Locus 420

Sequence ID 3L_DroMel_CAF1
Location 1,226,272 – 1,226,382
Length 110
Max. P 0.936362
window615 window616

overview

Window 5

Location 1,226,272 – 1,226,382
Length 110
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 72.33
Mean single sequence MFE -32.15
Consensus MFE -13.35
Energy contribution -13.72
Covariance contribution 0.37
Combinations/Pair 1.43
Mean z-score -2.06
Structure conservation index 0.42
SVM decision value 0.84
SVM RNA-class probability 0.863993
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1226272 110 + 23771897
UCGGUUUUCUCCU---------GCACCGCCUCAAGCUGCUGCUUGCUCUCUUGGCAAAUAAUUUCCACCUGAUUGUGGUGCACUCGAACGGAACCAACAUUCUCAUUUGUUUCCUUUUC
..((((((.((.(---------((((((((.(((((....))))).......)))..((((((.......))))))))))))...))..))))))((((........))))........ ( -26.40)
>DroSec_CAF1 6109 110 + 1
UCGGUUUUCUCAU---------GCACCGCCUCGAGCUGCUGCUUGCUCUCUUGGCAAAUAAAUUCCACCUGAUGGUGGUGCCCUCGGAAGGAACCAACAUUCUCAUUUGUUUCCUUUUC
..(((((..((..---------((((((((((((((........))))...(((.((.....)))))...)).)))))))).....))..)))))((((........))))........ ( -31.90)
>DroSim_CAF1 6147 110 + 1
UCGGUUUUCUCAU---------GCACCGCCUCGAGCUGCUGCUUGCUCUCUUGGCAAAUAAAUUCCACCUGAUGGUGAUGCCCUUGGACGGAACCAACAUUCUCAUUUGUUUCCUUUUC
..(((((..((..---------(((..(((..(((..((.....)).)))..)))..........((((....)))).))).....))..)))))((((........))))........ ( -27.00)
>DroEre_CAF1 6239 110 + 1
UGGGUUUUCUCCU---------GAACCGCCUCCAGCUGCUGCUUGCUUUCCUGGCAAAUGAAUUCCACCUGACUGUGGUGCAGGCGAACGAAAGCAACAUUUUCAUCUGUCUCCUUCUU
..(((((......---------))))).....(((.((.((.((((((((.(.((...((....((((......))))..)).)).)..))))))))))....)).))).......... ( -24.20)
>DroYak_CAF1 6215 110 + 1
UGGGUUUUCACCU---------GCACCGCCUCAAGCUGCUGCUUGCCUUCCUGGCAAAUUGAUUCCACCUGAGUGUGGUGCAGGCGAACGGAAGCAACGUUUUCAUCUGUUUCCUUUUC
......(((.(((---------(((((((((((.((....))(((((.....)))))............)))).)))))))))).))).(((((((...........)))))))..... ( -43.10)
>DroMoj_CAF1 6277 114 + 1
-----UUUCUGCUGCUCGUGACGCAGCUGUUCGGCUCGCUCCUCGCUGGUCGAGCACAUCUGUCGCAUUUGCUGUUCAUGCAUGCGAACCGUUUGAAUGCUGUGAUCAGCAUGCUUGGC
-----.....(((((.......)))))(((((((((.((.....)).)))))))))........(((..(((((.((((((((.(((.....))).)))).)))).))))))))..... ( -40.30)
>consensus
UCGGUUUUCUCCU_________GCACCGCCUCGAGCUGCUGCUUGCUCUCCUGGCAAAUAAAUUCCACCUGAUGGUGGUGCACGCGAACGGAACCAACAUUCUCAUCUGUUUCCUUUUC
......................(((((((...((((....))))(((.....)))...................)))))))...................................... (-13.35 = -13.72 +   0.37) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,226,272 – 1,226,382
Length 110
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 72.33
Mean single sequence MFE -34.82
Consensus MFE -12.98
Energy contribution -12.98
Covariance contribution 0.01
Combinations/Pair 1.60
Mean z-score -2.31
Structure conservation index 0.37
SVM decision value 1.25
SVM RNA-class probability 0.936362
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1226272 110 - 23771897
GAAAAGGAAACAAAUGAGAAUGUUGGUUCCGUUCGAGUGCACCACAAUCAGGUGGAAAUUAUUUGCCAAGAGAGCAAGCAGCAGCUUGAGGCGGUGC---------AGGAGAAAACCGA
.....(....)...........((((((...(((...((((((.......((..((.....))..))....(..(((((....)))))...))))))---------)...))))))))) ( -29.80)
>DroSec_CAF1 6109 110 - 1
GAAAAGGAAACAAAUGAGAAUGUUGGUUCCUUCCGAGGGCACCACCAUCAGGUGGAAUUUAUUUGCCAAGAGAGCAAGCAGCAGCUCGAGGCGGUGC---------AUGAGAAAACCGA
.....(....)...........(((((((((....)))(((((.((.((.((..((.....))..))....((((........)))))))).)))))---------.......)))))) ( -32.80)
>DroSim_CAF1 6147 110 - 1
GAAAAGGAAACAAAUGAGAAUGUUGGUUCCGUCCAAGGGCAUCACCAUCAGGUGGAAUUUAUUUGCCAAGAGAGCAAGCAGCAGCUCGAGGCGGUGC---------AUGAGAAAACCGA
.....(....)...........((((((...((((...(((((.((.((.((..((.....))..))....((((........)))))))).)))))---------.)).)).)))))) ( -30.20)
>DroEre_CAF1 6239 110 - 1
AAGAAGGAGACAGAUGAAAAUGUUGCUUUCGUUCGCCUGCACCACAGUCAGGUGGAAUUCAUUUGCCAGGAAAGCAAGCAGCAGCUGGAGGCGGUUC---------AGGAGAAAACCCA
..(((((..(((........)))..))))).(((.((((.(((.......((..((.....))..))......((.(((....)))....))))).)---------))).)))...... ( -31.20)
>DroYak_CAF1 6215 110 - 1
GAAAAGGAAACAGAUGAAAACGUUGCUUCCGUUCGCCUGCACCACACUCAGGUGGAAUCAAUUUGCCAGGAAGGCAAGCAGCAGCUUGAGGCGGUGC---------AGGUGAAAACCCA
.....((((...((((....))))..)))).((((((((((((.(.(((((((........((((((.....)))))).....)))))))).)))))---------)))))))...... ( -45.02)
>DroMoj_CAF1 6277 114 - 1
GCCAAGCAUGCUGAUCACAGCAUUCAAACGGUUCGCAUGCAUGAACAGCAAAUGCGACAGAUGUGCUCGACCAGCGAGGAGCGAGCCGAACAGCUGCGUCACGAGCAGCAGAAA-----
.....(.((((((....)))))).)...((((((((.(((((.........))))).........((((.....))))..))))))))....(((((.......))))).....----- ( -39.90)
>consensus
GAAAAGGAAACAAAUGAGAAUGUUGGUUCCGUUCGAGUGCACCACAAUCAGGUGGAAUUUAUUUGCCAAGAGAGCAAGCAGCAGCUCGAGGCGGUGC_________AGGAGAAAACCGA
.....((((...(((......)))..))))........(((((.......((..((.....))..))....((((........)))).....)))))...................... (-12.98 = -12.98 +   0.01) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:26 2006