Locus 253

Sequence ID 2L_DroMel_CAF1
Location 731,676 – 731,834
Length 158
Max. P 0.996655
window405 window406

overview

Window 5

Location 731,676 – 731,796
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.50
Mean single sequence MFE -38.28
Consensus MFE -26.44
Energy contribution -30.62
Covariance contribution 4.18
Combinations/Pair 1.11
Mean z-score -2.15
Structure conservation index 0.69
SVM decision value 0.14
SVM RNA-class probability 0.602061
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 731676 120 + 22407834
UAAGCGAGAACUUCAUGUAGGAGCGUAGGUGCCAAAAUUUUUGCAAGUGCACAACGCCGAAAGGCCAACGAGUGAUUGGAGCACAGCAAAUGGCAUUUUUAGCUUUUGACAUUUCACGCG
...(((.(((....((((((((((..((((((((.....(((((..((((.....(((....)))...(((....)))..)))).)))))))))))))...)))))).))))))).))). ( -42.80)
>DroSec_CAF1 3198 120 + 1
UAAGCGGGAACUUCAGUUAGGAGCGUAGGUGCCUCAUUUUUUUCCAGUGCACAACGCCGAAAGGCCAACGAGUGAUUGGAGCACAGCAAAUGGCAUUUUUAGCUUUUGACAUUUCACGCG
...(((((((.....(((((((((..(((((((.........((((((.(((...(((....)))......)))))))))((...))....)))))))...))))))))).)))).))). ( -40.50)
>DroSim_CAF1 3204 120 + 1
UAAGCGGGAACUUCAGUUAGGAGCGUAGGUGCCUCAUUUUUUGCCAGUGCACAACGCCGAAAGGCCAACGAGUGAUUGGAGCACAGCAAAUGGCAUUUUUAGCUUUUGACAUUUCACGCG
...(((((((.....(((((((((..(((((((......(((((..((((.....(((....)))...(((....)))..)))).))))).)))))))...))))))))).)))).))). ( -43.80)
>DroEre_CAF1 3214 116 + 1
UAAGCAAUAACUUC----AGGAGCGUACUUGGCGAAUUUUUUGCCAGUGCACAACGCCGAAAGGCCAACGAGUGAUUGGAGCACAGCAAAUGGCAUUUUUAGCUUUUGACAUUUCACGCG
...((...((..((----((((((.....((((((.....))))))((((.....(((....)))...(((....)))..)))).((.....)).......))))))))..))....)). ( -34.20)
>DroYak_CAF1 3416 119 + 1
UAAGAAAUAACUUUGUGUGGGAGCAUC-CUGUCGAAAUUUUCGCCAGUGUACAACGCCGAAAGGCCAACGAGUGAUUGGAGCACAGCAAAUGGCAUUUUCAGCUUUUGACAUUUCACGCG
..............(((((..(.....-.(((((((......((..((((.(...(((....)))...(((....)))).)))).))....(((.......)))))))))))..))))). ( -30.10)
>consensus
UAAGCGAGAACUUCAGGUAGGAGCGUAGGUGCCGAAUUUUUUGCCAGUGCACAACGCCGAAAGGCCAACGAGUGAUUGGAGCACAGCAAAUGGCAUUUUUAGCUUUUGACAUUUCACGCG
...(((.(((.......(((((((..((((((((.....(((((..((((.....(((....)))...(((....)))..)))).)))))))))))))...)))))))....))).))). (-26.44 = -30.62 +   4.18)

alignment

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secondary structure

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dotplot

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Window 6

Location 731,716 – 731,834
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.13
Mean single sequence MFE -39.33
Consensus MFE -37.91
Energy contribution -37.99
Covariance contribution 0.08
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.96
SVM decision value 2.73
SVM RNA-class probability 0.996655
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 731716 118 - 22407834
CAUACGCCGUGUAUGACGGCGAAGA--CUGAGGAGCCAUACGCGUGAAAUGUCAAAAGCUAAAAAUGCCAUUUGCUGUGCUCCAAUCACUCGUUGGCCUUUCGGCGUUGUGCACUUGCAA
.....((.(((((..(((.((((..--....((.((((.(((.((((.........(((..............))).........)))).))))))))))))).)))..)))))..)).. ( -36.51)
>DroSec_CAF1 3238 118 - 1
CAUACGCCGUGUAUGACGGCGAAGA--CUGAGGAGCCAUACGCGUGAAAUGUCAAAAGCUAAAAAUGCCAUUUGCUGUGCUCCAAUCACUCGUUGGCCUUUCGGCGUUGUGCACUGGAAA
......(((((((..(((.((((..--....((.((((.(((.((((.........(((..............))).........)))).))))))))))))).)))..))))).))... ( -36.51)
>DroSim_CAF1 3244 118 - 1
CAUACGCCGUGUAUGACGGCGAAGA--CUGAGGAGCCAUACGCGUGAAAUGUCAAAAGCUAAAAAUGCCAUUUGCUGUGCUCCAAUCACUCGUUGGCCUUUCGGCGUUGUGCACUGGCAA
.....((((((((..(((.((((..--....((.((((.(((.((((.........(((..............))).........)))).))))))))))))).)))..))))).))).. ( -40.61)
>DroEre_CAF1 3250 118 - 1
CAUACGCCGUGUAUGACGGCGAAGU--CUGAGGAGCCAUACGCGUGAAAUGUCAAAAGCUAAAAAUGCCAUUUGCUGUGCUCCAAUCACUCGUUGGCCUUUCGGCGUUGUGCACUGGCAA
.....((((((((..(((.((((((--(....))((((.(((.((((.........(((..............))).........)))).))))))).))))).)))..))))).))).. ( -40.71)
>DroYak_CAF1 3455 120 - 1
CAUACGCCGUGUAUGACGGCGAACUAACUAAAGAGCCAUACGCGUGAAAUGUCAAAAGCUGAAAAUGCCAUUUGCUGUGCUCCAAUCACUCGUUGGCCUUUCGGCGUUGUACACUGGCGA
....(((((((((..(((.((((........((.((((.(((.((((.........(((..............))).........)))).))))))))))))).)))..))))).)))). ( -42.31)
>consensus
CAUACGCCGUGUAUGACGGCGAAGA__CUGAGGAGCCAUACGCGUGAAAUGUCAAAAGCUAAAAAUGCCAUUUGCUGUGCUCCAAUCACUCGUUGGCCUUUCGGCGUUGUGCACUGGCAA
.....((((((((..(((.((((........((.((((.(((.((((.........(((..............))).........)))).))))))))))))).)))..))))).))).. (-37.91 = -37.99 +   0.08)

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 09:31:16 2006