Locus 9361

Sequence ID 3R_DroMel_CAF1
Location 24,891,613 – 24,891,718
Length 105
Max. P 0.923281
window14985 window14986

overview

Window 5

Location 24,891,613 – 24,891,718
Length 105
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 96.92
Mean single sequence MFE -22.68
Consensus MFE -19.56
Energy contribution -20.40
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -1.61
Structure conservation index 0.86
SVM decision value 0.75
SVM RNA-class probability 0.841216
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24891613 105 + 27905053
AAAACGUGCCAGCAAAUUGAAUGAAUAAGCGUGGCUAUUCCACUGCAAGUGCAUUUACAACAAUUGCAGGGUAUUGCCAGAAAUU--AGCCACAGUCAAAUAAAUAA
...........((..(((.....)))..))((((((((((..((((((.((......))....))))))((.....)).)))..)--)))))).............. ( -22.00)
>DroSec_CAF1 4681 107 + 1
AAAACGUGCCAGCAAAUUGAAUGAAUAAGCGUGGCUAUUCCACGGCAAGUGCAUUUACAACAAUUGCAGGGUAUUGCCAGAAACUAUAGCCACAGCCAAAUAAAUAA
.....(.((..((..(((.....)))..))((((((((.....(((((.((((...........)))).....))))).......)))))))).))).......... ( -23.00)
>DroSim_CAF1 4186 107 + 1
AAAACGUGCCAGCAAAUUGAAUGAAUAAGCGUGGCUAUUCCACGGCAAGUGCAUUUACAACAAUUGCAGGGUAUUGCCAGAAACUAUAGCCACAGCCAAAUAAAUAA
.....(.((..((..(((.....)))..))((((((((.....(((((.((((...........)))).....))))).......)))))))).))).......... ( -23.00)
>DroEre_CAF1 4657 107 + 1
AAAACGUGCCAGCAAAUUGAAUGAAUAAGCGUGGCUAUUCCACUGCAAGUGCAUUGACAACAAUUGCAGGGUAUUGCCAGAAACUAAAGCCACAGCCAAAUAAAUAA
.....(.((..((..(((.....)))..))((((((......((((((.((......))....))))))((.....)).........)))))).))).......... ( -22.00)
>DroYak_CAF1 4720 107 + 1
AAAACGUGCCAGCAAAUUGAAUGAAUAAGCGUGGCUAUUCCGCUGCAAGUGCAUUUACAACAAUUGCAGGGUAUUGCCAGAAACUAUAGCCACAGCCAAAUAAAUAA
.....(.((..((..(((.....)))..))((((((((....((((((.((......))....))))))((.....)).......)))))))).))).......... ( -23.40)
>consensus
AAAACGUGCCAGCAAAUUGAAUGAAUAAGCGUGGCUAUUCCACUGCAAGUGCAUUUACAACAAUUGCAGGGUAUUGCCAGAAACUAUAGCCACAGCCAAAUAAAUAA
.....(.((..((..(((.....)))..))((((((((....((((((.((......))....))))))((.....)).......)))))))).))).......... (-19.56 = -20.40 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 24,891,613 – 24,891,718
Length 105
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 96.92
Mean single sequence MFE -26.42
Consensus MFE -23.06
Energy contribution -24.46
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.87
SVM decision value 1.15
SVM RNA-class probability 0.923281
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24891613 105 - 27905053
UUAUUUAUUUGACUGUGGCU--AAUUUCUGGCAAUACCCUGCAAUUGUUGUAAAUGCACUUGCAGUGGAAUAGCCACGCUUAUUCAUUCAAUUUGCUGGCACGUUUU
..........(((.(((.(.--......((((.((.((((((((.(((.......))).)))))).)).)).)))).((..(((.....)))..)).).)))))).. ( -25.00)
>DroSec_CAF1 4681 107 - 1
UUAUUUAUUUGGCUGUGGCUAUAGUUUCUGGCAAUACCCUGCAAUUGUUGUAAAUGCACUUGCCGUGGAAUAGCCACGCUUAUUCAUUCAAUUUGCUGGCACGUUUU
...........(((((((((((...(((((((((.....((((.((......)))))).)))))).)))))))))))((..(((.....)))..)).)))....... ( -25.70)
>DroSim_CAF1 4186 107 - 1
UUAUUUAUUUGGCUGUGGCUAUAGUUUCUGGCAAUACCCUGCAAUUGUUGUAAAUGCACUUGCCGUGGAAUAGCCACGCUUAUUCAUUCAAUUUGCUGGCACGUUUU
...........(((((((((((...(((((((((.....((((.((......)))))).)))))).)))))))))))((..(((.....)))..)).)))....... ( -25.70)
>DroEre_CAF1 4657 107 - 1
UUAUUUAUUUGGCUGUGGCUUUAGUUUCUGGCAAUACCCUGCAAUUGUUGUCAAUGCACUUGCAGUGGAAUAGCCACGCUUAUUCAUUCAAUUUGCUGGCACGUUUU
...........(((((((((...((.....))....((((((((.(((.......))).)))))).))...))))))((..(((.....)))..)).)))....... ( -26.30)
>DroYak_CAF1 4720 107 - 1
UUAUUUAUUUGGCUGUGGCUAUAGUUUCUGGCAAUACCCUGCAAUUGUUGUAAAUGCACUUGCAGCGGAAUAGCCACGCUUAUUCAUUCAAUUUGCUGGCACGUUUU
...........(((((((((((.((.....))....((((((((.(((.......))).)))))).)).))))))))((..(((.....)))..)).)))....... ( -29.40)
>consensus
UUAUUUAUUUGGCUGUGGCUAUAGUUUCUGGCAAUACCCUGCAAUUGUUGUAAAUGCACUUGCAGUGGAAUAGCCACGCUUAUUCAUUCAAUUUGCUGGCACGUUUU
...........(((((((((((.((.....))....((((((((.(((.......))).)))))).)).))))))))((..(((.....)))..)).)))....... (-23.06 = -24.46 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:32:44 2006