Locus 2029

Sequence ID 3R_DroMel_CAF1
Location 5,750,187 – 5,750,322
Length 135
Max. P 0.993000
window3326 window3327

overview

Window 6

Location 5,750,187 – 5,750,284
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.64
Mean single sequence MFE -28.82
Consensus MFE -22.33
Energy contribution -22.41
Covariance contribution 0.08
Combinations/Pair 1.05
Mean z-score -1.91
Structure conservation index 0.77
SVM decision value 0.71
SVM RNA-class probability 0.830018
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5750187 97 + 27905053
UUUGGUCAUGUGUCAAUUCCCGCACCUCUUGUUUGCAUAAUGUUCACAGUGUUCAACUUGAACUGAGC-CCCAAAAUCAGCGGGUGGCACCAUA------------ACUA----------
..((((.((((((((...(((((.....(((...((.....(((((.(((.....))))))))...))-..))).....)))))))))).))).------------))))---------- ( -24.90)
>DroSec_CAF1 41393 98 + 1
UUUGGUCAUGUGUCAAUUCCCGCGCCUCUUGUUUGCAUAAUGUUCACGGUGUUCAACUUGAACUGAGCACCCAAAGCCAGCGGGUGGCACCAUA------------ACUA----------
..((((.((((((((...(((((....(((((..((.....))..))((((((((........))))))))..)))...)))))))))).))).------------))))---------- ( -31.00)
>DroSim_CAF1 42529 98 + 1
UUUGGUCAUGUGUCAAUUCCCGCGCCUCUUGUUUGCAUAAUGUUCACGGUGUUCAACUUGAACUGAGCACCCAAAACCAGCGGGUGGCACCAUA------------ACUA----------
..((((.((((((((...(((((.......((..((.....))..))((((((((........))))))))........)))))))))).))).------------))))---------- ( -31.00)
>DroEre_CAF1 37420 118 + 1
UUUGGUCAUGUGUCAAUUCCCGCGCCUCUUGUUUGCAUAAUGUUCACGGUGUUCAACUUGAACUGCGC--CCCAAGUCAGCGGGUGGCACUGUAACUACCACUAUAACUACCACCUUAAC
..((((((.((((((...(((((....((((..((((....(((((.(((.....)))))))))))).--..))))...))))))))))))).....))))................... ( -31.30)
>DroYak_CAF1 25742 108 + 1
UUUGGUCAUGUGUCAAUUCCCGCGCCUCUUGUUUGCAUAAUGUUCACCGUGUUCAACUUGAACUGAGC--CCCAAAUCAGCGGGUGGCACUGUAACUACCACUAUAACUA----------
..((((((.((((((...(((((((.........)).....(((((....((((.....)))))))))--.........))))))))))))).....)))).........---------- ( -25.90)
>consensus
UUUGGUCAUGUGUCAAUUCCCGCGCCUCUUGUUUGCAUAAUGUUCACGGUGUUCAACUUGAACUGAGC_CCCAAAAUCAGCGGGUGGCACCAUA____________ACUA__________
.........((((((...(((((...........((.....(((((.(((.....))))))))...))...........))))))))))).............................. (-22.33 = -22.41 +   0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,750,227 – 5,750,322
Length 95
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.18
Mean single sequence MFE -37.20
Consensus MFE -27.44
Energy contribution -27.60
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -2.99
Structure conservation index 0.74
SVM decision value 2.37
SVM RNA-class probability 0.993000
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5750227 95 - 27905053
CUAUCUAAAAUCUCAUAUCGCCAAUCGGUGGGUGGUAG------------UAGU------------UAUGGUGCCACCCGCUGAUUUUGGG-GCUCAGUUCAAGUUGAACACUGUGAACA
............(((((..((((((((((((((((((.------------((..------------..)).)))))))))))))))....)-))...((((.....))))..)))))... ( -37.00)
>DroSec_CAF1 41433 96 - 1
CUAUCUAAAAUCUCAUAUCGCCAAUCGGUGGGUGGUAG------------UAGU------------UAUGGUGCCACCCGCUGGCUUUGGGUGCUCAGUUCAAGUUGAACACCGUGAACA
.................((((((((((((((((((((.------------((..------------..)).)))))))))))))..)))((((.((((......)))).))))))))... ( -36.00)
>DroSim_CAF1 42569 96 - 1
CUAUCUAAAAUCUCAUAUCGCCAAUCGGUGGGUGGUAG------------UAGU------------UAUGGUGCCACCCGCUGGUUUUGGGUGCUCAGUUCAAGUUGAACACCGUGAACA
.................((((.(((((((((((((((.------------((..------------..)).)))))))))))))))...((((.((((......)))).))))))))... ( -37.40)
>DroEre_CAF1 37460 118 - 1
CUAUCUGCAAUCUCAUAUCGCCAAUCGGUGGGUGGUAGCAGUUAAGGUGGUAGUUAUAGUGGUAGUUACAGUGCCACCCGCUGACUUGGG--GCGCAGUUCAAGUUGAACACCGUGAACA
............((((..((((..(((((((((((((((.......)).(((..(((....)))..)))..))))))))))))).....)--)))..((((.....))))...))))... ( -37.00)
>DroYak_CAF1 25782 106 - 1
CUAUCUGAAAUCUCAUAUCGCCAAUCGGUGGGUGGUAG------------UAGUUAUAGUGGUAGUUACAGUGCCACCCGCUGAUUUGGG--GCUCAGUUCAAGUUGAACACGGUGAACA
.................(((((((((((((((((((((------------((..(((....)))..)))..)))))))))))))))....--.....((((.....))))..)))))... ( -38.60)
>consensus
CUAUCUAAAAUCUCAUAUCGCCAAUCGGUGGGUGGUAG____________UAGU____________UAUGGUGCCACCCGCUGAUUUUGGG_GCUCAGUUCAAGUUGAACACCGUGAACA
............((((....(((((((((((((((((..................................)))))))))))))..)))).......((((.....))))...))))... (-27.44 = -27.60 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:40 2006