Locus 6162

Sequence ID 2L_DroMel_CAF1
Location 17,167,380 – 17,167,563
Length 183
Max. P 0.585249
window9848 window9849

overview

Window 8

Location 17,167,380 – 17,167,485
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 69.73
Mean single sequence MFE -28.07
Consensus MFE -16.72
Energy contribution -17.00
Covariance contribution 0.28
Combinations/Pair 1.17
Mean z-score -1.21
Structure conservation index 0.60
SVM decision value 0.10
SVM RNA-class probability 0.585249
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17167380 105 - 22407834
CGCCGUGUCUCCUCGAUUUGGCUGCCCACAGUUCUGUGGUGCAAGAGUUCAGCUGUGAAUAUCACCUGGUCAUACAUCUGACUUAAACU---------------AGGAUGUGUAAGUUCU
.((((.(((.....))).))))((((((((....))))).)))((((..(((..(((.....))))))..)((((((((..........---------------.))))))))....))) ( -30.00)
>DroSec_CAF1 12925 104 - 1
CGCCGUGUCUCCUCGAUUUGGCUGCCCACAGUUCUGUGGUGCAAGAGUUCACAUGUGAAUAUCACCUGGUCAUACAUCCUAAUUA-ACU---------------GCGAUGUGUACGUUCU
.((((.(((.....))).))))((((((((....))))).)))((((....((.(((.....))).))((.((((((((......-...---------------).))))))))).)))) ( -29.10)
>DroSim_CAF1 12884 105 - 1
CGCCGUGUCUCCUCGAUUUGGCUGCCCACAGUUCUGUGGUGCAAGAGUUCACAUGUGAAUAUCACCUGGUCAUACAUCCUAAUUAUACU---------------GCGAUGUGUACGUUCU
.((((.(((.....))).))))((((((((....))))).)))((((....((.(((.....))).))((.((((((((..........---------------).))))))))).)))) ( -29.00)
>DroEre_CAF1 13108 102 - 1
CGCCGUGUCUCCUUGAUUCGGCUGCCCACAGAUCUGUGGUGCAACAGCUCAGCUGUGAAUAUCACCUGGUCAUAUACCUUCAUUACAGUUUUUAACGAACUA------------------
.((((.(((.....))).))))((((((((....))))).)))(((((...)))))...........(((.....)))........(((((.....))))).------------------ ( -27.60)
>DroYak_CAF1 13826 115 - 1
CGCCGUGUCUCCUUGAUUUGGUUGCCCACAGAUCUGUGGUGCAAAAGCUGUUCUGUGAAUAUCACCUGGUCAUAAACCUUCAUUAUAUU-----GCAAAAUAUUGGAAUGUGUACGUUCA
.((((.(((.....))).))))((((((((....))))).)))...((.((...(((((........(((.....))))))))...)).-----)).........(((((....))))). ( -25.80)
>DroAna_CAF1 80409 97 - 1
UCUCGAGUUGCCUGGAUCUGUUGGCCCACACAUCGGUGGUGCAACAGCUGGUCGGUGAAGAUCACCUCCUCGUAACCUUUCAUG-----------------------CUUUAAAUAUUUU
......(((((..(((.((((((..((((......))))..))))))......((((.....)))))))..)))))........-----------------------............. ( -26.90)
>consensus
CGCCGUGUCUCCUCGAUUUGGCUGCCCACAGAUCUGUGGUGCAAGAGCUCACCUGUGAAUAUCACCUGGUCAUACACCUUAAUUA_ACU_______________G_GAUGUGUACGUUCU
.((((.(((.....))).))))((((((((....))))).)))...........(((.....)))....................................................... (-16.72 = -17.00 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,167,445 – 17,167,563
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.44
Mean single sequence MFE -43.28
Consensus MFE -29.05
Energy contribution -30.47
Covariance contribution 1.42
Combinations/Pair 1.17
Mean z-score -2.33
Structure conservation index 0.67
SVM decision value -0.04
SVM RNA-class probability 0.513326
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17167445 118 + 22407834
ACCACAGAACUGUGGGCAGCCAAAUCGAGGAGACACGGCGCCAUUGGGA--GGAGCGGUGCUCUUGGUUUCCGGCUGCCCAAAGGAAUAUGGCAUCAAGGUGUUCAGAAAUUUACAAGGA
.((......((.(((((((((((((((((.((.(((.((.((.......--)).)).)))))))))))))..))))))))).))((((.((((((....))).)))...))))....)). ( -44.80)
>DroSec_CAF1 12989 118 + 1
ACCACAGAACUGUGGGCAGCCAAAUCGAGGAGACACGGCGCACUUGGGA--GGAGCGGUGCUCUUGGUUUCCGGCUGCCCAAAGGAAUUUGGCAGCAAGGUGUUCCGAAAUUUACAAGGA
.((......((.(((((((((((((((((.((.(((.((...((....)--)..)).)))))))))))))..))))))))).))...(((((.(((.....))))))))........)). ( -45.30)
>DroSim_CAF1 12949 118 + 1
ACCACAGAACUGUGGGCAGCCAAAUCGAGGAGACACGGCGCACUUGGGA--GGAGCGGUGCUCUUGGUUUCCGGCUGCCCAAAGGAAUUUGGCAGCAAGGUGUUCCGAAAUUUACAAGGA
.((......((.(((((((((((((((((.((.(((.((...((....)--)..)).)))))))))))))..))))))))).))...(((((.(((.....))))))))........)). ( -45.30)
>DroEre_CAF1 13170 118 + 1
ACCACAGAUCUGUGGGCAGCCGAAUCAAGGAGACACGGCGCCAUUGGGA--GGAGCGGUGCUCCUGGUUUCCGGCUGCCCAAAGGAAUUUGGAAGCAAGGUGUUCUGAAAUUUACAAGGA
....(((((((.(((((((((((((((.((((.(((.((.((.......--)).)).))))))))))))..)))))))))).)))..((((....))))....))))............. ( -49.70)
>DroYak_CAF1 13901 118 + 1
ACCACAGAUCUGUGGGCAACCAAAUCAAGGAGACACGGCGCCAUUGGGA--GGAGCGGUGCUCUUGGUUUCCGGCUGCCCAAAGGUAUUUGGAAGCAAGGUGUUCUGAAAUUUACAAGGA
.((....((((.((((((.((((((((((.((.(((.((.((.......--)).)).)))))))))))))..)).)))))).)))).((..(((........)))..))........)). ( -40.30)
>DroAna_CAF1 80466 118 + 1
ACCACCGAUGUGUGGGCCAACAGAUCCAGGCAACUCGAGAAGCCUGGGAAAGAAACUGUG--CGUGGUUUCCAGUUGCUCAAAGGAAAAUGUAUGCCAGGUACCCGGAGAUCUAUGAAGA
..((..(((.(.((((........(((((((..(....)..))))))).......(((.(--((((.(((((...........)))))...))))))))...)))).).)))..)).... ( -34.30)
>consensus
ACCACAGAACUGUGGGCAGCCAAAUCGAGGAGACACGGCGCCAUUGGGA__GGAGCGGUGCUCUUGGUUUCCGGCUGCCCAAAGGAAUUUGGAAGCAAGGUGUUCCGAAAUUUACAAGGA
.(((.....((.((((((((((((((.(((((.(((.((.(...........).)).)))))))))))))..))))))))).)).....)))............................ (-29.05 = -30.47 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:05 2006