Locus 924

Sequence ID 3L_DroMel_CAF1
Location 2,786,783 – 2,786,873
Length 90
Max. P 0.990298
window1422 window1423

overview

Window 2

Location 2,786,783 – 2,786,873
Length 90
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 79.93
Mean single sequence MFE -31.77
Consensus MFE -17.65
Energy contribution -19.48
Covariance contribution 1.84
Combinations/Pair 1.12
Mean z-score -4.80
Structure conservation index 0.56
SVM decision value 2.21
SVM RNA-class probability 0.990298
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2786783 90 + 23771897
UA-UGUGUGGCUGCAUUGCCGAUUG------CAUUUGCAUACAAAUUGCAAUGUAGACGAAGAAGCAGCAACAAAAGCUGCAAAAACAGCAGCCCCA
..-..((.((((((.....((.(((------((((.(((.......)))))))))).)).....(((((.......))))).......)))))).)) ( -31.30)
>DroGri_CAF1 24341 89 + 1
CU-UGUGAGUGUGCAUUGUCGAUUUUAUUUGCAUUUGCAUACAAAUUGCAUUGCAGACGAAGAAGCAGCAACAGCAGCAACAACAG---CAAA----
.(-(((...(((((..(((...(((..((((((..((((.......)))).))))))..)))..)))((....)).)).)))...)---))).---- ( -22.00)
>DroSec_CAF1 32126 90 + 1
UA-UGUGUGGCUGCAUUGCCGAUUG------CAUUUGCAUACAAAUUGCAAUGUAGACGAAGAAGCAGCAACAAAUGCUGCAAAAACAGCAGCCACA
..-..(((((((((.....((.(((------((((.(((.......)))))))))).)).....((((((.....)))))).......))))))))) ( -37.30)
>DroEre_CAF1 33818 91 + 1
CGGUGUGUGGCUGCAUUGCCGAUUG------CAUUUGCAUACAAAUUGCAAUGUAGUCGAAGAAGCAGCAACAAAAGCUGCAAAAACAGCAGCCACA
.....(((((((((.....((((((------((((.(((.......))))))))))))).....(((((.......))))).......))))))))) ( -41.00)
>DroYak_CAF1 33033 91 + 1
UAGUGUGUGGCUGCAUUGCCGAUUG------CAUUUGCAUACAAAUUGCAAUGUAGACGAAGAAGCAGCAACAAAAGCUGCAAAAACAGCAGCCACA
.....(((((((((.....((.(((------((((.(((.......)))))))))).)).....(((((.......))))).......))))))))) ( -36.10)
>DroMoj_CAF1 25143 91 + 1
U---AUGUGUGUGCAUUGUUGAUUGUAUUUGCAUUUGCAUACAAAUUGCAUUGUAAAAGAAGAAGCAGCAACUGCAACAGCAACAA---CAAUCAUU
.---......(((.(((((((.((((.((((((..((((.......)))).)))))).......((((...))))....)))))))---))))))). ( -22.90)
>consensus
UA_UGUGUGGCUGCAUUGCCGAUUG______CAUUUGCAUACAAAUUGCAAUGUAGACGAAGAAGCAGCAACAAAAGCUGCAAAAACAGCAGCCACA
......((((((((.....................((((.......))))..............(((((.......))))).......)))))))). (-17.65 = -19.48 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,786,783 – 2,786,873
Length 90
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 79.93
Mean single sequence MFE -30.62
Consensus MFE -17.17
Energy contribution -18.78
Covariance contribution 1.61
Combinations/Pair 1.19
Mean z-score -4.28
Structure conservation index 0.56
SVM decision value 2.16
SVM RNA-class probability 0.989438
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2786783 90 - 23771897
UGGGGCUGCUGUUUUUGCAGCUUUUGUUGCUGCUUCUUCGUCUACAUUGCAAUUUGUAUGCAAAUG------CAAUCGGCAAUGCAGCCACACA-UA
...((((((.......(((((.......)))))............(((((...((((((....)))------)))...))))))))))).....-.. ( -31.40)
>DroGri_CAF1 24341 89 - 1
----UUUG---CUGUUGUUGCUGCUGUUGCUGCUUCUUCGUCUGCAAUGCAAUUUGUAUGCAAAUGCAAAUAAAAUCGACAAUGCACACUCACA-AG
----..((---(.(((((((.(((.(((((.((......))..))))))))((((((((....)))))))).....))))))))))........-.. ( -22.10)
>DroSec_CAF1 32126 90 - 1
UGUGGCUGCUGUUUUUGCAGCAUUUGUUGCUGCUUCUUCGUCUACAUUGCAAUUUGUAUGCAAAUG------CAAUCGGCAAUGCAGCCACACA-UA
(((((((((.......((((((.....))))))............(((((...((((((....)))------)))...))))))))))))))..-.. ( -37.60)
>DroEre_CAF1 33818 91 - 1
UGUGGCUGCUGUUUUUGCAGCUUUUGUUGCUGCUUCUUCGACUACAUUGCAAUUUGUAUGCAAAUG------CAAUCGGCAAUGCAGCCACACACCG
(((((((((.......(((((.......)))))............(((((...((((((....)))------)))...))))))))))))))..... ( -36.10)
>DroYak_CAF1 33033 91 - 1
UGUGGCUGCUGUUUUUGCAGCUUUUGUUGCUGCUUCUUCGUCUACAUUGCAAUUUGUAUGCAAAUG------CAAUCGGCAAUGCAGCCACACACUA
(((((((((.......(((((.......)))))............(((((...((((((....)))------)))...))))))))))))))..... ( -36.10)
>DroMoj_CAF1 25143 91 - 1
AAUGAUUG---UUGUUGCUGUUGCAGUUGCUGCUUCUUCUUUUACAAUGCAAUUUGUAUGCAAAUGCAAAUACAAUCAACAAUGCACACACAU---A
..((((((---((((((...(((((.((((............(((((......))))).)))).)))))...))).))))))).)).......---. ( -20.42)
>consensus
UGUGGCUGCUGUUUUUGCAGCUUUUGUUGCUGCUUCUUCGUCUACAUUGCAAUUUGUAUGCAAAUG______CAAUCGGCAAUGCAGCCACACA_UA
.((((((((.......(((((.......)))))....(((...........(((((....)))))...........)))....))))))))...... (-17.17 = -18.78 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:34 2006