Locus 3009

Sequence ID 2L_DroMel_CAF1
Location 8,591,921 – 8,592,033
Length 112
Max. P 0.981261
window4786 window4787

overview

Window 6

Location 8,591,921 – 8,592,033
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 71.90
Mean single sequence MFE -31.92
Consensus MFE -11.77
Energy contribution -13.63
Covariance contribution 1.86
Combinations/Pair 1.27
Mean z-score -2.55
Structure conservation index 0.37
SVM decision value 1.88
SVM RNA-class probability 0.981261
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8591921 112 + 22407834
CAGCCAUCAAAUUGAUGGAGAAAUCUAAAACGUUUCUUAGAAUUUAUAUGCCUGCAUAUAGACAUGUGCGUACGAGGA--------CGAGUAUAUGCGAAACGCUGUUAGAGCUGUUUAA
((((((((.....))))......(((((..((((((......((((((((....))))))))(((((((...((....--------)).))))))).))))))...)))))))))..... ( -31.30)
>DroSec_CAF1 27444 112 + 1
CAGCCAUCAAAUUGAUGGAGCGAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUGUGUGUACGAGUA--------CGAGUAUAUGCGAAACGCUGUUAGAGCUGUUUAA
...(((((.....)))))(((..(((((..((((((.((..(((..((..((((((((((....))))))))))..))--------..)))...)).))))))...))))))))...... ( -33.80)
>DroSim_CAF1 33052 112 + 1
CAGCCAUCAAAUUGAUGGAGCAAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUGUGUGUACGAGUA--------CGAGUAUAUGCGAAACGCUGUUAGAGCUCUUUAA
....((((.....))))((((..(((((..((((((.((..(((..((..((((((((((....))))))))))..))--------..)))...)).))))))...)))))))))..... ( -33.80)
>DroEre_CAF1 29130 120 + 1
CAGCCAUCAAAUUGAUAGACCCAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCACAUAGACAUCUGUGUGUGUGUAUAUGGGAAAUGGGAAAUGGGAAAUGCUGUUAGAGCUGUUUAA
((((.(((.....))).......(((((..(((((((((...((((((((((..(((((((....)))))))..))))))))))...)))))))))((.....)).)))))))))..... ( -37.80)
>DroYak_CAF1 29614 106 + 1
CAUCCAUCAAAUUGAUGGAGCCAUCUGAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUUUGUGUGCGAGUAUAUGGG--------------AAACGCUGCCAGAGCUGUUUAA
..((((((.....))))))((..((((..((((((((.......(((((((.(((((((((....))))))))).)))))))))--------------))))).)..))))))....... ( -32.71)
>DroAna_CAF1 28464 93 + 1
CUGGCAUUAAAUUGAUAAUGCAAUCUAUACAA------GGACAUCGUA-----UCAUCACGGGAUGUGUAUGUGUGGGCA----------------UGGAAUGCUUUCAGACCUCUUUAA
(((((((((......))))))...(((((((.------(.(((((.(.-----.......).))))).).)))))))(((----------------(...))))...))).......... ( -22.10)
>consensus
CAGCCAUCAAAUUGAUGGAGCAAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUGUGUGUACGAGUA________CGAGUAUAUGCGAAACGCUGUUAGAGCUGUUUAA
...(((((.....))))).....(((((..((((((.......(((((((....)))))))(((....)))..........................))))))...)))))......... (-11.77 = -13.63 +   1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,591,921 – 8,592,033
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 71.90
Mean single sequence MFE -23.32
Consensus MFE -9.66
Energy contribution -10.70
Covariance contribution 1.04
Combinations/Pair 1.39
Mean z-score -1.77
Structure conservation index 0.41
SVM decision value 0.03
SVM RNA-class probability 0.550662
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8591921 112 - 22407834
UUAAACAGCUCUAACAGCGUUUCGCAUAUACUCG--------UCCUCGUACGCACAUGUCUAUAUGCAGGCAUAUAAAUUCUAAGAAACGUUUUAGAUUUCUCCAUCAAUUUGAUGGCUG
.....(((((((((.((((((((((...(((...--------.....))).))..((((((......))))))...........)))))))))))))......((((.....)))))))) ( -27.30)
>DroSec_CAF1 27444 112 - 1
UUAAACAGCUCUAACAGCGUUUCGCAUAUACUCG--------UACUCGUACACACAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUCGCUCCAUCAAUUUGAUGGCUG
.....(((((((((.(((((((((((((((..((--------(............)))..))))))).......((.....)).)))))))))))))......((((.....)))))))) ( -25.20)
>DroSim_CAF1 33052 112 - 1
UUAAAGAGCUCUAACAGCGUUUCGCAUAUACUCG--------UACUCGUACACACAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUUGCUCCAUCAAUUUGAUGGCUG
.....(((((((((.(((((((((((((((..((--------(............)))..))))))).......((.....)).)))))))))))))..))))((((.....)))).... ( -25.90)
>DroEre_CAF1 29130 120 - 1
UUAAACAGCUCUAACAGCAUUUCCCAUUUCCCAUUUCCCAUAUACACACACACAGAUGUCUAUGUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUGGGUCUAUCAAUUUGAUGGCUG
..............((((..................((((....................((((((....))))))...(((((((....)))))))))))..((((.....)))))))) ( -21.10)
>DroYak_CAF1 29614 106 - 1
UUAAACAGCUCUGGCAGCGUUU--------------CCCAUAUACUCGCACACAAAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUCAGAUGGCUCCAUCAAUUUGAUGGAUG
.......(((((((.(((((((--------------(..........(((......)))...((((......))))........)))))))))))))..))((((((.....)))))).. ( -25.20)
>DroAna_CAF1 28464 93 - 1
UUAAAGAGGUCUGAAAGCAUUCCA----------------UGCCCACACAUACACAUCCCGUGAUGA-----UACGAUGUCC------UUGUAUAGAUUGCAUUAUCAAUUUAAUGCCAG
.......(((((....((((...)----------------))).....(((.(((.....))))))(-----(((((.....------)))))))))))((((((......))))))... ( -15.20)
>consensus
UUAAACAGCUCUAACAGCGUUUCGCAUAUACUCG________UACUCGCACACACAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUUGCUCCAUCAAUUUGAUGGCUG
.....(((((((((.((((((((........................(((......)))...((((......))))........)))))))))))))......((((.....)))))))) ( -9.66 = -10.70 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:02 2006