Locus 3806

Sequence ID X_DroMel_CAF1
Location 10,098,103 – 10,098,204
Length 101
Max. P 0.780522
window6259 window6260

overview

Window 9

Location 10,098,103 – 10,098,204
Length 101
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 80.45
Mean single sequence MFE -31.90
Consensus MFE -18.97
Energy contribution -20.38
Covariance contribution 1.42
Combinations/Pair 1.17
Mean z-score -1.78
Structure conservation index 0.59
SVM decision value 0.17
SVM RNA-class probability 0.617033
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10098103 101 + 22224390
UGCGAUGCACCUA-------GCCCACUGCAC-GUGGGCGCCAUCUGU-GGCAUGCAAAUGCAACUGCCUGCUGUAUUACAUGGCGUAUACUUGAUAUGCCUCGCUUUUUA
.((((((((....-------((((((.....-))))))((((....)-))).))))((((((.(.....).))))))....(((((((.....)))))))))))...... ( -37.80)
>DroSec_CAF1 16118 101 + 1
UGUGAUGCACCUC-------GCCCACUGCAC-GUGGGCGCCAUCUGU-AGCAUGCAAAUGCAACUGCCUGCUGUAUUACAUGGCGUAUACUUGAUAUGCCUCGCUUUUUA
((((((((....(-------((((((.....-)))))))........-((((.(((........))).)))))))))))).(((((((.....))))))).......... ( -36.80)
>DroSim_CAF1 15817 101 + 1
UGUGAUGCACCUC-------GCCCAGUGCAC-GUGGGCGCCAUCUGU-AGCAUGCAAAUGCAACUGCCUGCUGUAUUACAUGGCGUAUACUUGAUAUGCCUCGCUUUUUA
((((((((....(-------((((((....)-.))))))........-((((.(((........))).)))))))))))).(((((((.....))))))).......... ( -33.40)
>DroEre_CAF1 20389 101 + 1
UGUUAUGCAGCCC-------ACCCAUUGCAC-GCGGGCGCCAUCUGU-GGCAUGCAAAUGCAACUGCUUGCUGGACUACAUGGCGAAUACUUGAUAUGCCUCGCUUUUUA
.((((((.((.((-------(......(((.-((((..((((....)-))).(((....))).)))).)))))).)).)))))).......................... ( -26.60)
>DroYak_CAF1 13581 101 + 1
UGUAAUGCACCUC-------GACCACUGCAC-GUGGGCGCCAUCUGU-GGCAUGCAAGUGCAACUGCCUGCUGGAUUACACGGCGUAUACUUGAUAUGCCUGGCUUUUUA
(((((((((....-------......)))..-(..(((((((....)-))).(((....)))...)))..)...)))))).(((((((.....))))))).......... ( -30.70)
>DroAna_CAF1 26819 100 + 1
CCCAAUGCAUUUACAUUCUGCAUAAGUGCAUGGCUGGCGCCAUCUUUCAGCAUGCAACCGCAACUGCAAUCUGGGCCACAUGGCGUAUACGUGAU----------UUUUG
.(((.((((((((.........)))))))))))...(((((((..(((((..((((........))))..)))))....))))))).........----------..... ( -26.10)
>consensus
UGUGAUGCACCUC_______GCCCACUGCAC_GUGGGCGCCAUCUGU_AGCAUGCAAAUGCAACUGCCUGCUGGAUUACAUGGCGUAUACUUGAUAUGCCUCGCUUUUUA
....((((............((((((......))))))(((((.((..((((.(((........))).))))....)).)))))))))...................... (-18.97 = -20.38 +   1.42)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,098,103 – 10,098,204
Length 101
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.45
Mean single sequence MFE -34.38
Consensus MFE -19.39
Energy contribution -19.70
Covariance contribution 0.31
Combinations/Pair 1.23
Mean z-score -2.26
Structure conservation index 0.56
SVM decision value 0.56
SVM RNA-class probability 0.780522
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10098103 101 - 22224390
UAAAAAGCGAGGCAUAUCAAGUAUACGCCAUGUAAUACAGCAGGCAGUUGCAUUUGCAUGCC-ACAGAUGGCGCCCAC-GUGCAGUGGGC-------UAGGUGCAUCGCA
......((((.((((...........(((((((......)).((((..(((....)))))))-....)))))((((((-.....))))))-------...)))).)))). ( -40.10)
>DroSec_CAF1 16118 101 - 1
UAAAAAGCGAGGCAUAUCAAGUAUACGCCAUGUAAUACAGCAGGCAGUUGCAUUUGCAUGCU-ACAGAUGGCGCCCAC-GUGCAGUGGGC-------GAGGUGCAUCACA
......(.((.((((.((........(((((.(.....((((.((((......)))).))))-..).)))))((((((-.....))))))-------)).)))).)).). ( -37.00)
>DroSim_CAF1 15817 101 - 1
UAAAAAGCGAGGCAUAUCAAGUAUACGCCAUGUAAUACAGCAGGCAGUUGCAUUUGCAUGCU-ACAGAUGGCGCCCAC-GUGCACUGGGC-------GAGGUGCAUCACA
......(.((.((((.((........(((((.(.....((((.((((......)))).))))-..).)))))(((((.-(....))))))-------)).)))).)).). ( -32.80)
>DroEre_CAF1 20389 101 - 1
UAAAAAGCGAGGCAUAUCAAGUAUUCGCCAUGUAGUCCAGCAAGCAGUUGCAUUUGCAUGCC-ACAGAUGGCGCCCGC-GUGCAAUGGGU-------GGGCUGCAUAACA
......(((((((.......)).))))).((((((((((.(.....(((((((.((..((((-(....)))))..)).-))))))).).)-------))))))))).... ( -35.90)
>DroYak_CAF1 13581 101 - 1
UAAAAAGCCAGGCAUAUCAAGUAUACGCCGUGUAAUCCAGCAGGCAGUUGCACUUGCAUGCC-ACAGAUGGCGCCCAC-GUGCAGUGGUC-------GAGGUGCAUUACA
..........(((.(((.....))).))).((((((.((.(.(((..((((((.((..((((-(....)))))..)).-))))))..)))-------..).)).)))))) ( -30.70)
>DroAna_CAF1 26819 100 - 1
CAAAA----------AUCACGUAUACGCCAUGUGGCCCAGAUUGCAGUUGCGGUUGCAUGCUGAAAGAUGGCGCCAGCCAUGCACUUAUGCAGAAUGUAAAUGCAUUGGG
.....----------.((((((.......))))))(((((..((((.(((((.(((((((.((....(((((....))))).))..)))))))..))))).))))))))) ( -29.80)
>consensus
UAAAAAGCGAGGCAUAUCAAGUAUACGCCAUGUAAUACAGCAGGCAGUUGCAUUUGCAUGCC_ACAGAUGGCGCCCAC_GUGCAGUGGGC_______GAGGUGCAUCACA
....................((((..(((((.(......(((.((((......)))).)))....).)))))(((((........)))))..........))))...... (-19.39 = -19.70 +   0.31)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:09 2006