Locus 738

Sequence ID 3L_DroMel_CAF1
Location 2,225,781 – 2,225,919
Length 138
Max. P 0.711939
window1128 window1129

overview

Window 8

Location 2,225,781 – 2,225,879
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 81.27
Mean single sequence MFE -27.17
Consensus MFE -14.41
Energy contribution -15.17
Covariance contribution 0.75
Combinations/Pair 1.30
Mean z-score -2.49
Structure conservation index 0.53
SVM decision value 0.38
SVM RNA-class probability 0.711939
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2225781 98 + 23771897
GUUCAUUGCCAAAGUGGAUUACAAGUAACUACAGUGAACUCACCUCUUACGAGAAUCGC-UUACUCACACAUAAU-UCAU-UUGGCAGCUGGAAACGGCAG
......(((((((.(((((((...((((.....(((....)))...))))(((......-...))).....))))-))))-))))))((((....)))).. ( -27.30)
>DroVir_CAF1 6461 96 + 1
GUUCAUAGCCAAAGUGGAUUACAAGUAAGUCGUUU-AGCAUCUAUGUUC--AGAUUUGCCUGUCUAAAA-GCAACAGCAA-UUGGCAGCUGGAAGCGGCAA
.......(((((..(((((.....(((((((....-((((....)))).--.)))))))..)))))...-((....))..-))))).((((....)))).. ( -24.70)
>DroSec_CAF1 6718 96 + 1
GUUCAUUGCCAAAGUGGAUUACAAGUAACUA-AGUGAACUUACCUCUUACGAGAAUCGC--UACUCACACACAAU-UAAU-UUGGCAGCUGGAAACGGCAG
......(((((((...((((....((((.((-((....))))....))))(((......--..)))......)))-)..)-))))))((((....)))).. ( -25.20)
>DroSim_CAF1 6814 97 + 1
GUUCAUUGCCAAAGUGGAUUACAAGUAACUACAGUGAACUUACCUCUUACGAGAAUCGC--UACUCACACACAAU-UAAU-UUGGCAGCUGGAAACGGCAG
......(((((((((((.(((....)))))))(((((......(((....)))..))))--).............-...)-))))))((((....)))).. ( -25.70)
>DroEre_CAF1 14511 98 + 1
GUUCAUUGCCAAAGUGGAUUACAAGUAAUUACAGUGGACUUACCUCUUGCGAGAAGCAC--UGCUCAUACACUAU-UUAUUUUGGCAGCUGGAAACGGCAG
......(((((((((((((.....(((....(((((..(((..(((....)))))))))--))....)))...))-)))))))))))((((....)))).. ( -30.60)
>DroYak_CAF1 6976 97 + 1
GUUCAUUGCCAAAGUGGAUUACAAGUAAUAACUGCAAACUUAGCUCUUGCAAGAAGCGU--UAUUCACACAUUAU-UCAU-UUGGCAGCUGGAAACGGCAG
......(((((((.(((((.....((((((((.((...(((.((....)))))..))))--)))).)).....))-))))-))))))((((....)))).. ( -29.50)
>consensus
GUUCAUUGCCAAAGUGGAUUACAAGUAACUACAGUGAACUUACCUCUUACGAGAAUCGC__UACUCACACACAAU_UCAU_UUGGCAGCUGGAAACGGCAG
......((((((.(((.................((((.........))))(((..........)))...........))).))))))((((....)))).. (-14.41 = -15.17 +   0.75)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,225,815 – 2,225,919
Length 104
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 80.69
Mean single sequence MFE -25.22
Consensus MFE -16.16
Energy contribution -16.50
Covariance contribution 0.34
Combinations/Pair 1.28
Mean z-score -1.41
Structure conservation index 0.64
SVM decision value -0.03
SVM RNA-class probability 0.515811
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2225815 104 + 23771897
UGAACUCACCUCUUACGAGAAUCGC-UUACUCACACAUAAU-UCAU-UUGGCAGCUGGAAACGGCAGCUAAUUAAGAAGCAGGAGGACGCCCUGAUCACCAAUGACA
........((((((.((((......-...)))........(-((..-(((((.((((....)))).)))))....)))).))))))..................... ( -23.40)
>DroGri_CAF1 6508 102 + 1
C-AGCUUUCAAACCC--GGAUUUUCCCCACUAAAA-UCAACAGCUU-UUGGCAGCUGGAAGCGGCAACUGAUGCAGAAACAGGAUGAUGCCCUCAUCACCAAUGACA
.-.((..(((...((--(((((((.......))))-))..(((((.-.....)))))....)))....))).)).......((.(((((....)))))))....... ( -21.40)
>DroSec_CAF1 6751 103 + 1
UGAACUUACCUCUUACGAGAAUCGC--UACUCACACACAAU-UAAU-UUGGCAGCUGGAAACGGCAGCUAAUUAAGAAACAGGAGGACGCCCUCAUCACCAAUGACA
........((((((..(((......--..)))........(-((((-(.(((.((((....)))).))))))))).....))))))......((((.....)))).. ( -24.30)
>DroSim_CAF1 6848 103 + 1
UGAACUUACCUCUUACGAGAAUCGC--UACUCACACACAAU-UAAU-UUGGCAGCUGGAAACGGCAGCUAAUUAAGAAGCAGGAGGACGCCUUGAUCACCAAUGACA
........((((((.((((......--..)))........(-((((-(.(((.((((....)))).)))))))))...).))))))..................... ( -24.30)
>DroEre_CAF1 14545 104 + 1
UGGACUUACCUCUUGCGAGAAGCAC--UGCUCAUACACUAU-UUAUUUUGGCAGCUGGAAACGGCAGCUAAUUAAGAAGCAGGAGGAUGCUCUGAUCACCAAUGACA
.(((....(((((((((((......--..)))........(-(((..(((((.((((....)))).))))).))))..))))))))....))).............. ( -31.10)
>DroYak_CAF1 7010 103 + 1
CAAACUUAGCUCUUGCAAGAAGCGU--UAUUCACACAUUAU-UCAU-UUGGCAGCUGGAAACGGCAGCUAAUCAAGAAGCAGGAGGAUGCCCUGAUCACCAAUGACA
.........(((((((..(((....--..)))........(-((..-(((((.((((....)))).)))))....))))))))))(((......))).......... ( -26.80)
>consensus
UGAACUUACCUCUUACGAGAAUCGC__UACUCACACACAAU_UCAU_UUGGCAGCUGGAAACGGCAGCUAAUUAAGAAGCAGGAGGACGCCCUGAUCACCAAUGACA
........((((((..(((..........)))...............(((((.((((....)))).))))).........))))))..................... (-16.16 = -16.50 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:50 2006