Locus 5141

Sequence ID 2L_DroMel_CAF1
Location 14,589,756 – 14,589,872
Length 116
Max. P 0.943247
window8191 window8192

overview

Window 1

Location 14,589,756 – 14,589,848
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.06
Mean single sequence MFE -22.82
Consensus MFE -16.06
Energy contribution -15.78
Covariance contribution -0.28
Combinations/Pair 1.20
Mean z-score -1.96
Structure conservation index 0.70
SVM decision value 1.33
SVM RNA-class probability 0.943247
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14589756 92 + 22407834
UUGUCAGCC-AGAUCU------------------------CCACACAAACCAAACCGAUCCU-AUUCGAAUUGAAACCCGCCGCAUCUAUCAGCGGCGACAGA-AACACUUUGC-CUGUC
....(((.(-(((...------------------------..........(((..(((....-..)))..))).....((((((........)))))).....-.....)))).-))).. ( -19.40)
>DroSec_CAF1 132001 92 + 1
UUGUCAGCC-AGAUCU------------------------CCACACAAACCAAACCGAUCCU-AUUCGAAUCGAAACCCGCCGCAUCUAUCAGCGGCGACAGA-AACACUUUGC-CUGUC
....(((.(-(((...------------------------...............((((.(.-....).)))).....((((((........)))))).....-.....)))).-))).. ( -18.30)
>DroSim_CAF1 110296 93 + 1
UUGUCAGCCGAGAUCU------------------------CCACACAAACCAAACCGAUCCU-AUUCGAAUCGAAACCCGCCGCAUCUAUCAGCGGCGACAGA-AACACUUUGC-CUGUC
....((((.(((....------------------------...............((((.(.-....).)))).....((((((........)))))).....-....))).).-))).. ( -18.00)
>DroEre_CAF1 116576 96 + 1
UUGUCAGCC-AGCUCUCCAU--------------------CCACACAAGCAGAAUUGAUCCC-AUUCGAAUCGGAAC-CGCCGCAUCUAUCAGCGGCGACAGA-AACACUUUGGCUUGUU
.........-..........--------------------....((((((.((.((((....-..)))).)).....-((((((........)))))).((((-.....)))))))))). ( -23.60)
>DroYak_CAF1 115330 116 + 1
UUGUCAGCC-AGAUCUGCAUCUCCAUCUCCAUCUCCAUUUCCACACAAACCAAACUGAUGCU-AUUGGAAUCGAAACCCGCCGCAUCUAUCAGCGGCGACAGA-AACACUUUGC-CUGUC
....(((.(-(((((((....((((....((((.......................))))..-..)))).........((((((........)))))).))))-.....)))).-))).. ( -24.70)
>DroAna_CAF1 57531 84 + 1
UUGUCAGGC-AGAGGA---------------------------------CC-AACAGGUCCGGAUCGGAAUCGAAACCAGCCGCAUCGAUCAGCGGCGACAGAAAACACUUUGC-CUGCU
..(.(((((-((((((---------------------------------((-....)))))((.(((....)))..)).(((((........)))))............)))))-)))). ( -32.90)
>consensus
UUGUCAGCC_AGAUCU________________________CCACACAAACCAAACCGAUCCU_AUUCGAAUCGAAACCCGCCGCAUCUAUCAGCGGCGACAGA_AACACUUUGC_CUGUC
(((((..................................................((((.(......).))))......(((((........)))))))))).................. (-16.06 = -15.78 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,589,771 – 14,589,872
Length 101
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 67.43
Mean single sequence MFE -32.88
Consensus MFE -23.23
Energy contribution -25.10
Covariance contribution 1.87
Combinations/Pair 1.19
Mean z-score -0.99
Structure conservation index 0.71
SVM decision value 0.30
SVM RNA-class probability 0.679990
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14589771 101 - 22407834
CAA--------------GAAACCAACAAGCCGGCAGACGACAG-GCAAAGUGUU-UCUGUCGCCGCUGAUAGAUGCGGCGGGUUUCAAUUCGAAU-AGGAUCGGUUUGGUUUGUGUGG
...--------------....((((((((((((((((.((((.-......))))-))))))(((((........)))))..........((((..-....))))...))))))).))) ( -33.00)
>DroSim_CAF1 110312 101 - 1
CAA--------------GAAACCAACAAGCCGGCAGACGACAG-GCAAAGUGUU-UCUGUCGCCGCUGAUAGAUGCGGCGGGUUUCGAUUCGAAU-AGGAUCGGUUUGGUUUGUGUGG
...--------------....((((((((((((((((.((((.-......))))-))))))(((((........))))).....(((((((....-.)))))))...))))))).))) ( -38.60)
>DroEre_CAF1 116595 104 - 1
CAAGCCAGCCAAGCCAGCCA-----------AGCAUCCAACAAGCCAAAGUGUU-UCUGUCGCCGCUGAUAGAUGCGGCG-GUUCCGAUUCGAAU-GGGAUCAAUUCUGCUUGUGUGG
....(((..(((((..(((.-----------.(((((.....(((....(((..-.....))).)))....))))))))(-((((((.......)-))))))......)))))..))) ( -29.80)
>DroAna_CAF1 57546 93 - 1
CCC--------------AGACCCAAACGAUCGACGGACAGCAG-GCAAAGUGUUUUCUGUCGCCGCUGAUCGAUGCGGCUGGUUUCGAUUCCGAUCCGGACCUGUU-GG---------
...--------------....((((.((((((.(((((((.((-((.....)))).))))..))).))))))....((((((..(((....))).)))).))..))-))--------- ( -30.10)
>consensus
CAA______________GAAACCAACAAGCCGGCAGACAACAG_GCAAAGUGUU_UCUGUCGCCGCUGAUAGAUGCGGCGGGUUUCGAUUCGAAU_AGGAUCGGUUUGGUUUGUGUGG
.................((((((........((((((.((((........)))).))))))(((((........))))).))))))(((((......)))))................ (-23.23 = -25.10 +   1.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:07 2006