Locus 7810

Sequence ID 3L_DroMel_CAF1
Location 20,891,773 – 20,891,972
Length 199
Max. P 0.612201
window12708 window12709

overview

Window 8

Location 20,891,773 – 20,891,892
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.45
Mean single sequence MFE -28.86
Consensus MFE -21.23
Energy contribution -21.30
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -1.56
Structure conservation index 0.74
SVM decision value 0.16
SVM RNA-class probability 0.612201
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20891773 119 - 23771897
ACAUAGACUUCCAACUCCCUCAUAACCAAUGAGUUGGGAAAUAAACAUAUC-CGGCUUGCUGCGGUAAAAGUUCUUCAUUGGGGGUAGCACCCAAGUAAGCUCCAGCUUGCACACAUCUU
.....((((((((((((.............)))))))))........((((-(((....))).))))...))).....(((((.......)))))((((((....))))))......... ( -29.62)
>DroSec_CAF1 148417 119 - 1
ACAUAGACUGCCAUCUCCCUCAUAACCAAUGAGUUGGGAAAUAAACAUAUC-CGGCUUGCUGCGGUAAAAGUCCUUCAUUGGGGGUAACACCCAAGUCAUCUCCAGCUUGCACACAUCUU
.....((((................(((((((...((((........((((-(((....))).))))....)))))))))))(((.....))).))))...................... ( -25.40)
>DroEre_CAF1 148292 119 - 1
ACAUAGACUUCCAACUCCCUCGUAACCAAUGAGUUGGGAAAUAAAAAUAUC-CGGCUUGCUGCGAUAGAAGUUCUUCAUUGGGGGUAAUACCCAAGUUAGCUCCAGCUUGCACACGUCUU
....(((((((((((((.............)))))))))............-..((..((((.((..(((....))).(((((.......)))))......))))))..))....)))). ( -31.72)
>DroYak_CAF1 149294 111 - 1
ACAUAGACUUCCAACUCCCUCAUAACCAAGGAGUUGGGAAAUAAAAAUAUCCCGGCUUGCUGCGAUAAAAGUUCUUCAUUGGGGGUAACACCCAAGUCAGCUCCANNNNNN---------
.....(((((((((((((...........))))))))))........((((.(((....))).))))...........(((((.......)))))))).............--------- ( -28.70)
>consensus
ACAUAGACUUCCAACUCCCUCAUAACCAAUGAGUUGGGAAAUAAAAAUAUC_CGGCUUGCUGCGAUAAAAGUUCUUCAUUGGGGGUAACACCCAAGUCAGCUCCAGCUUGCACACAUCUU
.....((((((((((((.............)))))))..........((((.(((....))).)))).))))).....(((((.......)))))......................... (-21.23 = -21.30 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,891,852 – 20,891,972
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.17
Mean single sequence MFE -37.75
Consensus MFE -28.55
Energy contribution -28.68
Covariance contribution 0.13
Combinations/Pair 1.19
Mean z-score -1.54
Structure conservation index 0.76
SVM decision value 0.10
SVM RNA-class probability 0.584761
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20891852 120 + 23771897
UUCCCAACUCAUUGGUUAUGAGGGAGUUGGAAGUCUAUGUGCAUACCUACGUCAUCACCUUUGGUGCAUUAGCGUUGUGGCAGGAGUUGCUGAAAGUAGUUUCGAUUCCAACUCAAUUUA
.......(((((.....))))).(((((((((.((....(((.(((..((((...((((...)))).....)))).))))))(((..(((.....)))..))))))))))))))...... ( -34.10)
>DroSec_CAF1 148496 120 + 1
UUCCCAACUCAUUGGUUAUGAGGGAGAUGGCAGUCUAUGUGCAUACCUACGUCAUCGCCUCUGGUGUAUUAGCGUUGUGGCAGGAGUUGCUGGAAGUAGUUUCGACUCCAACUCGAUUUA
.......(((((.....))))).(((.(((.((((....(((.(((..((((...((((...)))).....)))).))))))(((..(((.....)))..)))))))))).)))...... ( -32.50)
>DroEre_CAF1 148371 120 + 1
UUCCCAACUCAUUGGUUACGAGGGAGUUGGAAGUCUAUGUUCCUACCUACGCCAUCGUCUCUGGUGCAUUAGCGUUAUGGCCGGAGUCGGUGGAAGUAGCUUCGACUCCAACUCCAUAUA
...((((....)))).......(((((((((.(((...((....))((((.((((((.(((((((.(((.......)))))))))).))))))..))))....))))))))))))..... ( -45.70)
>DroYak_CAF1 149365 120 + 1
UUCCCAACUCCUUGGUUAUGAGGGAGUUGGAAGUCUAUGUUCUUACGUGCGACAUCGUCUCUGGUGCAUUAGCGUUAUGGCAGGAGUUGGUGGAAGUAGCUUCGACUCCAACUCAAUAUA
...((((((((((.......))))))))))..((((((((....))))).)))...(((..(..(((....)))..).)))..((((((((.((((...)))).)..)))))))...... ( -38.70)
>consensus
UUCCCAACUCAUUGGUUAUGAGGGAGUUGGAAGUCUAUGUGCAUACCUACGUCAUCGCCUCUGGUGCAUUAGCGUUAUGGCAGGAGUUGCUGGAAGUAGCUUCGACUCCAACUCAAUAUA
.......(((((.....))))).(((((((.((((...((....))((((..(((((.((((.((.(((.......))))).)))).)))))...))))....)))))))))))...... (-28.55 = -28.68 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:30 2006