Locus 3145

Sequence ID 2L_DroMel_CAF1
Location 8,964,390 – 8,964,508
Length 118
Max. P 0.835851
window4996 window4997

overview

Window 6

Location 8,964,390 – 8,964,508
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.65
Mean single sequence MFE -34.50
Consensus MFE -11.44
Energy contribution -12.48
Covariance contribution 1.03
Combinations/Pair 1.48
Mean z-score -2.25
Structure conservation index 0.33
SVM decision value 0.73
SVM RNA-class probability 0.835851
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8964390 118 + 22407834
GAC--ACUACCAUACCAAAUUUCAGGUUCAUCAGAAUUUGGCUGAGUUCUUUGCCACCGUUCUGUACGAUAAGCAGACAGAAGAGCUCCAAAUGAAUGUGGAGCUCAUCAGUCGAACUAA
...--...................(((((..((((((.((((.((....)).))))..))))))...........(((.((.((((((((........)))))))).)).)))))))).. ( -35.20)
>DroPse_CAF1 12420 120 + 1
GGCCGUCUACCGCACAAAGUUCAAGGUGCAACAGAACAGCGCCGACUUCGAGGCAACGGUUGUCUUCAACAAUGUCACCGAAACGGCCGAGGUGAAUGUGGAGACAAUCAGUCGUACGAA
((((.(((...((((..........))))...)))...).)))((((....(....)(((((((((((.((...(((((...........))))).)))))))))))))))))....... ( -38.90)
>DroSec_CAF1 8755 118 + 1
GAC--ACUACCAUACCAAAUUUCAAGUUCAUCAGAAUUUGGCUGAGUUCUUUGCCACCGUUCUCUACGAUAAGCAGACCGAAGAGCUCCACAUGAAUGUGGAGCUCAUCAGUCGAACUAA
...--................((((((((....))))))))...(((((..(((...(((.....)))....)))(((.((.((((((((((....)))))))))).)).)))))))).. ( -38.30)
>DroSim_CAF1 2435 118 + 1
GAC--ACUACCAUACCAAAUUUCAAGUUCAUCAGAAUUUGGCUGAGUUCUUUGCCACCGUUCUCUACGAUAAGCAGACCGAAGAGCUCCAGAUGAAUGUGGAGCUCAUCAGUCGAACUAA
...--................((((((((....))))))))...(((((..(((...(((.....)))....)))(((.((.((((((((.(....).)))))))).)).)))))))).. ( -34.40)
>DroMoj_CAF1 11638 120 + 1
GGCGGUCUAUCGCACCAAGUUCAAGGUUCAUCAAAACAGCGCCGACUUUCAGGCCACAGUUGUCUUCAACAACAUCACUGAGGCGGUCGAUGUGAAUGUGGAGAGUAUAAGUCGUACGAA
((((((.....))(((........)))............))))(((((.....(((((((((....)))).(((((((((...)))).)))))...))))).......)))))....... ( -30.00)
>DroAna_CAF1 34197 118 + 1
GUU--ACUAUCACUCAAAGUUUCAGGUUCACCAGAACUUUGGCGAAUUCUUUGCCACUAUCCUGUAUAACAAGGACAACGAGGAGCUGAAACUUAAUGUGGAACUCAUCAGUCGCAUCAA
((.--(((..(((...(((((((((.(((..........((((((.....))))))...((((........))))......))).)))))))))...)))((.....))))).))..... ( -30.20)
>consensus
GAC__ACUACCACACCAAAUUUCAGGUUCAUCAGAACUUGGCCGAGUUCUUUGCCACCGUUCUCUACAACAAGCACACCGAAGAGCUCCAAAUGAAUGUGGAGCUCAUCAGUCGAACUAA
.........(((((((((((((...........))))))))..((((((((((.........................))))))))))........)))))................... (-11.44 = -12.48 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,964,390 – 8,964,508
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.65
Mean single sequence MFE -37.30
Consensus MFE -12.32
Energy contribution -12.71
Covariance contribution 0.39
Combinations/Pair 1.52
Mean z-score -2.02
Structure conservation index 0.33
SVM decision value 0.04
SVM RNA-class probability 0.552344
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8964390 118 - 22407834
UUAGUUCGACUGAUGAGCUCCACAUUCAUUUGGAGCUCUUCUGUCUGCUUAUCGUACAGAACGGUGGCAAAGAACUCAGCCAAAUUCUGAUGAACCUGAAAUUUGGUAUGGUAGU--GUC
..((((((((.((.((((((((........)))))))).)).)))((((.(((((.....)))))))))..)))))..(((((((((.(......).).))))))))........--... ( -38.20)
>DroPse_CAF1 12420 120 - 1
UUCGUACGACUGAUUGUCUCCACAUUCACCUCGGCCGUUUCGGUGACAUUGUUGAAGACAACCGUUGCCUCGAAGUCGGCGCUGUUCUGUUGCACCUUGAACUUUGUGCGGUAGACGGCC
......(((.(((.(((....))).)))..)))((((((((((..((...((((....)))).))..))..)))).))))(((((.(((..((((..........))))..)))))))). ( -38.20)
>DroSec_CAF1 8755 118 - 1
UUAGUUCGACUGAUGAGCUCCACAUUCAUGUGGAGCUCUUCGGUCUGCUUAUCGUAGAGAACGGUGGCAAAGAACUCAGCCAAAUUCUGAUGAACUUGAAAUUUGGUAUGGUAGU--GUC
..(((((((((((.((((((((((....)))))))))).))))))((((.(((((.....)))))))))..)))))..((((((((..((.....))..))))))))........--... ( -47.40)
>DroSim_CAF1 2435 118 - 1
UUAGUUCGACUGAUGAGCUCCACAUUCAUCUGGAGCUCUUCGGUCUGCUUAUCGUAGAGAACGGUGGCAAAGAACUCAGCCAAAUUCUGAUGAACUUGAAAUUUGGUAUGGUAGU--GUC
..(((((((((((.((((((((........)))))))).))))))((((.(((((.....)))))))))..)))))..((((((((..((.....))..))))))))........--... ( -43.00)
>DroMoj_CAF1 11638 120 - 1
UUCGUACGACUUAUACUCUCCACAUUCACAUCGACCGCCUCAGUGAUGUUGUUGAAGACAACUGUGGCCUGAAAGUCGGCGCUGUUUUGAUGAACCUUGAACUUGGUGCGAUAGACCGCC
...((.((((((....((.(((((.((((.............)))).((((((...)))))))))))...))))))))))((.((((...((.(((........))).))..)))).)). ( -26.12)
>DroAna_CAF1 34197 118 - 1
UUGAUGCGACUGAUGAGUUCCACAUUAAGUUUCAGCUCCUCGUUGUCCUUGUUAUACAGGAUAGUGGCAAAGAAUUCGCCAAAGUUCUGGUGAACCUGAAACUUUGAGUGAUAGU--AAC
....(((.(((((.(((((..((.....))...))))).))...(((((.(.....))))))))).)))......((((((((((((.((....)).).))))))).))))....--... ( -30.90)
>consensus
UUAGUUCGACUGAUGAGCUCCACAUUCAUCUGGAGCUCUUCGGUCUGCUUAUCGUAGAGAACGGUGGCAAAGAACUCAGCCAAAUUCUGAUGAACCUGAAACUUGGUAUGGUAGU__GUC
........(((((.((((((............)))))).)))))....(((((((.(((...............))).((((((((.............)))))))))))))))...... (-12.32 = -12.71 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:23 2006