Locus 5061

Sequence ID 2R_DroMel_CAF1
Location 16,439,937 – 16,440,046
Length 109
Max. P 0.942596
window8088 window8089

overview

Window 8

Location 16,439,937 – 16,440,046
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.01
Mean single sequence MFE -26.17
Consensus MFE -14.24
Energy contribution -14.52
Covariance contribution 0.28
Combinations/Pair 1.19
Mean z-score -2.04
Structure conservation index 0.54
SVM decision value 0.69
SVM RNA-class probability 0.823334
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16439937 109 + 20766785
UAUUUUGCUGCCAUGCAAUUAGUUCGCCUAU-------CGCCGUACGAAA----ACGAGCUCAAACAAAGUGCAUUCGAUGGCAUCGAGUUUUCAAUCAAUUUGAUUGAAUUGCAUGACA
...........(((((((.......(((.((-------((..((((....----...............))))...)))))))........(((((((.....))))))))))))))... ( -26.51)
>DroPse_CAF1 145192 106 + 1
--UUUUGUUUCUAUGCAAUUAACUCGCUUAU-------CGGC-AACGAGA----ACGAGUCCGAACAAACUGCAUUCGAUGGCAUCAGGGUUUCAAUCAAAUUGAUUGAAUUGCAUGACA
--.........(((((((((.(((((....(-------((..-..)))..----.)))))..((((....(((........))).....))))(((((.....))))))))))))))... ( -26.40)
>DroWil_CAF1 265217 83 + 1
--UUUCUUUUCCAGGCAAUUAAAUUGCUUAU-------CGC--------A----ACGAGCUC--ACAAAGUGCA--------------AUUUUCAAUCAAAUUGAUUGAAUUGCAUGACA
--..........(((((((...)))))))..-------.((--------.----....))..--.....(((((--------------((..((((((.....))))))))))))).... ( -18.10)
>DroYak_CAF1 116330 109 + 1
UAUUUUGCUGCCAUGCAAUUAAUUCGCCUAU-------CGCCGUACGGGA----ACGAGCUCAAACAAAGUGCAUUCGAUGGCAUCGAGUUUUCAAUCAAUUUGAUUGAAUUGCAUGACA
...........(((((((..((((((.((((-------((..(((((...----.)(....).......))))...))))))...))))))(((((((.....))))))))))))))... ( -28.50)
>DroAna_CAF1 110568 119 + 1
-UUUUUGCUUCCAUGCAAUUAACUCGCCUAUCGCCUAUCGCCCAACGAGACCCAACCGGCUCAAACAAAGUGCAUUCGAUGGCAUCGAGUUUUCAAUCAAAUUGAUUGAAUUGCAUGACA
-..........(((((((..((((((.((((((.....(((.....(((.((.....))))).......)))....))))))...))))))(((((((.....))))))))))))))... ( -31.30)
>DroPer_CAF1 146240 106 + 1
--UUUUGUUUCUAUGCAAUUAACUCGCUUAU-------CGGC-AACGAGA----ACGAGUCCGAACAAACUGCAUUCGAUGGUAUCAGGGUUUCAAUCAAAUUGAUUGAAUUGCAUGACA
--.........(((((((((.(((((....(-------((..-..)))..----.)))))..((((...(((.((........))))).))))(((((.....))))))))))))))... ( -26.20)
>consensus
__UUUUGCUUCCAUGCAAUUAACUCGCCUAU_______CGCC_AACGAGA____ACGAGCUCAAACAAAGUGCAUUCGAUGGCAUCGAGUUUUCAAUCAAAUUGAUUGAAUUGCAUGACA
...........(((((((.......(((..........((.....))...........((...........)).......)))........(((((((.....))))))))))))))... (-14.24 = -14.52 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,439,937 – 16,440,046
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.01
Mean single sequence MFE -29.72
Consensus MFE -15.30
Energy contribution -16.05
Covariance contribution 0.75
Combinations/Pair 1.10
Mean z-score -2.52
Structure conservation index 0.51
SVM decision value 1.33
SVM RNA-class probability 0.942596
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16439937 109 - 20766785
UGUCAUGCAAUUCAAUCAAAUUGAUUGAAAACUCGAUGCCAUCGAAUGCACUUUGUUUGAGCUCGU----UUUCGUACGGCG-------AUAGGCGAACUAAUUGCAUGGCAGCAAAAUA
(((((((((((((((((.....))))))).......((((.((((((.......))))))((.(((----......))))).-------...))))......))))))))))........ ( -34.10)
>DroPse_CAF1 145192 106 - 1
UGUCAUGCAAUUCAAUCAAUUUGAUUGAAACCCUGAUGCCAUCGAAUGCAGUUUGUUCGGACUCGU----UCUCGUU-GCCG-------AUAAGCGAGUUAAUUGCAUAGAAACAAAA--
..(((((((((((((((.....))))))).............(((((.......)))))(((((((----(.(((..-..))-------)..))))))))..)))))).)).......-- ( -26.40)
>DroWil_CAF1 265217 83 - 1
UGUCAUGCAAUUCAAUCAAUUUGAUUGAAAAU--------------UGCACUUUGU--GAGCUCGU----U--------GCG-------AUAAGCAAUUUAAUUGCCUGGAAAAGAAA--
..(((.(((((((((((.....))))))((((--------------(((...(((.--.(.....)----.--------.))-------)...))))))).))))).)))........-- ( -20.40)
>DroYak_CAF1 116330 109 - 1
UGUCAUGCAAUUCAAUCAAAUUGAUUGAAAACUCGAUGCCAUCGAAUGCACUUUGUUUGAGCUCGU----UCCCGUACGGCG-------AUAGGCGAAUUAAUUGCAUGGCAGCAAAAUA
(((((((((((((((((.....))))))).......((((.((((((.......))))))((.(((----......))))).-------...))))......))))))))))........ ( -34.10)
>DroAna_CAF1 110568 119 - 1
UGUCAUGCAAUUCAAUCAAUUUGAUUGAAAACUCGAUGCCAUCGAAUGCACUUUGUUUGAGCCGGUUGGGUCUCGUUGGGCGAUAGGCGAUAGGCGAGUUAAUUGCAUGGAAGCAAAAA-
..(((((((((((((((.....)))))))(((((...(((((((..(((.(((....((((((.....)).))))..))).).))..)))).))))))))..)))))))).........- ( -36.90)
>DroPer_CAF1 146240 106 - 1
UGUCAUGCAAUUCAAUCAAUUUGAUUGAAACCCUGAUACCAUCGAAUGCAGUUUGUUCGGACUCGU----UCUCGUU-GCCG-------AUAAGCGAGUUAAUUGCAUAGAAACAAAA--
..(((((((((((((((.....))))))).............(((((.......)))))(((((((----(.(((..-..))-------)..))))))))..)))))).)).......-- ( -26.40)
>consensus
UGUCAUGCAAUUCAAUCAAUUUGAUUGAAAACUCGAUGCCAUCGAAUGCACUUUGUUUGAGCUCGU____UCUCGUU_GGCG_______AUAAGCGAGUUAAUUGCAUGGAAACAAAA__
..(((((((((((((((.....)))))))............((((((.......))))))..........................................)))))))).......... (-15.30 = -16.05 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:29 2006