Locus 4186

Sequence ID 2L_DroMel_CAF1
Location 11,985,694 – 11,985,801
Length 107
Max. P 0.771276
window6616 window6617

overview

Window 6

Location 11,985,694 – 11,985,801
Length 107
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 81.36
Mean single sequence MFE -22.36
Consensus MFE -16.26
Energy contribution -16.27
Covariance contribution 0.00
Combinations/Pair 1.22
Mean z-score -1.45
Structure conservation index 0.73
SVM decision value 0.24
SVM RNA-class probability 0.649643
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11985694 107 + 22407834
CCAUCGCCAAAGGCGCAAGAUCCUCGGCUUUAAGUUUCUGCCGAAGUUUCUUAACCUUUUUCUUUGGCUUUUUAAAUCUGGAAUUUAAUAAACGUA--UUUGCAUUAAA
.....(((...)))(((((.....((...(((((((((.(((((((...............)))))))...........)))))))))....))..--)))))...... ( -20.56)
>DroPse_CAF1 44203 108 + 1
CCUCAGCCAAAGGCUCGAGGUCUUCGGCUUUCAGUUUCUGCCGAAGCUUCUUUACCUUUUUCUUUGGCUUCUUGAAUCUAAAGGG-AAUGAGAUUAUUUUGGAAUGAAG
..(((.((((((.(((((((.(((((((...........))))))))))).......((..((((((.((....)).))))))..-)).)))....))))))..))).. ( -33.20)
>DroSec_CAF1 3714 107 + 1
CCAUCGCCAAAGGCUCAAGAUCCUCGGCUUUAAGUUUCUGCCGAAGUUUCUUAACCUUUUUCUUUGGCUUUUUAAAUCUGGAAAUUUAUAAACGUG--UUUGCAUUAAA
.....((((((((...((((..((((((...........)))).))..))))........))))))))..........((.((((..........)--))).))..... ( -20.80)
>DroEre_CAF1 3713 107 + 1
CUUCCGCCAAAGGCUCAAGAUCCUCGGCUUUUAGUUUCUGUCGAAGUUUCUUAACCUUCUUCUUUGGCUUCUUAAAUCUGGAAAUAAAUAAAAGUA--UUUGCAUUAAA
.....((((((((...((((..((((((...........)))).))..))))........))))))))..........((.(((((........))--))).))..... ( -19.50)
>DroYak_CAF1 3740 107 + 1
CCUCUGCCAAAGGCUCAAGAUCCUCGGCUUUUAGUUUCUGCCGAAGUUUCUUAACCUUUUUCUUUGGCUUUUUAAAUCUGUAAAUAAAAAAACGCA--UUUGCAUUAAA
.....((((((((...((((..((((((...........)))).))..))))........))))))))..........(((((((..........)--))))))..... ( -22.20)
>DroAna_CAF1 35569 99 + 1
CCUCCGGCAAAGGCUCCAGAUCCUCGGCCUUCAGUUUCUGGCGCAGUUUCUUGACCUUCUUCUUUGGCUUUUUAAACCUGAAAC-AUAAAAUCG---------AUUAAU
.....(.(((((((.(((((..((........))..))))).)).(((....)))......))))).)................-.........---------...... ( -17.90)
>consensus
CCUCCGCCAAAGGCUCAAGAUCCUCGGCUUUAAGUUUCUGCCGAAGUUUCUUAACCUUUUUCUUUGGCUUUUUAAAUCUGGAAAUAAAUAAACGUA__UUUGCAUUAAA
.....((((((((...((((..((((((...........)))).))..))))........))))))))......................................... (-16.26 = -16.27 +   0.00)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 11,985,694 – 11,985,801
Length 107
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 81.36
Mean single sequence MFE -24.68
Consensus MFE -18.03
Energy contribution -19.28
Covariance contribution 1.25
Combinations/Pair 1.10
Mean z-score -1.74
Structure conservation index 0.73
SVM decision value 0.53
SVM RNA-class probability 0.771276
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11985694 107 - 22407834
UUUAAUGCAAA--UACGUUUAUUAAAUUCCAGAUUUAAAAAGCCAAAGAAAAAGGUUAAGAAACUUCGGCAGAAACUUAAAGCCGAGGAUCUUGCGCCUUUGGCGAUGG
.....(((...--...((((.(((((((...))))))).)))).......(((((((((((..(((((((...........))))))).))))).)))))).))).... ( -25.30)
>DroPse_CAF1 44203 108 - 1
CUUCAUUCCAAAAUAAUCUCAUU-CCCUUUAGAUUCAAGAAGCCAAAGAAAAAGGUAAAGAAGCUUCGGCAGAAACUGAAAGCCGAAGACCUCGAGCCUUUGGCUGAGG
((((..........(((((.(..-....).))))).....((((((((....((((.......(((((((...........))))))))))).....)))))))))))) ( -26.11)
>DroSec_CAF1 3714 107 - 1
UUUAAUGCAAA--CACGUUUAUAAAUUUCCAGAUUUAAAAAGCCAAAGAAAAAGGUUAAGAAACUUCGGCAGAAACUUAAAGCCGAGGAUCUUGAGCCUUUGGCGAUGG
...........--..((((..((((((....))))))....(((((((.....(.((((((..(((((((...........))))))).)))))).)))))))))))). ( -27.50)
>DroEre_CAF1 3713 107 - 1
UUUAAUGCAAA--UACUUUUAUUUAUUUCCAGAUUUAAGAAGCCAAAGAAGAAGGUUAAGAAACUUCGACAGAAACUAAAAGCCGAGGAUCUUGAGCCUUUGGCGGAAG
...........--..(((..((((......))))..)))..(((((((.....(.((((((..(((((...............))))).)))))).))))))))..... ( -19.56)
>DroYak_CAF1 3740 107 - 1
UUUAAUGCAAA--UGCGUUUUUUUAUUUACAGAUUUAAAAAGCCAAAGAAAAAGGUUAAGAAACUUCGGCAGAAACUAAAAGCCGAGGAUCUUGAGCCUUUGGCAGAGG
...(((((...--.)))))......................(((((((.....(.((((((..(((((((...........))))))).)))))).))))))))..... ( -28.30)
>DroAna_CAF1 35569 99 - 1
AUUAAU---------CGAUUUUAU-GUUUCAGGUUUAAAAAGCCAAAGAAGAAGGUCAAGAAACUGCGCCAGAAACUGAAGGCCGAGGAUCUGGAGCCUUUGCCGGAGG
.....(---------(...((((.-(((((.((((.....)))).........(((((......)).))).)))))))))(((.((((........)))).))).)).. ( -21.30)
>consensus
UUUAAUGCAAA__UACGUUUAUUUAUUUCCAGAUUUAAAAAGCCAAAGAAAAAGGUUAAGAAACUUCGGCAGAAACUAAAAGCCGAGGAUCUUGAGCCUUUGGCGGAGG
.........................................(((((((.....(.((((((..(((((((...........))))))).)))))).))))))))..... (-18.03 = -19.28 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:54 2006