Locus 7152

Sequence ID	X_DroMel_CAF1
Location	17,952,390 – 17,952,483
Length	93
Max. P	0.960422

overview

Window 0

Location	17,952,390 – 17,952,483
Length	93
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	72.19
Mean single sequence MFE	-20.63
Consensus MFE	-8.37
Energy contribution	-8.25
Covariance contribution	-0.12
Combinations/Pair	1.73
Mean z-score	-2.13
Structure conservation index	0.41
SVM decision value	1.51
SVM RNA-class probability	0.960422
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17952390 93 + 22224390
UCCGAUUCUAUAAACUUUCAGCAGG-GAGAGCAACAACA-AAAUAUUGUUGAAAAUAAUGUUGCUUUUC----CCUGCUCAUCUCGUUGUUCUUGGCAU
.((((....((((......((((((-(((((((((((((-(....)))).........)))))).))))----)))))).......))))..))))... ( -26.22)
>DroSec_CAF1 11579 93 + 1
UCCGAUUCUAUAAACUUUCAGCAGG-GAGAGCAACAACA-AAAUAUUGUUGAAAAUAAUGUUGCUUUUC----CCUGCUCAUCUCGUUGUUCUUGGCAU
.((((....((((......((((((-(((((((((((((-(....)))).........)))))).))))----)))))).......))))..))))... ( -26.22)
>DroEre_CAF1 12279 96 + 1
UCCGAUUCUAUAAACUUUCAGCAGG--AAAGCAAAAACA-AAAUAUUGUUGAAAAUAAUGUUGCUUUUGCUAUUCUGCGCCUCUCGUUGUUCUUGGCAU
....................(((((--(.(((((((...-.((((((((.....))))))))..))))))).))))))(((.............))).. ( -23.92)
>DroYak_CAF1 12288 92 + 1
UCCGAUUCUAUAAACUUUUUGCAGG--AAAGCAGCAACA-AAAUAUUGUUGAAAAUAAUGUUCCUUUUC----UUUGCUCUUCUCGUUGUUCUUGGCAU
...................((((((--(..(((((((((-(....)))))(((((.........)))))----............))))))))).))). ( -12.00)
>DroMoj_CAF1 17351 80 + 1
-----------AAAUUUUGUGUUGAAA--AAUACAAAAACGAAUUUCGUUGCUCAAA-UUUUGUAUUUC----GAAAUUGUUAUUGUUGUUGCUG-UGU
-----------....((((((((....--))))))))(((.(((((((.(((.....-....)))...)----))))))))).............-... ( -14.80)
>consensus
UCCGAUUCUAUAAACUUUCAGCAGG__AAAGCAACAACA_AAAUAUUGUUGAAAAUAAUGUUGCUUUUC____CCUGCUCAUCUCGUUGUUCUUGGCAU
....................(((((.((((((((((......................)))))))))).....)))))..................... ( -8.37 =  -8.25 +  -0.12)

alignment

secondary structure

dotplot

Window 1

Location	17,952,390 – 17,952,483
Length	93
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	72.19
Mean single sequence MFE	-17.82
Consensus MFE	-2.12
Energy contribution	-3.40
Covariance contribution	1.28
Combinations/Pair	1.25
Mean z-score	-1.48
Structure conservation index	0.12
SVM decision value	0.00
SVM RNA-class probability	0.534989
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17952390 93 - 22224390
AUGCCAAGAACAACGAGAUGAGCAGG----GAAAAGCAACAUUAUUUUCAACAAUAUUU-UGUUGUUGCUCUC-CCUGCUGAAAGUUUAUAGAAUCGGA
...((.....((......))((((((----((..(((((((.........((((....)-)))))))))).))-))))))................)). ( -23.80)
>DroSec_CAF1 11579 93 - 1
AUGCCAAGAACAACGAGAUGAGCAGG----GAAAAGCAACAUUAUUUUCAACAAUAUUU-UGUUGUUGCUCUC-CCUGCUGAAAGUUUAUAGAAUCGGA
...((.....((......))((((((----((..(((((((.........((((....)-)))))))))).))-))))))................)). ( -23.80)
>DroEre_CAF1 12279 96 - 1
AUGCCAAGAACAACGAGAGGCGCAGAAUAGCAAAAGCAACAUUAUUUUCAACAAUAUUU-UGUUUUUGCUUU--CCUGCUGAAAGUUUAUAGAAUCGGA
..(((.............)))((((...(((((((((((...((((......))))..)-))))))))))..--.)))).................... ( -21.62)
>DroYak_CAF1 12288 92 - 1
AUGCCAAGAACAACGAGAAGAGCAAA----GAAAAGGAACAUUAUUUUCAACAAUAUUU-UGUUGCUGCUUU--CCUGCAAAAAGUUUAUAGAAUCGGA
.............(((....(((...----(((((.........)))))(((((....)-)))))))((...--...))...............))).. ( -11.30)
>DroMoj_CAF1 17351 80 - 1
ACA-CAGCAACAACAAUAACAAUUUC----GAAAUACAAAA-UUUGAGCAACGAAAUUCGUUUUUGUAUU--UUUCAACACAAAAUUU-----------
...-......................----(((((((((((-..((((........)))).)))))))))--))..............----------- (  -8.60)
>consensus
AUGCCAAGAACAACGAGAAGAGCAGA____GAAAAGCAACAUUAUUUUCAACAAUAUUU_UGUUGUUGCUCU__CCUGCUGAAAGUUUAUAGAAUCGGA
.....................((((.....(((((.........)))))(((((((....)))))))........)))).................... ( -2.12 =  -3.40 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:25 2006