Locus 5228

Sequence ID 3L_DroMel_CAF1
Location 14,418,097 – 14,418,196
Length 99
Max. P 0.842992
window8268 window8269

overview

Window 8

Location 14,418,097 – 14,418,196
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.63
Mean single sequence MFE -24.85
Consensus MFE -16.20
Energy contribution -17.53
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.65
SVM decision value 0.69
SVM RNA-class probability 0.824150
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14418097 99 + 23771897
UUAUGAUAUGAGGCAACACCCCGGCAACCGGCCA---------------------CCAAACAACCUGCUGCUCUGAACAGCCCAGCAGCAGCUUGCAACAACCCAUCAGCAGUUGCAAUU
............(((((.....(((.....))).---------------------.....(((.((((((((((....))...)))))))).)))................))))).... ( -26.20)
>DroSec_CAF1 20478 98 + 1
UUAUGAUAUGAGGCAACACCCCGGCAACCGGCCA---------------------CCA-ACAACCUGCUGCUCUGAACAGCCCAGCAGCAACUUGCAACAACCCAGCAGCAGUUGCAAUU
............(((((.....(((.....))).---------------------...-......((((((((((.......)))..((.....))........)))))))))))).... ( -24.80)
>DroSim_CAF1 34667 98 + 1
UUAUGAUAUGAGGCAACACCCCGGCAACCGGCCA---------------------CCA-ACAACCUGCUGCUCCGAACAGACCAGCAGCAACUUGCAACAACCCAGCAGCAGUUGCAAUU
............(((((.....(((.....))).---------------------...-......(((((((.(.....)....((((....))))........)))))))))))).... ( -23.60)
>DroEre_CAF1 39822 119 + 1
UUAUGGUAUGAGGCAACACCCCGGCAACAGGCAACGGGCAACAGGCAACCGACCACCA-ACAACCUGCUGCUUGAAACAGCUCAGCAGCAACUUGCAACAACCCAGCAGCAGUUGCAAUU
...((((.....((.....((((....).(....))))......)).....))))...-......(((((((.((......)))))))))..(((((((............))))))).. ( -32.80)
>DroYak_CAF1 25929 98 + 1
UUAUGAUAUGAGGCAACACCCCGGCAACCGGCAA---------------------CCA-ACAACCUGCUGCUUGAAGCAGCCCAGCAGCAAGUUGCAACAACCCAGCAGCAGUUGCAAUU
............(((((...((((...))))...---------------------...-......(((((((((..(((((..........)))))..))....)))))))))))).... ( -27.30)
>DroAna_CAF1 35783 81 + 1
UUAUGAUAUGAGGCAACACCCCAGCAACCAGCAA---------------------CCA-GCAACCUGCCACC-------------CAGCAACCUGCAAC----CUGCAACAGUUGCAAUU
...........(....)......(((((..(((.---------------------...-(((...(((....-------------..)))...)))...----.)))....))))).... ( -14.40)
>consensus
UUAUGAUAUGAGGCAACACCCCGGCAACCGGCAA_____________________CCA_ACAACCUGCUGCUCGGAACAGCCCAGCAGCAACUUGCAACAACCCAGCAGCAGUUGCAAUU
............(((((...((((...)))).............................(((..(((((((...........)))))))..)))................))))).... (-16.20 = -17.53 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,418,097 – 14,418,196
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.63
Mean single sequence MFE -35.75
Consensus MFE -26.25
Energy contribution -26.08
Covariance contribution -0.16
Combinations/Pair 1.23
Mean z-score -1.83
Structure conservation index 0.73
SVM decision value 0.76
SVM RNA-class probability 0.842992
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14418097 99 - 23771897
AAUUGCAACUGCUGAUGGGUUGUUGCAAGCUGCUGCUGGGCUGUUCAGAGCAGCAGGUUGUUUGG---------------------UGGCCGGUUGCCGGGGUGUUGCCUCAUAUCAUAA
....((((((.(....)(((..((((((.((((((((.((....))..)))))))).))))..))---------------------..))))))))).((((.....))))......... ( -35.80)
>DroSec_CAF1 20478 98 - 1
AAUUGCAACUGCUGCUGGGUUGUUGCAAGUUGCUGCUGGGCUGUUCAGAGCAGCAGGUUGU-UGG---------------------UGGCCGGUUGCCGGGGUGUUGCCUCAUAUCAUAA
....((((((((..(((.......((((.((((((((.((....))..)))))))).))))-)))---------------------..).))))))).((((.....))))......... ( -34.81)
>DroSim_CAF1 34667 98 - 1
AAUUGCAACUGCUGCUGGGUUGUUGCAAGUUGCUGCUGGUCUGUUCGGAGCAGCAGGUUGU-UGG---------------------UGGCCGGUUGCCGGGGUGUUGCCUCAUAUCAUAA
....((((((((..(..(((....))......((((((.(((....))).))))))....)-..)---------------------..).))))))).((((.....))))......... ( -35.60)
>DroEre_CAF1 39822 119 - 1
AAUUGCAACUGCUGCUGGGUUGUUGCAAGUUGCUGCUGAGCUGUUUCAAGCAGCAGGUUGU-UGGUGGUCGGUUGCCUGUUGCCCGUUGCCUGUUGCCGGGGUGUUGCCUCAUACCAUAA
....(((((.((.((.((((....((((.(((((((((((....))).)))))))).))))-.((..(....)..))....)))))).))..))))).((((.....))))......... ( -41.90)
>DroYak_CAF1 25929 98 - 1
AAUUGCAACUGCUGCUGGGUUGUUGCAACUUGCUGCUGGGCUGCUUCAAGCAGCAGGUUGU-UGG---------------------UUGCCGGUUGCCGGGGUGUUGCCUCAUAUCAUAA
....((((((((.((((.......(((((((((((((.((.....)).)))))))))))))-)))---------------------).).))))))).((((.....))))......... ( -36.21)
>DroAna_CAF1 35783 81 - 1
AAUUGCAACUGUUGCAG----GUUGCAGGUUGCUG-------------GGUGGCAGGUUGC-UGG---------------------UUGCUGGUUGCUGGGGUGUUGCCUCAUAUCAUAA
....((((((...((((----.(.((((.(((((.-------------...))))).))))-.).---------------------)))).))))))(((((.....)))))........ ( -30.20)
>consensus
AAUUGCAACUGCUGCUGGGUUGUUGCAAGUUGCUGCUGGGCUGUUCAGAGCAGCAGGUUGU_UGG_____________________UGGCCGGUUGCCGGGGUGUUGCCUCAUAUCAUAA
....((((((((.((......)).((((.((((((((...........)))))))).))))...........................)).)))))).((((.....))))......... (-26.25 = -26.08 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:59 2006