Locus 4076

Sequence ID 3R_DroMel_CAF1
Location 11,110,914 – 11,111,063
Length 149
Max. P 0.988538
window6527 window6528

overview

Window 7

Location 11,110,914 – 11,111,023
Length 109
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.33
Mean single sequence MFE -29.62
Consensus MFE -21.48
Energy contribution -22.77
Covariance contribution 1.28
Combinations/Pair 1.27
Mean z-score -1.23
Structure conservation index 0.73
SVM decision value 0.42
SVM RNA-class probability 0.728788
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11110914 109 - 27905053
CUUCCUGGGUCUGAUCCAGCUCGUUCUCAACGGUCUGGAUCUUCUUCUGCAGCUGGCGAGCCUCCUCCUCGGCCUAC-----GGAUUCAAGCGAAUGAAAUCCAAUGUUAUUUG
.....(((((..(((((((..(((.....)))..)))))))((((((.((.(((((.(((....))).)))))(...-----.)......))))).)))))))).......... ( -31.00)
>DroGri_CAF1 24018 93 - 1
CCUCUUGUGUCUGAUCCAAUUCGUUUUCAACGGUCUGGAUUUUCUUUUGCAGCUGGCGAGCCUCCUCCUCGGCCUGC-----AGAUAAC-ACGAAAGAA---------------
.((.((((((..((((((..((((.....))))..))))))....(((((((((((.(((....))).)))).))))-----)))..))-)))).))..--------------- ( -30.60)
>DroEre_CAF1 21726 108 - 1
CUUCCUGGGUCUGAUCCAGCUCGUUCUCAACGGUCUGGAUCUUCUUCUGCAGCUGGCGAGCCUCCUCCUCGGCCUGC-----GGAUUCGAGCAAAUGAAAUCAAAUGUUAUUC-
.....((((((((((((((..(((.....)))..))))))).......((((((((.(((....))).)))).))))-----)))))))((((..((....))..))))....- ( -34.00)
>DroWil_CAF1 24497 102 - 1
CCUCCUGUGUCUGAUCCAAUUCGUUUUCAACGGUCUGGAUUUUCUUUUGCAGCUGGCGAGCCUCCUCCUCGGCCUGU------ACA-ACAACAAUUGAAA----AUGAUAAAA-
.......((((.((((((..((((.....))))..))))))......(((((((((.(((....))).)))).))))------)..-.............----..))))...- ( -22.20)
>DroYak_CAF1 22161 108 - 1
CCUCCUGGGUCUGGUCCAGCUCGUUCUCGACGGUCUGGAUCUUCUUCUGCAGCUGGCGAGCCUCCUCCUCGGCCUGC-----GGAUAUGAACGAAUGAAAUCAAAUGUUAUUA-
((....))....(((((((..((((...))))..)))))))(((.(((((((((((.(((....))).)))).))))-----)))...)))......................- ( -33.20)
>DroAna_CAF1 21439 110 - 1
CUUCCUGGGUCUGAUCCAGCUCGUUUUCAACGGUCUGGAUCUUCUUCUGCAGCUGGCGAGCCUCCUCCUCGGCCUAUUGGGUGGUUUUAAAGAAAAAUAAUAAAGAAUUA----
((.((..(....(((((((..(((.....)))..)))))))..........(((((.(((....))).)))))...)..)).))..........................---- ( -26.70)
>consensus
CCUCCUGGGUCUGAUCCAGCUCGUUCUCAACGGUCUGGAUCUUCUUCUGCAGCUGGCGAGCCUCCUCCUCGGCCUGC_____GGAUUAAAACAAAUGAAAUCAAAUGUUAUU__
.....((((((((((((((.(((((...))))).))))))).......((((((((.(((....))).)))).)))).....)))))))......................... (-21.48 = -22.77 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 11,110,946 – 11,111,063
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.73
Mean single sequence MFE -37.98
Consensus MFE -35.41
Energy contribution -34.30
Covariance contribution -1.11
Combinations/Pair 1.21
Mean z-score -1.89
Structure conservation index 0.93
SVM decision value 2.12
SVM RNA-class probability 0.988538
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11110946 117 - 27905053
UUGUUCUUCUCCUCCAGCUUGCCGGUGACCAGGGUCAGGGCUUCCUGGGUCUGAUCCAGCUCGUUCUCAACGGUCUGGAUCUUCUUCUGCAGCUGGCGAGCCUCCUCCUCGGCCUAC---
................((((((((((((((((((........)))).)))).(((((((..(((.....)))..)))))))..........))))))))))................--- ( -42.00)
>DroVir_CAF1 24775 117 - 1
UUGUUCUUCUCCUCCAGCUUGCCAGUGACAAGGGUGAGCGCUUCCUGGGUCUGAUCCAAUUCGUUUUCAACGGUCUGGAUCUUCUUUUGCAGCUGGCGAGCCUCCUCCUCGGCCUAC---
................(((((((((((((.((((........))))..))).((((((..((((.....))))..))))))..........))))))))))................--- ( -37.30)
>DroGri_CAF1 24034 117 - 1
UUGUUCUUCUCCUCCAGCUUGCCAGUGACAAGGGUGAGAGCCUCUUGUGUCUGAUCCAAUUCGUUUUCAACGGUCUGGAUUUUCUUUUGCAGCUGGCGAGCCUCCUCCUCGGCCUGC---
................((((((((((.((((((((....))).)))))....((((((..((((.....))))..))))))..........))))))))))................--- ( -38.70)
>DroWil_CAF1 24522 117 - 1
UUGUUCUUCUCCUCCAGUUUGCCAGUGACAAGGGUGAGGGCCUCCUGUGUCUGAUCCAAUUCGUUUUCAACGGUCUGGAUUUUCUUUUGCAGCUGGCGAGCCUCCUCCUCGGCCUGU---
..............(((.((((((((..((((((...(((((....).))))((((((..((((.....))))..))))))..))))))..))))))))(((........)))))).--- ( -34.80)
>DroMoj_CAF1 25629 115 - 1
UUGUUCUUCUCUUCCAGUUUGCCAGUGACCAGGGUCAAAGCCUCUUGGGUCUGAUCCAAUUCGUUUUCAACGGUCUGGAUCUUCUUUUGCAGUUGGCGAGCCUCCUCCUCGGCCU-----
................(((((((((.((((.((((....))))....)))).((((((..((((.....))))..))))))...........)))))))))..............----- ( -32.40)
>DroAna_CAF1 21469 120 - 1
UUGUUCUUCUCUUCAAGCUUGCCAGUGACCAGGGUCAGAGCUUCCUGGGUCUGAUCCAGCUCGUUUUCAACGGUCUGGAUCUUCUUCUGCAGCUGGCGAGCCUCCUCCUCGGCCUAUUGG
................((((((((((((((((((........)))).)))).(((((((..(((.....)))..)))))))..........))))))))))................... ( -42.70)
>consensus
UUGUUCUUCUCCUCCAGCUUGCCAGUGACAAGGGUCAGAGCCUCCUGGGUCUGAUCCAAUUCGUUUUCAACGGUCUGGAUCUUCUUUUGCAGCUGGCGAGCCUCCUCCUCGGCCUAC___
................((((((((((((((((((........)))).)))).((((((..((((.....))))..))))))..........))))))))))................... (-35.41 = -34.30 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:30 2006