Locus 3839

Sequence ID	2L_DroMel_CAF1
Location	11,230,165 – 11,230,280
Length	115
Max. P	0.997328

overview

Window 9

Location	11,230,165 – 11,230,280
Length	115
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	72.19
Mean single sequence MFE	-34.21
Consensus MFE	-15.33
Energy contribution	-15.92
Covariance contribution	0.59
Combinations/Pair	1.23
Mean z-score	-2.85
Structure conservation index	0.45
SVM decision value	2.84
SVM RNA-class probability	0.997328
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11230165 115 + 22407834
AACUAUCAACAAGCGGCAACAAUAGCAACCUCAGGCUAAUUGCGGCCCAUUGAGAUGGCUAUCGGCUAGUGGACUCGCCCCAUUAAGAGAGCCAUUUUGCUGAAGUUGAAAAUUA
.....(((((.((((((..(((((((........))).))))..)))....(((((((((.((...((((((.......)))))).)).))))))))))))...)))))...... ( -38.20)
>DroPse_CAF1 119922 88 + 1
-----------------------UCCAGCUCCGGGCUAAUUGCGGCCCAUUGAGAUGGCUAUCAG----CGGACUCGCCCCAUUAAGAGAGCCAUUUCGUCUAAGUUGGAAAUUA
-----------------------(((((((..(((((......)))))...(((((((((.((.(----((....)))........)).))))))))).....)))))))..... ( -32.30)
>DroWil_CAF1 88055 101 + 1
AUGGACCAACU-----CAA----AGAAAC---CAACUAAUUGCGGCCCAUUCAGAUGCCUAUCUGU--ACCGACCCGCCCCAUUAAGAGCGUCAUUUGGUUUAAGUUGGAAAUUA
.....((((((-----...----..((((---(((......((((......(((((....))))).--......))))........(.....)..))))))).))))))...... ( -21.82)
>DroYak_CAF1 65707 115 + 1
AACUAUCAACUAGCGGCAACAAUAGCCACCUCGGGCUAAUUGCGGCCCAUUGAGAUGGCUAUCGGCUAGUGGACUCGCCCCAUUAAGAGAGCCAUUUUGGUGAAGUUGGAAAUUA
.....((((((...(((..((((((((......)))).))))..)))(((..((((((((.((...((((((.......)))))).)).))))))))..))).))))))...... ( -44.60)
>DroAna_CAF1 57734 110 + 1
AACUACCAACC-----CAGCCACAACAACUCCCAGCUAAUUGCGGCCCAUUGAGAUGGCUAUCUGCGAGUUGACUCGACCCAUUAAGAGGGCCAUUUCAGCGGAGUUGGAAAUUA
.....((((((-----(.(((.(((..............))).)))...(((((((((((.(((.((((....))))........))).))))))))))).)).)))))...... ( -36.04)
>DroPer_CAF1 83537 88 + 1
-----------------------UCCAGCUCCGGGCUAAUUGCGGCCCAUUGAGAUGGCUAUCAG----CGGACUCGCCCCAUUAAGAGAGCCAUUUCGUCUAAGUUGGAAAUUA
-----------------------(((((((..(((((......)))))...(((((((((.((.(----((....)))........)).))))))))).....)))))))..... ( -32.30)
>consensus
AACUA_CAAC______CAA____AGCAACUCCGGGCUAAUUGCGGCCCAUUGAGAUGGCUAUCAGC__GCGGACUCGCCCCAUUAAGAGAGCCAUUUCGUCGAAGUUGGAAAUUA
.........................((((....((((......))))...((((((((((.((.......((......))......)).)))))))))).....))))....... (-15.33 = -15.92 +   0.59)

alignment

secondary structure

dotplot

Window 0

Location	11,230,165 – 11,230,280
Length	115
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	72.19
Mean single sequence MFE	-34.67
Consensus MFE	-13.65
Energy contribution	-14.60
Covariance contribution	0.95
Combinations/Pair	1.29
Mean z-score	-2.27
Structure conservation index	0.39
SVM decision value	1.32
SVM RNA-class probability	0.941455
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11230165 115 - 22407834
UAAUUUUCAACUUCAGCAAAAUGGCUCUCUUAAUGGGGCGAGUCCACUAGCCGAUAGCCAUCUCAAUGGGCCGCAAUUAGCCUGAGGUUGCUAUUGUUGCCGCUUGUUGAUAGUU
........(((((((((((..((((...........(((.((....)).)))((((((.((((((...(((........))))))))).))))))...)))).))))))).)))) ( -35.80)
>DroPse_CAF1 119922 88 - 1
UAAUUUCCAACUUAGACGAAAUGGCUCUCUUAAUGGGGCGAGUCCG----CUGAUAGCCAUCUCAAUGGGCCGCAAUUAGCCCGGAGCUGGA-----------------------
.....((((.(((....((.(((((((((.....)))(((....))----)....)))))).))..(((((........)))))))).))))----------------------- ( -27.40)
>DroWil_CAF1 88055 101 - 1
UAAUUUCCAACUUAAACCAAAUGACGCUCUUAAUGGGGCGGGUCGGU--ACAGAUAGGCAUCUGAAUGGGCCGCAAUUAGUUG---GUUUCU----UUG-----AGUUGGUCCAU
......((((((((((((((.(((((((((....))))))((((.((--.(((((....))))).)).))))....))).)))---))....----)))-----))))))..... ( -35.90)
>DroYak_CAF1 65707 115 - 1
UAAUUUCCAACUUCACCAAAAUGGCUCUCUUAAUGGGGCGAGUCCACUAGCCGAUAGCCAUCUCAAUGGGCCGCAAUUAGCCCGAGGUGGCUAUUGUUGCCGCUAGUUGAUAGUU
........(((((((.......(((((.(((....))).))))).(((((((((((((((((((...((((........))))))))))))))))).....))))))))).)))) ( -41.70)
>DroAna_CAF1 57734 110 - 1
UAAUUUCCAACUCCGCUGAAAUGGCCCUCUUAAUGGGUCGAGUCAACUCGCAGAUAGCCAUCUCAAUGGGCCGCAAUUAGCUGGGAGUUGUUGUGGCUG-----GGUUGGUAGUU
.((((.(((((((((.(((.(((((((.......))(.((((....))))).....))))).))).))(((((((((.(((.....)))))))))))))-----)))))).)))) ( -39.80)
>DroPer_CAF1 83537 88 - 1
UAAUUUCCAACUUAGACGAAAUGGCUCUCUUAAUGGGGCGAGUCCG----CUGAUAGCCAUCUCAAUGGGCCGCAAUUAGCCCGGAGCUGGA-----------------------
.....((((.(((....((.(((((((((.....)))(((....))----)....)))))).))..(((((........)))))))).))))----------------------- ( -27.40)
>consensus
UAAUUUCCAACUUAAACGAAAUGGCUCUCUUAAUGGGGCGAGUCCAC__GCAGAUAGCCAUCUCAAUGGGCCGCAAUUAGCCCGGAGUUGCU____UUG______GUUG_UAGUU
.......((((((....((.(((((.(((.....)))....(((........))).))))).))..(((((........)))))))))))......................... (-13.65 = -14.60 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:42 2006