Locus 6318

Sequence ID 2R_DroMel_CAF1
Location 19,802,635 – 19,802,787
Length 152
Max. P 0.893150
window10094 window10095

overview

Window 4

Location 19,802,635 – 19,802,752
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 71.76
Mean single sequence MFE -24.88
Consensus MFE -3.93
Energy contribution -5.61
Covariance contribution 1.68
Combinations/Pair 1.35
Mean z-score -1.94
Structure conservation index 0.16
SVM decision value 0.97
SVM RNA-class probability 0.893150
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19802635 117 - 20766785
UGUCCCCACCUAUUGUAGUCAUUACACUACCCUCUGUCUAUGAUGAUGACUACAGCUUAUUUAAGCCAAUAUAAAAAGGGGCAUAAAAAAUAUUAUCUAGUGAUCUCGUUAGGGAAA
((((((.......(((((((((((((..((.....))...)).)))))))))))((((....))))...........))))))....................((((....)))).. ( -27.20)
>DroSec_CAF1 45069 111 - 1
UGUCGCCACCUAUUGUAGUCAUUACACUACC------CAAUGAUGAUGACUACAGCUUAUUUAAGUCAAUAUAAAAAGGGGCAUACAAAAUAUUAUAUUGCGAUCUCGUUAGGGAAA
....(((.(((..(((((((((((((.....------...)).)))))))))))((((....))))..........)))))).....................((((....)))).. ( -26.30)
>DroSim_CAF1 23866 116 - 1
UGUCGCCACCUAUUGUAGUCAUUACACUACCCCCUCCCAGUGAUGAUGACUACACCUUAUUUAAGCCAAUAUAAAAAGGGGCAUACAAAAUAUUAUAUUGCGAUCUCGUUAGGGAA-
....(((......(((((((((((((((..........)))).)))))))))))((((.((((........))))))))))).....................((((....)))).- ( -28.60)
>DroEre_CAF1 46059 98 - 1
UGUAGACAUCUACUGCC--------------CUCUCCCU---AUGAUGGCUACGAAUUAUGUAAGCCAAUAUAAUA--GAUCAUACAAAACAUUAUCUUACGAUCUUGCUUGGCAGA
..(((....)))(((((--------------.......(---(((.((((((((.....))).))))).))))..(--((((...................))))).....))))). ( -19.21)
>DroYak_CAF1 42479 104 - 1
UGUGGCCAGCUACUGCACUCAUUACACUACGCUCUCCCU---AUGAUGGCUAGGAACUAUUUAGGCCAAUAUAAUA--G--------AAACAUUAUCUUACGAUCUUGUUGGGUGAG
.((((....))))..................(((.((((---(((.(((((..((....))..))))).))))...--.--------.((((..(((....)))..))))))).))) ( -23.10)
>consensus
UGUCGCCACCUAUUGUAGUCAUUACACUACCCUCUCCCU_UGAUGAUGACUACAACUUAUUUAAGCCAAUAUAAAAAGGGGCAUACAAAAUAUUAUCUUGCGAUCUCGUUAGGGAAA
........(((..(((((((((((...................))))))))))).............................................(((....)))..)))... ( -3.93 =  -5.61 +   1.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,802,673 – 19,802,787
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 75.49
Mean single sequence MFE -27.49
Consensus MFE -10.92
Energy contribution -12.86
Covariance contribution 1.94
Combinations/Pair 1.24
Mean z-score -1.95
Structure conservation index 0.40
SVM decision value 0.61
SVM RNA-class probability 0.797610
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19802673 114 + 20766785
CCUUUUUAUAUUGGCUUAAAUAAGCUGUAGUCAUCAUCAUAGACAGAGGGUAGUGUAAUGACUACAAUAGGUGGGGACAUCUGGCUUUCCAUGCCAGUUUUUAAAAUAAAAUUU
...(((((.((((((......(((((((((((((...(((..((.....)).)))..))))))))).((((((....)))))))))).....))))))...)))))........ ( -33.50)
>DroSec_CAF1 45107 108 + 1
CCUUUUUAUAUUGACUUAAAUAAGCUGUAGUCAUCAUCAUUG------GGUAGUGUAAUGACUACAAUAGGUGGCGACAUCUGGCUUUCCAUGCCGGUUUUUAAAAUAAAACUC
.........................(((((((((...(((..------....)))..)))))))))..(((((....)))))(((.......)))((((((......)))))). ( -24.90)
>DroSim_CAF1 23903 114 + 1
CCUUUUUAUAUUGGCUUAAAUAAGGUGUAGUCAUCAUCACUGGGAGGGGGUAGUGUAAUGACUACAAUAGGUGGCGACAUCUGGCUUUCCAUGCCGGUUUCUAAAAUAAAACUC
...(((((.((((((......(((((((((((((...(((((........)))))..))))))))..((((((....)))))))))))....))))))...)))))........ ( -31.40)
>DroEre_CAF1 46097 94 + 1
C--UAUUAUAUUGGCUUACAUAAUUCGUAGCCAUCAU---AGGGAGAG--------------GGCAGUAGAUGUCUACAUCUGGCCUUCCAUACCAGUUAUUAAAAUAAAACU-
.--...(((..(((((.((.......)))))))..))---)((..(((--------------(((..((((((....))))))))))))....))..................- ( -24.20)
>DroYak_CAF1 42509 107 + 1
C--UAUUAUAUUGGCCUAAAUAGUUCCUAGCCAUCAU---AGGGAGAGCGUAGUGUAAUGAGUGCAGUAGCUGGCCACAUCUUGCUUUCCAUUCCAGUUAUUUAAAUUAAAC--
.--..((((..((((..............))))..))---))((((((((..((((..(.(((......))).)..))))..))))))))......................-- ( -23.44)
>consensus
CCUUUUUAUAUUGGCUUAAAUAAGCUGUAGUCAUCAUCA_AGGGAGAGGGUAGUGUAAUGACUACAAUAGGUGGCGACAUCUGGCUUUCCAUGCCAGUUUUUAAAAUAAAACU_
...........(((((............)))))........(((((...(((((......)))))..((((((....))))))..)))))........................ (-10.92 = -12.86 +   1.94)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:07 2006