Locus 2634

Sequence ID	X_DroMel_CAF1
Location	7,036,164 – 7,036,265
Length	101
Max. P	0.987738

overview

Window 7

Location	7,036,164 – 7,036,265
Length	101
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	86.69
Mean single sequence MFE	-39.74
Consensus MFE	-33.06
Energy contribution	-32.58
Covariance contribution	-0.48
Combinations/Pair	1.19
Mean z-score	-2.40
Structure conservation index	0.83
SVM decision value	2.09
SVM RNA-class probability	0.987738
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7036164 101 + 22224390
CCACA------UUUCCAUUGGGCCGAA-AACAAGGUCCGCCGGGGCAACCACCGCAGGCAAAGGAGGACAGUCGGUGGUUUUGCGGCCCAA-AAGGACG----AAAGAACAUG
.....------..(((.((((((((..-..(((((.((((((((....)).((.(........).)).....)))))))))))))))))))-..)))(.----...)...... ( -36.60)
>DroSec_CAF1 27728 100 + 1
CCACA------UUUCCAUUGGGCCGAA-AACAAGGUCCGCCGGGGCAACCACCGCAGGCAA-UGAGGACAGUCGGUGGUUUUGCGGCCCAA-AAGGACG----AAAGGACGUG
.(((.------......((((((((..-..(((((.((((((((....)).((.((.....-)).)).....)))))))))))))))))))-..(..(.----...)..)))) ( -41.20)
>DroSim_CAF1 27801 100 + 1
CCACA------UUUCCAUUGGGCCGAA-AACAAGGUCCGCCGGGGCAACCACCGCAGGCAA-UGAGGACAGUCGGUGGUUUUGCGGCCCAA-AAGGACG----AAAGGACGUG
.(((.------......((((((((..-..(((((.((((((((....)).((.((.....-)).)).....)))))))))))))))))))-..(..(.----...)..)))) ( -41.20)
>DroEre_CAF1 27294 105 + 1
CCACU------GUUUUGUUGGGCCGAC-AACGAGGUCCGCCGGGGCAACCACCGCAGCCAA-UGAGGACAGUCGGUGGCUUUGCGGCCCAAAAAGGACGCGAAAAAGGACGAA
.....------(((((.((((((((..-..(((((.((((((((....)).((.((.....-)).)).....)))))))))))))))))))..)))))............... ( -39.80)
>DroYak_CAF1 25512 107 + 1
CCACUUCCAUUUCAUCAUUGGGCCGACCAACAAGGUCCGCUGGGGCAAACACCGCAGCCAA-UGAGGACAGUCGGUGGUUUUGCGGCCCAA-AAGGACG----AAAGGAUAUA
.....(((.((((.((.((((((((((((.....((((((((.((......)).))))...-...))))......))))....))))))))-...)).)----)))))).... ( -39.90)
>consensus
CCACA______UUUCCAUUGGGCCGAA_AACAAGGUCCGCCGGGGCAACCACCGCAGGCAA_UGAGGACAGUCGGUGGUUUUGCGGCCCAA_AAGGACG____AAAGGACGUG
.............(((.((((((((.....(((((.((((((((....)).((.(........).)).....)))))))))))))))))))...)))................ (-33.06 = -32.58 +  -0.48)

alignment

secondary structure

dotplot

Window 8

Location	7,036,164 – 7,036,265
Length	101
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	86.69
Mean single sequence MFE	-38.17
Consensus MFE	-27.50
Energy contribution	-28.34
Covariance contribution	0.84
Combinations/Pair	1.05
Mean z-score	-1.82
Structure conservation index	0.72
SVM decision value	0.27
SVM RNA-class probability	0.662564
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7036164 101 - 22224390
CAUGUUCUUU----CGUCCUU-UUGGGCCGCAAAACCACCGACUGUCCUCCUUUGCCUGCGGUGGUUGCCCCGGCGGACCUUGUU-UUCGGCCCAAUGGAAA------UGUGG
((((((....----..(((..-((((((((...((((((((...((........))...))))))))((....))..........-..)))))))).)))))------)))). ( -35.00)
>DroSec_CAF1 27728 100 - 1
CACGUCCUUU----CGUCCUU-UUGGGCCGCAAAACCACCGACUGUCCUCA-UUGCCUGCGGUGGUUGCCCCGGCGGACCUUGUU-UUCGGCCCAAUGGAAA------UGUGG
(((((.....----..(((..-((((((((...((((((((...((.....-..))...))))))))((....))..........-..)))))))).))).)------)))). ( -36.10)
>DroSim_CAF1 27801 100 - 1
CACGUCCUUU----CGUCCUU-UUGGGCCGCAAAACCACCGACUGUCCUCA-UUGCCUGCGGUGGUUGCCCCGGCGGACCUUGUU-UUCGGCCCAAUGGAAA------UGUGG
(((((.....----..(((..-((((((((...((((((((...((.....-..))...))))))))((....))..........-..)))))))).))).)------)))). ( -36.10)
>DroEre_CAF1 27294 105 - 1
UUCGUCCUUUUUCGCGUCCUUUUUGGGCCGCAAAGCCACCGACUGUCCUCA-UUGGCUGCGGUGGUUGCCCCGGCGGACCUCGUU-GUCGGCCCAACAAAAC------AGUGG
............(((.......(((((((((((((((((((...(((....-..)))..))))))))((....))........))-).))))))))......------.))). ( -38.24)
>DroYak_CAF1 25512 107 - 1
UAUAUCCUUU----CGUCCUU-UUGGGCCGCAAAACCACCGACUGUCCUCA-UUGGCUGCGGUGUUUGCCCCAGCGGACCUUGUUGGUCGGCCCAAUGAUGAAAUGGAAGUGG
(((.((((((----((((...-((((((((((((..(((((...(((....-..)))..)))))))))).......((((.....))))))))))).))))))).))).))). ( -45.40)
>consensus
CACGUCCUUU____CGUCCUU_UUGGGCCGCAAAACCACCGACUGUCCUCA_UUGCCUGCGGUGGUUGCCCCGGCGGACCUUGUU_UUCGGCCCAAUGGAAA______UGUGG
................(((...((((((((...((((((((.(...............)))))))))((....)).............)))))))).)))............. (-27.50 = -28.34 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:45 2006