Locus 3163

Sequence ID 3R_DroMel_CAF1
Location 8,377,238 – 8,377,353
Length 115
Max. P 0.992175
window5125 window5126

overview

Window 5

Location 8,377,238 – 8,377,353
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.04
Mean single sequence MFE -34.15
Consensus MFE -29.90
Energy contribution -29.98
Covariance contribution 0.09
Combinations/Pair 1.13
Mean z-score -2.90
Structure conservation index 0.88
SVM decision value 1.76
SVM RNA-class probability 0.975834
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8377238 115 + 27905053
--GGGCCGCAAUUGCUGGAAUCAAGUUGCUGACUUCAGGAGCAUUAUUCAAGCCUUG-CCCUCACAGGCUACACAGUCAACUUAAUUCCAGGAACUGCAACGCAAUCACCGAU--UAUCC
--..((.(((.((.(((((((.(((((((((......(((......))).(((((((-....)).)))))...))).)))))).))))))).)).)))...))..........--..... ( -33.20)
>DroVir_CAF1 52581 115 + 1
--GGGCCGCAAUUGCUGGAAUCAAGUUGCUGACUUUGUAAGCAGUGCACAAGCCUUC-CCUUUACAGGCUACACAGUCAACUUAAUUCCAGGAACUGCAACGCAAUUUCCAUU--UAUCC
--..((.(((.((.(((((((.(((((((((....((((.....))))..(((((..-.......)))))...))).)))))).))))))).)).)))...))..........--..... ( -32.90)
>DroGri_CAF1 45261 117 + 1
--GAGCCGCAAUUGCUGGAAUCAAGUUGCUGACUUUGUAAGCAGUGCACAAGCCUUC-CUCUUACAGGCUACACAGUCAACUUAAUUCCAGGAACUGCAACCCAAUUUCCAUAUCUAUUA
--.....(((.((.(((((((.(((((((((....((((.....))))..(((((..-.......)))))...))).)))))).))))))).)).)))...................... ( -32.50)
>DroWil_CAF1 53248 108 + 1
--GGGCCGCAAUUGCUGGAAUCAAGUUGCUGACUUAGUAUGCAAUGCUCAAGCCUUUCCCCUAACAGGCUACACAGUCAACUUAAUUCCAGGAACUGCAACGCAAUUGUC----------
--..((.(((.((.(((((((.(((((((((....(((((...)))))..(((((..........)))))...))).)))))).))))))).)).)))...)).......---------- ( -32.60)
>DroMoj_CAF1 48120 104 + 1
--GGGCCGCAGUUGCUGGAAUCAAGUUGCUGACUUUGUAAGCAAUGCAAAAGCCUUC-CCCUUACAGGCGACACAGUCAACUUUAUUCCAGGAACUGCAACGCAAUU-------------
--..((.((((((.(((((((.(((((((((..((((((.....)))))).((((..-.......))))....))).)))))).))))))).))))))...))....------------- ( -40.20)
>DroAna_CAF1 40236 117 + 1
UUGGGCCGCAAUUGCUGGAAUCAAGUUGCUGACUUCUGAAGCAGUUCUCAAGCCUUG-CCCUCACAGGCUACACAGUCAACUUAAUUCCAGGAACUGCAACGCAAUUGCCUUU--UGUUG
(((.(..(((.((.(((((((.(((((((((.....(((........)))(((((((-....)).)))))...))).)))))).))))))).)).)))..).)))........--..... ( -33.50)
>consensus
__GGGCCGCAAUUGCUGGAAUCAAGUUGCUGACUUUGUAAGCAGUGCACAAGCCUUC_CCCUUACAGGCUACACAGUCAACUUAAUUCCAGGAACUGCAACGCAAUUGCC_UU__UAU__
.......(((.((.(((((((.(((((((((....((((.....))))..(((((..........)))))...))).)))))).))))))).)).)))...................... (-29.90 = -29.98 +   0.09)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,377,238 – 8,377,353
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.04
Mean single sequence MFE -43.03
Consensus MFE -38.72
Energy contribution -38.92
Covariance contribution 0.19
Combinations/Pair 1.03
Mean z-score -3.82
Structure conservation index 0.90
SVM decision value 2.31
SVM RNA-class probability 0.992175
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8377238 115 - 27905053
GGAUA--AUCGGUGAUUGCGUUGCAGUUCCUGGAAUUAAGUUGACUGUGUAGCCUGUGAGGG-CAAGGCUUGAAUAAUGCUCCUGAAGUCAGCAACUUGAUUCCAGCAAUUGCGGCCC--
.(.((--(((...))))))(((((((((.((((((((((((((.(((....((((....)))-)..(((.........)))........))))))))))))))))).)))))))))..-- ( -42.10)
>DroVir_CAF1 52581 115 - 1
GGAUA--AAUGGAAAUUGCGUUGCAGUUCCUGGAAUUAAGUUGACUGUGUAGCCUGUAAAGG-GAAGGCUUGUGCACUGCUUACAAAGUCAGCAACUUGAUUCCAGCAAUUGCGGCCC--
.....--............(((((((((.((((((((((((((..((..((((((.......-..)))).))..))(((((.....)).))))))))))))))))).)))))))))..-- ( -42.20)
>DroGri_CAF1 45261 117 - 1
UAAUAGAUAUGGAAAUUGGGUUGCAGUUCCUGGAAUUAAGUUGACUGUGUAGCCUGUAAGAG-GAAGGCUUGUGCACUGCUUACAAAGUCAGCAACUUGAUUCCAGCAAUUGCGGCUC--
.................(((((((((((.((((((((((((((.(((.......((((((..-..((((....)).)).))))))....))))))))))))))))).)))))))))))-- ( -45.60)
>DroWil_CAF1 53248 108 - 1
----------GACAAUUGCGUUGCAGUUCCUGGAAUUAAGUUGACUGUGUAGCCUGUUAGGGGAAAGGCUUGAGCAUUGCAUACUAAGUCAGCAACUUGAUUCCAGCAAUUGCGGCCC--
----------.........(((((((((.((((((((((((((.(((.(((((.((((..((......))..))))..)).))).....))))))))))))))))).)))))))))..-- ( -41.20)
>DroMoj_CAF1 48120 104 - 1
-------------AAUUGCGUUGCAGUUCCUGGAAUAAAGUUGACUGUGUCGCCUGUAAGGG-GAAGGCUUUUGCAUUGCUUACAAAGUCAGCAACUUGAUUCCAGCAACUGCGGCCC--
-------------......(((((((((.(((((((.((((((.(((...(...((((((.(-(...((....)).)).))))))..).))))))))).))))))).)))))))))..-- ( -41.70)
>DroAna_CAF1 40236 117 - 1
CAACA--AAAGGCAAUUGCGUUGCAGUUCCUGGAAUUAAGUUGACUGUGUAGCCUGUGAGGG-CAAGGCUUGAGAACUGCUUCAGAAGUCAGCAACUUGAUUCCAGCAAUUGCGGCCCAA
.....--....((....))(((((((((.((((((((((((((.((.....((((....)))-)..(((((..(((....)))..))))))))))))))))))))).))))))))).... ( -45.40)
>consensus
__AUA__AA_GGAAAUUGCGUUGCAGUUCCUGGAAUUAAGUUGACUGUGUAGCCUGUAAGGG_GAAGGCUUGAGCACUGCUUACAAAGUCAGCAACUUGAUUCCAGCAAUUGCGGCCC__
...................(((((((((.((((((((((((((.(((....((((..........)))).........(((.....)))))))))))))))))))).))))))))).... (-38.72 = -38.92 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:37 2006