Locus 2501

Sequence ID 2R_DroMel_CAF1
Location 8,917,513 – 8,917,633
Length 120
Max. P 0.724388
window4128 window4129

overview

Window 8

Location 8,917,513 – 8,917,633
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.68
Mean single sequence MFE -31.85
Consensus MFE -30.15
Energy contribution -30.43
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.08
Structure conservation index 0.95
SVM decision value 0.08
SVM RNA-class probability 0.573654
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8917513 120 + 20766785
CCUCGGAUGCCGCUCGUUUACUUUUUUAUGGGCGGCGCACACAGAAAACAUAAAAACGUCUAUUGCGUGUUGCAUAUGGAAAAUUGCCAAAAGUCGGACGGCAGCAGAGAAGAAAAAAAA
.(((....(((((((((..........)))))))))((....................((((((((.....))).)))))....((((...........)))))).)))........... ( -30.20)
>DroSec_CAF1 162467 117 + 1
CCUCGGAUGCCGCUCGUUUACUUUUUUAUGGGCGGCGCACACAGAAAACAUAAAAACGUCUGUUGCGUGUUGCAUAUGGAAAAUUGCCAAAACUCGGACGGCAGCUUGGAAGAAAAA---
((..((.(((((..((.....(((((((((.(((((((.((((((.............)))).)).))))))).)))))))))...........))..))))).)).))........--- ( -31.21)
>DroSim_CAF1 163140 117 + 1
CCUCGGAUGCCGCUCGUUUACUUUUUUAUGGGCGGCGCACACAGAAAACAUAAAAACGUCUGUUGCGUGUUGCAUAUGGAAAAUUGCCAAAAGUCGGACGGCAGCAGGGAAGAAAAA---
.(((...(((((..((...(((((.......(((((((.((((((.............)))).)).)))))))...(((.......))))))))))..)))))...)))........--- ( -33.12)
>DroEre_CAF1 166702 116 + 1
CCUCGGAUGCCGCUCGUUUACUUUUUUAUGGGUGGCGCACACAGAAAACAUAAAAACGUCUGUUGCGUGUUGCAUAUGGAAAAUUGCCAAAAGUCGGACGGCAGCAAGGAAAAAAA----
(((.(..(((((..((...(((((..((((.(..(((((.(((((.............))))))))))..).))))(((.......))))))))))..))))).).))).......---- ( -31.62)
>DroYak_CAF1 168949 116 + 1
CCUCGGAUGCCGCUCGUUUACUUUUUUAUGGGCGGCGCACACAGAAAACAUAAAAACGUCUGUUGCGUGUUGCAUAUGGAAAAUUGCCAAAAGUCGGACGGCAGCAGGGAAAAAAA----
.(((...(((((..((...(((((.......(((((((.((((((.............)))).)).)))))))...(((.......))))))))))..)))))...))).......---- ( -33.12)
>consensus
CCUCGGAUGCCGCUCGUUUACUUUUUUAUGGGCGGCGCACACAGAAAACAUAAAAACGUCUGUUGCGUGUUGCAUAUGGAAAAUUGCCAAAAGUCGGACGGCAGCAGGGAAGAAAAA___
.(((...(((((..((.....(((((((((.(((((((.((((((.............)))).)).))))))).)))))))))...........))..)))))...)))........... (-30.15 = -30.43 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,917,513 – 8,917,633
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.68
Mean single sequence MFE -30.16
Consensus MFE -28.72
Energy contribution -28.88
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.16
Structure conservation index 0.95
SVM decision value 0.41
SVM RNA-class probability 0.724388
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8917513 120 - 20766785
UUUUUUUUCUUCUCUGCUGCCGUCCGACUUUUGGCAAUUUUCCAUAUGCAACACGCAAUAGACGUUUUUAUGUUUUCUGUGUGCGCCGCCCAUAAAAAAGUAAACGAGCGGCAUCCGAGG
...........(((.(.(((((..(((((((((((.((.......))((..((((((..((((((....))))))..)))))).)).))).....))))))...))..))))).).))). ( -31.90)
>DroSec_CAF1 162467 117 - 1
---UUUUUCUUCCAAGCUGCCGUCCGAGUUUUGGCAAUUUUCCAUAUGCAACACGCAACAGACGUUUUUAUGUUUUCUGUGUGCGCCGCCCAUAAAAAAGUAAACGAGCGGCAUCCGAGG
---.....((((...(.(((((..((.((..(((.......)))...))..((((((..((((((....))))))..)))))).....................))..))))).).)))) ( -26.80)
>DroSim_CAF1 163140 117 - 1
---UUUUUCUUCCCUGCUGCCGUCCGACUUUUGGCAAUUUUCCAUAUGCAACACGCAACAGACGUUUUUAUGUUUUCUGUGUGCGCCGCCCAUAAAAAAGUAAACGAGCGGCAUCCGAGG
---.....((((..(((((((((...(((((((((.((.......))((..((((((..((((((....))))))..)))))).)).))).....))))))..))).))))))...)))) ( -30.90)
>DroEre_CAF1 166702 116 - 1
----UUUUUUUCCUUGCUGCCGUCCGACUUUUGGCAAUUUUCCAUAUGCAACACGCAACAGACGUUUUUAUGUUUUCUGUGUGCGCCACCCAUAAAAAAGUAAACGAGCGGCAUCCGAGG
----.......(((((.(((((..((((((((.(((..........)))..((((((..((((((....))))))..))))))............))))))...))..)))))..))))) ( -32.00)
>DroYak_CAF1 168949 116 - 1
----UUUUUUUCCCUGCUGCCGUCCGACUUUUGGCAAUUUUCCAUAUGCAACACGCAACAGACGUUUUUAUGUUUUCUGUGUGCGCCGCCCAUAAAAAAGUAAACGAGCGGCAUCCGAGG
----.....(((..(((((((((...(((((((((.((.......))((..((((((..((((((....))))))..)))))).)).))).....))))))..))).))))))...))). ( -29.20)
>consensus
___UUUUUCUUCCCUGCUGCCGUCCGACUUUUGGCAAUUUUCCAUAUGCAACACGCAACAGACGUUUUUAUGUUUUCUGUGUGCGCCGCCCAUAAAAAAGUAAACGAGCGGCAUCCGAGG
........((((..(((((((((...((((((.(((..........)))..((((((..((((((....))))))..))))))............))))))..))).))))))...)))) (-28.72 = -28.88 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:40 2006