Locus 5238

Sequence ID 3L_DroMel_CAF1
Location 14,458,661 – 14,458,791
Length 130
Max. P 0.898323
window8285 window8286

overview

Window 5

Location 14,458,661 – 14,458,754
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 79.62
Mean single sequence MFE -25.10
Consensus MFE -13.03
Energy contribution -14.20
Covariance contribution 1.17
Combinations/Pair 1.18
Mean z-score -2.50
Structure conservation index 0.52
SVM decision value 0.85
SVM RNA-class probability 0.866321
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14458661 93 + 23771897
ACAGAAGUUUACUUGGUUAAGGGGGCUAUUUCUAUGCUAAAUGCAAAGAAACUAGUCCAAGGGAUCUAGGGGUCCACAGUUGGAAGGCUAG-AA
.....(((((.(((((((....(((((((((((.(((.....))).))))).))))))....)).)))))..((((....)))))))))..-.. ( -26.00)
>DroSec_CAF1 55700 89 + 1
ACAGAAGUUUACUUGGUUAAGG-GGCUAUUUCUAUGCUAAAUGCAAAGAAACUAGUCCAAGGGAUCU---GGUCCACAGUUGGAGGACUAG-AA
.....................(-((((((((((.(((.....))).))))).))))))......(((---(((((.(.....).)))))))-). ( -27.70)
>DroSim_CAF1 70870 89 + 1
ACAGAAGUUUACUUGGUUAAGG-GGCUAUUUCUAUGCUAAAUGCAAAGAAACUAGUCCAAGGGAUCU---GGUCUACAGUUGGAGGACUAG-AA
.....................(-((((((((((.(((.....))).))))).))))))......(((---(((((.(.....).)))))))-). ( -25.80)
>DroEre_CAF1 71316 89 + 1
ACAGAAGUUUACUUGGUUAAGGGGGCUAUUUCUAUGCUAAAUGCAAAGGAACAAGUCCAAGGGAUCU---GGUCCAUAGUUGGAGGGCUGG-A-
.(((.......((.((((....(((((.(((((.(((.....))).)))))..)))))....)))).---))((((....))))...))).-.- ( -23.80)
>DroYak_CAF1 62172 78 + 1
ACAGAAGUUUACUUGGUUAAGG-GGCUAUUCCUAUGCUAAAUGCAAGGAAACAAGUCCAAGU--------------UAGUAGGAAGGCUGU-AA
((((...((((((........(-((((.(((((.(((.....))))))))...)))))....--------------.))))))....))))-.. ( -21.92)
>DroAna_CAF1 68997 79 + 1
ACAGAAA-----------AAGG-GGCAAUUUCUAUGCUAAAUGCACAGAAACAAGGCCAACGGGUCU---GGGCCAUGGCUGGGGGGCCGGUUA
.((((..-----------....-(((..(((((.(((.....))).)))))....)))......)))---)((((..((((....)))))))). ( -25.40)
>consensus
ACAGAAGUUUACUUGGUUAAGG_GGCUAUUUCUAUGCUAAAUGCAAAGAAACAAGUCCAAGGGAUCU___GGUCCACAGUUGGAGGGCUAG_AA
.......................((((.(((((.(((.....))).)))))....(((((.(((((....)))))....))))).))))..... (-13.03 = -14.20 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,458,679 – 14,458,791
Length 112
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 81.37
Mean single sequence MFE -30.70
Consensus MFE -19.88
Energy contribution -19.96
Covariance contribution 0.09
Combinations/Pair 1.30
Mean z-score -2.70
Structure conservation index 0.65
SVM decision value 1.00
SVM RNA-class probability 0.898323
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14458679 112 + 23771897
AAGGGGGCUAUUUCUAUGCUAAAUGCAAAGAAACUAGUCCAAGGGAUCUAGGGGUCCACAGUUGGAAGGCUAG-AAAAAUGGCCAGCAAGGAGCAGGAAAAGCAGCAGUCAAA---
....(((((((((((.(((.....))).))))).))))))...(((((....)))))...((((...(((((.-.....))))).((.....))........)))).......--- ( -35.30)
>DroSec_CAF1 55718 108 + 1
AAGG-GGCUAUUUCUAUGCUAAAUGCAAAGAAACUAGUCCAAGGGAUCU---GGUCCACAGUUGGAGGACUAG-AAAAAUGGCCAACAAGGAGCAGGAAGAGCAGCAGUCAAA---
...(-((((((((((.(((.....))).))))).))))))......(((---(.(((...(((((....(((.-.....))))))))..))).))))................--- ( -30.60)
>DroSim_CAF1 70888 108 + 1
AAGG-GGCUAUUUCUAUGCUAAAUGCAAAGAAACUAGUCCAAGGGAUCU---GGUCUACAGUUGGAGGACUAG-AAGAAUGGCCAGCAAGGAGCAGGAAGAGCAGCAGUCAAA---
...(-((((((((((.(((.....))).))))).))))))......(((---(((((.(.....).)))))))-)....((((..((...(..(.....)..).)).))))..--- ( -29.40)
>DroEre_CAF1 71334 108 + 1
AAGGGGGCUAUUUCUAUGCUAAAUGCAAAGGAACAAGUCCAAGGGAUCU---GGUCCAUAGUUGGAGGGCUGG-A-AAAUGGCCAGCAAGGAACAGGAAGUGCAGGAGUCAAA---
....(((((.(((((.(((.....))).)))))..)))))..((..(((---(.((((....))))..(((((-.-......)))))...............))))..))...--- ( -29.20)
>DroYak_CAF1 62190 97 + 1
AAGG-GGCUAUUCCUAUGCUAAAUGCAAGGAAACAAGUCCAAGU--------------UAGUAGGAAGGCUGU-AAAAAUGGCCAGCAAGGAGCAGGAAAUGCAGCAGUCAAA---
...(-((((.(((((.(((.....))))))))...)))))....--------------......((..(((((-(.......((.((.....)).))...))))))..))...--- ( -27.50)
>DroAna_CAF1 69004 112 + 1
AAGG-GGCAAUUUCUAUGCUAAAUGCACAGAAACAAGGCCAACGGGUCU---GGGCCAUGGCUGGGGGGCCGGUUAAAAUUGCCAGCAAAGACCAGAAAAUGCAGCAACUAAGAUC
.((.-.((..(((((.(((.....))).)))))...((((..(.((((.---.......)))).)..))))((((....(((....))).))))..........))..))...... ( -32.20)
>consensus
AAGG_GGCUAUUUCUAUGCUAAAUGCAAAGAAACAAGUCCAAGGGAUCU___GGUCCACAGUUGGAGGGCUAG_AAAAAUGGCCAGCAAGGAGCAGGAAAAGCAGCAGUCAAA___
.....((((.(((((.(((.....))).)))))((..(((...(((((....)))))...(((((.................)))))........)))..))....))))...... (-19.88 = -19.96 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:15 2006