Locus 3933

Sequence ID X_DroMel_CAF1
Location 10,491,703 – 10,491,819
Length 116
Max. P 0.950896
window6460 window6461

overview

Window 0

Location 10,491,703 – 10,491,795
Length 92
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 90.60
Mean single sequence MFE -20.40
Consensus MFE -14.40
Energy contribution -14.08
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -1.98
Structure conservation index 0.71
SVM decision value 0.02
SVM RNA-class probability 0.543683
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10491703 92 - 22224390
AAUACACAAUUUUGUAG-----CACACACGCCACGUU-UGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUACAAG------UACAACCAAAAAUCA
..........(((((((-----((.((((((((....-))))).)))..)))..(((.......)))..........))))))------............... ( -18.30)
>DroSec_CAF1 22957 92 - 1
AAUACACAAUUUUGUAG-----CACACACGCCACGUU-UGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUACAAG------UAAAACCAAAAAUCA
..........(((((((-----((.((((((((....-))))).)))..)))..(((.......)))..........))))))------............... ( -18.30)
>DroSim_CAF1 23138 92 - 1
AAUACACAAUUUUGUAG-----CACACACGCCACGUU-UGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUACAAG------UAAAACCAAAAAUCA
..........(((((((-----((.((((((((....-))))).)))..)))..(((.......)))..........))))))------............... ( -18.30)
>DroEre_CAF1 24505 97 - 1
ACUACCCA-UUUUGUAG-----CACACACGCCACGUU-UGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGGACAAGUACAAGUACAACCAAAAAUCA
.....((.-...(((((-----.(((.((((((....-))))))))).))))).(((.......))).........))....(((....)))............ ( -20.20)
>DroYak_CAF1 24658 98 - 1
AAUACACAGCUUUGUGGCACGGCACACACGCCACGUUUUGGCGUUGUCUUGCACGUGGCCCCAACACAAGGAACAAGGACAAG------UACAACCAAAAAUCA
..(((....(((((((((((((((.((((((((.....))))).)))..))).))).)))((.......)).))))))....)------))............. ( -26.90)
>consensus
AAUACACAAUUUUGUAG_____CACACACGCCACGUU_UGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUACAAG______UACAACCAAAAAUCA
.........((((((.(.....)......(((((((....(((......))))))))))......))))))................................. (-14.40 = -14.08 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,491,721 – 10,491,819
Length 98
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 88.57
Mean single sequence MFE -24.55
Consensus MFE -20.52
Energy contribution -21.02
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.24
Structure conservation index 0.84
SVM decision value 1.41
SVM RNA-class probability 0.950896
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10491721 98 - 22224390
UAUGG--GCCCAAUAACACACA------------UACAAAUACACAAUUUUGUAGCACACACGCCACGUUUGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUAC
..(((--((((...........------------((((((........))))))(((.((((((((....))))).)))..)))..).))).)))................. ( -24.80)
>DroSec_CAF1 22975 98 - 1
UAGGG--GCCCAAUCACACACA------------UACAAAUACACAAUUUUGUAGCACACACGCCACGUUUGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUAC
..((.--((((...........------------((((((........))))))(((.((((((((....))))).)))..)))..).))).)).................. ( -24.10)
>DroSim_CAF1 23156 98 - 1
UAGGG--GCCCAAUCACACGCA------------UACAAAUACACAAUUUUGUAGCACACACGCCACGUUUGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUAC
..((.--((((........((.------------((((((........))))))))(((.((((((....))))))))).......).))).)).................. ( -24.30)
>DroEre_CAF1 24529 111 - 1
CAGGGUGGCCCAAUCACACAACUACAAAUACAAAUACAACUACCCA-UUUUGUAGCACACACGCCACGUUUGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGGAC
..((((((...............................)))))).-((((((.(((.((((((((....))))).)))..)))..(((.......))).....)))))).. ( -24.98)
>consensus
UAGGG__GCCCAAUCACACACA____________UACAAAUACACAAUUUUGUAGCACACACGCCACGUUUGGCGUUGUCUUGCACGUGGCACCAACACAAAGAACAAGUAC
..((...((((.......................((((((........))))))(((.((((((((....))))).)))..)))..).))).)).................. (-20.52 = -21.02 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:10 2006