Locus 5193

Sequence ID X_DroMel_CAF1
Location 13,560,457 – 13,560,569
Length 112
Max. P 0.821520
window8420 window8421

overview

Window 0

Location 13,560,457 – 13,560,569
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.02
Mean single sequence MFE -39.42
Consensus MFE -22.93
Energy contribution -24.47
Covariance contribution 1.53
Combinations/Pair 1.28
Mean z-score -1.89
Structure conservation index 0.58
SVM decision value 0.68
SVM RNA-class probability 0.821520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13560457 112 + 22224390
GACAUGGAGUAUCUUCACAAAUGUGGUGUGCAGGUGCUCAGCCAGAUUGCCAUCAACGCAUAUUUGAUGAACGGCAGGGAUGCCGAUCUGGGAAAGUACCAGCUC-------CUUUGAA-
..((.(((((....((((....))))......((((((...((((((...((((((.......))))))..(((((....)))))))))))...)))))).))))-------)..))..- ( -39.50)
>DroSec_CAF1 15406 112 + 1
GACAUGGAGUAUCUCCACAAAUGUGGUGUGCAGGUGCUCAGCCAGAUUGCCAUCAACGCGUAUUUGAUGAACGGCAGGGAUGCCGAUCUGGGAAAGUACCAGCUG-------CUUUGAA-
.....((((((.(.((((....)))).).((.((((((...((((((...((((((.......))))))..(((((....)))))))))))...)))))).))))-------))))...- ( -39.10)
>DroEre_CAF1 15384 112 + 1
GACAUGGACUAUCUGCACAAAUGUGGUGUCCAGGUGCUCAGCCAGAUUGCCAUCAACGCCUAUUUGAUGAACGGCAGGGAUGCCGAUCUGGGAAAGUACCACCUC-------CUUUAAA-
....(((((...(..((....))..).)))))((((((...((((((((.((((...(((............)))...)))).))))))))...)))))).....-------.......- ( -40.00)
>DroYak_CAF1 15279 112 + 1
GACACGGAAUAUCUGCGCAAAUGUGGUGUGCAGGUGCUCAGCCAGAUUGCCAUCAACGCCUAUUUGAUGCACGGCAGGGAUGCCGAUCUGGGAAAGUACCAGCUC-------CUUUGAA-
.....(((.....((((((.......))))))((((((...(((((((((.(((((.......))))))))(((((....)))))))))))...))))))...))-------)......- ( -39.10)
>DroAna_CAF1 15714 112 + 1
GAUCUGGCCUAUCUGCUGAAGAAGGGCGUGCGAGUCCUCAGCCAGAUAGCCAUCAACAGUUAUCUGAUGAAGGGCCGGGAUGCCGAUCUGGGGGCCUACGAGCUC-------AGUUGAA-
..((((((((.((.(((((....((((......)))))))))((((((((........))))))))..)).))))))))....(((.(((((..(....)..)))-------)))))..- ( -40.50)
>DroPer_CAF1 15396 120 + 1
GACUUGGCCCAUUUGCAGCACUGCGGGGUGCGCAUCUUCACCCAAUUGGCCAUCAACUACUAUCUGAUGCAUGGUCGGGAAGCCAAUCUGGAGAAAUAUGUGGUCAAGUAGACUUUGAAC
.(((((((((((.(((.(((((....))))))))((((((.......((((((((.(........).)).))))))((....))....))))))...))).))))))))........... ( -38.30)
>consensus
GACAUGGACUAUCUGCACAAAUGUGGUGUGCAGGUGCUCAGCCAGAUUGCCAUCAACGCCUAUUUGAUGAACGGCAGGGAUGCCGAUCUGGGAAAGUACCAGCUC_______CUUUGAA_
.............((((((.......))))))((((((...((((((...((((((.......))))))..(((((....)))))))))))...)))))).................... (-22.93 = -24.47 +   1.53)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,560,457 – 13,560,569
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.02
Mean single sequence MFE -35.00
Consensus MFE -22.19
Energy contribution -22.20
Covariance contribution 0.01
Combinations/Pair 1.32
Mean z-score -1.48
Structure conservation index 0.63
SVM decision value 0.35
SVM RNA-class probability 0.699474
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13560457 112 - 22224390
-UUCAAAG-------GAGCUGGUACUUUCCCAGAUCGGCAUCCCUGCCGUUCAUCAAAUAUGCGUUGAUGGCAAUCUGGCUGAGCACCUGCACACCACAUUUGUGAAGAUACUCCAUGUC
-......(-------((((.(((.(((..(((((((((((....))))).(((((((.......)))))))..))))))..))).))).))....(((....))).......)))..... ( -34.60)
>DroSec_CAF1 15406 112 - 1
-UUCAAAG-------CAGCUGGUACUUUCCCAGAUCGGCAUCCCUGCCGUUCAUCAAAUACGCGUUGAUGGCAAUCUGGCUGAGCACCUGCACACCACAUUUGUGGAGAUACUCCAUGUC
-.......-------..((.(((.(((..(((((((((((....))))).(((((((.......)))))))..))))))..))).))).))...........((((((...))))))... ( -35.30)
>DroEre_CAF1 15384 112 - 1
-UUUAAAG-------GAGGUGGUACUUUCCCAGAUCGGCAUCCCUGCCGUUCAUCAAAUAGGCGUUGAUGGCAAUCUGGCUGAGCACCUGGACACCACAUUUGUGCAGAUAGUCCAUGUC
-.......-------.(((((...(((..((((((.(.((((..((((............))))..)))).).))))))..))))))))((((..(((....)))......))))..... ( -34.70)
>DroYak_CAF1 15279 112 - 1
-UUCAAAG-------GAGCUGGUACUUUCCCAGAUCGGCAUCCCUGCCGUGCAUCAAAUAGGCGUUGAUGGCAAUCUGGCUGAGCACCUGCACACCACAUUUGCGCAGAUAUUCCGUGUC
-......(-------(((..(((.(((..((((((.(.((((..((((............))))..)))).).))))))..))).)))(((.((.......)).)))....))))..... ( -34.00)
>DroAna_CAF1 15714 112 - 1
-UUCAACU-------GAGCUCGUAGGCCCCCAGAUCGGCAUCCCGGCCCUUCAUCAGAUAACUGUUGAUGGCUAUCUGGCUGAGGACUCGCACGCCCUUCUUCAGCAGAUAGGCCAGAUC
-.......-------.........((((..((((((((....)))(((..(((.(((....))).))).))).)))))((((((((...(....)...)))))))).....))))..... ( -34.90)
>DroPer_CAF1 15396 120 - 1
GUUCAAAGUCUACUUGACCACAUAUUUCUCCAGAUUGGCUUCCCGACCAUGCAUCAGAUAGUAGUUGAUGGCCAAUUGGGUGAAGAUGCGCACCCCGCAGUGCUGCAAAUGGGCCAAGUC
...........(((((.((.(((.((((.((.((((((((...((((..(((........)))))))..)))))))).)).)))).(((((((......)))).))).))))).))))). ( -36.50)
>consensus
_UUCAAAG_______GAGCUGGUACUUUCCCAGAUCGGCAUCCCUGCCGUUCAUCAAAUAGGCGUUGAUGGCAAUCUGGCUGAGCACCUGCACACCACAUUUGUGCAGAUAGUCCAUGUC
.................((.(((.(((..(((((((((((....)))))..((((((.......))))))...))))))..))).))).))............................. (-22.19 = -22.20 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:00 2006