Locus 4760

Sequence ID 2R_DroMel_CAF1
Location 15,667,247 – 15,667,337
Length 90
Max. P 0.989084
window7657 window7658

overview

Window 7

Location 15,667,247 – 15,667,337
Length 90
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 77.57
Mean single sequence MFE -23.33
Consensus MFE -15.82
Energy contribution -16.52
Covariance contribution 0.69
Combinations/Pair 1.06
Mean z-score -3.05
Structure conservation index 0.68
SVM decision value 2.15
SVM RNA-class probability 0.989084
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15667247 90 + 20766785
-UUUCGUUCCUGUUGUUUAGUUUGAGGCGUUGUCUGCGCCUAAAACUUGCCAACAUCAACGGCAACA------GCAACAUCC-ACAUCAACAUCAAGC
-...((((..(((((...(((((.((((((.....)))))).)))))...)))))..))))((....------)).......-............... ( -24.00)
>DroPse_CAF1 511049 87 + 1
AAGCUGUUCCUGUUGUUUAGUUUGAGGCGUUGUCUGCGCCUAAAACUUGCCAACAUCAAC-----------CGGCAACAUCCAACAUCAACAUCAAGC
..(.((((..(((((....((((.((((((.....)))))).))))(((((.........-----------.)))))....)))))..)))).).... ( -24.50)
>DroSim_CAF1 445162 90 + 1
-UUCCGUUCCUGUUGUUUAGUUUGAGGCGUUGUCUGCGCCUAAAACUUGCCAACAUCAACGGCAACA------GCAACAUCC-ACAUCAACAUCAAGC
-..(((((..(((((...(((((.((((((.....)))))).)))))...)))))..))))).....------.........-............... ( -25.40)
>DroEre_CAF1 447351 84 + 1
-UUCC-----UGUUGUUUAGUUUGAGGCGUUGUCUGCGCCUAAAACUUGC-------AACAGCAACAUUCACAUCCACAUCA-ACAUCAACAUCAAGC
-...(-----((((((..(((((.((((((.....)))))).))))).))-------)))))....................-............... ( -23.20)
>DroAna_CAF1 434484 69 + 1
-AUCCGAUCCUGUUGUUUAGUUUGAGGCGUUGUCUGUGCCUAAAACUUGGCAACAUCAAC----------------------------AUCAUCAAGC
-....(((..((((((..(((((.(((((.......))))).)))))..)))))).....----------------------------)))....... ( -18.40)
>DroPer_CAF1 470166 87 + 1
AAGCUGUUCCUGUUGUUUAGUUUGAGGCGUUGUCUGCGCCUAAAACUUGCCAACAUCAAC-----------CGGCAACAUCCAACAUCAACAUCAAGC
..(.((((..(((((....((((.((((((.....)))))).))))(((((.........-----------.)))))....)))))..)))).).... ( -24.50)
>consensus
_AUCCGUUCCUGUUGUUUAGUUUGAGGCGUUGUCUGCGCCUAAAACUUGCCAACAUCAAC_____________GCAACAUCC_ACAUCAACAUCAAGC
..........(((((...(((((.((((((.....)))))).)))))...)))))........................................... (-15.82 = -16.52 +   0.69)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,667,247 – 15,667,337
Length 90
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 77.57
Mean single sequence MFE -24.60
Consensus MFE -14.88
Energy contribution -16.55
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.61
SVM decision value 0.60
SVM RNA-class probability 0.796188
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15667247 90 - 20766785
GCUUGAUGUUGAUGU-GGAUGUUGC------UGUUGCCGUUGAUGUUGGCAAGUUUUAGGCGCAGACAACGCCUCAAACUAAACAACAGGAACGAAA-
.((((.(((..((((-.((((..((------....)))))).))))..)))(((((.(((((.......))))).)))))......)))).......- ( -26.50)
>DroPse_CAF1 511049 87 - 1
GCUUGAUGUUGAUGUUGGAUGUUGCCG-----------GUUGAUGUUGGCAAGUUUUAGGCGCAGACAACGCCUCAAACUAAACAACAGGAACAGCUU
......((((..(((((.....(((((-----------(......))))))(((((.(((((.......))))).)))))...)))))..)))).... ( -26.90)
>DroSim_CAF1 445162 90 - 1
GCUUGAUGUUGAUGU-GGAUGUUGC------UGUUGCCGUUGAUGUUGGCAAGUUUUAGGCGCAGACAACGCCUCAAACUAAACAACAGGAACGGAA-
((..((((((.....-.))))))))------.....(((((..(((((...(((((.(((((.......))))).)))))...)))))..)))))..- ( -27.00)
>DroEre_CAF1 447351 84 - 1
GCUUGAUGUUGAUGU-UGAUGUGGAUGUGAAUGUUGCUGUU-------GCAAGUUUUAGGCGCAGACAACGCCUCAAACUAAACAACA-----GGAA-
....((((((.((((-(......))))).)))))).(((((-------(..(((((.(((((.......))))).)))))...)))))-----)...- ( -22.90)
>DroAna_CAF1 434484 69 - 1
GCUUGAUGAU----------------------------GUUGAUGUUGCCAAGUUUUAGGCACAGACAACGCCUCAAACUAAACAACAGGAUCGGAU-
......((((----------------------------.(((.((((....(((((.((((.........)))).))))).)))).))).))))...- ( -17.40)
>DroPer_CAF1 470166 87 - 1
GCUUGAUGUUGAUGUUGGAUGUUGCCG-----------GUUGAUGUUGGCAAGUUUUAGGCGCAGACAACGCCUCAAACUAAACAACAGGAACAGCUU
......((((..(((((.....(((((-----------(......))))))(((((.(((((.......))))).)))))...)))))..)))).... ( -26.90)
>consensus
GCUUGAUGUUGAUGU_GGAUGUUGC_____________GUUGAUGUUGGCAAGUUUUAGGCGCAGACAACGCCUCAAACUAAACAACAGGAACGGAA_
......................................(((..(((((...(((((.(((((.......))))).)))))...)))))..)))..... (-14.88 = -16.55 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:41 2006