Locus 1130

Sequence ID 2L_DroMel_CAF1
Location 3,070,918 – 3,071,038
Length 120
Max. P 0.735434
window1840 window1841

overview

Window 0

Location 3,070,918 – 3,071,038
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.50
Mean single sequence MFE -48.52
Consensus MFE -29.90
Energy contribution -32.07
Covariance contribution 2.17
Combinations/Pair 1.16
Mean z-score -1.91
Structure conservation index 0.62
SVM decision value 0.44
SVM RNA-class probability 0.735434
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3070918 120 + 22407834
CUUUCAUGAAUCAGAUCCGCCUUGGCCUUGCUAAGGGCGGAAAUCUCCGCCUGCUUGAGCUCAAGCACACAGCGCAAGCUGUCUGCCUCGCUGGUCAAGCGGUUGAGUUCGGCGGACGCG
...............(((((((((((...)))))(((((((....)))))))....(((((((((((.(((((....))))).))).(((((.....))))))))))))))))))).... ( -56.20)
>DroSim_CAF1 1163 120 + 1
CUUUCAUGAAUCAAAUCCGCCUUGGCCUUGCUGAGGGCGGAAAUCUCCGCCUGCUUGAGCUCAAGCACACAGCGCAAGCUGUCGGCCUCGCUGGUCAAGCGGUUGAGUUCGGCGGACGCG
...............(((((((..((...))..)(((((((....)))))))....((((((((.(.((((((....))))).((((.....))))..).).)))))))))))))).... ( -53.90)
>DroEre_CAF1 1137 120 + 1
CUUUCAUGAAUCAGAUCCGCCUUGGCCUUGCUGAGGGCGGAGAUCUCCGCCUGCUUCAGCUCCAGCACGCAGCGCAGGCUGUCGGCCUCGCUGGUCAAGCGGUUGAGUUCGGCGGACGCG
......(((((..((.((((.((((((.(((((.(((((((....)))))))((....))..)))))...((((.((((.....))))))))))))))))))))..)))))((....)). ( -53.30)
>DroWil_CAF1 1359 117 + 1
UUCUCCCGCCUGAGAUCCUCAUUGGCUUUGGUUAGUGUGGAUAUCUCUGCCUGCUUCAGCUCCAAUACACAACGCAGGCUAUCAGCCUCGCUGGUUAGACGCCUCAGUUCGGCAU---UG
.....(((.(((((((((.(((((((....))))))).))))...(((((((((...................)))))).((((((...)))))).)))...)))))..)))...---.. ( -36.41)
>DroYak_CAF1 1162 120 + 1
CUCUCAUGAAUCAGAUCCGCCUUGGCCUUGCUGAGGGCAGAGAUCUCCGCCUGCUUGAGCUCAAGCACGCAGCGCAGGCUGUCGGCCUCGCUGGUCAGGCGAUUGAGUUCGGCGGAUGCG
..............(((((((...(((((....)))))...((.(((((((((((((....)))))((.(((((.((((.....))))))))))).)))))...))).)))))))))... ( -53.20)
>DroAna_CAF1 3383 120 + 1
UUCUCCCGGACCAGGUCCGCAUUGGCCUUUGAAAGGUUGGAGAUCUCUGCCUGCUUAAGCUCCAAUACGCACCGUAGGCUGUCUGCCUCGCUGUUCAAACGUAUCAGCUCGGCACUGGAG
.((((((((((...)))))....(((((.....)))))))))).((((((((((....((........))...))))))....((((..((((..(....)...))))..))))..)))) ( -38.10)
>consensus
CUCUCAUGAAUCAGAUCCGCCUUGGCCUUGCUGAGGGCGGAGAUCUCCGCCUGCUUGAGCUCAAGCACACAGCGCAGGCUGUCGGCCUCGCUGGUCAAGCGGUUGAGUUCGGCGGACGCG
...............((((((((..........))))))))....((((((.((((((.(......((.(((((.((((.....))))))))))).....).))))))..)))))).... (-29.90 = -32.07 +   2.17)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 3,070,918 – 3,071,038
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.50
Mean single sequence MFE -47.13
Consensus MFE -29.31
Energy contribution -29.01
Covariance contribution -0.30
Combinations/Pair 1.28
Mean z-score -1.79
Structure conservation index 0.62
SVM decision value 0.34
SVM RNA-class probability 0.695009
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3070918 120 - 22407834
CGCGUCCGCCGAACUCAACCGCUUGACCAGCGAGGCAGACAGCUUGCGCUGUGUGCUUGAGCUCAAGCAGGCGGAGAUUUCCGCCCUUAGCAAGGCCAAGGCGGAUCUGAUUCAUGAAAG
((.((((((((((.((..(((((((...(((.(((((.(((((....))))).)))))..)))....))))))).)).))).(((........)))...))))))).))........... ( -49.80)
>DroSim_CAF1 1163 120 - 1
CGCGUCCGCCGAACUCAACCGCUUGACCAGCGAGGCCGACAGCUUGCGCUGUGUGCUUGAGCUCAAGCAGGCGGAGAUUUCCGCCCUCAGCAAGGCCAAGGCGGAUUUGAUUCAUGAAAG
((.(((((((.........((((.....)))).((((.(((((....))))).((((((....))))))(((((......)))))........))))..))))))).))........... ( -50.80)
>DroEre_CAF1 1137 120 - 1
CGCGUCCGCCGAACUCAACCGCUUGACCAGCGAGGCCGACAGCCUGCGCUGCGUGCUGGAGCUGAAGCAGGCGGAGAUCUCCGCCCUCAGCAAGGCCAAGGCGGAUCUGAUUCAUGAAAG
((.(((((((.........((((.....)))).((((..((((.(((...))).))))..(((((....((((((....)))))).)))))..))))..))))))).))........... ( -53.00)
>DroWil_CAF1 1359 117 - 1
CA---AUGCCGAACUGAGGCGUCUAACCAGCGAGGCUGAUAGCCUGCGUUGUGUAUUGGAGCUGAAGCAGGCAGAGAUAUCCACACUAACCAAAGCCAAUGAGGAUCUCAGGCGGGAGAA
..---.((((...((..(((.(((((((((((((((.....)))).))))).))..)))))))..))..))))................((...(((..((((...))))))).)).... ( -36.60)
>DroYak_CAF1 1162 120 - 1
CGCAUCCGCCGAACUCAAUCGCCUGACCAGCGAGGCCGACAGCCUGCGCUGCGUGCUUGAGCUCAAGCAGGCGGAGAUCUCUGCCCUCAGCAAGGCCAAGGCGGAUCUGAUUCAUGAGAG
((.(((((((((.(((...(((((.(((((((((((.....)))).))))).))(((((....))))))))))))).))...(((........)))...))))))).))........... ( -49.90)
>DroAna_CAF1 3383 120 - 1
CUCCAGUGCCGAGCUGAUACGUUUGAACAGCGAGGCAGACAGCCUACGGUGCGUAUUGGAGCUUAAGCAGGCAGAGAUCUCCAACCUUUCAAAGGCCAAUGCGGACCUGGUCCGGGAGAA
((((..((((..((((...........))))..))))....(((...(((.((((((((.((....)).((.((....))))..(((.....))))))))))).))).)))...)))).. ( -42.70)
>consensus
CGCGUCCGCCGAACUCAACCGCUUGACCAGCGAGGCCGACAGCCUGCGCUGCGUGCUGGAGCUCAAGCAGGCGGAGAUCUCCGCCCUCAGCAAGGCCAAGGCGGAUCUGAUUCAUGAAAG
....((((((..........((.....(((((((((.....)))).)))))...))....((....)).))))))....((((((..............))))))............... (-29.31 = -29.01 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:28 2006