Locus 2578

Sequence ID 3L_DroMel_CAF1
Location 7,194,435 – 7,194,563
Length 128
Max. P 0.989156
window4008 window4009

overview

Window 8

Location 7,194,435 – 7,194,533
Length 98
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.07
Mean single sequence MFE -32.35
Consensus MFE -28.14
Energy contribution -27.57
Covariance contribution -0.56
Combinations/Pair 1.10
Mean z-score -1.79
Structure conservation index 0.87
SVM decision value 0.85
SVM RNA-class probability 0.865919
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7194435 98 - 23771897
----------------AAUGGUCUGGUUGUGGUGCCAGUACAUAGGCCUCUCCCUCGCCGGUAAAUGUGUGUGCUAUAUUUAUAGGCAUG------UGCAUUCCAUGUGCAGUCCGUUUU
----------------(((((.(((((......))).((((((.(((.........)))((..((((..((((((.........))))))------..)))))))))))))).))))).. ( -30.40)
>DroSec_CAF1 8004 98 - 1
----------------AAUGGUCUGGUUGUAGUGCCAGUACAUAGGCCUCUCCCUCGCCGGUAAAUGUGUGUGCUAUAUUUAUAGGCAUG------UGCAUUUCAUGUGCAGUCCGUUUU
----------------(((((.(((((......))).((((((.(((.........))).(.(((((..((((((.........))))))------..)))))))))))))).))))).. ( -29.60)
>DroEre_CAF1 7984 104 - 1
----------------AACGGUCUGGUUGUAGUGCCAGUACAUAGGCCUCUCCCUCGCCGGUAAAUGUGUGUGCUAUAUUUAUAGGCAUGUGCAUGUGCAUUCCAUGUGCAGUCCGUUUU
----------------(((((.(((..((.((((((((((((((((......))).(((.(((((((((.....))))))))).))))))))).)).))))).))....))).))))).. ( -35.30)
>DroYak_CAF1 5224 114 - 1
UAUAUAUAGAUGGUCUGAUGGUCUGGUUGUAGUGCCAGUACAUAGGCCUCUCCCUCGCCGGUAAAUGUGUGUGCUAUAUUUAUAGGCAUG------UGCAUUCCAUGUGCAGUCCGUUUU
.......((((((.(((..(((..((..(.((.(((........))))))..))..)))((..((((..((((((.........))))))------..)))))).....))).)))))). ( -34.10)
>consensus
________________AAUGGUCUGGUUGUAGUGCCAGUACAUAGGCCUCUCCCUCGCCGGUAAAUGUGUGUGCUAUAUUUAUAGGCAUG______UGCAUUCCAUGUGCAGUCCGUUUU
................(((((.((((..(.((.(((........))))))..))..(((.(((((((((.....))))))))).)))..........((((.....)))))).))))).. (-28.14 = -27.57 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,194,469 – 7,194,563
Length 94
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 97.87
Mean single sequence MFE -26.40
Consensus MFE -26.52
Energy contribution -26.30
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.78
Structure conservation index 1.00
SVM decision value 2.15
SVM RNA-class probability 0.989156
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7194469 94 + 23771897
AAUAUAGCACACACAUUUACCGGCGAGGGAGAGGCCUAUGUACUGGCACCACAACCAGACCAUUCUCGUAUAUACGAACGUAUAUCCCUCGUAU
......................((((((((((((...(((..((((........))))..)))))))...(((((....))))))))))))).. ( -26.80)
>DroSec_CAF1 8038 94 + 1
AAUAUAGCACACACAUUUACCGGCGAGGGAGAGGCCUAUGUACUGGCACUACAACCAGACCAUUCUCGUAUAUACGAACGUAUAUCCCUCGUAU
......................((((((((((((...(((..((((........))))..)))))))...(((((....))))))))))))).. ( -26.80)
>DroEre_CAF1 8024 94 + 1
AAUAUAGCACACACAUUUACCGGCGAGGGAGAGGCCUAUGUACUGGCACUACAACCAGACCGUUCUCGUAUAUACCAACGUAUAUCCCUCGUAU
......................(((((((((((..(...((.((((........)))))).)..)))...(((((....))))))))))))).. ( -25.60)
>consensus
AAUAUAGCACACACAUUUACCGGCGAGGGAGAGGCCUAUGUACUGGCACUACAACCAGACCAUUCUCGUAUAUACGAACGUAUAUCCCUCGUAU
......................((((((((((((...(((..((((........))))..)))))))...(((((....))))))))))))).. (-26.52 = -26.30 +  -0.22)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:13 2006