Locus 6596

Sequence ID 2L_DroMel_CAF1
Location 18,520,754 – 18,520,870
Length 116
Max. P 0.860808
window10531 window10532

overview

Window 1

Location 18,520,754 – 18,520,870
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.58
Mean single sequence MFE -22.76
Consensus MFE -16.25
Energy contribution -16.62
Covariance contribution 0.38
Combinations/Pair 1.09
Mean z-score -1.66
Structure conservation index 0.71
SVM decision value 0.28
SVM RNA-class probability 0.666925
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18520754 116 + 22407834
-AAUAAAAAAGAAAUGCUAACUAUUGAUGUCAUAAUGUUGUUAAAUAACGUAUAUGCGGCAUGUGUCGUGCAUUUCUAUUUGCUUU---UUAACGCUAUUUUAUUUUUUUUUUUUGUUUU
-((((((((((((((((.................(((((((...)))))))....(((((....)))))))))))))....((...---.....))..............)))))))).. ( -20.90)
>DroPse_CAF1 49817 96 + 1
CAGCAAAGAAGAAAUGAUAACUAUUGGUGGCAUAAUGCUGUUAAAUAACGUAUACGCCGCAUGCGCCGUGCAUUUCUAUUUGCGGUUU--------------------CGUUUUUG----
..(((((..(((((((..........(((((...((((.(((....)))))))..)))))..........))))))).))))).....--------------------........---- ( -23.95)
>DroSec_CAF1 41145 112 + 1
-AAUAAAAAAGAAAUGCUAACUAUUGAUGUCAUAAUGUUGUUAAAUAACGUAUAUGCGGCAUGUGCCGUGCAUUUCUAUUUGCUUUUUUUUAACGCC-------UUUUUUUUUUUGUUUU
-(((((((((((((.((.(((...((....))....)))((((((..........(((((....)))))(((........))).....)))))))).-------.))))))))))))).. ( -23.40)
>DroSim_CAF1 42061 107 + 1
-AAUAAAAAAGAAAUGCUAACUAUUGAUGUCAUAAUGUUGUUAAAUAACGUAUAUGCGGCAUGUGCCGUGCAUUUCUAUUUGCUUU--UUUAACGCU----------UUUUUUUUGUUUU
-((((((((((((((((.................(((((((...)))))))....(((((....)))))))))))))....((...--......)).----------...)))))))).. ( -22.80)
>consensus
_AAUAAAAAAGAAAUGCUAACUAUUGAUGUCAUAAUGUUGUUAAAUAACGUAUAUGCGGCAUGUGCCGUGCAUUUCUAUUUGCUUU___UUAACGCU__________UUUUUUUUGUUUU
.....(((.((((((((.................(((((((...)))))))....(((((....))))))))))))).)))....................................... (-16.25 = -16.62 +   0.38)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 18,520,754 – 18,520,870
Length 116
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.58
Mean single sequence MFE -18.52
Consensus MFE -11.82
Energy contribution -12.20
Covariance contribution 0.38
Combinations/Pair 1.11
Mean z-score -2.08
Structure conservation index 0.64
SVM decision value 0.83
SVM RNA-class probability 0.860808
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18520754 116 - 22407834
AAAACAAAAAAAAAAAAUAAAAUAGCGUUAA---AAAGCAAAUAGAAAUGCACGACACAUGCCGCAUAUACGUUAUUUAACAACAUUAUGACAUCAAUAGUUAGCAUUUCUUUUUUAUU-
...............(((((((..((.....---...))....((((((((.((........)).......(((((...........)))))...........)))))))).)))))))- ( -14.40)
>DroPse_CAF1 49817 96 - 1
----CAAAAACG--------------------AAACCGCAAAUAGAAAUGCACGGCGCAUGCGGCGUAUACGUUAUUUAACAGCAUUAUGCCACCAAUAGUUAUCAUUUCUUCUUUGCUG
----........--------------------.....(((((.(((((((.(..((....(.((((((...(((.......)))..)))))).).....))..))))))))..))))).. ( -21.10)
>DroSec_CAF1 41145 112 - 1
AAAACAAAAAAAAAAA-------GGCGUUAAAAAAAAGCAAAUAGAAAUGCACGGCACAUGCCGCAUAUACGUUAUUUAACAACAUUAUGACAUCAAUAGUUAGCAUUUCUUUUUUAUU-
................-------.((...........))(((.((((((((.((((....)))).......(((((...........)))))...........)))))))).)))....- ( -19.10)
>DroSim_CAF1 42061 107 - 1
AAAACAAAAAAAA----------AGCGUUAAA--AAAGCAAAUAGAAAUGCACGGCACAUGCCGCAUAUACGUUAUUUAACAACAUUAUGACAUCAAUAGUUAGCAUUUCUUUUUUAUU-
.............----------.((......--...))(((.((((((((.((((....)))).......(((((...........)))))...........)))))))).)))....- ( -19.50)
>consensus
AAAACAAAAAAAA__________AGCGUUAA___AAAGCAAAUAGAAAUGCACGGCACAUGCCGCAUAUACGUUAUUUAACAACAUUAUGACAUCAAUAGUUAGCAUUUCUUUUUUAUU_
...........................................((((((((.((((....))))((((...(((.......)))..)))).............))))))))......... (-11.82 = -12.20 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:14 2006