Locus 1578

Sequence ID 3L_DroMel_CAF1
Location 4,600,931 – 4,601,023
Length 92
Max. P 0.997974
window2446 window2447

overview

Window 6

Location 4,600,931 – 4,601,023
Length 92
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 89.51
Mean single sequence MFE -26.08
Consensus MFE -22.82
Energy contribution -23.14
Covariance contribution 0.32
Combinations/Pair 1.09
Mean z-score -2.40
Structure conservation index 0.88
SVM decision value 2.97
SVM RNA-class probability 0.997974
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4600931 92 + 23771897
UUCUCUCAGUGCUCACACAUAUCCCAUCGCUUCAGGUUCCAUUUGCGAACGGGUGUGUGUUUCCAAAUGGAUCCUCAUUCUCAUCCACAUGG--
..............((((((((((..((((....(....)....))))..))))))))))..(((..(((((..........)))))..)))-- ( -23.70)
>DroSec_CAF1 177519 94 + 1
UUCUCUCAGUGCUCACACAUAUCCCAUCGCUUCAGUUUCCAUUUGCGAACGGGUGUGUGUUUCCAAGUGGAUCCUCAUCCUCAUCCACAUGGAG
..............((((((((((..((((..............))))..)))))))))).((((.((((((..........)))))).)))). ( -29.54)
>DroSim_CAF1 178063 94 + 1
UUCUCUCAGUGCUCACACAUAUCCCAGCGCUUCAGUUUCCAUUUGCGAAUGGGUGUGUGUUUCCAAGUGGAUCCUCAUCCUCAUCCACAUGGAG
..............((((((((((...(((..............)))...)))))))))).((((.((((((..........)))))).)))). ( -29.04)
>DroEre_CAF1 186193 92 + 1
UUUUUGUAGUGCUCACACAUAUCCCAUCGUUUCAGGUUCCAUCGGAGACUGGGUGUGUGUUUCCGAGUGGAUCCUCAUCCUCAUCCACAUGG--
..............(((((((.((((..(((((.(((...))).))))))))))))))))..(((.((((((..........)))))).)))-- ( -25.90)
>DroYak_CAF1 183439 92 + 1
UUUGUUUAGUGUUCACACAUAUCCCAUCGUUUCAGGUUCCAUUUGCCAAUGGGUGUGUGUUUCCGAGUGGAUCCUCAUCCUCAUCCACAUGG--
..............(((((((.(((((.......(((.......))).))))))))))))..(((.((((((..........)))))).)))-- ( -22.20)
>consensus
UUCUCUCAGUGCUCACACAUAUCCCAUCGCUUCAGGUUCCAUUUGCGAAUGGGUGUGUGUUUCCAAGUGGAUCCUCAUCCUCAUCCACAUGG__
..............((((((((((..((((..............))))..))))))))))..(((.((((((..........)))))).))).. (-22.82 = -23.14 +   0.32)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,600,931 – 4,601,023
Length 92
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 89.51
Mean single sequence MFE -27.98
Consensus MFE -24.10
Energy contribution -25.10
Covariance contribution 1.00
Combinations/Pair 1.08
Mean z-score -2.38
Structure conservation index 0.86
SVM decision value 2.74
SVM RNA-class probability 0.996708
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4600931 92 - 23771897
--CCAUGUGGAUGAGAAUGAGGAUCCAUUUGGAAACACACACCCGUUCGCAAAUGGAACCUGAAGCGAUGGGAUAUGUGUGAGCACUGAGAGAA
--(((.((((((..........)))))).)))...(((((((((((.(((....(....)....))))))))...))))))............. ( -27.40)
>DroSec_CAF1 177519 94 - 1
CUCCAUGUGGAUGAGGAUGAGGAUCCACUUGGAAACACACACCCGUUCGCAAAUGGAAACUGAAGCGAUGGGAUAUGUGUGAGCACUGAGAGAA
.((((.((((((..........)))))).))))..(((((((((((.(((....(....)....))))))))...))))))............. ( -33.00)
>DroSim_CAF1 178063 94 - 1
CUCCAUGUGGAUGAGGAUGAGGAUCCACUUGGAAACACACACCCAUUCGCAAAUGGAAACUGAAGCGCUGGGAUAUGUGUGAGCACUGAGAGAA
.((((.((((((..........)))))).))))..((((((((((..(((....(....)....))).))))...))))))............. ( -30.70)
>DroEre_CAF1 186193 92 - 1
--CCAUGUGGAUGAGGAUGAGGAUCCACUCGGAAACACACACCCAGUCUCCGAUGGAACCUGAAACGAUGGGAUAUGUGUGAGCACUACAAAAA
--...(((((....(..(.(((.((((.(((((.((.........)).))))))))).))).)..).........(((....)))))))).... ( -22.80)
>DroYak_CAF1 183439 92 - 1
--CCAUGUGGAUGAGGAUGAGGAUCCACUCGGAAACACACACCCAUUGGCAAAUGGAACCUGAAACGAUGGGAUAUGUGUGAACACUAAACAAA
--((..((((((..........))))))..))...(((((((((((((......(....).....)))))))...))))))............. ( -26.00)
>consensus
__CCAUGUGGAUGAGGAUGAGGAUCCACUUGGAAACACACACCCAUUCGCAAAUGGAACCUGAAGCGAUGGGAUAUGUGUGAGCACUGAGAGAA
..(((.((((((..........)))))).)))...((((((((((.((((....(....)....))))))))...))))))............. (-24.10 = -25.10 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:05 2006