Locus 1487

Sequence ID 2L_DroMel_CAF1
Location 3,988,076 – 3,988,196
Length 120
Max. P 0.995429
window2416 window2417

overview

Window 6

Location 3,988,076 – 3,988,196
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.04
Mean single sequence MFE -18.24
Consensus MFE -2.95
Energy contribution -3.38
Covariance contribution 0.43
Combinations/Pair 1.24
Mean z-score -1.59
Structure conservation index 0.16
SVM decision value -0.05
SVM RNA-class probability 0.509537
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3988076 120 + 22407834
UCCUGGCUUUGUCAGGCUUGCGAAAAAAAACAACAUAAAUAUAUUAUGCACAAAACUUUUGUGCUUCAAAUAUUGUUGCCUUUGCAUACACGUUUGUACAUCAAAUUUAACAAUGCAAAU
.((((((...)))))).((((..........................((((((.....)))))).......(((((((..((((..((((....))))...))))..))))))))))).. ( -24.30)
>DroSec_CAF1 121159 111 + 1
UUCUCGCUUUGUCAGGCUCCCGAAUAA-----ACAUAAAUAUAUUAUGCACA--UCUUUUGUGUUUCAAAUAUUCUUGCCUUUGCAU--ACGUUUAUACACCAAAUUUAACAAUGCAAAU
.....((.((((.((((....(((((.-----.(((((.....)))))((((--.....)))).......)))))..))))......--..((....))..........)))).)).... ( -16.00)
>DroSim_CAF1 125747 100 + 1
UUCUCGCUUUGUCAGGCUCGCGAAUAA-----ACAUAAAUAUAUUAUGCACA--UCUUUUGUGCUUCAAAUAUU-----------GU--ACGUUUAUACACCAAAUUUAACAAUGCAAAU
.....((.((((.(((...(.(.((((-----((.((...(((((..(((((--.....)))))....))))).-----------.)--).)))))).).)....))).)))).)).... ( -16.20)
>DroEre_CAF1 126333 94 + 1
UCCUCGCUUUGUCCGCUUACUGAAUAA-----AUAUAAAUAUAUUAU---------------GUUUCGAAUGCUGUUGGCUUUGCAU--UCGUUUAUUCA----UUUCAACAAUGCGAAU
...((((.((((........(((((((-----((((((.....))))---------------))..(((((((..........))))--))).)))))))----.....)))).)))).. ( -20.42)
>DroYak_CAF1 129756 92 + 1
UCCUCGUUUUGUCAGGUUUCUGAAUAA-----ACAUAAAUAUAUUA-----------------UUGCGAAUGCUGUUGGCUUUGCAU--ACGAAUAUUCA----UUUCAACAAUGCAAAU
.....((((..((((....))))..))-----))......(((((.-----------------.((((((.((.....)))))))).--...)))))...----................ ( -14.30)
>consensus
UCCUCGCUUUGUCAGGCUCCCGAAUAA_____ACAUAAAUAUAUUAUGCACA___CUUUUGUGUUUCAAAUAUUGUUGCCUUUGCAU__ACGUUUAUACA_CAAAUUUAACAAUGCAAAU
.....((.((((.............................((((..(((((.......)))))....))))...................((....))..........)))).)).... ( -2.95 =  -3.38 +   0.43)

alignment

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secondary structure

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dotplot

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Window 7

Location 3,988,076 – 3,988,196
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.04
Mean single sequence MFE -24.20
Consensus MFE -5.86
Energy contribution -7.18
Covariance contribution 1.32
Combinations/Pair 1.16
Mean z-score -2.60
Structure conservation index 0.24
SVM decision value 2.58
SVM RNA-class probability 0.995429
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3988076 120 - 22407834
AUUUGCAUUGUUAAAUUUGAUGUACAAACGUGUAUGCAAAGGCAACAAUAUUUGAAGCACAAAAGUUUUGUGCAUAAUAUAUUUAUGUUGUUUUUUUUCGCAAGCCUGACAAAGCCAGGA
.(((((((((((...((((.((((((....))))))))))...))))))....(((((((((.....))))))(((((((....))))))).....))))))))((((.......)))). ( -28.30)
>DroSec_CAF1 121159 111 - 1
AUUUGCAUUGUUAAAUUUGGUGUAUAAACGU--AUGCAAAGGCAAGAAUAUUUGAAACACAAAAGA--UGUGCAUAAUAUAUUUAUGU-----UUAUUCGGGAGCCUGACAAAGCGAGAA
.(((((.(((((........((((((....)--))))).((((..(((((.......((((.....--))))(((((.....))))).-----.)))))....))))))))).))))).. ( -24.20)
>DroSim_CAF1 125747 100 - 1
AUUUGCAUUGUUAAAUUUGGUGUAUAAACGU--AC-----------AAUAUUUGAAGCACAAAAGA--UGUGCAUAAUAUAUUUAUGU-----UUAUUCGCGAGCCUGACAAAGCGAGAA
.(((((.((((((...((.(((.((((((((--(.-----------(((((.....(((((.....--))))).....))))))))))-----)))).))).))..)))))).))))).. ( -28.40)
>DroEre_CAF1 126333 94 - 1
AUUCGCAUUGUUGAAA----UGAAUAAACGA--AUGCAAAGCCAACAGCAUUCGAAAC---------------AUAAUAUAUUUAUAU-----UUAUUCAGUAAGCGGACAAAGCGAGGA
.(((((.((((((...----(((((((((((--((((..........)))))))....---------------((((.....)))).)-----))))))).....).))))).))))).. ( -24.10)
>DroYak_CAF1 129756 92 - 1
AUUUGCAUUGUUGAAA----UGAAUAUUCGU--AUGCAAAGCCAACAGCAUUCGCAA-----------------UAAUAUAUUUAUGU-----UUAUUCAGAAACCUGACAAAACGAGGA
.(((((((...((((.----......)))).--))))))).((....((....))..-----------------...........(((-----((..((((....))))..))))).)). ( -16.00)
>consensus
AUUUGCAUUGUUAAAUUUG_UGUAUAAACGU__AUGCAAAGCCAACAAUAUUUGAAACACAAAAG___UGUGCAUAAUAUAUUUAUGU_____UUAUUCGGAAGCCUGACAAAGCGAGGA
.(((((.((((((........((....))..........................................((((((.....))))))..................)))))).))))).. ( -5.86 =  -7.18 +   1.32)

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 10:03:51 2006