Locus 1156

Sequence ID 3L_DroMel_CAF1
Location 3,354,132 – 3,354,314
Length 182
Max. P 0.800457
window1798 window1799

overview

Window 8

Location 3,354,132 – 3,354,245
Length 113
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.33
Mean single sequence MFE -20.57
Consensus MFE -15.85
Energy contribution -15.58
Covariance contribution -0.27
Combinations/Pair 1.29
Mean z-score -1.56
Structure conservation index 0.77
SVM decision value 0.62
SVM RNA-class probability 0.800457
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3354132 113 - 23771897
GUGUUUGGCCCACCAGUUGGGCACGCGUCAAUCCC-CCCAUCGAUUCCACUCAGUGACUGCCACAUUUUCACGCUUCACCAAAGCUCAGACCGUCGACAAACACGA-----AA-AUACAU
((((((((((((.....)))))(((.(((......-.................((((...........))))((((.....))))...))))))...)))))))..-----..-...... ( -28.30)
>DroSec_CAF1 21318 113 - 1
CUGUUUGCCCCACCAGUUGGGCUCCUGUCAAUCCC-CCCAUCGAUUCCACUCAAUGACUGCCACAUUUUCACGCUUCACCAAAGCUCAGACCGUCGACAAACACGC-----AA-AUACAU
.(((((((((((.....))))....((((......-..(((.((......)).)))................((((.....))))..........)))).....))-----))-)))... ( -18.10)
>DroSim_CAF1 19001 113 - 1
CUGUUUGGCCCACCAGUUGGGCACCUGUCAAUCCC-CCCAUCGAUUCCACUCAAUGACUGCCACAUUUUCACGCUUCACCAAAGCUCAGACCGUCGACAAACACGC-----AA-AUACAU
.(((((((((((.....)))))....(((......-..(((.((......)).)))................((((.....))))...)))......))))))...-----..-...... ( -19.90)
>DroEre_CAF1 19883 109 - 1
CUGUUUGGCCCACUAGUUGGGCAC----CAAUCCC-CCCAUCGAUUUCACUCAAUGACUGCCACAUUUUCACGCUUCACCAGAGCUCAGACCGUCGACAAACACUC-----AA-UUACAU
.(((((((((((.....)))))..----.......-....(((((.((....((((.......)))).....((((.....))))...))..)))))))))))...-----..-...... ( -20.90)
>DroYak_CAF1 19878 111 - 1
CUGUUUGGCCCACUAGCUGGGCAC----CAAUCCCCCCCAUCGAUUUCACUCAAUGACUGCCACAUUUUCACGCUUCACCAGAGCUCAGACCGUCGACAAACACUC-----AAAAUACAU
.(((((((((((.....)))))..----............(((((.((....((((.......)))).....((((.....))))...))..)))))))))))...-----......... ( -20.90)
>DroAna_CAF1 22110 108 - 1
CUGUUUCGACUCCUUCAAAGGUCC----AUAUAUC-ACCAUCGAUUCCAUUCAAAGACUGCCACUCUUUCGAACUCCCACGGAGU------CCUCGACCAACAUCCGUAGUAA-UGACAU
.......((((........)))).----.......-..............(((...(((((.......(((((((((...)))))------..)))).........)))))..-)))... ( -15.29)
>consensus
CUGUUUGGCCCACCAGUUGGGCAC____CAAUCCC_CCCAUCGAUUCCACUCAAUGACUGCCACAUUUUCACGCUUCACCAAAGCUCAGACCGUCGACAAACACGC_____AA_AUACAU
.(((((((((((.....)))))..................(((((.......((((.......)))).....((((.....)))).......)))))))))))................. (-15.85 = -15.58 +  -0.27)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,354,206 – 3,354,314
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.22
Mean single sequence MFE -32.43
Consensus MFE -21.71
Energy contribution -23.02
Covariance contribution 1.31
Combinations/Pair 1.14
Mean z-score -1.31
Structure conservation index 0.67
SVM decision value 0.60
SVM RNA-class probability 0.795961
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3354206 108 - 23771897
----AUUUUGGACCGGAGUGAUGCGCUCCGGGUCCCU-UUGGCUCAAUAGCAAUA------CGAACCGUAGCAAUCCGAAGUGUUUGGCCCACCAGUUGGGCACGCGUCAAUCCC-CCCA
----....(((...(((.(((((((((.(((.((...-...(((....)))....------.)).))).)))........(((((..((......))..))))))))))).))).-.))) ( -36.40)
>DroSec_CAF1 21392 108 - 1
----AUUUUGUCCCGGAGUGAUGCGCUCCGGGUCCCU-UUGGCUCAAUAGCAAUA------CGAACCGUAGCAAUCCGAACUGUUUGCCCCACCAGUUGGGCUCCUGUCAAUCCC-CCCA
----.....(.(((((((((...))))))))).)...-(((((......((..((------((...))))))...((.(((((..........))))).)).....)))))....-.... ( -29.20)
>DroSim_CAF1 19075 108 - 1
----AUUUUGGCCCGGAGUGAUGCGCUCCGGGUCCCU-UUGGCUCAAUAGCAAUA------CGAACCGUAGCAAUCCGAACUGUUUGGCCCACCAGUUGGGCACCUGUCAAUCCC-CCCA
----.....(((((((((((...)))))))))))...-(((((............------(((((.((..........)).)))))(((((.....)))))....)))))....-.... ( -35.50)
>DroEre_CAF1 19957 105 - 1
----AUUCUGGCCCGGAGUGAAGCGCUCCGGGUCCCUUUUGGCCCAAUAGCAAUA------CGAACCGUAGCAAUGCGAACUGUUUGGCCCACUAGUUGGGCAC----CAAUCCC-CCCA
----.....(((((((((((...))))))))))).......(((((((((.....------(((((((((....))))....))))).....)).)))))))..----.......-.... ( -38.90)
>DroYak_CAF1 19953 112 - 1
----AUUUUGGCCCGGAGUGAUGCGCUCCGGGUCCCUUUUGGCCCAAUAGCAAUACGAAUACGAACCGUAGCAAUGCGAACUGUUUGGCCCACUAGCUGGGCAC----CAAUCCCCCCCA
----.....(((((((((((...))))))))))).......(((((.(((.....((((((.(...((((....))))..))))))).....)))..)))))..----............ ( -38.40)
>DroAna_CAF1 22183 90 - 1
AACCGUCUCGGUCCGGAC---AUUGUUCCGGCAUCCUUCU---------------------CGAACUGUAGUA-UUCGAACUGUUUCGACUCCUUCAAAGGUCC----AUAUAUC-ACCA
.(((.....((.(((((.---.....)))))...))...(---------------------((((...((((.-.....)))).)))))..........)))..----.......-.... ( -16.20)
>consensus
____AUUUUGGCCCGGAGUGAUGCGCUCCGGGUCCCU_UUGGCUCAAUAGCAAUA______CGAACCGUAGCAAUCCGAACUGUUUGGCCCACCAGUUGGGCAC____CAAUCCC_CCCA
.........((((((((((.....))))))))))...........................(((((.((..........)).)))))(((((.....))))).................. (-21.71 = -23.02 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:33 2006