Locus 151

Sequence ID X_DroMel_CAF1
Location 536,621 – 536,770
Length 149
Max. P 0.719136
window238 window239 window240

overview

Window 8

Location 536,621 – 536,733
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.00
Mean single sequence MFE -30.96
Consensus MFE -21.18
Energy contribution -20.90
Covariance contribution -0.28
Combinations/Pair 1.08
Mean z-score -2.28
Structure conservation index 0.68
SVM decision value 0.39
SVM RNA-class probability 0.719136
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 536621 112 + 22224390
GCCUCCGGCAGCUGCAAGUGUAUUUAAAUUUCAACAAAUUAGCUUAGU--------AAGUUGGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCGAAGGAAAU
.(((.((((........((((..................(((((....--------.....))))).........(((((..........)))))))))(((...))))))).))).... ( -27.60)
>DroSec_CAF1 24775 112 + 1
GCCUCCGGCAGCUGCAAGUGUAUUUAAAUUUCAACAAAUUAGCUUACU--------AAGUUGUCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCGGAGGCAAU
(((((((((........((((................((.(((..((.--------.....))..))).))....(((((..........)))))))))(((...))))))))))))... ( -38.30)
>DroSim_CAF1 24962 112 + 1
GCCUCCGGCAGCUGCAAGUGUAUUUAAAUUUCAACAAAUUAGCUUACU--------AAGUUGGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCGGAGGCAAU
((((((((((((.((((((........))))...(((.((((....))--------)).))))).)))......((((((..........))))))...(((...))))))))))))... ( -38.70)
>DroEre_CAF1 28323 100 + 1
GCCUCCGGCAGCUGCAAGUGUAUUUAAAUUUCAACAAAUUAGCUUAGA--------GAGUUAGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUC------------
..(((.(((((((((....))).................((((((...--------))))))))))))......((((((..........))))))...)))......------------ ( -22.80)
>DroYak_CAF1 22610 110 + 1
GCCUCCGGCAGCUGCAAGUGUAUUUAAGUUUCAACAAAUUAGCUUAGUGAGUCAGUGAGUUAGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCU-----G-----
(((...))).......((.(((((((((((..........))))))(((((.((((......)))))))))...((((((..........)))))).....))))).))-----.----- ( -27.40)
>consensus
GCCUCCGGCAGCUGCAAGUGUAUUUAAAUUUCAACAAAUUAGCUUAGU________AAGUUGGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCG_AGG_AAU
..(((.(((((((((....))).................((((((...........))))))))))))......((((((..........))))))...))).................. (-21.18 = -20.90 +  -0.28) 

alignment

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secondary structure

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dotplot

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Window 9

Location 536,661 – 536,770
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.14
Mean single sequence MFE -31.48
Consensus MFE -24.19
Energy contribution -24.96
Covariance contribution 0.77
Combinations/Pair 1.07
Mean z-score -1.52
Structure conservation index 0.77
SVM decision value -0.01
SVM RNA-class probability 0.529745
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 536661 109 + 22224390
AGCUUAGU--------AAGUUGGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCGAAGGAAAUUCCGGGGGGUUCCGGAAUGAAAAUGGAGAGACAGUUG---
((((....--------.))))((((((((.....((((((..........))))))..((((...))))(((......((((((((....)))))))).....))).))).))))).--- ( -31.30)
>DroSec_CAF1 24815 109 + 1
AGCUUACU--------AAGUUGUCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCGGAGGCAAUUCCGGGGGGUUCCGGAAUGAAAAUGGAGAGACAGUUG---
........--------...((((((.(((.....((((((..........))))))..((.((.((((.((((((....)))))).))))))))...........)))))))))...--- ( -36.50)
>DroSim_CAF1 25002 109 + 1
AGCUUACU--------AAGUUGGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCGGAGGCAAUUCCGGGGGGUUCCGGAAUGAAAAUGGAGAGACAGUUG---
((((....--------.))))((((((((.....((((((..........))))))..((.((.((((.((((((....)))))).)))))))).............))).))))).--- ( -35.70)
>DroEre_CAF1 28363 97 + 1
AGCUUAGA--------GAGUUAGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUC---------------GGGGGGUUCCGGAAUGAAAAUGGAGAGACAGUUGGGA
........--------...((((((((((.....((((((..........))))))..((((...)))---------------)......((((.........))))))).))))))).. ( -24.00)
>DroYak_CAF1 22650 107 + 1
AGCUUAGUGAGUCAGUGAGUUAGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCU-----G-----GCUGGGGGGUUCCGGAAUGAAAGUGGAGAGACAGUUG---
((((((.((...)).))))))((((((((.....((((((..........))))))((((((...))).-----.-----.(((((....))))).......)))..))).))))).--- ( -29.90)
>consensus
AGCUUAGU________AAGUUGGCUGCUCAUAAAUCCGUGGCCAUAAAAACACGGACACGAGAUACUCGCCG_AGG_AAUUCCGGGGGGUUCCGGAAUGAAAAUGGAGAGACAGUUG___
(((((...........)))))((((((((.....((((((..........))))))..((.((.((((.(((..........))).)))))))).............))).))))).... (-24.19 = -24.96 +   0.77) 

alignment

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secondary structure

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dotplot

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Window 0

Location 536,661 – 536,770
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.14
Mean single sequence MFE -27.06
Consensus MFE -21.08
Energy contribution -22.48
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.78
SVM decision value 0.23
SVM RNA-class probability 0.646141
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 536661 109 - 22224390
---CAACUGUCUCUCCAUUUUCAUUCCGGAACCCCCCGGAAUUUCCUUCGGCGAGUAUCUCGUGUCCGUGUUUUUAUGGCCACGGAUUUAUGAGCAGCCAACUU--------ACUAAGCU
---...(((((((.((......(((((((......))))))).......)).))).(((.((((.(((((....))))).)))))))......)))).......--------........ ( -28.62)
>DroSec_CAF1 24815 109 - 1
---CAACUGUCUCUCCAUUUUCAUUCCGGAACCCCCCGGAAUUGCCUCCGGCGAGUAUCUCGUGUCCGUGUUUUUAUGGCCACGGAUUUAUGAGCAGACAACUU--------AGUAAGCU
---....((((((((....((((((((((......))))))).(((...)))))).(((.((((.(((((....))))).)))))))....))).)))))....--------........ ( -33.00)
>DroSim_CAF1 25002 109 - 1
---CAACUGUCUCUCCAUUUUCAUUCCGGAACCCCCCGGAAUUGCCUCCGGCGAGUAUCUCGUGUCCGUGUUUUUAUGGCCACGGAUUUAUGAGCAGCCAACUU--------AGUAAGCU
---...(((.(((......((((((((((......))))))).(((...)))))).(((.((((.(((((....))))).)))))))....)))))).......--------........ ( -30.30)
>DroEre_CAF1 28363 97 - 1
UCCCAACUGUCUCUCCAUUUUCAUUCCGGAACCCCCC---------------GAGUAUCUCGUGUCCGUGUUUUUAUGGCCACGGAUUUAUGAGCAGCUAACUC--------UCUAAGCU
......(((.(((.........((((.((.....)).---------------))))(((.((((.(((((....))))).)))))))....)))))).......--------........ ( -21.20)
>DroYak_CAF1 22650 107 - 1
---CAACUGUCUCUCCACUUUCAUUCCGGAACCCCCCAGC-----C-----AGAGUAUCUCGUGUCCGUGUUUUUAUGGCCACGGAUUUAUGAGCAGCUAACUCACUGACUCACUAAGCU
---........................((......))(((-----.-----..((((((.((((.(((((....))))).)))))))....((((((........))).))))))..))) ( -22.20)
>consensus
___CAACUGUCUCUCCAUUUUCAUUCCGGAACCCCCCGGAAUU_CCU_CGGCGAGUAUCUCGUGUCCGUGUUUUUAUGGCCACGGAUUUAUGAGCAGCCAACUU________ACUAAGCU
......(((.(((..........((((((......))))))...............(((.((((.(((((....))))).)))))))....))))))....................... (-21.08 = -22.48 +   1.40) 

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:17 2006