Locus 4860

Sequence ID 3L_DroMel_CAF1
Location 13,598,283 – 13,598,414
Length 131
Max. P 0.756000
window7667 window7668

overview

Window 7

Location 13,598,283 – 13,598,384
Length 101
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 96.09
Mean single sequence MFE -25.06
Consensus MFE -23.50
Energy contribution -23.70
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.11
Structure conservation index 0.94
SVM decision value 0.10
SVM RNA-class probability 0.584481
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13598283 101 + 23771897
UGAUGCUCGCAGCUCAGAGAGAAAAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCC-GCCCUUUCAUAGAGGGUCCUU-
(((.((.....))))).(((.(((((((((((((((((((...........)))))))..)))))))).)))).)))...-((((((.....))))))....- ( -24.30)
>DroSec_CAF1 5139 101 + 1
UGAUGCUCGCAGCUCAGAGAGAAAAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCC-GCCCUUUCAUAGAGGGUCCUU-
(((.((.....))))).(((.(((((((((((((((((((...........)))))))..)))))))).)))).)))...-((((((.....))))))....- ( -24.30)
>DroSim_CAF1 14517 100 + 1
UGAUGCUCGCAGCUCAGAGAGAAAAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGU-UGCC-GCCCUUUCAUAGAGGGUCCCA-
........(((((((.....))...(((((((((((((((...........)))))))..)))))))).....))-))).-((((((.....))))))....- ( -24.70)
>DroEre_CAF1 6340 103 + 1
UGAUGCUCGCAGCUCAGAGAGAAAAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGGCGCGCUUUCAUUUUGUUUGCCUGCCCUUUCAUAGAGGGUUCUUU
........((((..(((((.((((.(...(((((((((((...........))))))))))).))))).))))).))))..((((((.....))))))..... ( -26.80)
>DroYak_CAF1 11307 103 + 1
UGAUGCUCGCAGCUCAGAGAGAAAAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCCUGCCCUUUCAUAGAGGGUUUCUU
.((.((..((((..((((.((((..(((((((((((((((...........)))))))..)))))))).)))).)))).))))((((.....)))))).)).. ( -25.20)
>consensus
UGAUGCUCGCAGCUCAGAGAGAAAAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCC_GCCCUUUCAUAGAGGGUCCUU_
(((.((.....))))).(((.(((((((((((((((((((...........)))))))..)))))))).)))).)))....((((((.....))))))..... (-23.50 = -23.70 +   0.20)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,598,306 – 13,598,414
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.35
Mean single sequence MFE -25.92
Consensus MFE -15.72
Energy contribution -16.50
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -1.70
Structure conservation index 0.61
SVM decision value 0.49
SVM RNA-class probability 0.756000
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13598306 108 + 23771897
AAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCC-GCCCUUUCAUAGAGGGUCCUU--UUUAUUUUGCCGGCUUUAAGA---------GCUUGCAAA
..(((((((((((((((...........)))))))..))))))))............-((((((.....))))))....--.....(((((.(((((...))---------))).))))) ( -28.30)
>DroSec_CAF1 5162 109 + 1
AAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCC-GCCCUUUCAUAGAGGGUCCUU-UUUUAUUUUGCCGGCUUUAAAA---------GCUGGCCAA
..(((((((((((((((...........)))))))..))))))))............-((((((.....))))))....-.........(((((((.....)---------))))))... ( -30.90)
>DroSim_CAF1 14540 107 + 1
AAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGU-UGCC-GCCCUUUCAUAGAGGGUCCCA--UUUAUUUUGCCGGCUUUAAAA---------GCUUGCCAA
..(((((((((((((((...........)))))))..)))))))).(((((.-.(((-((((((.....))))))..((--.......))..)))..)))))---------......... ( -26.00)
>DroEre_CAF1 6363 111 + 1
AAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGGCGCGCUUUCAUUUUGUUUGCCUGCCCUUUCAUAGAGGGUUCUUUUUUUUUUGUGCCGGCUCUAAAA---------GCUUGCAAA
..(((((((((((((((...........)))))))))..)))))).............((((((.....)))))).............(((.((((.....)---------))).))).. ( -26.80)
>DroYak_CAF1 11330 98 + 1
AAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCCUGCCCUUUCAUAGAGGGUUUCUUUUUUAUAUU----------------------GCUUGCAAA
..(((((((((((((((...........)))))))..))))))))..(((((..((..((((((.....))))))..............----------------------))..))))) ( -22.99)
>DroAna_CAF1 40944 104 + 1
GGGGAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGAGCUUUCAUUU-AUUUGCU------UU-------GGUUUCU--CUUGUGUCGCCGCCAUUGUCACUCCGCGGUGCUUAUUGC
(.(((.(((.(((............(((.((...(((((((........-....)).------))-------))).)).--)))(((....)))..))).)))))).)............ ( -20.50)
>consensus
AAGAAAGUGUCAAAUUAAAUUUAAAAAGUGAUUUGCCGCGCUUUCAUUUUGUUUGCC_GCCCUUUCAUAGAGGGUCCCU__UUUAUUUUGCCGGCUUUAAAA_________GCUUGCAAA
..(((((((((((((((...........)))))))..)))))))).............((((((.....))))))............................................. (-15.72 = -16.50 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:24 2006