Locus 7384

Sequence ID 3R_DroMel_CAF1
Location 19,611,046 – 19,611,171
Length 125
Max. P 0.951396
window11938 window11939

overview

Window 8

Location 19,611,046 – 19,611,143
Length 97
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 71.27
Mean single sequence MFE -23.19
Consensus MFE -8.62
Energy contribution -9.80
Covariance contribution 1.18
Combinations/Pair 1.33
Mean z-score -2.31
Structure conservation index 0.37
SVM decision value 1.41
SVM RNA-class probability 0.951396
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19611046 97 - 27905053
-AGCAAUCGAAGAUUGCAGUUGGUCAAUUAGCAUAGAAGGGAAACCAAAGAUGCGACA-AUCU-UCGACAUUGGCAAUCUUCGAA--ACGGGGUGGAAUGAA
-.....(((((((((((.....(((.....((((....((....))....))))((..-....-)))))....))))))))))).--............... ( -30.90)
>DroVir_CAF1 18467 89 - 1
CAGCUUUCCGCGAUUGGAAAAUGCCAAUUUACAAU---UUACAACAAAUGAUGCGACA-AUCUCUUGAUAUUGUCGAUUUAUAG---------AGCAAUUAA
..(((((....((((((......))))))......---.........((((..(((((-((........)))))))..))))))---------)))...... ( -16.90)
>DroSec_CAF1 17526 97 - 1
-AGCAAUCGAAAAUUGCAGUUGGUCAAUUAGCAUAGAAUGGAAACCAAAGAUGCAACA-AUCU-UCGACAUUGGCAAUCUUCGAA--GCGGGGUGGAAUGAA
-.((..(((((.(((((.(((((.......((((.....(....).....))))....-....-)))))....))))).))))).--))............. ( -21.06)
>DroEre_CAF1 18070 97 - 1
-AGCAAUCGAAGAUUGCAGUUGAUCAAUUAGCAUAUAAGGGAAACCAAAGAUGCGACAAAUCU-CCGACAUUGGCAAUCUGCGA---AGGGGGUGGAAUGAA
-.((((((...))))))......(((....((((....((....))....)))).....((((-((....((.((.....)).)---)))))))....))). ( -24.60)
>DroYak_CAF1 17680 99 - 1
-AGCAAUCGAAGAUUGCAGUUGGUCAAUUAGCAUAGAAGGGAAACCAAAGAUGCGACA-AUCU-CCGACAUUGGCAAUCUGCGAAGAAGGGGGUGGAAUGAA
-.....(((.(((((((.(((((.......((((....((....))....))))....-....-)))))....))))))).))).................. ( -28.46)
>DroMoj_CAF1 18631 83 - 1
UUGCUUUCCACGAUUGGAAAAUGUCAAUUUACAA-------CA--AAAAGAUACGACA-AUCUUUUGACAUUGGCAAUUUAUAG---------AGCAAUCAA
(((((((....(((((...((((((((.......-------..--..(((((......-)))))))))))))..)))))...))---------))))).... ( -17.20)
>consensus
_AGCAAUCGAAGAUUGCAGUUGGUCAAUUAGCAUAGAAGGGAAACCAAAGAUGCGACA_AUCU_UCGACAUUGGCAAUCUACGA___A_GGGGUGGAAUGAA
......(((.(((((((.....(((.............((....))...(((.......)))....)))....))))))).))).................. ( -8.62 =  -9.80 +   1.18)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,611,080 – 19,611,171
Length 91
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 82.22
Mean single sequence MFE -19.67
Consensus MFE -12.19
Energy contribution -13.98
Covariance contribution 1.79
Combinations/Pair 1.10
Mean z-score -2.21
Structure conservation index 0.62
SVM decision value 0.30
SVM RNA-class probability 0.678815
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19611080 91 - 27905053
AUUUAUGUUUAAUUA--AGCAAUUUCCGAG--AGCAAUCGAAGAUUGCAGUUGGUCAAUUAGCAUAGAAGGGAAACCAAAGAUGCGACA-AUCU-UC
.((((((((..((((--((((((((.(((.--.....))).)))))))..))))).....)))))))).((....)).(((((......-))))-). ( -22.40)
>DroSec_CAF1 17560 91 - 1
AUUUAUGUUUAAUUA--AGCAAUUUCCGAG--AGCAAUCGAAAAUUGCAGUUGGUCAAUUAGCAUAGAAUGGAAACCAAAGAUGCAACA-AUCU-UC
.....((((......--.(((((((.(((.--.....))).))))))).............((((.....(....).....))))))))-....-.. ( -17.90)
>DroSim_CAF1 17870 87 - 1
AUUUAUGUUUAAUUA--AGCAAUUUCCGAG--AGCAAUCGAAGAUUGCAGUUGGUCAAUUAGCAUAGAAGGGAAACCAAAGAUGCGACA-AU-----
.....((((......--.(((((((.(((.--.....))).))))))).............((((....((....))....))))))))-..----- ( -21.90)
>DroEre_CAF1 18103 92 - 1
AUUUAUGUUUAAUUA--AGCAAUUUCCGAG--AGCAAUCGAAGAUUGCAGUUGAUCAAUUAGCAUAUAAGGGAAACCAAAGAUGCGACAAAUCU-CC
.....((.((((((.--.(((((((.(((.--.....))).))))))))))))).))....((((....((....))....)))).........-.. ( -22.10)
>DroYak_CAF1 17716 91 - 1
AUUUAUGUUUAAUUA--AGCAAUUUCCGAG--AGCAAUCGAAGAUUGCAGUUGGUCAAUUAGCAUAGAAGGGAAACCAAAGAUGCGACA-AUCU-CC
.....((((......--.(((((((.(((.--.....))).))))))).............((((....((....))....))))))))-....-.. ( -21.90)
>DroMoj_CAF1 18658 80 - 1
AUUUAUGCUUAAUUACAAGCAAU-------UUUGCUUUCCACGAUUGGAAAAUGUCAAUUUACAA-------CA--AAAAGAUACGACA-AUCUUUU
.....(((((......)))))..-------.....((((((....))))))..............-------..--(((((((......-))))))) ( -11.80)
>consensus
AUUUAUGUUUAAUUA__AGCAAUUUCCGAG__AGCAAUCGAAGAUUGCAGUUGGUCAAUUAGCAUAGAAGGGAAACCAAAGAUGCGACA_AUCU_UC
.....((((.........(((((((.(((........))).))))))).............((((....((....))....))))))))........ (-12.19 = -13.98 +   1.79)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:38 2006