Locus 234

Sequence ID 3L_DroMel_CAF1
Location 640,108 – 640,228
Length 120
Max. P 0.564182
window347 window348

overview

Window 7

Location 640,108 – 640,228
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.17
Mean single sequence MFE -38.62
Consensus MFE -27.17
Energy contribution -26.65
Covariance contribution -0.52
Combinations/Pair 1.39
Mean z-score -1.71
Structure conservation index 0.70
SVM decision value 0.06
SVM RNA-class probability 0.564182
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 640108 120 + 23771897
CCUGAUGAAAGACGCCGAUAUACCGCCCGACGAAUUGCGUGGGCUAGGCAUACAUCUCACUAGGCUGGAGGAUGCCAACGAAGUUCGGAAGGAGAACAAUAUCAAGGAGAUGUUCGGCAA
.............(((((......((((.(((.....))))))).......(((((((.((.(((........)))......((((.......)))).......)))))))))))))).. ( -37.60)
>DroSec_CAF1 7395 120 + 1
CCUGAUGAAAGAAGCCGAUAUACCGCCCCACGAAUUGCGUGGGUUAGGCAUACACCUCACUAGGCUGGAGGAUGCCAGCGCAGUUCGGAAGGAGAACAUUAUCAAGCAGAUGUUCGGCAA
.............(((.........((...((((((((((......(((((...((((.(......)))))))))).))))))))))...)).(((((((........)))))))))).. ( -40.40)
>DroSim_CAF1 9890 120 + 1
CCUGAUGAGAGAAGCCGAUAUACCGCCCCACGAAUUGCGUGGGAUAGGCAUACACCUCACUAGGCUGGAGGAUGCCAGCGCAGUUCGGAAGGAGAACAUUAUCAAGCAGAUGUUCGGCAA
.............(((.......(((((((((.....))))))...(((((...((((.(......)))))))))).)))...(((....)))(((((((........)))))))))).. ( -40.60)
>DroEre_CAF1 10262 120 + 1
CCUGAUGAAAGAUGCCGAUCUACCGCCCCACGAGUUGCGAGGUAUUGGCAUACACCUCACUAAGCUGGAGGAUGCCAGCGAGAUUCGCAAGGAGAACAUCAUUAAGCAGAUGUUCGGCAA
...........((((((((((..(((..........))).)).))))))))...((((.(......))))).((((.(((.....))).....(((((((........))))))))))). ( -37.50)
>DroYak_CAF1 7557 120 + 1
CCUAAUGAAGGAAGCCGAUCUACCGCCACACGAGUUACGUGGCAUUGGCAUACACCUCACUAAGCUGGAGGAUGCCAGCGAGGUUCGGAAGGAGAACAUCAUCAAGCAGAUGUUCGGCAA
(((.....)))..(((......(((((((.........))))).(((((((...((((.(......))))))))))))...))(((....)))(((((((........)))))))))).. ( -41.70)
>DroAna_CAF1 7100 120 + 1
ACUAAUGAGGGAGGCCCAUUUGCCUCCGAAUGAACUGCGCGGAAUUGGGAUACACUUGAGUAAACUGGAAGACGUCAAUGUGGUGCGCAAGGAGAACAUUUUGAAAAAGAUGUUUGUCAA
.........((((((......))))))........((((((..((...(((....((.((....)).))....)))...))..)))))).(..(((((((((....)))))))))..).. ( -33.90)
>consensus
CCUGAUGAAAGAAGCCGAUAUACCGCCCCACGAAUUGCGUGGGAUAGGCAUACACCUCACUAAGCUGGAGGAUGCCAGCGAAGUUCGGAAGGAGAACAUUAUCAAGCAGAUGUUCGGCAA
.............(((.........((...((((((.(((......(((((...((((.(......)))))))))).))).))))))...)).(((((((........)))))))))).. (-27.17 = -26.65 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 640,108 – 640,228
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.17
Mean single sequence MFE -38.58
Consensus MFE -24.24
Energy contribution -25.60
Covariance contribution 1.36
Combinations/Pair 1.20
Mean z-score -2.05
Structure conservation index 0.63
SVM decision value -0.03
SVM RNA-class probability 0.517654
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 640108 120 - 23771897
UUGCCGAACAUCUCCUUGAUAUUGUUCUCCUUCCGAACUUCGUUGGCAUCCUCCAGCCUAGUGAGAUGUAUGCCUAGCCCACGCAAUUCGUCGGGCGGUAUAUCGGCGUCUUUCAUCAGG
..((((((((((((((.(.....((((.......))))...(((((......)))))).)).)))))))(((((..(((((((.....))).))))))))).)))))............. ( -39.50)
>DroSec_CAF1 7395 120 - 1
UUGCCGAACAUCUGCUUGAUAAUGUUCUCCUUCCGAACUGCGCUGGCAUCCUCCAGCCUAGUGAGGUGUAUGCCUAACCCACGCAAUUCGUGGGGCGGUAUAUCGGCUUCUUUCAUCAGG
..((((((((((((((.(.....((((.......))))...(((((......)))))).))).))))))(((((...((((((.....))))))..))))).)))))............. ( -40.60)
>DroSim_CAF1 9890 120 - 1
UUGCCGAACAUCUGCUUGAUAAUGUUCUCCUUCCGAACUGCGCUGGCAUCCUCCAGCCUAGUGAGGUGUAUGCCUAUCCCACGCAAUUCGUGGGGCGGUAUAUCGGCUUCUCUCAUCAGG
..((((((((((((((.(.....((((.......))))...(((((......)))))).))).))))))(((((..(((((((.....))))))).))))).)))))............. ( -40.00)
>DroEre_CAF1 10262 120 - 1
UUGCCGAACAUCUGCUUAAUGAUGUUCUCCUUGCGAAUCUCGCUGGCAUCCUCCAGCUUAGUGAGGUGUAUGCCAAUACCUCGCAACUCGUGGGGCGGUAGAUCGGCAUCUUUCAUCAGG
.(((((((((((........))))))).(((..(((.....(((((......)))))...(((((((((......)))))))))...)))..))).........))))............ ( -46.70)
>DroYak_CAF1 7557 120 - 1
UUGCCGAACAUCUGCUUGAUGAUGUUCUCCUUCCGAACCUCGCUGGCAUCCUCCAGCUUAGUGAGGUGUAUGCCAAUGCCACGUAACUCGUGUGGCGGUAGAUCGGCUUCCUUCAUUAGG
..((((((((((........)))))))..((.((..(((((((((((........)).)))))))))....((((....((((.....)))))))))).))...)))..(((.....))) ( -42.20)
>DroAna_CAF1 7100 120 - 1
UUGACAAACAUCUUUUUCAAAAUGUUCUCCUUGCGCACCACAUUGACGUCUUCCAGUUUACUCAAGUGUAUCCCAAUUCCGCGCAGUUCAUUCGGAGGCAAAUGGGCCUCCCUCAUUAGU
((((.(((....))).))))((((......((((((.....((((........)))).(((......)))..........)))))).......((((((......))))))..))))... ( -22.50)
>consensus
UUGCCGAACAUCUGCUUGAUAAUGUUCUCCUUCCGAACCUCGCUGGCAUCCUCCAGCCUAGUGAGGUGUAUGCCAAUCCCACGCAAUUCGUGGGGCGGUAUAUCGGCUUCUUUCAUCAGG
..(((((((((((..........((((.......))))...(((((......)))))......)))))).((((...((((((.....))))))..))))..)))))............. (-24.24 = -25.60 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:01 2006