Locus 6522

Sequence ID 3R_DroMel_CAF1
Location 17,200,008 – 17,200,098
Length 90
Max. P 0.985155
window10611 window10612

overview

Window 1

Location 17,200,008 – 17,200,098
Length 90
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 80.58
Mean single sequence MFE -28.62
Consensus MFE -16.30
Energy contribution -16.97
Covariance contribution 0.67
Combinations/Pair 1.09
Mean z-score -4.30
Structure conservation index 0.57
SVM decision value 2.00
SVM RNA-class probability 0.985155
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17200008 90 + 27905053
UUU-UUUUUUAAGACUCGGCAAUCAAUGCCGUUGCUGGA--UU-UGCAUCAGCAAGCUUUUACGUUGCUUAAACAAAUCCAGACAACAUCUU-UA
...-......((((...((((.....))))(((((((((--((-((....(((((.(......))))))....))))))))).)))).))))-.. ( -28.00)
>DroSec_CAF1 21643 90 + 1
AAA-CCUUCUAAGACUCGGCAAUCAAUGCCGUUGCUGGA--UU-UGCAUCAGCAAGCUUUUACGUUGCUUGAACAAAUCCUGGCAACAUCUU-UA
...-......((((...((((.....))))(((((((((--((-((......(((((.........)))))..))))))).)))))).))))-.. ( -28.30)
>DroEre_CAF1 23699 90 + 1
UGA-ACUUUGAAGACUCGGCAAUUAAUGCCGUUGCUGGA--UU-UGCAUCAGCAAGCUUUUACGUUGCUUGAACAAAUCCAGACAACAUCUU-AA
...-......((((...((((.....))))(((((((((--((-((......(((((.........)))))..))))))))).)))).))))-.. ( -29.80)
>DroYak_CAF1 23407 90 + 1
UAA-ACUUUGAAGACUCGGCAAUGAAUGCCGUUGCUGGA--UU-UGCAUCAGCAAGCUUUUACGUUGCUUGAACAAAUCCAGACAACAUCUU-UA
...-....((((((...((((.....))))(((((((((--((-((......(((((.........)))))..))))))))).)))).))))-)) ( -31.20)
>DroMoj_CAF1 34516 91 + 1
C--AAAUUGUAAGACUCGGCAAUCAAUGCCGUUGCUCGA--AUCACCGUCAGCAAGCUUUUACGUUGCUGCGGCUAUUCAAAGCAACAUCUUAUU
.--.....((((((...((((.....))))((((((.((--((..(((.((((((.(......))))))))))..))))..)))))).)))))). ( -31.80)
>DroAna_CAF1 24688 92 + 1
UAG-CUACUAAAGAUUCGGCACUCAAUGCCGUUGCUAGACAAU-UGCGAUCGCAAGCUUUUACGUUGCUUCAACAAGUCUGAACAACAUCUU-UG
...-....(((((((..((((.....))))((((.(((((..(-(((....))))........((((...))))..)))))..)))))))))-)) ( -22.60)
>consensus
UAA_ACUUUUAAGACUCGGCAAUCAAUGCCGUUGCUGGA__UU_UGCAUCAGCAAGCUUUUACGUUGCUUGAACAAAUCCAGACAACAUCUU_UA
..........((((...((((.....))))(((((((((......((....))((((.........)))).......))))).)))).))))... (-16.30 = -16.97 +   0.67)

alignment

Postscript

secondary structure

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dotplot

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Window 2

Location 17,200,008 – 17,200,098
Length 90
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 80.58
Mean single sequence MFE -34.32
Consensus MFE -24.84
Energy contribution -24.23
Covariance contribution -0.61
Combinations/Pair 1.21
Mean z-score -5.16
Structure conservation index 0.72
SVM decision value 1.71
SVM RNA-class probability 0.973506
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17200008 90 - 27905053
UA-AAGAUGUUGUCUGGAUUUGUUUAAGCAACGUAAAAGCUUGCUGAUGCA-AA--UCCAGCAACGGCAUUGAUUGCCGAGUCUUAAAAAA-AAA
..-(((((((((.((((((((((...(((((.((....)))))))...)))-))--)))))))))((((.....))))..)))))......-... ( -36.00)
>DroSec_CAF1 21643 90 - 1
UA-AAGAUGUUGCCAGGAUUUGUUCAAGCAACGUAAAAGCUUGCUGAUGCA-AA--UCCAGCAACGGCAUUGAUUGCCGAGUCUUAGAAGG-UUU
..-((((((((((..((((((((...(((((.((....)))))))...)))-))--))).)))))((((.....))))..)))))......-... ( -33.50)
>DroEre_CAF1 23699 90 - 1
UU-AAGAUGUUGUCUGGAUUUGUUCAAGCAACGUAAAAGCUUGCUGAUGCA-AA--UCCAGCAACGGCAUUAAUUGCCGAGUCUUCAAAGU-UCA
..-(((((((((.((((((((((...(((((.((....)))))))...)))-))--)))))))))((((.....))))..)))))......-... ( -35.30)
>DroYak_CAF1 23407 90 - 1
UA-AAGAUGUUGUCUGGAUUUGUUCAAGCAACGUAAAAGCUUGCUGAUGCA-AA--UCCAGCAACGGCAUUCAUUGCCGAGUCUUCAAAGU-UUA
..-(((((((((.((((((((((...(((((.((....)))))))...)))-))--)))))))))((((.....))))..)))))......-... ( -35.40)
>DroMoj_CAF1 34516 91 - 1
AAUAAGAUGUUGCUUUGAAUAGCCGCAGCAACGUAAAAGCUUGCUGACGGUGAU--UCGAGCAACGGCAUUGAUUGCCGAGUCUUACAAUUU--G
..(((((((((((((.((((.((((((((((.((....)))))))).)))).))--)))))))))((((.....))))..))))))......--. ( -38.70)
>DroAna_CAF1 24688 92 - 1
CA-AAGAUGUUGUUCAGACUUGUUGAAGCAACGUAAAAGCUUGCGAUCGCA-AUUGUCUAGCAACGGCAUUGAGUGCCGAAUCUUUAGUAG-CUA
.(-(((((((((((.((((..((((..((((.((....)))))).....))-)).))))))))))(((((...)))))..)))))).....-... ( -27.00)
>consensus
UA_AAGAUGUUGUCUGGAUUUGUUCAAGCAACGUAAAAGCUUGCUGAUGCA_AA__UCCAGCAACGGCAUUGAUUGCCGAGUCUUAAAAGU_UUA
...(((((((((.(((((..(((...(((((.((....)))))))...))).....)))))))))((((.....))))..))))).......... (-24.84 = -24.23 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:26 2006