Locus 4813

Sequence ID 2R_DroMel_CAF1
Location 15,794,138 – 15,794,230
Length 92
Max. P 0.562519
window7729 window7730

overview

Window 9

Location 15,794,138 – 15,794,230
Length 92
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 80.32
Mean single sequence MFE -26.36
Consensus MFE -19.37
Energy contribution -20.37
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.11
Structure conservation index 0.73
SVM decision value 0.01
SVM RNA-class probability 0.537993
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15794138 92 + 20766785
CUGGGCGGCGGUCAAUGUGCCGAUCAUCACGAUCCUGGGCACCAAACCGCCCCACAAUCCUGAAUUGGA-AAAAAGCGAAUGU-UUUAGAUGAG---
.((((.((((((....(((((((((.....))))...)))))...)))))))).)).(((......)))-..(((((....))-))).......--- ( -29.40)
>DroSec_CAF1 109 95 + 1
CUGGGCGGCGGUCAAUGUGCCGAUCAUCACGAUCCUGGGCACCAAACCGCCCCACAAUCCUGAAAUAAAAACAAAGCGAAAGU-UUUAAUUGAGAU-
.((((.((((((....(((((((((.....))))...)))))...)))))))).))................(((((....))-))).........- ( -30.60)
>DroSim_CAF1 109 93 + 1
CUGGGCGGCGGUCAAUGUGCCGAUCAUCACGAUCCUGGGCACCAAACCGCCCCACAAUCCUGAAAUCAAAAAAAAGCGACCGU-UUUAGAAGAG---
.((((.((((((....(((((((((.....))))...)))))...)))))))).))...(((((((...............))-))))).....--- ( -27.76)
>DroEre_CAF1 148 95 + 1
CUGGGCGGCGGUCAAUGUGCCGAUCAUCACGAUCCUGGGCACCAAACCGCCCCACAAUCCUGAAAUAGGAAAAACGUGAUAGU-UUCAGAUGCUGG-
(((((.((((((....(((((((((.....))))...)))))...))))))))....(((((...))))).((((......))-))))).......- ( -30.90)
>DroYak_CAF1 109 96 + 1
CUGGGCGGCGGUCAAUGUGCCGAUCAUCACGAUCCUGGGCACCAAACCGCCCCACAAUCCUGAAAUGUAAAAAAGUCGUCAGUUUUCAGUUGCUGG-
.((((.((((((....(((((((((.....))))...)))))...)))))))).)).......................((((........)))).- ( -28.90)
>DroPer_CAF1 109 87 + 1
CUGUGCAGCAGUCAGAGUACCGAUCAUCACAAUCCUAGGCACCAAUCCGCCCCAGAGUCCUGUAGAAA-----AGU--AGAGU-UUAAGGCAAG--G
.(.(((((.(.((.((.......))............(((........)))...)).).))))).)..-----...--.....-..........--. ( -10.60)
>consensus
CUGGGCGGCGGUCAAUGUGCCGAUCAUCACGAUCCUGGGCACCAAACCGCCCCACAAUCCUGAAAUAAAAAAAAAGCGAAAGU_UUUAGAUGAG___
...((.((((((....(((((((((.....))))...)))))...))))))))............................................ (-19.37 = -20.37 +   1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,794,138 – 15,794,230
Length 92
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 80.32
Mean single sequence MFE -29.73
Consensus MFE -25.84
Energy contribution -25.48
Covariance contribution -0.36
Combinations/Pair 1.25
Mean z-score -1.11
Structure conservation index 0.87
SVM decision value 0.06
SVM RNA-class probability 0.562519
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15794138 92 - 20766785
---CUCAUCUAAA-ACAUUCGCUUUUU-UCCAAUUCAGGAUUGUGGGGCGGUUUGGUGCCCAGGAUCGUGAUGAUCGGCACAUUGACCGCCGCCCAG
---..........-.............-(((......))).((.(((((((((..(((((...((((.....)))))))))...))))))).)))). ( -30.90)
>DroSec_CAF1 109 95 - 1
-AUCUCAAUUAAA-ACUUUCGCUUUGUUUUUAUUUCAGGAUUGUGGGGCGGUUUGGUGCCCAGGAUCGUGAUGAUCGGCACAUUGACCGCCGCCCAG
-((((.(((.(((-((.........))))).)))...))))((.(((((((((..(((((...((((.....)))))))))...))))))).)))). ( -30.60)
>DroSim_CAF1 109 93 - 1
---CUCUUCUAAA-ACGGUCGCUUUUUUUUGAUUUCAGGAUUGUGGGGCGGUUUGGUGCCCAGGAUCGUGAUGAUCGGCACAUUGACCGCCGCCCAG
---..........-..((((((....(((((....)))))..))).(((((((..(((((...((((.....)))))))))...))))))))))... ( -31.80)
>DroEre_CAF1 148 95 - 1
-CCAGCAUCUGAA-ACUAUCACGUUUUUCCUAUUUCAGGAUUGUGGGGCGGUUUGGUGCCCAGGAUCGUGAUGAUCGGCACAUUGACCGCCGCCCAG
-...((.......-....(((((....((((.....)))).)))))(((((((..(((((...((((.....)))))))))...))))))))).... ( -34.40)
>DroYak_CAF1 109 96 - 1
-CCAGCAACUGAAAACUGACGACUUUUUUACAUUUCAGGAUUGUGGGGCGGUUUGGUGCCCAGGAUCGUGAUGAUCGGCACAUUGACCGCCGCCCAG
-.......((((((..(((........)))..))))))...((.(((((((((..(((((...((((.....)))))))))...))))))).)))). ( -32.80)
>DroPer_CAF1 109 87 - 1
C--CUUGCCUUAA-ACUCU--ACU-----UUUCUACAGGACUCUGGGGCGGAUUGGUGCCUAGGAUUGUGAUGAUCGGUACUCUGACUGCUGCACAG
.--((((....((-(....--..)-----))....)))).((.((.(((((...((((((...((((.....))))))))))....))))).)).)) ( -17.90)
>consensus
___CUCAUCUAAA_ACUGUCGCUUUUUUUUUAUUUCAGGAUUGUGGGGCGGUUUGGUGCCCAGGAUCGUGAUGAUCGGCACAUUGACCGCCGCCCAG
........................................(((.(.(((((((..(((((...((((.....)))))))))...))))))).).))) (-25.84 = -25.48 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:50 2006