Locus 4303

Sequence ID 3L_DroMel_CAF1
Location 12,627,395 – 12,627,485
Length 90
Max. P 0.953781
window6657 window6658

overview

Window 7

Location 12,627,395 – 12,627,485
Length 90
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 80.96
Mean single sequence MFE -22.66
Consensus MFE -14.76
Energy contribution -17.09
Covariance contribution 2.33
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.65
SVM decision value 0.93
SVM RNA-class probability 0.885117
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12627395 90 + 23771897
GUGUUU--UU-UUUUUGCACUCCUCUGGUAAUCCGUGCAAAACUUUAAUUGGUGUUUUGCACUUCUAAUGGAUCCUGGGAGUGUAUUAGAUUC
......--.(-((..(((((((((..((..(((((((((((((..........))))))))).......)))))).)))))))))..)))... ( -29.41)
>DroGri_CAF1 128234 80 + 1
GUUUUU--CU-UUU---GCCAACAAAAAUAAGCAAUACAAAACUUUAAUCGACGUUUUACAAUUCUAAUGU-----GGCAGUGCAUA--AUUC
......--..-.((---(((..................(((((..........)))))(((.......)))-----)))))......--.... (  -6.20)
>DroSec_CAF1 115251 87 + 1
GCGUUU--UU-UUU---CACUCCUCUGGUAAUCCGUGCAAAACUUUAAUUGGUGUUUUGCACUUCUAAUGGAUCCUGGGAGUGUAUUAGAUUC
..((((--..-...---(((((((..((..(((((((((((((..........))))))))).......)))))).)))))))....)))).. ( -25.51)
>DroSim_CAF1 118607 87 + 1
GCGUUU--UU-UUU---CACUCCUCUGGUAAUCCGUGCAAAACUUUAAUUGGUGUUUUGCACUUCUAAUGGAUCCUGGGAGUGUAUUAGAUUC
..((((--..-...---(((((((..((..(((((((((((((..........))))))))).......)))))).)))))))....)))).. ( -25.51)
>DroEre_CAF1 119223 86 + 1
GUGUGUU----UUU---CACUCCUCUGGUAAUCCGUGCAAAACUUUAAUUGGUGUUUUGCACUUCUAAUGGAUCCUGGGAGUGUAUUAGAUUC
....(((----(..---(((((((..((..(((((((((((((..........))))))))).......)))))).)))))))....)))).. ( -25.31)
>DroAna_CAF1 112208 90 + 1
GCUUUUUUGCUUGC---CACUCCGCUGGUAAUCCGUGCAAAACUUUAAUUGGUGUUUGGCACUUCUAAUGGAUCCUGGGAGUGUAUUAGGCCC
........(((((.---((((((.(.((..((((((((.((((..........)))).)))).......)))))).)))))))...))))).. ( -24.01)
>consensus
GCGUUU__UU_UUU___CACUCCUCUGGUAAUCCGUGCAAAACUUUAAUUGGUGUUUUGCACUUCUAAUGGAUCCUGGGAGUGUAUUAGAUUC
.................((((((...((..(((((((((((((..........))))))))).......))))))..)))))).......... (-14.76 = -17.09 +   2.33)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,627,395 – 12,627,485
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 80.96
Mean single sequence MFE -21.19
Consensus MFE -15.94
Energy contribution -16.25
Covariance contribution 0.31
Combinations/Pair 1.24
Mean z-score -3.09
Structure conservation index 0.75
SVM decision value 1.44
SVM RNA-class probability 0.953781
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12627395 90 - 23771897
GAAUCUAAUACACUCCCAGGAUCCAUUAGAAGUGCAAAACACCAAUUAAAGUUUUGCACGGAUUACCAGAGGAGUGCAAAAA-AA--AAACAC
..........(((((((.((((((.......(((((((((..........)))))))))))))..)).).))))))......-..--...... ( -23.31)
>DroGri_CAF1 128234 80 - 1
GAAU--UAUGCACUGCC-----ACAUUAGAAUUGUAAAACGUCGAUUAAAGUUUUGUAUUGCUUAUUUUUGUUGGC---AAA-AG--AAAAAC
....--.......((((-----(.((.(((((.((((.(((..(((....))).))).))))..))))).))))))---)..-..--...... ( -10.80)
>DroSec_CAF1 115251 87 - 1
GAAUCUAAUACACUCCCAGGAUCCAUUAGAAGUGCAAAACACCAAUUAAAGUUUUGCACGGAUUACCAGAGGAGUG---AAA-AA--AAACGC
..........(((((((.((((((.......(((((((((..........)))))))))))))..)).).))))))---...-..--...... ( -24.01)
>DroSim_CAF1 118607 87 - 1
GAAUCUAAUACACUCCCAGGAUCCAUUAGAAGUGCAAAACACCAAUUAAAGUUUUGCACGGAUUACCAGAGGAGUG---AAA-AA--AAACGC
..........(((((((.((((((.......(((((((((..........)))))))))))))..)).).))))))---...-..--...... ( -24.01)
>DroEre_CAF1 119223 86 - 1
GAAUCUAAUACACUCCCAGGAUCCAUUAGAAGUGCAAAACACCAAUUAAAGUUUUGCACGGAUUACCAGAGGAGUG---AAA----AACACAC
..........(((((((.((((((.......(((((((((..........)))))))))))))..)).).))))))---...----....... ( -24.01)
>DroAna_CAF1 112208 90 - 1
GGGCCUAAUACACUCCCAGGAUCCAUUAGAAGUGCCAAACACCAAUUAAAGUUUUGCACGGAUUACCAGCGGAGUG---GCAAGCAAAAAAGC
..((......(((((((.((((((.......((((.((((..........)))).))))))))..)).).))))))---....))........ ( -21.01)
>consensus
GAAUCUAAUACACUCCCAGGAUCCAUUAGAAGUGCAAAACACCAAUUAAAGUUUUGCACGGAUUACCAGAGGAGUG___AAA_AA__AAACAC
..........((((((...............(((((((((..........)))))))))((....))...))))))................. (-15.94 = -16.25 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:04 2006