Locus 6619

Sequence ID	X_DroMel_CAF1
Location	16,503,222 – 16,503,335
Length	113
Max. P	0.696897

overview

Window 1

Location	16,503,222 – 16,503,335
Length	113
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	78.97
Mean single sequence MFE	-33.95
Consensus MFE	-25.94
Energy contribution	-26.63
Covariance contribution	0.69
Combinations/Pair	1.13
Mean z-score	-1.17
Structure conservation index	0.76
SVM decision value	0.34
SVM RNA-class probability	0.696897
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16503222 113 + 22224390
AGC--AUAUGUAUGUAUGU-AUGCUGUUACCUCUUCUGCUUGCGACAAGAUACCAUGGACACGAGGACGGCCAAAAUGAUGAUGGCCGCCAAAAGGCCGGAUAAUCCGGCCACCAU
(((--((((((....))))-))))).............((((...)))).....((((......((.((((((.........))))))))....((((((.....)))))).)))) ( -38.90)
>DroPse_CAF1 272 113 + 1
ACUGCAU---UAUGUAUACGAAACUCUUACCUCUUCUGCUUGCGGCAGGCCACCAUGGAGGCGAGCACGGCCAGAAUGAUAAUGGCUGCCAGUAGGCCGGACAGACCCGCCACCAU
((((...---...............((..((((((((((.....))))).......)))))..))..((((((.........)))))).)))).(((.((.....)).)))..... ( -30.71)
>DroSec_CAF1 237 108 + 1
-------AUAUAUGUAUGU-AUGCUGUUACCUCUUCUGCUUGCGACAAGAUAUCAUGGACACAAGGACGGCCAGAAUGAUGAUGGCAGCCAAAAGGCCGGACAAUCCGGCCACCAU
-------.....(((.(((-(.((.............)).))))))).......((((......((...((((.........))))..))....((((((.....)))))).)))) ( -30.82)
>DroEre_CAF1 256 103 + 1
AGG------------GCAU-AUGCUGUUACCUCUUCUGCUUGCGACAGGCCACCAUGGACACGAGGACGGCCAGAAUGAUGAUGGCCGCCAAAAGGCCGGAUAAUCCGGCCACCAU
..(------------((..-.((.(((...(......)...))).)).)))...((((......((.((((((.........))))))))....((((((.....)))))).)))) ( -38.10)
>DroYak_CAF1 231 95 + 1
AUG---------------------UGUUACCUCUUCUGCUUGCGACAGGUCACCAUGGACACGAGGACGGCCAGAAUGAUGAUGGCCGCCAAAAGGCCGGACAAUCCGGCCACCAU
.((---------------------((((......(((((....).))))........)))))).((.((((((.........))))))))....((((((.....))))))..... ( -35.54)
>DroPer_CAF1 982 113 + 1
ACUGCAU---UAUGUAUACGAAACUCUUACCUCUUCUGCUUGCGACAGGCCACCAUGGAGGCGAGCACGGCCAGAAUGAUAAUGGCUGCCAGUAGGCCGGACAGACCCGCCACCAU
((((...---...............((..(((((...(((((...)))))......)))))..))..((((((.........)))))).)))).(((.((.....)).)))..... ( -29.60)
>consensus
ACG_______UAUGUAUAU_AUGCUGUUACCUCUUCUGCUUGCGACAGGCCACCAUGGACACGAGGACGGCCAGAAUGAUGAUGGCCGCCAAAAGGCCGGACAAUCCGGCCACCAU
.....................................(((((...)))))....((((......((.((((((.........))))))))....((((((.....)))))).)))) (-25.94 = -26.63 +   0.69)

alignment

secondary structure

dotplot

Window 2

Location	16,503,222 – 16,503,335
Length	113
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	78.97
Mean single sequence MFE	-37.17
Consensus MFE	-25.04
Energy contribution	-25.23
Covariance contribution	0.20
Combinations/Pair	1.15
Mean z-score	-1.23
Structure conservation index	0.67
SVM decision value	0.10
SVM RNA-class probability	0.581157
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16503222 113 - 22224390
AUGGUGGCCGGAUUAUCCGGCCUUUUGGCGGCCAUCAUCAUUUUGGCCGUCCUCGUGUCCAUGGUAUCUUGUCGCAAGCAGAAGAGGUAACAGCAU-ACAUACAUACAUAU--GCU
((((.((((((.....))))))....((((((((.........)))))))).......))))(.((((((.((.......)).)))))).)(((((-(..........)))--))) ( -38.80)
>DroPse_CAF1 272 113 - 1
AUGGUGGCGGGUCUGUCCGGCCUACUGGCAGCCAUUAUCAUUCUGGCCGUGCUCGCCUCCAUGGUGGCCUGCCGCAAGCAGAAGAGGUAAGAGUUUCGUAUACAUA---AUGCAGU
(((((((((((....))).(((....))).)))))))).(((((.(((..((.((((.....))))))(((.(....))))....))).)))))...((((.....---))))... ( -37.50)
>DroSec_CAF1 237 108 - 1
AUGGUGGCCGGAUUGUCCGGCCUUUUGGCUGCCAUCAUCAUUCUGGCCGUCCUUGUGUCCAUGAUAUCUUGUCGCAAGCAGAAGAGGUAACAGCAU-ACAUACAUAUAU-------
..((((((((((.((..(((((....))))).......)).)))))))).)).(((((...((.((((((.((.......)).)))))).))..))-))).........------- ( -33.80)
>DroEre_CAF1 256 103 - 1
AUGGUGGCCGGAUUAUCCGGCCUUUUGGCGGCCAUCAUCAUUCUGGCCGUCCUCGUGUCCAUGGUGGCCUGUCGCAAGCAGAAGAGGUAACAGCAU-AUGC------------CCU
.((((((((((.....)).(((....)))))))))))((.(((((((((.((..........))))))).(.(....))))))))((((.......-.)))------------).. ( -37.60)
>DroYak_CAF1 231 95 - 1
AUGGUGGCCGGAUUGUCCGGCCUUUUGGCGGCCAUCAUCAUUCUGGCCGUCCUCGUGUCCAUGGUGACCUGUCGCAAGCAGAAGAGGUAACA---------------------CAU
.....((((((.....))))))....((((((((.........))))))))...((((((..(....)(((.(....))))....))..)))---------------------).. ( -37.80)
>DroPer_CAF1 982 113 - 1
AUGGUGGCGGGUCUGUCCGGCCUACUGGCAGCCAUUAUCAUUCUGGCCGUGCUCGCCUCCAUGGUGGCCUGUCGCAAGCAGAAGAGGUAAGAGUUUCGUAUACAUA---AUGCAGU
(((((((((((....))).(((....))).)))))))).(((((.(((..((.((((.....))))))(((.(....))))....))).)))))...((((.....---))))... ( -37.50)
>consensus
AUGGUGGCCGGAUUGUCCGGCCUUUUGGCGGCCAUCAUCAUUCUGGCCGUCCUCGUGUCCAUGGUGGCCUGUCGCAAGCAGAAGAGGUAACAGCAU_AUAUACAUA_______ACU
(((((((((((.....)))(((....))).))))))))(((..(((.((......)).)))..)))..(((.(....))))................................... (-25.04 = -25.23 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:27 2006