Locus 2348

Sequence ID 2R_DroMel_CAF1
Location 8,557,479 – 8,557,638
Length 159
Max. P 0.874853
window3874 window3875

overview

Window 4

Location 8,557,479 – 8,557,598
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.89
Mean single sequence MFE -32.14
Consensus MFE -22.68
Energy contribution -23.12
Covariance contribution 0.44
Combinations/Pair 1.19
Mean z-score -1.75
Structure conservation index 0.71
SVM decision value 0.18
SVM RNA-class probability 0.623906
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8557479 119 - 20766785
CAUUUUCCUGCGACCAAAAUGUGUGCUGCCUGUACUUUUUCAGGCGGCUUCCAUUUUGAACGGCUGAAUGCGAAGAACUUCUGUUUUGAAAAAUGUAUCUCCUUCGCAGUACGUAGA-AU
.......((((((((((((((...((((((((........))))))))...)))))))..........((((((((((....)))((....))........))))))))).))))).-.. ( -37.10)
>DroSec_CAF1 33169 119 - 1
UAUUUUCCUGCGGCCAAAAUGUGUGCUGCCUGUACUUUUUCGUGCGGCUUCCAUUUUGAACGGCUGAAUGCGAAGAACUGCUGUUUUGGAAAAUGUAUCUCUUAAGCAGUACACAGA-AU
...................((((((((((((((((......)))))).(((((....(((((((...............))))))))))))..............))))))))))..-.. ( -33.46)
>DroSim_CAF1 36463 119 - 1
CAUUUUCCUGCGGCCAAAAUGUGUGCUGCCUGUACUUUUUCGUGCGGCUUCCAUUUUGAACGGCUGAAUGCGAAGAACUGCUGUUUUGGAAAAUGUAUCUCUUAAGCAGUACACAGA-AU
...................((((((((((((((((......)))))).(((((....(((((((...............))))))))))))..............))))))))))..-.. ( -33.46)
>DroEre_CAF1 21960 110 - 1
CAUUUUCCUACGGCCGAAAUG--UGCUGCCUGUACUUUUUGGAGCGGCUUCCAUUUUGAACGGCUGAAUGCGAAGAACUUCU-UUUUGGGAAAUGUAUAUCUUU-------UUCAAAUUC
((((((((..(((((((((((--.((((((((.......))).)))))...)))))....)))))).....((((.....))-))..)))))))).........-------......... ( -28.90)
>DroYak_CAF1 36273 116 - 1
CAUUUUCCUCUAGCAAAAAUG--CGCUGCCUGUACUUUUUGCAGCGGCUUCCAUUUUGAACGGCUGAAUGCGAAGAACUUCU-UUUUGGAAAAUGUAUCUCUUCCGCGGAAUUCAGA-UC
((((((((..((((.((((((--.(((((.((((.....)))))))))...)))))).....)))).....((((.....))-))..)))))))).((((.(((....)))...)))-). ( -27.80)
>consensus
CAUUUUCCUGCGGCCAAAAUGUGUGCUGCCUGUACUUUUUCGAGCGGCUUCCAUUUUGAACGGCUGAAUGCGAAGAACUUCUGUUUUGGAAAAUGUAUCUCUUAAGCAGUACACAGA_AU
((((((((..((..(((((((...(((((.((........)).)))))...)))))))..))((.....))................))))))))......................... (-22.68 = -23.12 +   0.44)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 8,557,518 – 8,557,638
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.49
Mean single sequence MFE -33.32
Consensus MFE -27.19
Energy contribution -27.47
Covariance contribution 0.28
Combinations/Pair 1.17
Mean z-score -1.71
Structure conservation index 0.82
SVM decision value 0.89
SVM RNA-class probability 0.874853
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8557518 120 + 20766785
AAGUUCUUCGCAUUCAGCCGUUCAAAAUGGAAGCCGCCUGAAAAAGUACAGGCAGCACACAUUUUGGUCGCAGGAAAAUGAAGGAAGGCGCGGCCCGAAAGAGAGGAGAGAGAAGAAGAC
...((((((.(.(((.(((((.(((((((...((.(((((........))))).))...)))))))(((.((......))......)))))))).(....)....))).).))))))... ( -36.10)
>DroSec_CAF1 33208 120 + 1
CAGUUCUUCGCAUUCAGCCGUUCAAAAUGGAAGCCGCACGAAAAAGUACAGGCAGCACACAUUUUGGCCGCAGGAAAAUAAAGGAAGGCGCGGCCCGAAAGAGAGGAGAGAGAAGAACAC
..(((((((.(.(((.(((((.(((((((...(((..((......))...)))......)))))))(((.................)))))))).(....)....))).).))))))).. ( -34.73)
>DroSim_CAF1 36502 120 + 1
CAGUUCUUCGCAUUCAGCCGUUCAAAAUGGAAGCCGCACGAAAAAGUACAGGCAGCACACAUUUUGGCCGCAGGAAAAUGAAGGAAGGCGCGGCCCGAAAGAGAGGAGAGAGAAGAACAC
..(((((((.(.(((.(((((.(((((((...(((..((......))...)))......)))))))(((.((......))......)))))))).(....)....))).).))))))).. ( -34.90)
>DroEre_CAF1 21992 118 + 1
AAGUUCUUCGCAUUCAGCCGUUCAAAAUGGAAGCCGCUCCAAAAAGUACAGGCAGCA--CAUUUCGGCCGUAGGAAAAUGAAGGAAGGCGCGGCCCGAAAGAGAGGAGAGAGAAGAAAAC
...((((((.(.(((.(((((......((((......))))......)).)))....--..((((((((((..................)))).)))))).....))).).))))))... ( -28.67)
>DroYak_CAF1 36311 118 + 1
AAGUUCUUCGCAUUCAGCCGUUCAAAAUGGAAGCCGCUGCAAAAAGUACAGGCAGCG--CAUUUUUGCUAGAGGAAAAUGAAGGAGGGCGCGGCGCGAAAGAGAGAAGAGAGAGGUAAAC
...((((((.(.(((.(((((((......)).((((((((...........))))).--(((((((.......)))))))......))))))))..))).)...)))))).......... ( -32.20)
>consensus
AAGUUCUUCGCAUUCAGCCGUUCAAAAUGGAAGCCGCACGAAAAAGUACAGGCAGCACACAUUUUGGCCGCAGGAAAAUGAAGGAAGGCGCGGCCCGAAAGAGAGGAGAGAGAAGAAAAC
...((((((...(((.(((((.(((((((...((.(((............))).))...)))))))(((.................)))))))).(....)...)))....))))))... (-27.19 = -27.47 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:37 2006