Locus 4191

Sequence ID 3L_DroMel_CAF1
Location 12,247,952 – 12,248,060
Length 108
Max. P 0.993537
window6497 window6498

overview

Window 7

Location 12,247,952 – 12,248,060
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 71.64
Mean single sequence MFE -39.42
Consensus MFE -11.48
Energy contribution -11.45
Covariance contribution -0.03
Combinations/Pair 1.33
Mean z-score -2.20
Structure conservation index 0.29
SVM decision value 0.43
SVM RNA-class probability 0.735285
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12247952 108 + 23771897
ACGAUGGGAAGUACCUGGAGACAUCGCCGCGCUUCAGCGUCGGCAGCUUCUGGGCCUUGAUGGCCUUCAGUUUGAUUGCCAGGACAUUCUCCAGGCUCUUACCG---------CUCU---
..(((((.(((..((((((((.....((((((....)))).((((((..(((((((.....))))..)))...).))))).))....))))))))..))).)))---------.)).--- ( -45.00)
>DroPse_CAF1 1253 120 + 1
ACGAUGGAAAAUACCUAGGGACAUCACCGCGCCUCAGGGCGGGCAGCUUUUGUCCCCUAAUGGCCUUCAGUUUCACGGCCAAGGCAUUUUCCAAGCUCUUGCCAUGCACCAAGCCCUAGU
....((((((((.(((.((((((...((.((((....)))))).......))))))....(((((...........)))))))).)))))))).(((..(((...)))...)))...... ( -40.40)
>DroWil_CAF1 3523 108 + 1
AUGAUGGAAAAUACCUAGCGACAUCACCGCGCUUCAAGGCAGGUAGCUUCUGGCCUCUAAGUGCUUUCAAUUUCAAUGCUAGGGAAUUUUCCAGACUUUUGCCG---------AUCU---
....((((((((.(((((((....)...((((((..(((((((.....))).))))..)))))).............))))))..))))))))...........---------....--- ( -34.20)
>DroMoj_CAF1 1266 108 + 1
AGGAUGGAUAAUACCUAGCGACAUCGCCGCGCUUCAAUGUUGGUAUCUUUUGACCCGAAAGGGCUUGCAAACUUUUUGCUAGGGCAUUUUCCAAGCGUUUGCCC---------UUCU---
(((.((((.(((.((((((((....((((.((......))))))....((((.(((....)))....))))....))))))))..))).)))).((....))))---------)...--- ( -31.30)
>DroAna_CAF1 1438 108 + 1
AGGAGGGGAAGUACCUGGCGACAUCGCCGCGCUUCAGCGCCGGCAGCUUCUGGCCCUUGACAGCCUUCAACUUGAGGGCCAGGACCUUCUCCAGUCUCAUAGCG---------CCCU---
(((.(((((((..((.((((....))))((((....)))).))....((((((((((..(...........)..)))))))))).))))))).((......)).---------.)))--- ( -45.20)
>DroPer_CAF1 1253 120 + 1
ACGAUGGAAAAUACCUAGGGACAUCACCGCGCCUCAGGGCGGGCAGCUUUUGUCCCCUAAUGGCCUUCAGUUUCACGGCCAAGGCAUUUUCCAAGCUCUUGCCAUGCACCAAGCCCUAGU
....((((((((.(((.((((((...((.((((....)))))).......))))))....(((((...........)))))))).)))))))).(((..(((...)))...)))...... ( -40.40)
>consensus
ACGAUGGAAAAUACCUAGCGACAUCACCGCGCUUCAGGGCCGGCAGCUUCUGGCCCCUAAUGGCCUUCAAUUUCACGGCCAGGGCAUUUUCCAAGCUCUUGCCG_________CCCU___
....((((.(((.(((............(((((........))).))..............(((.............))).))).))).))))........................... (-11.48 = -11.45 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,247,952 – 12,248,060
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 71.64
Mean single sequence MFE -43.78
Consensus MFE -18.17
Energy contribution -19.65
Covariance contribution 1.48
Combinations/Pair 1.36
Mean z-score -2.65
Structure conservation index 0.42
SVM decision value 2.41
SVM RNA-class probability 0.993537
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12247952 108 - 23771897
---AGAG---------CGGUAAGAGCCUGGAGAAUGUCCUGGCAAUCAAACUGAAGGCCAUCAAGGCCCAGAAGCUGCCGACGCUGAAGCGCGGCGAUGUCUCCAGGUACUUCCCAUCGU
---.((.---------.((.(((.(((((((((.(((....)))(((...(((..((((.....))))))).....((((.(((....)))))))))).))))))))).))).)).)).. ( -47.00)
>DroPse_CAF1 1253 120 - 1
ACUAGGGCUUGGUGCAUGGCAAGAGCUUGGAAAAUGCCUUGGCCGUGAAACUGAAGGCCAUUAGGGGACAAAAGCUGCCCGCCCUGAGGCGCGGUGAUGUCCCUAGGUAUUUUCCAUCGU
....((((((..(((...))).))))))((((((((((((((((...........)))))...(((((((...(((((..(((....))))))))..))))))))))))))))))..... ( -53.10)
>DroWil_CAF1 3523 108 - 1
---AGAU---------CGGCAAAAGUCUGGAAAAUUCCCUAGCAUUGAAAUUGAAAGCACUUAGAGGCCAGAAGCUACCUGCCUUGAAGCGCGGUGAUGUCGCUAGGUAUUUUCCAUCAU
---.(((---------.(((....))).(((((((..((((((...((.((((...((.(((.(((((.((.......))))))).))).))..)))).)))))))).)))))))))).. ( -33.00)
>DroMoj_CAF1 1266 108 - 1
---AGAA---------GGGCAAACGCUUGGAAAAUGCCCUAGCAAAAAGUUUGCAAGCCCUUUCGGGUCAAAAGAUACCAACAUUGAAGCGCGGCGAUGUCGCUAGGUAUUAUCCAUCCU
---...(---------((((....)).((((.((((((.((((.....((((....((((....))))....))))....((((((........)))))).)))))))))).)))).))) ( -30.00)
>DroAna_CAF1 1438 108 - 1
---AGGG---------CGCUAUGAGACUGGAGAAGGUCCUGGCCCUCAAGUUGAAGGCUGUCAAGGGCCAGAAGCUGCCGGCGCUGAAGCGCGGCGAUGUCGCCAGGUACUUCCCCUCCU
---((((---------.(((....((((......))))((((((((..(((.....)))....)))))))).)))((((.((((....))))((((....)))).))))....))))... ( -46.50)
>DroPer_CAF1 1253 120 - 1
ACUAGGGCUUGGUGCAUGGCAAGAGCUUGGAAAAUGCCUUGGCCGUGAAACUGAAGGCCAUUAGGGGACAAAAGCUGCCCGCCCUGAGGCGCGGUGAUGUCCCUAGGUAUUUUCCAUCGU
....((((((..(((...))).))))))((((((((((((((((...........)))))...(((((((...(((((..(((....))))))))..))))))))))))))))))..... ( -53.10)
>consensus
___AGAG_________CGGCAAGAGCCUGGAAAAUGCCCUGGCAAUGAAACUGAAGGCCAUUAGGGGCCAAAAGCUGCCCGCCCUGAAGCGCGGCGAUGUCGCUAGGUAUUUUCCAUCGU
.................(((....)))(((((((((.(((((.............((((......))))....(((((..((......))))))).......)))))))))))))).... (-18.17 = -19.65 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:26 2006