Locus 7170

Sequence ID X_DroMel_CAF1
Location 17,980,753 – 17,980,852
Length 99
Max. P 0.768107
window11714 window11715

overview

Window 4

Location 17,980,753 – 17,980,852
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.70
Mean single sequence MFE -21.65
Consensus MFE -16.98
Energy contribution -17.02
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -1.61
Structure conservation index 0.78
SVM decision value 0.24
SVM RNA-class probability 0.650135
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17980753 99 + 22224390
GC---UUCCAACCAGCUUCCAUGGGCACUG--C----------------CUUCCUCUGUUCCUGCUGGCAAACACUUGCAACUUUUAUUUGCUGCAACUUUUCGUUGGCCCAUUGAAUUC
((---(.......)))(((.((((((..((--(----------------(................)))).......((((.......))))..((((.....)))))))))).)))... ( -21.79)
>DroSec_CAF1 11611 99 + 1
GC---UUCCAUCCAGCUUCCAUGGGCACUGUUC----------------CUUCCU--CUUCCUGCUGGCAAACACUUGCAACUUUUAUUUGCUGCAACUUUUCGUUGGCCCAUUGAAUUC
((---(.......)))(((.((((((.......----------------......--..........((((....))))...............((((.....)))))))))).)))... ( -19.10)
>DroSim_CAF1 11328 99 + 1
GC---UUCCAUCCAGCUUCCAUGGGCACUGUUC----------------CUUCCU--GUUCCUGCUGGCAAACACUUGCAACUUUUAUUUGCUGCAACUUUUCGUUGGCCCAUUGAAUUC
((---(.......)))(((.((((((..((((.----------------...((.--((....)).))..))))...((((.......))))..((((.....)))))))))).)))... ( -19.80)
>DroEre_CAF1 12768 97 + 1
GC---UUCCAUCCAGCUUCCAUGGGCCCUG--C----------------CUUCCU--GUUCCUGCUGGCAAACACUUGCAACUUUUAUUUGCUGCCACUUCUCGUUGGCCCAUUGAAUAC
((---(.......)))(((.(((((((.((--(----------------(.....--.........)))).......((((.......))))..............))))))).)))... ( -22.24)
>DroYak_CAF1 10716 116 + 1
GCAGCAUCCAUCCAGCUUCCAUGGGUCCUG--CUAUCCUGCCGUCCUGUCGUCCU--GUUUCUGCUGGCAAACACUUGCAACUUUUAUUUGCUGCAACUUUUUGUUGGCCCAUUGAAUUC
((((.((((((.........)))))).)))--)......................--......((..(((((.(.(((((.(........).))))).).)))))..))........... ( -25.30)
>consensus
GC___UUCCAUCCAGCUUCCAUGGGCACUG__C________________CUUCCU__GUUCCUGCUGGCAAACACUUGCAACUUUUAUUUGCUGCAACUUUUCGUUGGCCCAUUGAAUUC
................(((.((((((.........................................((((....))))...............((((.....)))))))))).)))... (-16.98 = -17.02 +   0.04)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,980,753 – 17,980,852
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.70
Mean single sequence MFE -27.12
Consensus MFE -20.88
Energy contribution -20.96
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -1.80
Structure conservation index 0.77
SVM decision value 0.52
SVM RNA-class probability 0.768107
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17980753 99 - 22224390
GAAUUCAAUGGGCCAACGAAAAGUUGCAGCAAAUAAAAGUUGCAAGUGUUUGCCAGCAGGAACAGAGGAAG----------------G--CAGUGCCCAUGGAAGCUGGUUGGAA---GC
...(((.(((((((.......(.(((((((........))))))).)...((((..(..........)..)----------------)--))).)))))).)))(((.......)---)) ( -26.20)
>DroSec_CAF1 11611 99 - 1
GAAUUCAAUGGGCCAACGAAAAGUUGCAGCAAAUAAAAGUUGCAAGUGUUUGCCAGCAGGAAG--AGGAAG----------------GAACAGUGCCCAUGGAAGCUGGAUGGAA---GC
...(((.(((((((..((((.(.(((((((........))))))).).))))((....))...--......----------------.....).)))))).)))(((.......)---)) ( -25.20)
>DroSim_CAF1 11328 99 - 1
GAAUUCAAUGGGCCAACGAAAAGUUGCAGCAAAUAAAAGUUGCAAGUGUUUGCCAGCAGGAAC--AGGAAG----------------GAACAGUGCCCAUGGAAGCUGGAUGGAA---GC
...(((.(((((((..((((.(.(((((((........))))))).).))))((....))...--......----------------.....).)))))).)))(((.......)---)) ( -25.20)
>DroEre_CAF1 12768 97 - 1
GUAUUCAAUGGGCCAACGAGAAGUGGCAGCAAAUAAAAGUUGCAAGUGUUUGCCAGCAGGAAC--AGGAAG----------------G--CAGGGCCCAUGGAAGCUGGAUGGAA---GC
...(((.(((((((...........(((((........)))))......(((((..(......--..)..)----------------)--)))))))))).)))(((.......)---)) ( -29.10)
>DroYak_CAF1 10716 116 - 1
GAAUUCAAUGGGCCAACAAAAAGUUGCAGCAAAUAAAAGUUGCAAGUGUUUGCCAGCAGAAAC--AGGACGACAGGACGGCAGGAUAG--CAGGACCCAUGGAAGCUGGAUGGAUGCUGC
....((.(((((((.........(((((((........)))))))((.((((((.(......)--.(..(....)..)))))))...)--).)).))))).))(((.........))).. ( -29.90)
>consensus
GAAUUCAAUGGGCCAACGAAAAGUUGCAGCAAAUAAAAGUUGCAAGUGUUUGCCAGCAGGAAC__AGGAAG________________G__CAGUGCCCAUGGAAGCUGGAUGGAA___GC
...(((.(((((((..((((.(.(((((((........))))))).).))))((............))........................).)))))).)))................ (-20.88 = -20.96 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:54 2006