Locus 1151

Sequence ID 3L_DroMel_CAF1
Location 3,332,363 – 3,332,480
Length 117
Max. P 0.961967
window1792 window1793

overview

Window 2

Location 3,332,363 – 3,332,480
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 95.21
Mean single sequence MFE -23.32
Consensus MFE -22.66
Energy contribution -23.02
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -1.40
Structure conservation index 0.97
SVM decision value 1.53
SVM RNA-class probability 0.961967
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3332363 117 + 23771897
UUAAAGUAUCAUUUAAUUCGGGAUUUGCUAAAUGAUAUGUGUGACUUAGCGUAUGGGCCAUAAAAAUUAAGCAUACAAAAUGCUAAAUGUUUAUUGAUUUAUGCAAAUUCUUACACA
.....((((((((((.............))))))))))((((((......((((((((.(((((.(((.(((((.....))))).))).))))).).)))))))......)))))). ( -24.42)
>DroSec_CAF1 20276 117 + 1
UUAAAGUAUCAUUUAAUUCGGGAUUUGCUAAAUGAUAUGUGUGACUUAGCGUAUGGGCCAUAAAAAUUAAGCAUACAAAAUGCUAAAUGUUUAUUGAUUUAUGCAAAUUCUUACACG
.....((((((((((.............))))))))))((((((......((((((((.(((((.(((.(((((.....))))).))).))))).).)))))))......)))))). ( -24.42)
>DroSim_CAF1 13082 117 + 1
UUAAAGUAUCAUUUAAUUCGGGAUUUGCUAAAUGAUAUGUGUGACUUAGCGUAUGGGCCAUAAAAAUUAAGCAUACAAAAUGCCAAAUGUUUAUUGAUUUAUGCAAAUUCUUACACG
.....((((((((((.............))))))))))((((((......((((((((.(((((.(((..((((.....))))..))).))))).).)))))))......)))))). ( -22.12)
>DroEre_CAF1 20734 117 + 1
UUAAAGCAUCACUUAAUUCUGGAAUUGCUAAAUGAUAUGUGUGACUUAGCAUAUGGGCCAUAAAAAUUAAGCAUACGAAAUGCUAAAUGUUUAUUGAUUUAUGCAAAUUUUUACACG
....((((...((.......))...)))).........((((((....(((((....(.(((((.(((.(((((.....))))).))).))))).)...)))))......)))))). ( -21.00)
>DroYak_CAF1 15710 117 + 1
UCAAAGUAUCAUUUAAUUCUGAAACUGCUAAAUGAUAUGUGUGACUUAGCAUAUGGGCCAUAAAAAUUAAGCAUACAAAAUGCUAAAUGUUUAUUGAUUUAUGCAAAUUUUUACACG
.....((((((((((.............))))))))))((((((....(((((....(.(((((.(((.(((((.....))))).))).))))).)...)))))......)))))). ( -24.62)
>consensus
UUAAAGUAUCAUUUAAUUCGGGAUUUGCUAAAUGAUAUGUGUGACUUAGCGUAUGGGCCAUAAAAAUUAAGCAUACAAAAUGCUAAAUGUUUAUUGAUUUAUGCAAAUUCUUACACG
.....((((((((((.............))))))))))((((((....(((((....(.(((((.(((.(((((.....))))).))).))))).)...)))))......)))))). (-22.66 = -23.02 +   0.36)

alignment

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secondary structure

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dotplot

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Window 3

Location 3,332,363 – 3,332,480
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 95.21
Mean single sequence MFE -19.91
Consensus MFE -18.80
Energy contribution -18.08
Covariance contribution -0.72
Combinations/Pair 1.12
Mean z-score -1.36
Structure conservation index 0.94
SVM decision value 1.16
SVM RNA-class probability 0.924248
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3332363 117 - 23771897
UGUGUAAGAAUUUGCAUAAAUCAAUAAACAUUUAGCAUUUUGUAUGCUUAAUUUUUAUGGCCCAUACGCUAAGUCACACAUAUCAUUUAGCAAAUCCCGAAUUAAAUGAUACUUUAA
(((((..((....((........(((((.(((.(((((.....))))).))).))))).........))....)))))))((((((((((...........))))))))))...... ( -18.93)
>DroSec_CAF1 20276 117 - 1
CGUGUAAGAAUUUGCAUAAAUCAAUAAACAUUUAGCAUUUUGUAUGCUUAAUUUUUAUGGCCCAUACGCUAAGUCACACAUAUCAUUUAGCAAAUCCCGAAUUAAAUGAUACUUUAA
.((((..((....((........(((((.(((.(((((.....))))).))).))))).........))....)))))).((((((((((...........))))))))))...... ( -18.73)
>DroSim_CAF1 13082 117 - 1
CGUGUAAGAAUUUGCAUAAAUCAAUAAACAUUUGGCAUUUUGUAUGCUUAAUUUUUAUGGCCCAUACGCUAAGUCACACAUAUCAUUUAGCAAAUCCCGAAUUAAAUGAUACUUUAA
.(((((((((((.(((((..((((.......)))).......)))))..))))))).((((......))))....)))).((((((((((...........))))))))))...... ( -19.00)
>DroEre_CAF1 20734 117 - 1
CGUGUAAAAAUUUGCAUAAAUCAAUAAACAUUUAGCAUUUCGUAUGCUUAAUUUUUAUGGCCCAUAUGCUAAGUCACACAUAUCAUUUAGCAAUUCCAGAAUUAAGUGAUGCUUUAA
.((((....(((((((((.....(((((.(((.(((((.....))))).))).)))))......))))).)))).)))).((((((((((...........))))))))))...... ( -21.30)
>DroYak_CAF1 15710 117 - 1
CGUGUAAAAAUUUGCAUAAAUCAAUAAACAUUUAGCAUUUUGUAUGCUUAAUUUUUAUGGCCCAUAUGCUAAGUCACACAUAUCAUUUAGCAGUUUCAGAAUUAAAUGAUACUUUGA
.((((....(((((((((.....(((((.(((.(((((.....))))).))).)))))......))))).)))).)))).((((((((((...........))))))))))...... ( -21.60)
>consensus
CGUGUAAGAAUUUGCAUAAAUCAAUAAACAUUUAGCAUUUUGUAUGCUUAAUUUUUAUGGCCCAUACGCUAAGUCACACAUAUCAUUUAGCAAAUCCCGAAUUAAAUGAUACUUUAA
.(((((((((((.(((((......(((....)))........)))))..))))))).((((......))))....)))).((((((((((...........))))))))))...... (-18.80 = -18.08 +  -0.72)

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 10:00:27 2006