Locus 933

Sequence ID 3L_DroMel_CAF1
Location 2,801,564 – 2,801,664
Length 100
Max. P 0.932291
window1435 window1436

overview

Window 5

Location 2,801,564 – 2,801,664
Length 100
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 93.79
Mean single sequence MFE -22.19
Consensus MFE -18.57
Energy contribution -18.23
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.84
SVM decision value 0.41
SVM RNA-class probability 0.724644
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2801564 100 + 23771897
UU---UACUGUUUUUUAUGUCGUGCCAUUUCAGCGAAGCUCGGCAACAAAGCAUAAUAAAACUAAUUGUCUGCGCUUCGCUCUCACACACAGAUACACCCAUA
..---............(((((((.......((((((((..(....)...(((..((((......)))).)))))))))))......))).))))........ ( -20.52)
>DroSec_CAF1 46657 100 + 1
UU---UACUGUUUUUUAUGUCGUGCCAUUUCAGCGAAGCUCGGCAACAAAGCAUAAUAAAACUAAUUGUCUGCGCUUCGCUCUCACACACAGAUACACCCAUA
..---............(((((((.......((((((((..(....)...(((..((((......)))).)))))))))))......))).))))........ ( -20.52)
>DroSim_CAF1 36581 100 + 1
UU---UACUGUUUUUUAUGUCGUGCCAUUUCAGCGAAGCUCGGCAACAAAGCAUAAUAAAACUAAUUGUCUGCGCUUCGCUCUCACACACAGAUGCACCCAUA
..---..........((((..((((.((((.((((((((..(....)...(((..((((......)))).))))))))))).........)))))))).)))) ( -20.90)
>DroEre_CAF1 48820 101 + 1
UUU--UACUGUUUUUUAUGUCGUGCCAUUUCAGCGAAGCUCGGCAACAAAGCAUAAUAAAACUAAUUGUCUGCGCUUCGCUCUCACACACAGAUACACCCAUA
...--............(((((((.......((((((((..(....)...(((..((((......)))).)))))))))))......))).))))........ ( -20.52)
>DroYak_CAF1 48183 103 + 1
UUUUGUACUGUUUUUUAUGUCGUGCCAUUUCAGCGAAGCUCGGCAACAAAGCAUAAUAAAACUAAUUGUCUGCGCUUCGCUCUCACACACAGAUACACCCAUA
...((((((((.......((.(((.......((((((((..(....)...(((..((((......)))).)))))))))))..))))))))).))))...... ( -21.21)
>DroMoj_CAF1 47253 101 + 1
GUUGUUGUUGCGUUUUAUGUCGUGCCAUUUCAGCGAAGCUC-GCAACAAAGCAUAAUAAAACUAAUUGUCUGCGCUUCGCUCUCGCACACACA-GCGCACAAA
....((((.(((((...(((.((((......((((((((..-(((((((................)))).)))))))))))...))))))).)-)))))))). ( -29.49)
>consensus
UU___UACUGUUUUUUAUGUCGUGCCAUUUCAGCGAAGCUCGGCAACAAAGCAUAAUAAAACUAAUUGUCUGCGCUUCGCUCUCACACACAGAUACACCCAUA
........(((......(((.(((.......((((((((..(....)...(((..((((......)))).)))))))))))....))))))...)))...... (-18.57 = -18.23 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,801,564 – 2,801,664
Length 100
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 93.79
Mean single sequence MFE -26.78
Consensus MFE -24.90
Energy contribution -24.48
Covariance contribution -0.41
Combinations/Pair 1.08
Mean z-score -1.38
Structure conservation index 0.93
SVM decision value 1.22
SVM RNA-class probability 0.932291
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2801564 100 - 23771897
UAUGGGUGUAUCUGUGUGUGAGAGCGAAGCGCAGACAAUUAGUUUUAUUAUGCUUUGUUGCCGAGCUUCGCUGAAAUGGCACGACAUAAAAAACAGUA---AA
..((..(.....(((((((.(.((((((((...(.((((.(((........)))..)))).)..))))))))....).)))).)))....)..))...---.. ( -24.50)
>DroSec_CAF1 46657 100 - 1
UAUGGGUGUAUCUGUGUGUGAGAGCGAAGCGCAGACAAUUAGUUUUAUUAUGCUUUGUUGCCGAGCUUCGCUGAAAUGGCACGACAUAAAAAACAGUA---AA
..((..(.....(((((((.(.((((((((...(.((((.(((........)))..)))).)..))))))))....).)))).)))....)..))...---.. ( -24.50)
>DroSim_CAF1 36581 100 - 1
UAUGGGUGCAUCUGUGUGUGAGAGCGAAGCGCAGACAAUUAGUUUUAUUAUGCUUUGUUGCCGAGCUUCGCUGAAAUGGCACGACAUAAAAAACAGUA---AA
((((.((((.((.......)).((((((((...(.((((.(((........)))..)))).)..))))))))......))))..))))..........---.. ( -26.20)
>DroEre_CAF1 48820 101 - 1
UAUGGGUGUAUCUGUGUGUGAGAGCGAAGCGCAGACAAUUAGUUUUAUUAUGCUUUGUUGCCGAGCUUCGCUGAAAUGGCACGACAUAAAAAACAGUA--AAA
..((..(.....(((((((.(.((((((((...(.((((.(((........)))..)))).)..))))))))....).)))).)))....)..))...--... ( -24.50)
>DroYak_CAF1 48183 103 - 1
UAUGGGUGUAUCUGUGUGUGAGAGCGAAGCGCAGACAAUUAGUUUUAUUAUGCUUUGUUGCCGAGCUUCGCUGAAAUGGCACGACAUAAAAAACAGUACAAAA
......((((.((((((((.(.((((((((...(.((((.(((........)))..)))).)..))))))))....).))))..........))))))))... ( -26.80)
>DroMoj_CAF1 47253 101 - 1
UUUGUGCGC-UGUGUGUGCGAGAGCGAAGCGCAGACAAUUAGUUUUAUUAUGCUUUGUUGC-GAGCUUCGCUGAAAUGGCACGACAUAAAACGCAACAACAAC
.(((((((.-(((((((((.(.((((((((...(((((..(((........))))))))..-..))))))))....).)))).)))))...))).)))).... ( -34.20)
>consensus
UAUGGGUGUAUCUGUGUGUGAGAGCGAAGCGCAGACAAUUAGUUUUAUUAUGCUUUGUUGCCGAGCUUCGCUGAAAUGGCACGACAUAAAAAACAGUA___AA
.....((.....(((((((.(.((((((((...(((((..(((........)))))))).....))))))))....).)))).)))......))......... (-24.90 = -24.48 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:46 2006