Locus 3402

Sequence ID 2R_DroMel_CAF1
Location 11,517,027 – 11,517,147
Length 120
Max. P 0.645993
window5556

overview

Window 6

Location 11,517,027 – 11,517,147
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.50
Mean single sequence MFE -37.85
Consensus MFE -21.74
Energy contribution -22.30
Covariance contribution 0.56
Combinations/Pair 1.42
Mean z-score -1.71
Structure conservation index 0.57
SVM decision value 0.23
SVM RNA-class probability 0.645993
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11517027 120 + 20766785
AUUCAAUCAACACUCCAAUCGAACGCUCCAGCUGAACGCGGUGGCCGGACCAAGUCCGGCGUUCUACAGCAGCUUCCUGGGCACGAGAGAGGUGCCGCCGCAAGGCAAUACAACUUUCAA
........................((((.(((((...(..(..(((((((...)))))))...)..)..)))))....))))..(((((..(((..(((....)))..)))..))))).. ( -40.60)
>DroVir_CAF1 281 120 + 1
GUUUAAUCAGCACACAAAUCGCACUGUCCAUCUAAACUCUGUCGCUGGGCCAAGCCCAGUGUUCUACAGCAGUUUCUUUGGCACGCGCGAGGUGCCGCCGCAAGGCAAUACCACAUUUAG
.........((((.....((((.(((.(((...(((((((((((((((((...))))))))....)))).)))))...))))).).)))).)))).(((....))).............. ( -45.20)
>DroGri_CAF1 192 120 + 1
CUUCAAUCACCACACAAAUCGCACCGUUCACCUAAAUUCAGUGGCCGGACCCGAGCCGGUCUUCUACAGCAGUUUCUUUGGCACACGCGAAGUGCCGCCGCAAGGCAACACCACAUUCAG
..................((((.(((..(((.........)))..)))......(((((....((.....)).....)))))....)))).(((..(((....)))..)))......... ( -29.10)
>DroWil_CAF1 294 120 + 1
UAUCAAUCAGCAUAUGAAUCGCACAGUUCAGUUGAAUUCCGUUGCCGGACCAAGUCCGGAUUUCUAUAGUAGUUUCUUUGGAACGCGCGAAGUGCCGCCGCAGGGAAAUACAACAUUUAG
......(((((...(((((......)))))))))).....((((((((((...))))))((((((......((((.....))))(((((......)).)))..)))))).))))...... ( -31.10)
>DroMoj_CAF1 273 120 + 1
GUUUAAUCAGCACACGAAUCGCACCGUACAUCUGAACUCAGUCACUGGGCCAAGCCCAGUGUUCUACAGCAGUUUUUUUGGUACGCGCGAGGUGCCGCCCCAAGGUAAUACCACAUUUAG
.........((((.....((((..(((((....((((((((.((((((((...))))))))..))...).))))).....))))).)))).)))).(((....))).............. ( -35.30)
>DroPer_CAF1 290 120 + 1
GUUUAACCAGCACACGAAUCGCACUCUUCAAUUGAACUCUGUGGUGGGGCCCAGUCCGGCCUUCUACAGCAGUUUCUUUGGAACGCGCGAGGUGCCGCCGCUGGGGAACACCACAUUCAG
((((..(((((.......((((.(..(((((..(((((((((((.((((((......)))))))))))).)))))..)))))..).))))((.....))))))).))))........... ( -45.80)
>consensus
GUUCAAUCAGCACACGAAUCGCACCGUUCAGCUGAACUCAGUGGCCGGACCAAGUCCGGUGUUCUACAGCAGUUUCUUUGGCACGCGCGAGGUGCCGCCGCAAGGCAAUACCACAUUCAG
.........((((.....((((.(...(((...((((((.((((((((((...))))))))....)).).)))))...)))...).)))).)))).(((....))).............. (-21.74 = -22.30 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:38 2006