Locus 4275

Sequence ID 2L_DroMel_CAF1
Location 12,220,038 – 12,220,141
Length 103
Max. P 0.985465
window6742 window6743

overview

Window 2

Location 12,220,038 – 12,220,141
Length 103
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 58.89
Mean single sequence MFE -31.91
Consensus MFE -13.06
Energy contribution -14.07
Covariance contribution 1.01
Combinations/Pair 1.22
Mean z-score -1.99
Structure conservation index 0.41
SVM decision value 0.53
SVM RNA-class probability 0.772448
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12220038 103 + 22407834
U--CCCCUGCGUUC-CCCCAUUUCGGAU---GGAAUAUA-UAUACAAACAAGCAAAAGUUUGUA-AACAAAAAUUGUGUUAAA--GGCCAG-----ACUCUCCGCUGGGGGAGGU--GGG
.--..((..(.(((-(((((...(((((---((......-.((((((((((((....)))))).-........))))))....--..))).-----....)))).))))))))).--.)) ( -33.52)
>DroPse_CAF1 69241 118 + 1
UAACCCCUUCGUACGCUCCAUCUCUGGUUUGGGGAUAGAGAAUACAAACAAGCAAAAGUUUGCAAAACAAAAAUUCAGUUAAGAGGGGCAGGAGAUAGAGCGCGCUGGGGGGAGG--GGC
...(((((..(..(((((.((((((.(((((.............)))))..((((....))))...........................)))))).)))))..)..)))))...--... ( -36.82)
>DroMoj_CAF1 54157 93 + 1
U--CUGCUGCCAGC-AAACGCUUCGCAC---------AA-UACACAAACAAGUAAAAGUUUGUA-AACAAAAAUUG--UUGA------CGG-----GGUCUCGGCUGCGGGUGGCGUAGG
.--..((..((.((-(..((((((((..---------..-...((((((........)))))).-((((.....))--))).------)))-----))...))..))).))..))..... ( -25.40)
>consensus
U__CCCCUGCGUAC_CACCAUUUCGGAU___GG_AUAAA_UAUACAAACAAGCAAAAGUUUGUA_AACAAAAAUUG_GUUAA___GG_CAG_____AGUCUCCGCUGGGGGAGGC__GGG
...((((.(((........(((((.......))))).......((((((........)))))).......................................))).)))).......... (-13.06 = -14.07 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 12,220,038 – 12,220,141
Length 103
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 58.89
Mean single sequence MFE -28.87
Consensus MFE -14.06
Energy contribution -13.07
Covariance contribution -0.99
Combinations/Pair 1.35
Mean z-score -1.95
Structure conservation index 0.49
SVM decision value 2.01
SVM RNA-class probability 0.985465
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12220038 103 - 22407834
CCC--ACCUCCCCCAGCGGAGAGU-----CUGGCC--UUUAACACAAUUUUUGUU-UACAAACUUUUGCUUGUUUGUAUA-UAUAUUCC---AUCCGAAAUGGGG-GAACGCAGGGG--A
(((--...(((((((.((((((((-----.((...--.....)).......(((.-(((((((........))))))).)-)).)))).---.))))...)))))-))......)))--. ( -31.30)
>DroPse_CAF1 69241 118 - 1
GCC--CCUCCCCCCAGCGCGCUCUAUCUCCUGCCCCUCUUAACUGAAUUUUUGUUUUGCAAACUUUUGCUUGUUUGUAUUCUCUAUCCCCAAACCAGAGAUGGAGCGUACGAAGGGGUUA
...--...((((...(..(((((((((((.((....((......))..........(((((((........)))))))................)))))))))))))..)...))))... ( -35.20)
>DroMoj_CAF1 54157 93 - 1
CCUACGCCACCCGCAGCCGAGACC-----CCG------UCAA--CAAUUUUUGUU-UACAAACUUUUACUUGUUUGUGUA-UU---------GUGCGAAGCGUUU-GCUGGCAGCAG--A
.....((..((.((((.((.(((.-----..)------))..--....((((((.-(((((((........)))))))..-..---------..)))))))).))-)).))..))..--. ( -20.10)
>consensus
CCC__ACCACCCCCAGCGGAGACU_____CUG_CC___UUAAC_CAAUUUUUGUU_UACAAACUUUUGCUUGUUUGUAUA_UAUAU_CC___AUCCGAAAUGGAG_GAACGCAGGGG__A
..........((((.(((......................................(((((((........)))))))................(((...)))......))).))))... (-14.06 = -13.07 +  -0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:57 2006