Locus 6528

Sequence ID 3L_DroMel_CAF1
Location 17,276,788 – 17,276,904
Length 116
Max. P 0.972015
window10599 window10600

overview

Window 9

Location 17,276,788 – 17,276,904
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.69
Mean single sequence MFE -36.88
Consensus MFE -34.86
Energy contribution -35.06
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.95
SVM decision value 1.69
SVM RNA-class probability 0.972015
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17276788 116 + 23771897
----GAAAUAACUGAGGCAGCAGCAUUUAGCCGGAGGAACAGGAACUCCAGAUCCAGGACUAAGUGCAUUCAAGUUGGCACUCAAGUGCCGCCAAAGUGCCAGUCGACGUGGCCUAAUAA
----......(((..(((....((((((((((...(((.(.((....)).).))).)).)))))))).........(((((....))))))))..)))(((((....).))))....... ( -39.20)
>DroSec_CAF1 160161 115 + 1
----GG-AUAACUGAGGCAGCAGCAUUUAGCCGGAGGAACAGGAACUCCAGAUGCAGGACUAAGUGCAUUCAAGUUGGCACUCAAGUGCCGCCAAAGUGCCAGUCGACGUGGCCUAAUAA
----..-...(((..(((....((((((((((((((.........)))).(...).)).)))))))).........(((((....))))))))..)))(((((....).))))....... ( -36.80)
>DroSim_CAF1 155490 115 + 1
----GG-AUAACUGAGGCAGCAGCAUUUAGCCGGAGGAACAGGAACUCCAGAUGCAGGACUAAGUGCAUUCAAGUUGGCACUCAAGUGCCGCCAAAGUGCCAGUCGACGUGGCCUAAUAA
----..-...(((..(((....((((((((((((((.........)))).(...).)).)))))))).........(((((....))))))))..)))(((((....).))))....... ( -36.80)
>DroEre_CAF1 163147 119 + 1
ACUGGG-ACAUCUGAGGCAGCAGCAUUUAGCCGGAGGAACAGGAACUCCAGAUGCAGGACUAAGUGCAUUCAAGUUGGCACUCAAGUGCCGCCAAAGUGCCAGUCGACGUGGCCUAAUAA
(((((.-((......(((....((((((((((((((.........)))).(...).)).)))))))).........(((((....))))))))...)).)))))................ ( -37.40)
>DroYak_CAF1 168123 119 + 1
AGUGGG-ACAACUGAAGCAGCAGCAUUUAGCCGGAGGAACAGGAACUCCAGAUGCAGGACUAAGUGCAUUCAAGUUGGCACUCAAGUGCCGCCAAAGUGCCAGUCGACGUGGCCUAAUAA
..((((-.((((((..((....((((((((((((((.........)))).(...).)).))))))))......(.((((((....)))))).)...))..)))).....)).)))).... ( -34.20)
>consensus
____GG_AUAACUGAGGCAGCAGCAUUUAGCCGGAGGAACAGGAACUCCAGAUGCAGGACUAAGUGCAUUCAAGUUGGCACUCAAGUGCCGCCAAAGUGCCAGUCGACGUGGCCUAAUAA
...............(((....((((((((((((((.........)))).(...).)).)))))))).........(((((....))))))))..((.(((((....).))))))..... (-34.86 = -35.06 +   0.20)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 17,276,788 – 17,276,904
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.69
Mean single sequence MFE -36.30
Consensus MFE -33.86
Energy contribution -34.10
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.37
Structure conservation index 0.93
SVM decision value 1.07
SVM RNA-class probability 0.909624
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17276788 116 - 23771897
UUAUUAGGCCACGUCGACUGGCACUUUGGCGGCACUUGAGUGCCAACUUGAAUGCACUUAGUCCUGGAUCUGGAGUUCCUGUUCCUCCGGCUAAAUGCUGCUGCCUCAGUUAUUUC----
.......((((.(....)))))(((..(((((((.(..(((....)))..)..(((.((((((..(((...((....))...)))...)))))).))))))))))..)))......---- ( -38.60)
>DroSec_CAF1 160161 115 - 1
UUAUUAGGCCACGUCGACUGGCACUUUGGCGGCACUUGAGUGCCAACUUGAAUGCACUUAGUCCUGCAUCUGGAGUUCCUGUUCCUCCGGCUAAAUGCUGCUGCCUCAGUUAU-CC----
.......((((.(....)))))(((..(((((((.((((((((..........))))))))....((((((((((.........))))))....)))))))))))..)))...-..---- ( -36.10)
>DroSim_CAF1 155490 115 - 1
UUAUUAGGCCACGUCGACUGGCACUUUGGCGGCACUUGAGUGCCAACUUGAAUGCACUUAGUCCUGCAUCUGGAGUUCCUGUUCCUCCGGCUAAAUGCUGCUGCCUCAGUUAU-CC----
.......((((.(....)))))(((..(((((((.((((((((..........))))))))....((((((((((.........))))))....)))))))))))..)))...-..---- ( -36.10)
>DroEre_CAF1 163147 119 - 1
UUAUUAGGCCACGUCGACUGGCACUUUGGCGGCACUUGAGUGCCAACUUGAAUGCACUUAGUCCUGCAUCUGGAGUUCCUGUUCCUCCGGCUAAAUGCUGCUGCCUCAGAUGU-CCCAGU
......(((...))).(((((((((..(((((((.((((((((..........))))))))....((((((((((.........))))))....)))))))))))..)).)).-.))))) ( -36.40)
>DroYak_CAF1 168123 119 - 1
UUAUUAGGCCACGUCGACUGGCACUUUGGCGGCACUUGAGUGCCAACUUGAAUGCACUUAGUCCUGCAUCUGGAGUUCCUGUUCCUCCGGCUAAAUGCUGCUGCUUCAGUUGU-CCCACU
......((....(.(((((((......(((((((.((((((((..........))))))))....((((((((((.........))))))....)))))))))))))))))).-)))... ( -34.30)
>consensus
UUAUUAGGCCACGUCGACUGGCACUUUGGCGGCACUUGAGUGCCAACUUGAAUGCACUUAGUCCUGCAUCUGGAGUUCCUGUUCCUCCGGCUAAAUGCUGCUGCCUCAGUUAU_CC____
.......((((.(....)))))(((..(((((((.((((((((..........))))))))....((((((((((.........))))))....)))))))))))..))).......... (-33.86 = -34.10 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:05 2006