Locus 7339

Sequence ID 3L_DroMel_CAF1
Location 19,698,050 – 19,698,247
Length 197
Max. P 0.896135
window11918 window11919

overview

Window 8

Location 19,698,050 – 19,698,167
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.91
Mean single sequence MFE -27.02
Consensus MFE -18.84
Energy contribution -20.04
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.70
SVM decision value 0.87
SVM RNA-class probability 0.871763
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19698050 117 + 23771897
AAGGACAAUUCCACACCCACGGCGACAGCCAUUUAAAUCCUCUGGCUGCUAUCAAUCAUCAACAAGUUAACCCCACAAGCGGGG---ACCCCAACAAACCCGUGCCACAAAAACUGUAUC
..(((....))).....(((((.(.((((((...........))))))......................((((......))))---...........))))))................ ( -24.60)
>DroSec_CAF1 12297 107 + 1
AAGGACAGUUCCACACCCACGGCGACAGCCAUUUAAAUCCUCUGGCUGCUAUCAAUCAUCAAC-------------AAGCGGGGACGACCCCAACAAACCCGUGCCACAGAAACUGUGCC
..((((((((.......(((((.(.((((((...........))))))...............-------------....((((....))))......)))))).......)))))).)) ( -29.54)
>DroSim_CAF1 14258 120 + 1
AAGGACAGUUCCACACCCACGGCGACAGCCAUUUAAAUCCUCUGGCUGCUAUCAAUCAUCAACAAGUUAACCCCACAAGCGAGGACGACCCCAACAAACCCGUGCCACAGAAACUGUGCC
..((((((((.......(((((.(.((((((...........)))))).................(((..((.(......).))..))).........)))))).......)))))).)) ( -23.64)
>DroEre_CAF1 12873 116 + 1
AAGGACAGUUCCACACCCACAGAGACAGCCAUUUAAAUCCUCUGGCUGCUAUCAAUCAUCAACAAGUUAACCCCACAAAAGGGG---AC-CCAACAGACCCGUGGCACAAAAACUGUCGC
...(((((((......((((.((..((((((...........))))))...)).................((((......))))---..-...........))))......))))))).. ( -31.90)
>DroYak_CAF1 12880 117 + 1
AAGGACAGUUCCACACCCACAGAGACAGCCAUUUAAAUCCGCUGGCUGCUAUCAAUCAUCAACAAGUUAACCCCACAAGAGGAG---ACCCCAACAAACCCGUGGCACAAAAACUGUCGC
...(((((((......((((.((..((((((...........))))))...))...........................((..---...)).........))))......))))))).. ( -25.40)
>consensus
AAGGACAGUUCCACACCCACGGCGACAGCCAUUUAAAUCCUCUGGCUGCUAUCAAUCAUCAACAAGUUAACCCCACAAGCGGGG___ACCCCAACAAACCCGUGCCACAAAAACUGUCCC
....((((((.......(((((.(.((((((...........)))))))...............................((((....)))).......))))).......))))))... (-18.84 = -20.04 +   1.20)

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 19,698,130 – 19,698,247
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.77
Mean single sequence MFE -40.93
Consensus MFE -35.22
Energy contribution -35.73
Covariance contribution 0.50
Combinations/Pair 1.12
Mean z-score -1.94
Structure conservation index 0.86
SVM decision value 0.99
SVM RNA-class probability 0.896135
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19698130 117 - 23771897
UUCAUAGGGGCCUUUGAACCCUUUUUCCGAGUCUCUCCACGUGCGGGUUUUCUGUGUGGUGAUAGAUAAUGUUUCAUUGUGAUACAGUUUUUGUGGCACGGGUUUGUUGGGGU---CCCC
......((((((((.((((((.......(((...)))...((((.(.....((((((.(..((.((.......))))..).))))))......).))))))))))...)))))---))). ( -38.20)
>DroSec_CAF1 12364 120 - 1
UUCAUAGGGGCCUUUGAACCCUUUUUCCGAGUCUCUCCGCGUGCGGGUUUUCUGUGUGGCGAGAGAUAAUGUUUCAUUGUGGCACAGUUUCUGUGGCACGGGUUUGUUGGGGUCGUCCCC
......((((((((.((((((.........((((((((.((..(((.....)))..))).)))))))...........(((.(((((...))))).)))))))))...))))....)))) ( -44.10)
>DroSim_CAF1 14338 120 - 1
UUCAUAGGGGCCUUUGAACCCUUUUCCCGAGUCUCUCCACGUGCGGGUUUUCUGUGUGGCGAGAGAUAAUGUUUCAUUGUGGCACAGUUUCUGUGGCACGGGUUUGUUGGGGUCGUCCUC
.....(((((((((.((((((.........(((((((..((..(((.....)))..))..)))))))...........(((.(((((...))))).)))))))))...))))))..))). ( -44.30)
>DroYak_CAF1 12960 114 - 1
UUCAUAGGGGCCUUUGAACCCUUUUUCCGAGACUCUCCACGUGCGGGU-UUCUGUGUGGUGA--GAUAAUGUUUCAUUGUGCGACAGUUUUUGUGCCACGGGUUUGUUGGGGU---CUCC
......((((((((.((((((.......(((((((((..((..(((..-..)))..))..))--))....)))))...(..(((......)))..)...))))))...)))))---))). ( -37.10)
>consensus
UUCAUAGGGGCCUUUGAACCCUUUUUCCGAGUCUCUCCACGUGCGGGUUUUCUGUGUGGCGAGAGAUAAUGUUUCAUUGUGGCACAGUUUCUGUGGCACGGGUUUGUUGGGGU___CCCC
......((((((((.((((((.........(((((((..((..(((.....)))..))..)))))))...........(((.(((((...))))).)))))))))...)))))...))). (-35.22 = -35.73 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:21 2006