))))) ( -22.40)
>DroSim_CAF1 7065 91 - 1
GAGAAGGUAAAGAAGGUUUUCCCCGUGGAAAUCCCAGGAGAAGGGCAUUCAAUCUUCGACCUUC---------ACGUCCAAGAUAUUUGAUUUUUAUCAA
..((((((...(((((((..((((.(((.....))).)....))).....))))))).))))))---------........((((.........)))).. ( -23.10)
>DroEre_CAF1 9963 91 - 1
GAGAAGGUAAAGAAGGUUUUCCCCGUGGAAACCCCAGUAGAAGGGCAUUCCAUCUUCGGCCUUC---------GUGGCAAAGACACUUGAUUUUCAUCAA
((((((((...(((((((......((((((..(((.......)))..))))))....)))))))---------(((.......)))...)))))).)).. ( -25.00)
>DroYak_CAF1 7290 91 - 1
GAGAAGGUGAAGAAGGUUUUCCCCGUGGAAAUCCCAGGAGAAGGGCAUUCAACCUUCGGCCUUC---------AUACCCACGAUAUUUGAUUUUCAUCAA
.....((((((((.((....)).(((((.......(((.(((((........)))))..)))..---------....)))))........)))))))).. ( -26.22)
>DroAna_CAF1 7507 100 - 1
GAGAAGGUGGAGAUGCUUUUCCCUAUGGAACUACCCGGAGAAGGGCAAGCAAUCUUCGACCUCGAUCUAAUCCCUGUAAAAGUUGUCUGAUUUUCAUUAG
((((((((((((((((((..((((.(((......)))....)))).)))).)))))).))))..(((..((..((.....))..))..)))))))..... ( -25.20)
>consensus
GAGAAGGUAAAGAAGGUUUUCCCCGUGGAAAUCCCAGGAGAAGGGCAUUCAAUCUUCGACCUUC_________ACGUCCAAGAUAUUUGAUUUUCAUCAA
..((((((...(((((((((((....))))..(((.......))).....))))))).))))))......................(((((....))))) (-17.07 = -17.38 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:23 2006