Locus 5671

Sequence ID 2R_DroMel_CAF1
Location 18,004,470 – 18,004,563
Length 93
Max. P 0.995016
window9084 window9085

overview

Window 4

Location 18,004,470 – 18,004,563
Length 93
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 89.26
Mean single sequence MFE -43.53
Consensus MFE -37.59
Energy contribution -37.90
Covariance contribution 0.31
Combinations/Pair 1.07
Mean z-score -1.59
Structure conservation index 0.86
SVM decision value 0.25
SVM RNA-class probability 0.654195
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18004470 93 + 20766785
UGCUGCUGCUGACCACCGGUGGCGGGGUGGUGCCACUGGUUGUGGAAGUCACCCCGCCCGAGGUAGACACUGUGUCUGGUGAGGCGACCAUG------A
......((((.((((((...((((((((((..((((.....))))...))))))))))...)))((((.....)))))))..))))......------. ( -42.90)
>DroSec_CAF1 18587 93 + 1
UGCUGCUGCUGACCACCGGCGGCGGGGUGGUGCCACUGGUUGUGGAGGUCACCCCGCCCGAGGUAGACACUGUGUCUGGUGAGGCGACCAUG------A
......((((.((((((...((((((((((..((((.....))))...))))))))))...)))((((.....)))))))..))))......------. ( -42.90)
>DroSim_CAF1 17538 93 + 1
UGCUGCUGCUGACCACCGGCGGCGGGGUGGUGCCACUGGUUGUGGAGGUCACCCCGCCCGAGGUAGACACUGUGUCGGGUGAGGCGACCAUG------A
..(((((((((.....))))))))).......((((.....)))).((((.((.(((((((..(((...)))..))))))).)).))))...------. ( -45.20)
>DroEre_CAF1 19907 93 + 1
UGCUGCUGCUGACCACCGGCGGCGGGGUGGUGCCACUGGUUGUAGAGGUCACCCCGCCGGAGGUAGACAUUGUGUCUGGUGAGGCGACCAUG------G
......((((.((((((..((((((((((..(((.(((....))).)))))))))))))..)))((((.....)))))))..))))......------. ( -42.50)
>DroYak_CAF1 17215 93 + 1
UGCUGCUGCUGACCACUGGCGGCGGGGUGGUGCCACUGGUUGUGGAGGUCACCCCGCCGGAGGUAGACACUGUGUCUGGUGAGGCGACCAUG------G
......((((.((((((..(((((((((((..((((.....))))...)))))))))))..)))((((.....)))))))..))))......------. ( -44.30)
>DroAna_CAF1 14406 99 + 1
UGCUGCUACUGACCACUGGCGGCGGGGUGGUGCCACUUGUGGUGGAUGUCACCCCACCGGAAGUGGACACAGUGUCGGGCGAAGCCACAGAGGAAAUAG
..(((.(((((.(((((..(((.((((((..(((((.....)))).)..)))))).)))..)))))...)))))...(((...))).)))......... ( -43.40)
>consensus
UGCUGCUGCUGACCACCGGCGGCGGGGUGGUGCCACUGGUUGUGGAGGUCACCCCGCCCGAGGUAGACACUGUGUCUGGUGAGGCGACCAUG______A
....((..((.((((((...((((((((((..((((.....))))...))))))))))...))).(((.....))).))).)))).............. (-37.59 = -37.90 +   0.31)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,004,470 – 18,004,563
Length 93
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 89.26
Mean single sequence MFE -40.75
Consensus MFE -35.72
Energy contribution -35.75
Covariance contribution 0.03
Combinations/Pair 1.17
Mean z-score -3.11
Structure conservation index 0.88
SVM decision value 2.53
SVM RNA-class probability 0.995016
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18004470 93 - 20766785
U------CAUGGUCGCCUCACCAGACACAGUGUCUACCUCGGGCGGGGUGACUUCCACAACCAGUGGCACCACCCCGCCACCGGUGGUCAGCAGCAGCA
.------..((..((((.....((((.....))))......(((((((((....((((.....))))...)))))))))...))))..))((....)). ( -41.30)
>DroSec_CAF1 18587 93 - 1
U------CAUGGUCGCCUCACCAGACACAGUGUCUACCUCGGGCGGGGUGACCUCCACAACCAGUGGCACCACCCCGCCGCCGGUGGUCAGCAGCAGCA
.------..((..((((.....((((.....))))......(((((((((....((((.....))))...)))))))))...))))..))((....)). ( -41.30)
>DroSim_CAF1 17538 93 - 1
U------CAUGGUCGCCUCACCCGACACAGUGUCUACCUCGGGCGGGGUGACCUCCACAACCAGUGGCACCACCCCGCCGCCGGUGGUCAGCAGCAGCA
.------..((..((((......(((.....))).......(((((((((....((((.....))))...)))))))))...))))..))((....)). ( -40.20)
>DroEre_CAF1 19907 93 - 1
C------CAUGGUCGCCUCACCAGACACAAUGUCUACCUCCGGCGGGGUGACCUCUACAACCAGUGGCACCACCCCGCCGCCGGUGGUCAGCAGCAGCA
.------..((..((((.....((((.....)))).....((((((((((....((((.....))))...))))))))))..))))..))((....)). ( -40.40)
>DroYak_CAF1 17215 93 - 1
C------CAUGGUCGCCUCACCAGACACAGUGUCUACCUCCGGCGGGGUGACCUCCACAACCAGUGGCACCACCCCGCCGCCAGUGGUCAGCAGCAGCA
.------..((..(((......((((.....)))).....((((((((((....((((.....))))...))))))))))...)))..))((....)). ( -38.90)
>DroAna_CAF1 14406 99 - 1
CUAUUUCCUCUGUGGCUUCGCCCGACACUGUGUCCACUUCCGGUGGGGUGACAUCCACCACAAGUGGCACCACCCCGCCGCCAGUGGUCAGUAGCAGCA
.........(((((((...)))....((((...(((((..((((((((((....((((.....))))...))))))))))..))))).)))).)))).. ( -42.40)
>consensus
C______CAUGGUCGCCUCACCAGACACAGUGUCUACCUCCGGCGGGGUGACCUCCACAACCAGUGGCACCACCCCGCCGCCGGUGGUCAGCAGCAGCA
.........((..((((......(((.....))).......(((((((((....((((.....))))...)))))))))...))))..))((....)). (-35.72 = -35.75 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:27 2006