Locus 5681

Sequence ID 3R_DroMel_CAF1
Location 14,904,686 – 14,904,787
Length 101
Max. P 0.992579
window9287 window9288

overview

Window 7

Location 14,904,686 – 14,904,787
Length 101
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 81.67
Mean single sequence MFE -31.97
Consensus MFE -14.48
Energy contribution -14.60
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -3.75
Structure conservation index 0.45
SVM decision value 2.34
SVM RNA-class probability 0.992579
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14904686 101 + 27905053
AAAACCUAAAUAAAAACCAGCACAU-------CGCACAACGAACUCCAAUG-GUCGGAGUCACACACAACUGCGAGUGCUGGUCAGUUGCGAAAAAUGUUUCG-AGGGCU
....(((........((((((((.(-------((((......(((((....-...)))))..........)))))))))))))......(((((....)))))-)))... ( -30.89)
>DroSec_CAF1 32087 109 + 1
AAAGCCCAAAUAAAAACCAGCACAUCGCACAUCGCACAACGAACUCCAACUCGCCGGAGUCACACACAACUGCGAGUGCUGGUCAGUUGCGAAAAAUGUUUCA-AGGGCU
..(((((........((((((((.(((((..(((.....)))(((((........)))))..........))))))))))))).......((((....)))).-.))))) ( -38.20)
>DroSim_CAF1 31993 109 + 1
AAAGCCCAAAUAAAAACCAGCACAUCGCACAUCGCACAACGAACUCCAACGCGCCGGAGUCACACACAACUGCGAGUGCUGGUCAGUUGCGAAAAAUGUUUCG-AGGGCU
..(((((........((((((((.(((((..(((.....)))(((((........)))))..........)))))))))))))......(((((....)))))-.))))) ( -39.90)
>DroEre_CAF1 31556 93 + 1
----UCCAAAUAAAAA----------GCACAUCGCACAACGAACUCCAAUA-GCCGGAGUCGC--ACAACUGCGACUUCUGGUCAGUUGCGAAAAAUGUUUCGAAGGGCU
----...........(----------((.(.(((...((((...((((((.-(((((((((((--(....)))))).))))))..)))).))....)))).))).).))) ( -25.40)
>DroYak_CAF1 38566 97 + 1
AUAAACCAAAUAAAAA----------GCACAUCGCACAACAAACUCCCAUA-GCCGGAGUCAC--AGAACUGCGAGUGCUGGCCAGUUGCAAAAAAUGUUUCAAAGGGCU
...............(----------((((.(((((......(((((....-...)))))...--.....))))))))))((((..(((.(((.....))))))..)))) ( -25.44)
>consensus
AAAACCCAAAUAAAAACCAGCACAU_GCACAUCGCACAACGAACUCCAAUA_GCCGGAGUCACACACAACUGCGAGUGCUGGUCAGUUGCGAAAAAUGUUUCG_AGGGCU
....(((..........................((.......(((((........))))).......((((((.(....).).)))))))((((....))))...))).. (-14.48 = -14.60 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,904,686 – 14,904,787
Length 101
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 81.67
Mean single sequence MFE -35.04
Consensus MFE -18.62
Energy contribution -22.94
Covariance contribution 4.32
Combinations/Pair 1.14
Mean z-score -2.52
Structure conservation index 0.53
SVM decision value 0.95
SVM RNA-class probability 0.888224
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14904686 101 - 27905053
AGCCCU-CGAAACAUUUUUCGCAACUGACCAGCACUCGCAGUUGUGUGUGACUCCGAC-CAUUGGAGUUCGUUGUGCG-------AUGUGCUGGUUUUUAUUUAGGUUUU
((((..-(((((....))))).....((((((((((((((.(..((...((((((((.-..))))))))))..)))))-------).)))))))))........)))).. ( -33.00)
>DroSec_CAF1 32087 109 - 1
AGCCCU-UGAAACAUUUUUCGCAACUGACCAGCACUCGCAGUUGUGUGUGACUCCGGCGAGUUGGAGUUCGUUGUGCGAUGUGCGAUGUGCUGGUUUUUAUUUGGGCUUU
(((((.-.((((....))))......((((((((((((((((((..((.((((((((....))))))))...))..)))).))))).))))))))).......))))).. ( -45.70)
>DroSim_CAF1 31993 109 - 1
AGCCCU-CGAAACAUUUUUCGCAACUGACCAGCACUCGCAGUUGUGUGUGACUCCGGCGCGUUGGAGUUCGUUGUGCGAUGUGCGAUGUGCUGGUUUUUAUUUGGGCUUU
(((((.-(((((....))))).....((((((((((((((((((..((.((((((((....))))))))...))..)))).))))).))))))))).......))))).. ( -46.90)
>DroEre_CAF1 31556 93 - 1
AGCCCUUCGAAACAUUUUUCGCAACUGACCAGAAGUCGCAGUUGU--GCGACUCCGGC-UAUUGGAGUUCGUUGUGCGAUGUGC----------UUUUUAUUUGGA----
...((...(((((((...(((((..(((((((.(((((.((((..--..)))).))))-).))))...)))...))))).))).----------)))).....)).---- ( -24.40)
>DroYak_CAF1 38566 97 - 1
AGCCCUUUGAAACAUUUUUUGCAACUGGCCAGCACUCGCAGUUCU--GUGACUCCGGC-UAUGGGAGUUUGUUGUGCGAUGUGC----------UUUUUAUUUGGUUUAU
.(((..((((((.....))).)))..))).((((((((((...(.--..((((((...-....)))))).)...))))).))))----------)............... ( -25.20)
>consensus
AGCCCU_CGAAACAUUUUUCGCAACUGACCAGCACUCGCAGUUGUGUGUGACUCCGGC_CAUUGGAGUUCGUUGUGCGAUGUGC_AUGUGCUGGUUUUUAUUUGGGCUUU
(((((..(((((....))))).....(((((((((..((((((((....((((((((....))))))))......))))).)))...))))))))).......))))).. (-18.62 = -22.94 +   4.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:37 2006