Locus 5929

Sequence ID	3L_DroMel_CAF1
Location	15,910,896 – 15,911,053
Length	157
Max. P	0.998939

overview

Window 8

Location	15,910,896 – 15,911,013
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.79
Mean single sequence MFE	-28.74
Consensus MFE	-23.00
Energy contribution	-23.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.80
SVM decision value	0.59
SVM RNA-class probability	0.791210
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15910896 117 - 23771897
ACACUCAUUAAGUCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUAUAUUACCACAACAUUUCCUCUGCUACACGUGUGAUCAAUUU---GGUUUUC
....((((.....(.(((((((.....(((((((((.....)))))))))((((((.....))))))......................))))))).).)))).......---....... ( -24.10)
>DroSec_CAF1 12606 120 - 1
GCACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUACCACAACAUUUCCUCGGCUACACGUGUGAUCAAUUUGUUGGUUUUC
((((......((((((((((.(((((.(((((((((.....)))))))))((((((.....)))))))))))..)))))).........))))....))))((((((....))))))... ( -29.50)
>DroSim_CAF1 12901 120 - 1
ACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUACCACAACAUUUCCUCGGCUACACGUGUGAUCAAUUUGUUGGUUCUC
((((......((((((((((.(((((.(((((((((.....)))))))))((((((.....)))))))))))..)))))).........))))....))))((((((....))))))... ( -29.20)
>DroEre_CAF1 10378 117 - 1
ACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGCUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUGCCGCAACAUUUCCUCUGCUACACGUGUGAUCAAUUU---GGGGUUU
.........(((((((((((((((((.(((((((((.....)))))))))((((((.....)))))))))).))))))..............(((....)))........---))))))) ( -29.70)
>DroYak_CAF1 10414 117 - 1
ACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUGCCACAACAGUUCCUCUGCUACACGUGUGAUCAAUUU---GGGUUUU
.........(((((((((((((((((.(((((((((.....)))))))))((((((.....)))))))))).))))))).(((.....)))...................---)))))). ( -31.20)
>consensus
ACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUACCACAACAUUUCCUCUGCUACACGUGUGAUCAAUUU___GGUUUUC
....((((...(...((((((......(((((((((.....)))))))))((((((.....)))))).......................)))))))..))))................. (-23.00 = -23.00 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	15,910,933 – 15,911,053
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.00
Mean single sequence MFE	-27.16
Consensus MFE	-24.14
Energy contribution	-23.62
Covariance contribution	-0.52
Combinations/Pair	1.12
Mean z-score	-1.79
Structure conservation index	0.89
SVM decision value	1.95
SVM RNA-class probability	0.983810
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15910933 120 + 23771897
UUGUGGUAAUAUAUCAGGAAAAUGCCCUGAACUCACCUCAAACUGAAGUAAAUAUUUAUGCCACAAGACUUAAUGAGUGUUUGAAUAGUAUACUAAAUUUAGUCGGCUACUAAAAGAGGA
((((((((.....(((((.......)))))....((.((.....)).)).........))))))))((((.....(((((.........)))))......))))................ ( -23.70)
>DroSec_CAF1 12646 120 + 1
UUGUGGUAAUAAAUCAGGAAAAUGCCCUGAACUCACCUCAAACUGAAGUAAAUAUUUAUGCCACAAGGCUUAAUGAGUGCUUGAAUAGUGUACUAAAUUUAGUCGGCUACUAAAUGAGGG
.............(((((.......))))).....(((((...(.(((((..((((...(((....)))..))))..))))).).((((..((((....))))..)))).....))))). ( -27.70)
>DroSim_CAF1 12941 120 + 1
UUGUGGUAAUAAAUCAGGAAAAUGCCCUGAACUCACCUCAAACUGAAGUAAAUAUUUAUGCCACAAGGCUUAAUGAGUGUUUGAAUAGUAUACUAAAUUUAGUCGGCUACUAAAAGAGGG
.............(((((.......))))).....((((..((((...((((((((((((((....)))...)))))))))))..))))........((((((.....)))))).)))). ( -28.10)
>DroEre_CAF1 10415 119 + 1
UUGCGGCAAUAAAUCAGGAAAAUGCCCUGAACUCACCUCAAGCUGAAGUAAAUAUUUAUGCCACAAGGCUUAAUGAGUGUUUGAAUAGUAUACUAAAUUUAGUCGUAUACUAAAAGG-GG
.............(((((.......))))).....((((.........((((((((((((((....)))...)))))))))))..((((((((...........))))))))...))-)) ( -27.70)
>DroYak_CAF1 10451 119 + 1
UUGUGGCAAUAAAUCAGGAAAAUGCCCUGAACUCACCUCAAACUGAAGUAAAUAUUUAUGCCACAAGGCUUAAUGAGUGUUUGAAUAGUAUACUAAAUUUAGUCGUAUACUAAAAGA-GG
.............(((((.......))))).....((((.........((((((((((((((....)))...)))))))))))..((((((((...........))))))))...))-)) ( -28.60)
>consensus
UUGUGGUAAUAAAUCAGGAAAAUGCCCUGAACUCACCUCAAACUGAAGUAAAUAUUUAUGCCACAAGGCUUAAUGAGUGUUUGAAUAGUAUACUAAAUUUAGUCGGCUACUAAAAGAGGG
((((((((.....(((((.......)))))....((.((.....)).)).........))))))))((((.....(((((.........)))))......))))................ (-24.14 = -23.62 +  -0.52)

alignment

secondary structure

dotplot

Window 0

Location	15,910,933 – 15,911,053
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.00
Mean single sequence MFE	-28.60
Consensus MFE	-24.42
Energy contribution	-24.30
Covariance contribution	-0.12
Combinations/Pair	1.09
Mean z-score	-2.85
Structure conservation index	0.85
SVM decision value	3.29
SVM RNA-class probability	0.998939
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15910933 120 - 23771897
UCCUCUUUUAGUAGCCGACUAAAUUUAGUAUACUAUUCAAACACUCAUUAAGUCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUAUAUUACCACAA
........(((((....((((....)))).)))))....................(((((.......(((((((((.....)))))))))((((((.....)))))).......))))). ( -25.40)
>DroSec_CAF1 12646 120 - 1
CCCUCAUUUAGUAGCCGACUAAAUUUAGUACACUAUUCAAGCACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUACCACAA
.....(((((((.....)))))))............((((((.........(((....))).(((....))).....))))))(((((..((((((.....))))))....))))).... ( -25.00)
>DroSim_CAF1 12941 120 - 1
CCCUCUUUUAGUAGCCGACUAAAUUUAGUAUACUAUUCAAACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUACCACAA
........(((((....((((....)))).))))).((((((.........(((....))).(((....))).....))))))(((((..((((((.....))))))....))))).... ( -26.60)
>DroEre_CAF1 10415 119 - 1
CC-CCUUUUAGUAUACGACUAAAUUUAGUAUACUAUUCAAACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGCUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUGCCGCAA
..-.....((((((((...........))))))))....................(((((((((((.(((((((((.....)))))))))((((((.....)))))))))).))))))). ( -32.80)
>DroYak_CAF1 10451 119 - 1
CC-UCUUUUAGUAUACGACUAAAUUUAGUAUACUAUUCAAACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUGCCACAA
..-.....((((((((...........))))))))....................(((((((((((.(((((((((.....)))))))))((((((.....)))))))))).))))))). ( -33.20)
>consensus
CCCUCUUUUAGUAGCCGACUAAAUUUAGUAUACUAUUCAAACACUCAUUAAGCCUUGUGGCAUAAAUAUUUACUUCAGUUUGAGGUGAGUUCAGGGCAUUUUCCUGAUUUAUUACCACAA
........(((((....((((....)))).))))).((((((.........(((....))).(((....))).....))))))(((((..((((((.....))))))....))))).... (-24.42 = -24.30 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:22 2006