Locus 4343

Sequence ID 3L_DroMel_CAF1
Location 12,758,808 – 12,758,957
Length 149
Max. P 0.990672
window6721 window6722

overview

Window 1

Location 12,758,808 – 12,758,918
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.48
Mean single sequence MFE -19.22
Consensus MFE -15.34
Energy contribution -14.86
Covariance contribution -0.48
Combinations/Pair 1.11
Mean z-score -2.62
Structure conservation index 0.80
SVM decision value 2.23
SVM RNA-class probability 0.990672
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12758808 110 - 23771897
AUAUAGUCGUAAGAUAACCAUAAUAU---UAUAUAUAUGUUUACAUAUAUGU--ACAACACGAAAGCUAACCAAGCAAACCAC----AUUACA-UAACGUAAAGGGCAAUAUGCAAGCCA
.....(((....)))...........---((((((((((....)))))))))--)..........(((.....)))......(----.((((.-....)))).)(((.........))). ( -17.90)
>DroSim_CAF1 18057 109 - 1
AUAUAGUCGUAAGAUAACCAUAAUAU---UAUAUAUAUGUUUACAUAUAUAU--AU-ACACGAAAGCUAACCAAGCAAACCAC----AUUACA-UAACGUAAAGGGCAAUAUGCAAGCCA
.....(((....)))...........---((((((((((....)))))))))--).-........(((.....)))......(----.((((.-....)))).)(((.........))). ( -18.00)
>DroEre_CAF1 15978 109 - 1
AUAUAGUCGUAAGAUAACCAUAA------UAUAUAUAUGUUAACAUAUAUAUGUACAACACGAAAGCUAACCAAGCAAACAAC----AUUACA-UAACGUAAAGGGCAAUAUGCAAGCCA
.....(((....))).......(------((((((((((....)))))))))))...........(((.....)))......(----.((((.-....)))).)(((.........))). ( -19.30)
>DroYak_CAF1 16366 112 - 1
AUAUAGUCGUAAGAUAACCAUAAAAU---UAUAUAUAUGUUAACAUAUAUAUGUACAACACGAAAGCUAACCAAGCAAACCAC----AUUACA-UAACGUAAAGGGCAAUAUGCAAGCCA
.....(((....)))...........---((((((((((....))))))))))............(((.....)))......(----.((((.-....)))).)(((.........))). ( -17.70)
>DroAna_CAF1 20110 119 - 1
AUGUAGAUCUAAGAUAACCAUAAUAUAUAAAUAUAUAUGUUUACAUAUAUAUGUGCAACACGAAAGCUAACCAAGCAA-CCAUAUGGAUUAGAGUAACAUAAAGGGCAAUAUGCAAGCCA
((((...(((((.....(((((........(((((((((....))))))))).............(((.....)))..-...))))).)))))...))))....(((.........))). ( -23.20)
>consensus
AUAUAGUCGUAAGAUAACCAUAAUAU___UAUAUAUAUGUUUACAUAUAUAUGUACAACACGAAAGCUAACCAAGCAAACCAC____AUUACA_UAACGUAAAGGGCAAUAUGCAAGCCA
........((((..................(((((((((....))))))))).............(((.....)))............))))............(((.........))). (-15.34 = -14.86 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 2

Location 12,758,843 – 12,758,957
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.57
Mean single sequence MFE -22.01
Consensus MFE -18.10
Energy contribution -17.82
Covariance contribution -0.28
Combinations/Pair 1.11
Mean z-score -2.02
Structure conservation index 0.82
SVM decision value 1.62
SVM RNA-class probability 0.967749
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12758843 114 - 23771897
GAGUGCAGAUGCAACAUGAAUAAGGGCAGACAA-GAGUCCAUAUAGUCGUAAGAUAACCAUAAUAU---UAUAUAUAUGUUUACAUAUAUGU--ACAACACGAAAGCUAACCAAGCAAAC
..(((((.(((.((((((.(((.((((......-..)))).....(((....)))...........---..))).))))))..)))...)))--)).........(((.....))).... ( -22.00)
>DroSim_CAF1 18092 113 - 1
GAGUGCAGAUGCAACAUGAAUAAGGGCAGACAA-GAGUCCAUAUAGUCGUAAGAUAACCAUAAUAU---UAUAUAUAUGUUUACAUAUAUAU--AU-ACACGAAAGCUAACCAAGCAAAC
..(((..........(((.....((((......-..)))).....(((....)))...))).....---((((((((((....)))))))))--).-.)))....(((.....))).... ( -21.60)
>DroEre_CAF1 16013 113 - 1
GAGUGCAGAUGCAACAUGAAUAAGGGCGGAUAA-GAGUCCAUAUAGUCGUAAGAUAACCAUAA------UAUAUAUAUGUUAACAUAUAUAUGUACAACACGAAAGCUAACCAAGCAAAC
..(((..................((..((((..-..)))).....(((....)))..))...(------((((((((((....)))))))))))....)))....(((.....))).... ( -23.70)
>DroYak_CAF1 16401 116 - 1
GAGUGCAGAUGCAACAUGAAUAAGGGCAGAUAA-GAGUCCAUAUAGUCGUAAGAUAACCAUAAAAU---UAUAUAUAUGUUAACAUAUAUAUGUACAACACGAAAGCUAACCAAGCAAAC
..((((.........(((.....((((......-..)))).....(((....)))...))).....---.(((((((((....))))))))))))).........(((.....))).... ( -22.60)
>DroAna_CAF1 20150 119 - 1
GAGUGCAGAUGCAACAUGAAUAAGGGCAGAUAAGGAGUCCAUGUAGAUCUAAGAUAACCAUAAUAUAUAAAUAUAUAUGUUUACAUAUAUAUGUGCAACACGAAAGCUAACCAAGCAA-C
...(((.(.((((.((((.....((((.........))))((((((((..............((((((....))))))))))))))...)))))))).).(....)........))).-. ( -20.13)
>consensus
GAGUGCAGAUGCAACAUGAAUAAGGGCAGAUAA_GAGUCCAUAUAGUCGUAAGAUAACCAUAAUAU___UAUAUAUAUGUUUACAUAUAUAUGUACAACACGAAAGCUAACCAAGCAAAC
..(((..........(((.(((.((((.........)))).))).(((....)))...))).........(((((((((....)))))))))......)))....(((.....))).... (-18.10 = -17.82 +  -0.28)

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 11:20:06 2006