Locus 6429

Sequence ID 2L_DroMel_CAF1
Location 18,076,414 – 18,076,567
Length 153
Max. P 0.999875
window10257 window10258

overview

Window 7

Location 18,076,414 – 18,076,532
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 95.59
Mean single sequence MFE -30.72
Consensus MFE -27.92
Energy contribution -27.88
Covariance contribution -0.04
Combinations/Pair 1.10
Mean z-score -2.92
Structure conservation index 0.91
SVM decision value 4.34
SVM RNA-class probability 0.999875
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18076414 118 - 22407834
GCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAAUGUACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUACGAAAUGCCUUCGUAAGCACAUUAUUAAAUAUUUAGUGCGCAU
(((((((..((((((((((....(((((.....))))).....))))))))))...(((..(....)......((((((.....)))))).))).............))))))).... ( -29.10)
>DroSec_CAF1 283558 118 - 1
GCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAGUGUACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUAGGAAAUGCCUUGGUAAACACAUUACUAAAUAUUUAGUGUGCAU
((((..((.((((((((((.......(((((....)))))...))))))))))....))...........(((((((......)))))))........(((((....))))))))).. ( -29.90)
>DroSim_CAF1 285574 118 - 1
GCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAAUGUACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUAGGAAAUGCCUUGGUAAGCACAUUAUUAAAUAUUUAGUGUGCAU
(((.((...((((((((((....(((((.....))))).....)))))))))))).)))...........(((((((......))))))).((((((((.........)))))))).. ( -34.00)
>DroEre_CAF1 276253 117 - 1
GCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCGAUGUACAUAAUCAGCAGACAUUGCA-GAUAUCAAAUACUAGGAAAUGCCUUGGUAGGCACAUUAUUAAAUAUUUAGUGCGCAU
((((((((.((((((((((....(((((.....))))).....))))))))))....)).-...................(((((....)))))..............)))))).... ( -30.70)
>DroYak_CAF1 301061 117 - 1
GCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCGAUGUACAUAAUCAGCAGACAUUGCAAGAUAUCAAA-ACUAGGAAAUGCCUUGGUAAGGUCAUUAUUAAAUAUUUAGUGCGCAU
((((((((.((((((((((....(((((.....))))).....))))))))))....))..(((......-((((((......))))))...))).............)))))).... ( -29.90)
>consensus
GCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAAUGUACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUAGGAAAUGCCUUGGUAAGCACAUUAUUAAAUAUUUAGUGCGCAU
((((((((.((((((((((....(((((.....))))).....))))))))))....))...........(((((((......)))))))..................)))))).... (-27.92 = -27.88 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,076,454 – 18,076,567
Length 113
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.66
Mean single sequence MFE -26.00
Consensus MFE -15.01
Energy contribution -16.07
Covariance contribution 1.06
Combinations/Pair 1.29
Mean z-score -2.45
Structure conservation index 0.58
SVM decision value 0.14
SVM RNA-class probability 0.602684
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18076454 113 - 22407834
AAAUGCAAGACCCACUAUUAG-----UAAUUGAAUAGAUUGCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAAUG--UACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUACGA
..................(((-----((.((((.((..(((((.((...((((((((((....(((((.....)))))--.....)))))))))))).)))))..)))))).)))))... ( -28.70)
>DroSec_CAF1 283598 113 - 1
AAAAGCAAGACCCACUAUUAG-----UAAUUGAAUAGAUUGCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAGUG--UACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUAGGA
.................((((-----((.((((.((..(((((.((...((((((((((.......(((((....)))--))...)))))))))))).)))))..)))))).)))))).. ( -30.20)
>DroSim_CAF1 285614 113 - 1
AAAAGCAAGACCCACUAUUAG-----UAAUUGAAUAGAUUGCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAAUG--UACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUAGGA
.................((((-----((.((((.((..(((((.((...((((((((((....(((((.....)))))--.....)))))))))))).)))))..)))))).)))))).. ( -29.70)
>DroEre_CAF1 276293 112 - 1
AAAAGCAAUGCCCACUAUUAG-----UAAAUGAAUAGAUUGCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCGAUG--UACAUAAUCAGCAGACAUUGCA-GAUAUCAAAUACUAGGA
.................((((-----((..(((.((..(((((.((...((((((((((....(((((.....)))))--.....)))))))))))).))))-).)))))..)))))).. ( -24.90)
>DroYak_CAF1 301101 112 - 1
AAAAGCAAGACCCACUAUUAG-----UAAUUGAAUAGAUUGCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCGAUG--UACAUAAUCAGCAGACAUUGCAAGAUAUCAAA-ACUAGGA
.................((((-----(..((((.((..(((((.((...((((((((((....(((((.....)))))--.....)))))))))))).)))))..)))))).-))))).. ( -25.90)
>DroAna_CAF1 267235 112 - 1
GAAAGCCAACUCUACUACUAGCCAACUAAUUCCAUUCAGUGUGCUCGCAACUGUUGAUUUCGA-GGUGCACUCCAAUAAAUGCGUAAUCAAAUAUCUUUCCGAGAUAGCUUAU-------
..((((...(((.......(((..(((.(......).)))..)))((((..(((((.....((-(.....))))))))..)))).................)))...))))..------- ( -16.60)
>consensus
AAAAGCAAGACCCACUAUUAG_____UAAUUGAAUAGAUUGCACUGGCUUCUGUUGAUUUCCCCAUUGCACUUCAAUG__UACAUAAUCAGCAGACAUUGCAAGAUAUCAAAUACUAGGA
.............................((((.((..(((((.((...((((((((((....(((((.....))))).......)))))))))))).)))))..))))))......... (-15.01 = -16.07 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:49 2006