Locus 417

Sequence ID 3R_DroMel_CAF1
Location 1,545,370 – 1,545,469
Length 99
Max. P 0.715148
window684 window685

overview

Window 4

Location 1,545,370 – 1,545,469
Length 99
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.26
Mean single sequence MFE -32.53
Consensus MFE -23.35
Energy contribution -23.92
Covariance contribution 0.56
Combinations/Pair 1.30
Mean z-score -1.31
Structure conservation index 0.72
SVM decision value 0.39
SVM RNA-class probability 0.715098
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1545370 99 + 27905053
------------UCUGGACCACGGACCCAAGGGGUUAACGAUUAAAUGGUCGUCAAGCGGUCAUUCCAGGGGUCAGUUUGGCACGCUUCCGCUUU-GGUAACUGACCUAU----UU
------------.(((((...(((((((...)))))..)).....(((..((.....))..))))))))(((((((((.(((........)))..-...)))))))))..----.. ( -33.50)
>DroSec_CAF1 46911 103 + 1
------------UCUGGACCACGGACCCAAGGGGUUAACGAUUAAAUGGUCGUCAAGCGGUCAUUCCAGGGGUCAGUUUGGCACGCUUCCGCUUU-GGUAACUGACCUAUUAAUUU
------------.(((((...(((((((...)))))..)).....(((..((.....))..))))))))(((((((((.(((........)))..-...)))))))))........ ( -33.50)
>DroSim_CAF1 47550 103 + 1
------------UCUGGACCACGGACCCAAGGGGUUAACGAUUAAAUGGUUGUCAAGCGGUCAUUCCAGGGGUCAGUUUGGCACGCUUCCGCUUU-GGUAACUGACCUAUUAAUUU
------------.(((((...(((((((...)))))..)).....(((..((.....))..))))))))(((((((((.(((........)))..-...)))))))))........ ( -30.50)
>DroEre_CAF1 46256 100 + 1
------------UCUGGA---CGUACCGAAGGGGUUAACGAUUAAGUGGUCGUCAAACGGUCAUUCCAGGGGUCAGUUUGGCACGCGUCCUCCUU-AGUAACUGACCUAUCAAUUU
------------.(((((---(((.((....))....))).....(((..((.....))..))))))))(((((((((.(((....)))......-...)))))))))........ ( -30.50)
>DroYak_CAF1 42316 95 + 1
------------UCUGGA---CGUACCCAAGGGGUUAACGAUUAAAUGGUCUUCAAAAGGUCAUUCCAGGGGUCAGUUUGGCACACGUCCUCGUU-GGUAAGUGACCUAU-----U
------------.(((((---(((((((...))))..))).....(((..((.....))..))))))))((((((.((((.((.(((....))))-).))))))))))..-----. ( -29.90)
>DroAna_CAF1 44787 107 + 1
UGCUGGACAUGUGCUGGACCAUGG----AAAGGGUAAAUGAUUAAAGGGUUGUCAAACGGUCAGUCCAGGGGUCAGC-UGGCGCGUG-CCGUUCUGGGACACUGACCC---CAUUU
...(((((.((.((((.(((.(..----..).)))...((((.........))))..)))))))))))((((((((.-.(((....)-))(((....))).)))))))---).... ( -37.30)
>consensus
____________UCUGGACCACGGACCCAAGGGGUUAACGAUUAAAUGGUCGUCAAACGGUCAUUCCAGGGGUCAGUUUGGCACGCGUCCGCUUU_GGUAACUGACCUAU_AAUUU
.............(((((...((.(((.....)))...)).....(((..((.....))..))))))))(((((((((.(((........)))......)))))))))........ (-23.35 = -23.92 +   0.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,545,370 – 1,545,469
Length 99
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 79.26
Mean single sequence MFE -30.52
Consensus MFE -17.36
Energy contribution -19.87
Covariance contribution 2.50
Combinations/Pair 1.14
Mean z-score -1.90
Structure conservation index 0.57
SVM decision value 0.39
SVM RNA-class probability 0.715148
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1545370 99 - 27905053
AA----AUAGGUCAGUUACC-AAAGCGGAAGCGUGCCAAACUGACCCCUGGAAUGACCGCUUGACGACCAUUUAAUCGUUAACCCCUUGGGUCCGUGGUCCAGA------------
..----...((((((((...-...((....))......)))))))).(((((....((((.((((((........))))))((((...))))..))))))))).------------ ( -35.50)
>DroSec_CAF1 46911 103 - 1
AAAUUAAUAGGUCAGUUACC-AAAGCGGAAGCGUGCCAAACUGACCCCUGGAAUGACCGCUUGACGACCAUUUAAUCGUUAACCCCUUGGGUCCGUGGUCCAGA------------
.........((((((((...-...((....))......)))))))).(((((....((((.((((((........))))))((((...))))..))))))))).------------ ( -35.50)
>DroSim_CAF1 47550 103 - 1
AAAUUAAUAGGUCAGUUACC-AAAGCGGAAGCGUGCCAAACUGACCCCUGGAAUGACCGCUUGACAACCAUUUAAUCGUUAACCCCUUGGGUCCGUGGUCCAGA------------
.........((((((((...-...((....))......)))))))).(((((....((((.((((............))))((((...))))..))))))))).------------ ( -31.00)
>DroEre_CAF1 46256 100 - 1
AAAUUGAUAGGUCAGUUACU-AAGGAGGACGCGUGCCAAACUGACCCCUGGAAUGACCGUUUGACGACCACUUAAUCGUUAACCCCUUCGGUACG---UCCAGA------------
.........((((((((...-.(.(......).)....)))))))).(((((...((((.(((((((........)))))))......))))...---))))).------------ ( -28.50)
>DroYak_CAF1 42316 95 - 1
A-----AUAGGUCACUUACC-AACGAGGACGUGUGCCAAACUGACCCCUGGAAUGACCUUUUGAAGACCAUUUAAUCGUUAACCCCUUGGGUACG---UCCAGA------------
.-----...(((.....)))-.....((((((((.....))..((((..((..((((...(((((.....)))))..))))...))..)))))))---)))...------------ ( -22.20)
>DroAna_CAF1 44787 107 - 1
AAAUG---GGGUCAGUGUCCCAGAACGG-CACGCGCCA-GCUGACCCCUGGACUGACCGUUUGACAACCCUUUAAUCAUUUACCCUUU----CCAUGGUCCAGCACAUGUCCAGCA
....(---((((((((((......))((-(....))).-)))))))))(((((.((((((............................----..))))))........)))))... ( -30.41)
>consensus
AAAUU_AUAGGUCAGUUACC_AAAGCGGAAGCGUGCCAAACUGACCCCUGGAAUGACCGCUUGACGACCAUUUAAUCGUUAACCCCUUGGGUCCGUGGUCCAGA____________
.........((((((((.......(((....)))....)))))))).(((((....((((.((((((........))))))(((.....)))..)))))))))............. (-17.36 = -19.87 +   2.50) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:43 2006