Locus 6523

Sequence ID 2L_DroMel_CAF1
Location 18,353,337 – 18,353,487
Length 150
Max. P 0.913542
window10408 window10409

overview

Window 8

Location 18,353,337 – 18,353,447
Length 110
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 73.91
Mean single sequence MFE -32.55
Consensus MFE -15.46
Energy contribution -16.26
Covariance contribution 0.80
Combinations/Pair 1.29
Mean z-score -2.02
Structure conservation index 0.47
SVM decision value 1.09
SVM RNA-class probability 0.913542
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18353337 110 + 22407834
GUGUAUCUGAU------UUUAGCUGAUUCUGCUGAAACUGUAGAAGAUUUUGCAGCUGUAACAGAAUUUGCUGCUCUAGCUGCCCAGGCGACUGUGAUUUUGAACUGGGUCGUAAG
...........------..((((.(((((((.((...(((((((....)))))))...)).))))))).)))).....((.((((((.(((........)))..)))))).))... ( -28.90)
>DroSec_CAF1 197048 110 + 1
GUGCAUCUGAU------UUUAGCUGAUUCUGCUGAAACUGUAGAAGAUUAAGCAGCUGUAAAAGAAUUUGCUGCUCCAGCUGCCCAGGCGACUGUGAUUUUGAACUGGGUCGUACG
((((.......------...(((((.((((((.......)))))).....((((((.............)))))).)))))((((((.(((........)))..)))))).)))). ( -34.22)
>DroSim_CAF1 205144 110 + 1
GUGCAUCUGAU------UUUAGCUGAUUCUGCUGAAACUGUAGAAGAUUAAGCAGCUGUAAAAGAAUUUGCUGCUCCAGCUGCACAGGCGACUGUGAUUUUGAACUGGGUCGUACG
((((((((..(------((((((((.((((((.......)))))).....((((((.............)))))).))))))(((((....))))).....)))..)))).)))). ( -36.72)
>DroEre_CAF1 197962 92 + 1
----------------UUUUAUAUGUGUGUCAUACCACUGUUUAAGAUUUCGCAGUUGUAACAGGAUUUCCUGUUUUAGCUGCCGCGGCAACUGCAAUUUUGAACUGA--------
----------------........(((.(.....)))).((((((((((..(((((((.((((((....)))))).))))))).(((....).))))))))))))...-------- ( -29.50)
>DroYak_CAF1 207749 116 + 1
GCGAAGCAGAUGGCUUAUUUAUAUGUUUCUGUUGAAACUGUAGAAGGUUUUUCAGCUGUAACAGGAUUUGCUGUUCUAGCUGCGACGGCGAUUGUGGCUUUAAACUGGGCUGUAAG
.((..((.((.(((((.((((((.(((((....))))))))))))))))..))(((((.(((((......))))).)))))))..))....(((..((((......))))..))). ( -33.40)
>consensus
GUGCAUCUGAU______UUUAGCUGAUUCUGCUGAAACUGUAGAAGAUUUAGCAGCUGUAACAGAAUUUGCUGCUCUAGCUGCCCAGGCGACUGUGAUUUUGAACUGGGUCGUAAG
.................((((((.......)))))).(.((..((((((..(((((((...(((......)))...))))))).(((....))).))))))..)).)......... (-15.46 = -16.26 +   0.80)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,353,371 – 18,353,487
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 86.35
Mean single sequence MFE -38.38
Consensus MFE -25.70
Energy contribution -27.20
Covariance contribution 1.50
Combinations/Pair 1.13
Mean z-score -2.15
Structure conservation index 0.67
SVM decision value 0.57
SVM RNA-class probability 0.785868
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18353371 116 + 22407834
UAGAAGAUUUUGCAGCUGUAACAGAAUUUGCUGCUCUAGCUGCCCAGGCGACUGUGAUUUUGAACUGGGUCGUAAGGUGGGUUGCUCAGCCAACUGUUUCUGUUGCACUUCUGUAA
((((((....((((((...(((((.....((((....(((.(((((.((((((((........))..))))))....))))).)))))))...)))))...))))))))))))... ( -39.70)
>DroSec_CAF1 197082 116 + 1
UAGAAGAUUAAGCAGCUGUAAAAGAAUUUGCUGCUCCAGCUGCCCAGGCGACUGUGAUUUUGAACUGGGUCGUACGGUAGGUUGCUCAGCCAACUGUUUCAGUUGCACUAGUCUAA
....((((((.(((((((....((......))....)))))))....(((((((.(((((......)))))..(((((.((((....)))).)))))..)))))))..)))))).. ( -37.20)
>DroSim_CAF1 205178 116 + 1
UAGAAGAUUAAGCAGCUGUAAAAGAAUUUGCUGCUCCAGCUGCACAGGCGACUGUGAUUUUGAACUGGGUCGUACGGUAGGUUGCUCAGCCAACUGUUUCAGUUGCACUAGUCUAA
....((((((.(((((((....((......))....)))))))....(((((((.(((((......)))))..(((((.((((....)))).)))))..)))))))..)))))).. ( -38.10)
>DroYak_CAF1 207789 116 + 1
UAGAAGGUUUUUCAGCUGUAACAGGAUUUGCUGUUCUAGCUGCGACGGCGAUUGUGGCUUUAAACUGGGCUGUAAGGCAGAUUGGUCAGCCAACUGGUUCUGUUGCACUUGUUGAA
..........(((((((((((((((((((((((((........))))))))(((..((((......))))..)))..(((.((((....))))))))))))))))))...)))))) ( -38.50)
>consensus
UAGAAGAUUAAGCAGCUGUAAAAGAAUUUGCUGCUCCAGCUGCCCAGGCGACUGUGAUUUUGAACUGGGUCGUAAGGUAGGUUGCUCAGCCAACUGUUUCAGUUGCACUAGUCUAA
...........(((((((.(((((.....((((..(.(.(((((...((((((((........))..))))))..))))).).)..))))...))))).))))))).......... (-25.70 = -27.20 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:15 2006