Locus 8319

Sequence ID 3L_DroMel_CAF1
Location 21,794,906 – 21,795,052
Length 146
Max. P 0.901907
window13617 window13618

overview

Window 7

Location 21,794,906 – 21,795,012
Length 106
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 77.72
Mean single sequence MFE -24.68
Consensus MFE -9.23
Energy contribution -11.68
Covariance contribution 2.45
Combinations/Pair 1.21
Mean z-score -2.23
Structure conservation index 0.37
SVM decision value 1.02
SVM RNA-class probability 0.901907
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21794906 106 - 23771897
GGUUGGCCACCGGAGAUUGGUAUGCAAUUUCUUGGCCAACAAAAGCCCAA--CUUUA------CUAGGAAGGGUAAAGAGUAAUGAAUAUAUUUCGAACAACCAAAUUAUGCAA
.((((((((..((((((((.....))))))))))))))))....((....--(((((------((......))))))).....((((.....))))..............)).. ( -30.10)
>DroSec_CAF1 14748 106 - 1
GGUUGGCCACCGGAGAUUGGUAUGCAAUUUCUGGGCCAACAAAAGUCCAA--CUUUA------CAAGGAAGGGUAAAGAGUAAUGAAUAUAUUUCGAACCUUCAAAUCAUGCUA
.(((((((..(((((((((.....)))))))))))))))).((((.....--)))).------....(((((.....(((((.......)))))....)))))........... ( -29.40)
>DroSim_CAF1 20170 106 - 1
GGUUGGCCACCGGAGAUUGGUAUGCAAUUUCUUGGCCAACAAAAGCCCAA--CUUUA------CAAGGAAGGGUAAAGAGUAAUGAAUAUAUUUCGAACCAUCAAAUCAUGCUA
.((((((((..((((((((.....))))))))))))))))....((((..--(((..------..)))..))))....((((..(((.....)))((....))......)))). ( -29.80)
>DroEre_CAF1 21521 95 - 1
------G-ACAGGCAAAGGGUAUGCAAUUUCUUAGCCA-UCAAAGCCCAA--CUUUA------CAAGUAAGUGGUAAAAGUAACGAAUAUACUUCGAACCACAAAAUUAUU---
------.-...(((.(((((........))))).))).-...........--.....------.......(((((..(((((.......)))))...))))).........--- ( -16.90)
>DroYak_CAF1 29605 107 - 1
------CCACCGGAGAUUUGU-UAAAAUUUCUUAGCCAACCCAAGCCCAAGCCCUUAGAAGCCCAAGCAAGGCUAAAAAGUAAUUAAUAUAUUUCAAACCUCCAAAUUAUGCUA
------......(((((.(((-(((.((((.((((((.......((....))........((....))..)))))).))))..)))))).)))))................... ( -17.20)
>consensus
GGUUGGCCACCGGAGAUUGGUAUGCAAUUUCUUGGCCAACAAAAGCCCAA__CUUUA______CAAGGAAGGGUAAAGAGUAAUGAAUAUAUUUCGAACCACCAAAUUAUGCUA
.(((((((...((((((((.....)))))))).)))))))...........................................((((.....)))).................. ( -9.23 = -11.68 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,794,946 – 21,795,052
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 69.38
Mean single sequence MFE -29.77
Consensus MFE -6.53
Energy contribution -7.53
Covariance contribution 1.01
Combinations/Pair 1.47
Mean z-score -2.48
Structure conservation index 0.22
SVM decision value 0.75
SVM RNA-class probability 0.840658
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21794946 106 - 23771897
AUAUUAAGGGAUAAUUUGUCACGAAAGGGACAGGCAAAGGGGUUGGCCACCGGAG-AUUGGUAUGCAAUUUCUUGGCCAA-CAAAAGC--CCAA----CUUUA------CUAGGAAGGGU
.......(((....((((((.(....).)))))).......((((((((..((((-((((.....)))))))))))))))-).....)--))..----((((.------....))))... ( -35.10)
>DroSec_CAF1 14788 106 - 1
AUAUUAAGGGGUAAUUUGUCACGAAAGGGACAGGCAAAGGGGUUGGCCACCGGAG-AUUGGUAUGCAAUUUCUGGGCCAA-CAAAAGU--CCAA----CUUUA------CAAGGAAGGGU
.......(((.(..((((((.(....).)))))).......(((((((..(((((-((((.....)))))))))))))))-)...).)--))..----((((.------....))))... ( -33.20)
>DroSim_CAF1 20210 106 - 1
AUAUUAAGGGGUAAUUUGUCACGAAAGGGACAGGCAAAGGGGUUGGCCACCGGAG-AUUGGUAUGCAAUUUCUUGGCCAA-CAAAAGC--CCAA----CUUUA------CAAGGAAGGGU
........((((..((((((.(....).)))))).......((((((((..((((-((((.....)))))))))))))))-)....))--))..----((((.------....))))... ( -36.60)
>DroEre_CAF1 21558 85 - 1
AUAUUGAGGAGUAAUUCGUCACGAAAG-------------------G-ACAGGCA-AAGGGUAUGCAAUUUCUUAGCCA--UCAAAGC--CCAA----CUUUA------CAAGUAAGUGG
...(((((((....)))(((.(....)-------------------)-)).(((.-(((((........))))).))).--))))...--(((.----(((..------.....)))))) ( -19.00)
>DroYak_CAF1 29645 94 - 1
AUAUUAAGGGGUAAUUUGUCACAAAAG-------------------CCACCGGAG-AUUUGU-UAAAAUUUCUUAGCCAA-CCCAAGC--CCAAGC--CCUUAGAAGCCCAAGCAAGGCU
...(((((((.(...............-------------------.....((((-((((..-..))))))))..((...-.....))--...).)--)))))).((((.......)))) ( -17.50)
>DroAna_CAF1 25008 110 - 1
AUAUUAAGGGGUAAUUUGUCGCCGCAGGGACGGGGAGAAGGGGUAACCCUUACAGAAUUGGGAUGCAAUUUCUUAGCCCGACCAAGGUGGCCAAGAAAAAUUA------CAGGCAA----
..........(((((((.(((((((..((.((((((((((..(((.(((..........))).)))..))))))..)))).))...)))))...)).))))))------)......---- ( -37.20)
>consensus
AUAUUAAGGGGUAAUUUGUCACGAAAGGGACAGGCAAAGGGGUUGGCCACCGGAG_AUUGGUAUGCAAUUUCUUAGCCAA_CAAAAGC__CCAA____CUUUA______CAAGGAAGGGU
...(((((((((...(((((.(....).)))))...............((((......)))).....)))))))))............................................ ( -6.53 =  -7.53 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:32 2006