Locus 2679

Sequence ID 3R_DroMel_CAF1
Location 7,201,767 – 7,201,920
Length 153
Max. P 0.583806
window4346 window4347

overview

Window 6

Location 7,201,767 – 7,201,884
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.89
Mean single sequence MFE -43.78
Consensus MFE -21.97
Energy contribution -23.00
Covariance contribution 1.03
Combinations/Pair 1.27
Mean z-score -1.90
Structure conservation index 0.50
SVM decision value 0.10
SVM RNA-class probability 0.583806
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7201767 117 + 27905053
-CUUUA--CUGCCGCCCAACUGCCAACAGUUGAUCUCCGCCCCUCGCCUGAAUGGCAGCCAGUUAUCCUUCGCUUCGCCCGCCGCUGCUGCAGCCGCUGCAAUGGGUCUGCAGAUGCACC
-.....--((((.(((((.((((((.(((.(((..........))).)))..))))))..................((..((.((((...)))).)).))..)))))..))))....... ( -32.90)
>DroPse_CAF1 77088 120 + 1
UCCAUGCCAUGCCCCCCAAUUGCCAGCAGCUGAUAGCCGCCCCCCGCCUCAAUGGCAACCAGCUGUCGUUCGCCUCCCCAGCGGCUGCUGCAGCCGCGGCGAUGGGUCUGCAGAUGCACC
....(((..(((..((((.(((((.((.((((.((((.(((....(((.....))).....((((..(.......)..))))))).)))))))).)))))))))))...)))...))).. ( -49.60)
>DroGri_CAF1 76941 108 + 1
------------UGCCCAAUUGCCAGCAGCUAAUUGCUGCACCACGUUUAAAUGGCAAUCAGCUGUCUUUUGCCUCACCCGCCGCAGCUGCUGCCGCCGCGAUGGGUCUGCAAAUGCACC
------------.(((((.((((..(((((.....))))).............((((..(((((((.....((.......)).))))))).))))...))))))))).(((....))).. ( -37.50)
>DroWil_CAF1 68709 117 + 1
-CCUUG--GCCAUGGCCAAUUGUCAGCAAUUGAUUGCUGCCCCGCGACUCAAUGGCAAUCAGUUAUCGUUUGCUUCACCAGCGGCUGCUGCAGCCGCUGCCAUGGGUCUGCAAAUGCAUC
-..(((--((....))))).(((((((((....))))))....((((((((.((((....(((........))).....((((((((...)))))))))))))))))).))....))).. ( -43.90)
>DroAna_CAF1 41863 117 + 1
-CGUUG--AUGCCGCCCAACUGUCAGCAGCUAAUAGCUGCUCCCCGGUUGAAUGGGAGCCAGUUGUCCUUCGCCUCGCCCGCGGCUGCUGCAGCGGCUGCCAUGGGCCUGCAGAUGCACC
-.((..--.(((.(((((((((..((((((.....))))))...)))))..((((.((((.(((((.....(((.(....).)))....))))))))).))))))))..)))...))... ( -49.20)
>DroPer_CAF1 80526 120 + 1
UCCAUGCCAUGCCCCCCAAUUGCCAGCAGCUGAUAGCCGCCCCCCGCCUCAAUGGCAACCAGCUGUCGUUCGCCUCCCCAGCGGCUGCUGCAGCCGCGGCGAUGGGUCUGCAGAUGCACC
....(((..(((..((((.(((((.((.((((.((((.(((....(((.....))).....((((..(.......)..))))))).)))))))).)))))))))))...)))...))).. ( -49.60)
>consensus
_CCUUG__AUGCCGCCCAAUUGCCAGCAGCUGAUAGCCGCCCCCCGCCUCAAUGGCAACCAGCUGUCGUUCGCCUCACCAGCGGCUGCUGCAGCCGCUGCGAUGGGUCUGCAGAUGCACC
.............(((((.......(((((....((((((.....(((.....))).....((........)).......))))))))))).((....))..))))).(((....))).. (-21.97 = -23.00 +   1.03)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 7,201,804 – 7,201,920
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.56
Mean single sequence MFE -48.53
Consensus MFE -35.38
Energy contribution -35.88
Covariance contribution 0.50
Combinations/Pair 1.25
Mean z-score -1.28
Structure conservation index 0.73
SVM decision value 0.04
SVM RNA-class probability 0.551888
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7201804 116 + 27905053
CCCUCGCCUGAAUGGCAGCCAGUUAUCCUUCGCUUCGCCCGCCGCUGCUGCAGCCGCUGCAAUGGGUCUGCAGAUGCACCAUGCCGCCGCAGCAGCAGCAAUGUCCGCCCAGCAGC----
.....(((.....)))...............(((..((..((.((((((((.((.((.(((.(((...(((....))))))))).)).)).))))))))...))..))..)))...---- ( -41.10)
>DroPse_CAF1 77128 120 + 1
CCCCCGCCUCAAUGGCAACCAGCUGUCGUUCGCCUCCCCAGCGGCUGCUGCAGCCGCGGCGAUGGGUCUGCAGAUGCACCACGCGGCCGCAGCGGCAGCCAUGUCCGCCCAACAGCAACA
.....(((.....))).....(((((.(..(((.......))(((((((((.((.((.(((.(((...(((....))))))))).)).)).)))))))))......)..).))))).... ( -51.10)
>DroWil_CAF1 68746 120 + 1
CCCGCGACUCAAUGGCAAUCAGUUAUCGUUUGCUUCACCAGCGGCUGCUGCAGCCGCUGCCAUGGGUCUGCAAAUGCAUCAUGCAGCCGCUGCAGCGGCUAUGUCCGCGCAGCAGCAGCA
...((((((((.((((....(((........))).....((((((((...))))))))))))))))))(((...(((.....)))...(((((.((((......))))))))).))))). ( -52.30)
>DroMoj_CAF1 73153 114 + 1
GCCCCGUCUCAAUGGCAAUCAAUUGUCGUUUGCCUCACCCGCGGCCGCUGCUGCCGCCGCCAUGGGCCUGCAAAUGCAUCAUGCUGCCGCCGCGGCUGCCAUGC------AGCAGCAGCA
.............((((......((.(((((((....((((((((.((....)).)))))...)))...)))))))))......))))((.((.(((((...))------))).)).)). ( -44.80)
>DroAna_CAF1 41900 120 + 1
UCCCCGGUUGAAUGGGAGCCAGUUGUCCUUCGCCUCGCCCGCGGCUGCUGCAGCGGCUGCCAUGGGCCUGCAGAUGCACCAUGCCGCCGCCGCCGCGGCCAUGUCCGCCCAGCAGCAGCA
...((((.(((..((((........)))).....))).))).)((((((((.(((((.(((((((((........)).)))))..)).))))).((((......))))...)))))))). ( -50.80)
>DroPer_CAF1 80566 120 + 1
CCCCCGCCUCAAUGGCAACCAGCUGUCGUUCGCCUCCCCAGCGGCUGCUGCAGCCGCGGCGAUGGGUCUGCAGAUGCACCACGCGGCCGCAGCGGCAGCCAUGUCCGCCCAACAGCAACA
.....(((.....))).....(((((.(..(((.......))(((((((((.((.((.(((.(((...(((....))))))))).)).)).)))))))))......)..).))))).... ( -51.10)
>consensus
CCCCCGCCUCAAUGGCAACCAGUUGUCGUUCGCCUCACCAGCGGCUGCUGCAGCCGCUGCCAUGGGUCUGCAGAUGCACCAUGCCGCCGCAGCGGCAGCCAUGUCCGCCCAGCAGCAGCA
.....(((.....))).....(((((.....((.......))(((((((((.((.((.((.((((...(((....))))))))).)).)).)))))))))...........))))).... (-35.38 = -35.88 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:01 2006