Locus 6997

Sequence ID 2L_DroMel_CAF1
Location 19,462,165 – 19,462,266
Length 101
Max. P 0.998037
window11158 window11159

overview

Window 8

Location 19,462,165 – 19,462,266
Length 101
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 71.43
Mean single sequence MFE -42.80
Consensus MFE -16.54
Energy contribution -17.57
Covariance contribution 1.03
Combinations/Pair 1.18
Mean z-score -3.06
Structure conservation index 0.39
SVM decision value 2.99
SVM RNA-class probability 0.998037
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19462165 101 + 22407834
GGGAGGUGCAACCGCCGGCGGCGAUAGCCAAAGCUCUCCGGAAUUCUACCUCUGACGCCAGCUGGCGGUGGCC--AGCGGCU-CCUCCGCAUCC------UCAUCCUCCU
((((((.((.(((((((((((((..(((....)))...((((........)))).)))).))))))))).)).--.((((..-...))))....------....)))))) ( -46.90)
>DroVir_CAF1 20879 91 + 1
----GGCGCCGCCGCCGGCGCGGACAGUCAAAGCUCCCCGGAGUUCUAUCUAUGACGCCAACUGGCGGCGGCCCCAACGGCUUCCAUCUCAAAU---------------A
----((.(((((((((((.(((...((....(((((....)))))....))....)))...))))))))))).))...................---------------. ( -38.40)
>DroPse_CAF1 24219 92 + 1
AGGUGGUCCGCCUGCAGCUGGCGACAGCCAGAGCUCGCCAGAGUUCUACCUAUGACGCCAGCUGGCGGCAGCC--ACCUCGU-CCUCCUCAACA---------------A
((((((((((((...((((((((.((...(((((((....))))))).....)).)))))))))))))..)))--))))...-...........---------------. ( -45.70)
>DroSec_CAF1 17980 98 + 1
AGGAGGUGCAACCGCCG---GCGAUAGCCAAAGCUCUCCGGAAUUCUACCUCUGACGCCAGUUGGCGGUGGCC--AGCGGCU-CCUCCGCAUCA------UCAUCCUCCU
((((((.((.(((((((---((((.(((....))).))((((........))))......))))))))).)).--.((((..-...))))....------....)))))) ( -39.00)
>DroYak_CAF1 18884 107 + 1
AGGAGGUGCAUCCGCCGGCGGCGAUAGCCAAAGCUCUCCGGAGUUCUACCUCUGACGCCAGUUGGCAGUGGCC--AGCGGCU-CUUCCGCAUCCGCAUCCUCAUCUUCCA
.(((((((.....((((((((((..(((....)))...(((((......))))).)))).)))))).((((..--.((((..-...))))..)))).....))))))).. ( -41.10)
>DroPer_CAF1 24557 92 + 1
AGGUGGUCCGCCUGCAGCUGGCGACAGCCAGAGCUCGCCAGAGUUCUACCUAUGACGCCAGCUGGCGGCAGCC--ACCUCGU-CCUCCUCAACA---------------A
((((((((((((...((((((((.((...(((((((....))))))).....)).)))))))))))))..)))--))))...-...........---------------. ( -45.70)
>consensus
AGGAGGUGCAACCGCCGGCGGCGACAGCCAAAGCUCUCCGGAGUUCUACCUAUGACGCCAGCUGGCGGCGGCC__AGCGGCU_CCUCCGCAACA_______________A
.((.((.......((((..(((....(((..(((((....)))))...........(((....)))))).)))....))))..)).))...................... (-16.54 = -17.57 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 9

Location 19,462,165 – 19,462,266
Length 101
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 71.43
Mean single sequence MFE -45.40
Consensus MFE -20.01
Energy contribution -21.60
Covariance contribution 1.59
Combinations/Pair 1.22
Mean z-score -2.15
Structure conservation index 0.44
SVM decision value 1.40
SVM RNA-class probability 0.950249
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19462165 101 - 22407834
AGGAGGAUGA------GGAUGCGGAGG-AGCCGCU--GGCCACCGCCAGCUGGCGUCAGAGGUAGAAUUCCGGAGAGCUUUGGCUAUCGCCGCCGGCGGUUGCACCUCCC
.(((((....------....((((...-..)))).--.((.((((((.((.((((....((.((((.(((....))).)))).))..)))))).)))))).)).))))). ( -45.20)
>DroVir_CAF1 20879 91 - 1
U---------------AUUUGAGAUGGAAGCCGUUGGGGCCGCCGCCAGUUGGCGUCAUAGAUAGAACUCCGGGGAGCUUUGACUGUCCGCGCCGGCGGCGGCGCC----
.---------------......(((((...)))))((.(((((((((....(((((.((((.((((.(((....))).)))).))))..)))))))))))))).))---- ( -43.10)
>DroPse_CAF1 24219 92 - 1
U---------------UGUUGAGGAGG-ACGAGGU--GGCUGCCGCCAGCUGGCGUCAUAGGUAGAACUCUGGCGAGCUCUGGCUGUCGCCAGCUGCAGGCGGACCACCU
(---------------((((......)-))))(((--(((((((..(((((((((..((((.((((.(((....))).)))).)))))))))))))..))))).))))). ( -50.20)
>DroSec_CAF1 17980 98 - 1
AGGAGGAUGA------UGAUGCGGAGG-AGCCGCU--GGCCACCGCCAACUGGCGUCAGAGGUAGAAUUCCGGAGAGCUUUGGCUAUCGC---CGGCGGUUGCACCUCCU
((((((.((.------.....))..(.-(((((((--(((...((((....)))).....(((((....(((((....))))))))))))---)))))))).).)))))) ( -42.30)
>DroYak_CAF1 18884 107 - 1
UGGAAGAUGAGGAUGCGGAUGCGGAAG-AGCCGCU--GGCCACUGCCAACUGGCGUCAGAGGUAGAACUCCGGAGAGCUUUGGCUAUCGCCGCCGGCGGAUGCACCUCCU
........((((.(((((..((((...-..)))).--..)).(((((...(((((....((.((((.(((....))).)))).))..)))))..)))))..))))))).. ( -41.40)
>DroPer_CAF1 24557 92 - 1
U---------------UGUUGAGGAGG-ACGAGGU--GGCUGCCGCCAGCUGGCGUCAUAGGUAGAACUCUGGCGAGCUCUGGCUGUCGCCAGCUGCAGGCGGACCACCU
(---------------((((......)-))))(((--(((((((..(((((((((..((((.((((.(((....))).)))).)))))))))))))..))))).))))). ( -50.20)
>consensus
U_______________UGAUGAGGAGG_AGCCGCU__GGCCACCGCCAGCUGGCGUCAGAGGUAGAACUCCGGAGAGCUUUGGCUAUCGCCGCCGGCGGGUGCACCUCCU
......................((.((..((((((..(((....)))...(((((....((.((((.(((....))).)))).))..)))))..))))))....)).)). (-20.01 = -21.60 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:50 2006