Locus 3792

Sequence ID 2L_DroMel_CAF1
Location 11,083,667 – 11,083,862
Length 195
Max. P 0.989997
window5979 window5980 window5981

overview

Window 9

Location 11,083,667 – 11,083,765
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 73.43
Mean single sequence MFE -17.93
Consensus MFE -11.25
Energy contribution -12.37
Covariance contribution 1.11
Combinations/Pair 1.25
Mean z-score -1.18
Structure conservation index 0.63
SVM decision value 0.08
SVM RNA-class probability 0.571718
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11083667 98 - 22407834
AAAAGUCGUCUCUGGAGUGGAUUAAAAGCCACAAACAUUUCAGAACCCAACUGAUCGUCAGAGAUGUGUUUUCAAACAAAAAAAAAACCGUUUUGAUA
((((..(((((((((.((((........)))).......((((.......))))...)))))))))..))))....(((((.........)))))... ( -19.80)
>DroSec_CAF1 72135 92 - 1
AUAAGCCGUCUCUGGAGUGGACUAAAAACCACAAACAUUUCAAAUCCCAACUGAUCGUUAGAGAUGUGUUUUCAAA------AAUAUAUGUUUUGAUA
..(((((((((((((.((((........)))).......(((.........)))...))))))))).))))(((((------(.......)))))).. ( -18.30)
>DroSim_CAF1 73264 92 - 1
AUAAGCCGUCUCUGGAGUGGACUAAAAACCACAAACAUUUCAAAACCCAACUGAUCGUCAGAGAUGUGUUUUCAAA------AAUAAGAGUUUUGAUA
..(((((((((((((.((((........)))).......(((.........)))...))))))))).))))(((((------(.......)))))).. ( -20.40)
>DroEre_CAF1 75191 87 - 1
A-AAGCCGUCUCUGGAGUGGACCACAUGCCACAAACCUUUCAAAUCCCAACUGAUCGUCAGAGAUGUGUUUA----------AGAACCCGUUUUGAAA
.-(((((((((((((.((((........)))).......(((.........)))...))))))))).)))).----------................ ( -19.40)
>DroYak_CAF1 75708 88 - 1
AGAAUCCGUCUCUGGAGUGGACUUAAAGCCACAAACAUUUCAAAUCCCAACUGAUCGUCAGAGAUGUGUUUG----------AAAAACAGUUUUGACA
.(((..(((((((((.((((........)))).......(((.........)))...)))))))))..))).----------................ ( -18.60)
>DroAna_CAF1 74146 85 - 1
AUAAUUCGCGUCUGGAGUUGGUUUUAAACUAAUAGCAUCCC----CUCAACCCAUCUCCAAUAGUAUUAGUUC---------CGAAACGGUUUUGUUC
.......((...(((((.(((....................----......))).)))))...))..(((..(---------((...)))..)))... ( -11.07)
>consensus
AUAAGCCGUCUCUGGAGUGGACUAAAAACCACAAACAUUUCAAAUCCCAACUGAUCGUCAGAGAUGUGUUUUC_________AAAAACAGUUUUGAUA
..(((((((((((((.((((........)))).......(((.........)))...))))))))).))))........................... (-11.25 = -12.37 +   1.11)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,083,690 – 11,083,782
Length 92
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 77.45
Mean single sequence MFE -19.58
Consensus MFE -16.98
Energy contribution -16.86
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -2.18
Structure conservation index 0.87
SVM decision value 2.19
SVM RNA-class probability 0.989997
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11083690 92 - 22407834
AACA---------------------AAAA--AUACAGCAUAAAAGUCGUCUCUGGAGUGGAUUAAAAGCCACAAACAUUUCAGAACCCAACUGAUCGUCAGAGAUGUGUUUUCAA
....---------------------.(((--((((.((......)).((((((((.((((........)))).......((((.......))))...)))))))))))))))... ( -20.50)
>DroSec_CAF1 72152 111 - 1
AG--AAACACUGAACAAACACCCAUAAAA--AUACAGCAUAUAAGCCGUCUCUGGAGUGGACUAAAAACCACAAACAUUUCAAAUCCCAACUGAUCGUUAGAGAUGUGUUUUCAA
.(--((((((...................--.....((......)).((((((((.((((........)))).......(((.........)))...)))))))))))))))... ( -18.80)
>DroSim_CAF1 73281 113 - 1
AAAAAAACACUGAACAAACACCCAUAAAA--AUACAGCAUAUAAGCCGUCUCUGGAGUGGACUAAAAACCACAAACAUUUCAAAACCCAACUGAUCGUCAGAGAUGUGUUUUCAA
...(((((((...................--.....((......)).((((((((.((((........)))).......(((.........)))...)))))))))))))))... ( -20.50)
>DroEre_CAF1 75207 96 - 1
---------------AAACACCCAAAAAAAAGUCCAGCAAA-AAGCCGUCUCUGGAGUGGACCACAUGCCACAAACCUUUCAAAUCCCAACUGAUCGUCAGAGAUGUGUUUA---
---------------((((((...............((...-..)).((((((((.((((........)))).......(((.........)))...)))))))))))))).--- ( -19.50)
>DroYak_CAF1 75724 98 - 1
---------CUA---AAACACCCAUAAAA--AUCCAGCAAAGAAUCCGUCUCUGGAGUGGACUUAAAGCCACAAACAUUUCAAAUCCCAACUGAUCGUCAGAGAUGUGUUUG---
---------...---..............--..........(((..(((((((((.((((........)))).......(((.........)))...)))))))))..))).--- ( -18.60)
>consensus
A________CU____AAACACCCAUAAAA__AUACAGCAUAUAAGCCGUCUCUGGAGUGGACUAAAAGCCACAAACAUUUCAAAUCCCAACUGAUCGUCAGAGAUGUGUUUUCAA
..........................................(((((((((((((.((((........)))).......(((.........)))...))))))))).)))).... (-16.98 = -16.86 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,083,765 – 11,083,862
Length 97
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.64
Mean single sequence MFE -26.07
Consensus MFE -20.89
Energy contribution -21.12
Covariance contribution 0.22
Combinations/Pair 1.09
Mean z-score -0.62
Structure conservation index 0.80
SVM decision value 0.02
SVM RNA-class probability 0.544543
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11083765 97 - 22407834
GCGUAUCCAACCAUCCGGAUCCGGCGGUGGCCGAGCGUACUGGCGUUGCUAUUUCAAUGCCGUCAGCUGCUUUUAAACAAAACA---------------------AAAA--AUACAGCAU
((((((((........)))).((((....)))).))))...(((((((......)))))))....((((..(((..........---------------------..))--)..)))).. ( -26.10)
>DroSec_CAF1 72227 116 - 1
GCGUAUCCAACCAUCCGGAUCCGGCGGUGGCCGAGCCUACUGGCGUUGCUAUUUCAAUGCCGUCAGCUGCUUUUAAACAAAG--AAACACUGAACAAACACCCAUAAAA--AUACAGCAU
((((((........(((....))).((((............(((((((......))))))).((((.((.((((......))--)).)))))).....)))).......--)))).)).. ( -26.70)
>DroSim_CAF1 73356 118 - 1
GCGUAUCCAACCAUCCGGAUCCGGCGGUGGCCGAGCCUACUGGCGUUGCUAUUUCAAUGCCGUCAGCUGCUUUUAAACAAAAAAAAACACUGAACAAACACCCAUAAAA--AUACAGCAU
((((((........(((....))).((((............(((((((......))))))).((((.((.((((........)))).)))))).....)))).......--)))).)).. ( -26.40)
>DroEre_CAF1 75278 103 - 1
GCGUAUCCAACCAUCCGGAUCCGGCGGUGGACGAGCGUACUGGCGAUGCUAUUUCAAUGCCGUCAGCUGCUUCUGAAA-----------------AAACACCCAAAAAAAAGUCCAGCAA
((.......(((..(((....))).)))(((((((((..((((((..((.........)))))))).))))).((...-----------------...))...........)))).)).. ( -25.60)
>DroYak_CAF1 75796 104 - 1
GCGUAUCCAGCCAUCCGGAUCCGGCGGUGGCCGAGCGUACUGGCGUUGCUAUUUCAAUGCCGUCAGCUGCUUCUGAAA-----------CUA---AAACACCCAUAAAA--AUCCAGCAA
((((((((.((((((((....)))..))))).).).)))).(((((((......))))))).((((......))))..-----------...---..............--.....)).. ( -26.60)
>DroAna_CAF1 74231 90 - 1
GCGACUCCAUCCAUCUGGAUCCGGCGGUGGUCGUAUGUACUGGCGUUGCUAUUUCAAUGCCGUCAGCUGCUUUUGAAAACCG--AAAAACU----------------------------G
.((..((((......))))..)).((((..(((...(((((((((..((.........)))))))).)))...)))..))))--.......----------------------------. ( -25.00)
>consensus
GCGUAUCCAACCAUCCGGAUCCGGCGGUGGCCGAGCGUACUGGCGUUGCUAUUUCAAUGCCGUCAGCUGCUUUUAAAAAAA________CU____AAACACCCAUAAAA__AUACAGCAU
((....(((.((..(((....))).)))))...(((..((.(((((((......)))))))))..))))).................................................. (-20.89 = -21.12 +   0.22)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:28 2006