Locus 7584

Sequence ID 2L_DroMel_CAF1
Location 20,979,755 – 20,979,855
Length 100
Max. P 0.656586
window12193 window12194

overview

Window 3

Location 20,979,755 – 20,979,855
Length 100
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 82.44
Mean single sequence MFE -29.68
Consensus MFE -17.90
Energy contribution -20.88
Covariance contribution 2.99
Combinations/Pair 1.03
Mean z-score -2.34
Structure conservation index 0.60
SVM decision value 0.26
SVM RNA-class probability 0.656586
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20979755 100 + 22407834
-UUCUCUGUGAUGUAUGAUAAACUUAAGGCGGCAG-CCGUCUGCGGCUGGAUUAGCCGCUCAACGAUUUAAGUGAUUGUAUAUCUUACAGAUAUAC-----GAUUUC------------
-...(((((((((((..((..(((((((((....)-))((..(((((((...)))))))...))...)))))).))..))))))..))))).....-----......------------ ( -33.10)
>DroGri_CAF1 49003 84 + 1
--CUCCUUUGAUGUAUGAUAAACCCAA-GCAGC---------------GGAUUAGCCGCUCAGCGAUUUAAGUGAUUGUAUAUCUUACAGAUAUAC-----GAUUUA------------
--.........................-(((((---------------((.....)))))..)).........(((((((((((.....)))))))-----))))..------------ ( -19.30)
>DroSim_CAF1 28861 98 + 1
--UUUCUGUGAUGUAUGAUAAACUUCAGGCGGCAG-CCGUCUGCGGCUGGAUUAGCCGCUC-ACGAUUUAAGUGAUUGUAUAUCUUACAGAUAUAC-----GAUUUC------------
--....(((((.((.(((......)))(((..(((-(((....)))))).....)))))))-)))........(((((((((((.....)))))))-----))))..------------ ( -32.30)
>DroEre_CAF1 34816 104 + 1
--UUCCUCUGAUGUAUGAUAAACUUCAGGCGGCAG-CCGUCUGCGGCUGGAUUAGCCGCUCAACGAUUUAAGUGAUUGUAUAUCUUACAGAUAUACAGAUAGAUUUC------------
--.....((((.((.......)).))))(((((((-(((....)))))......)))))................(((((((((.....))))))))).........------------ ( -29.10)
>DroYak_CAF1 38959 99 + 1
--CUUCUGUGAUGUAUGAUAAACUUCAGGCGGCAG-CCAUCUGCGGCUGGAUUAGCCGCUCAACGAUUUAAGUGAUUGUAUAUCUUACAGAUAUAC-----GAUUUC------------
--..(((((((((((..((..((((..(((....)-))....(((((((...)))))))..........)))).))..))))))..))))).....-----......------------ ( -29.60)
>DroAna_CAF1 61143 114 + 1
CUUCCCUGUGAUGUAUGAUAAACUCCAGUCGACUGGUAGUCUGCGGCUGGAUUAGCCGCUCAACGAUUUAAGUGAUUGUAUAUCUUACAGAUAUAC-----GAUUUCUGGUUGUCGCCG
.......(((((((.(((...(((((((....)))).)))..(((((((...))))))))))))......((.(((((((((((.....)))))))-----)))).))....))))).. ( -34.70)
>consensus
__UUCCUGUGAUGUAUGAUAAACUUCAGGCGGCAG_CCGUCUGCGGCUGGAUUAGCCGCUCAACGAUUUAAGUGAUUGUAUAUCUUACAGAUAUAC_____GAUUUC____________
.....((((((((((..((..((((.((((((....))))))(((((((...)))))))..........)))).))..))))))..))))............................. (-17.90 = -20.88 +   2.99)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,979,755 – 20,979,855
Length 100
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 82.44
Mean single sequence MFE -27.25
Consensus MFE -14.83
Energy contribution -16.02
Covariance contribution 1.18
Combinations/Pair 1.18
Mean z-score -2.55
Structure conservation index 0.54
SVM decision value 0.12
SVM RNA-class probability 0.594304
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20979755 100 - 22407834
------------GAAAUC-----GUAUAUCUGUAAGAUAUACAAUCACUUAAAUCGUUGAGCGGCUAAUCCAGCCGCAGACGG-CUGCCGCCUUAAGUUUAUCAUACAUCACAGAGAA-
------------....((-----(((((((.....)))))))....((((((...(((..((((((.....)))))).)))((-(....)))))))))...............))...- ( -27.90)
>DroGri_CAF1 49003 84 - 1
------------UAAAUC-----GUAUAUCUGUAAGAUAUACAAUCACUUAAAUCGCUGAGCGGCUAAUCC---------------GCUGC-UUGGGUUUAUCAUACAUCAAAGGAG--
------------......-----(((((((.....)))))))..((.(((......(..((((((......---------------)))))-)..)((.......))....))))).-- ( -21.10)
>DroSim_CAF1 28861 98 - 1
------------GAAAUC-----GUAUAUCUGUAAGAUAUACAAUCACUUAAAUCGU-GAGCGGCUAAUCCAGCCGCAGACGG-CUGCCGCCUGAAGUUUAUCAUACAUCACAGAAA--
------------....((-----(((((((.....))))))).............((-((((((((.....))))))....((-(....)))................)))).))..-- ( -27.70)
>DroEre_CAF1 34816 104 - 1
------------GAAAUCUAUCUGUAUAUCUGUAAGAUAUACAAUCACUUAAAUCGUUGAGCGGCUAAUCCAGCCGCAGACGG-CUGCCGCCUGAAGUUUAUCAUACAUCAGAGGAA--
------------..........((((((((.....))))))))..........(((((..((((((.....)))))).)))))-...((..((((.((.......)).)))).))..-- ( -29.80)
>DroYak_CAF1 38959 99 - 1
------------GAAAUC-----GUAUAUCUGUAAGAUAUACAAUCACUUAAAUCGUUGAGCGGCUAAUCCAGCCGCAGAUGG-CUGCCGCCUGAAGUUUAUCAUACAUCACAGAAG--
------------....((-----(((((((.....))))))).............(((((((((((.....))))))....((-(....))).........))).))......))..-- ( -24.50)
>DroAna_CAF1 61143 114 - 1
CGGCGACAACCAGAAAUC-----GUAUAUCUGUAAGAUAUACAAUCACUUAAAUCGUUGAGCGGCUAAUCCAGCCGCAGACUACCAGUCGACUGGAGUUUAUCAUACAUCACAGGGAAG
.((......)).......-----(((((((.....)))))))...........((.(((.((((((.....))))))(((((.((((....)))))))))...........))).)).. ( -32.50)
>consensus
____________GAAAUC_____GUAUAUCUGUAAGAUAUACAAUCACUUAAAUCGUUGAGCGGCUAAUCCAGCCGCAGACGG_CUGCCGCCUGAAGUUUAUCAUACAUCACAGAAA__
.......................(((((((.....)))))))....((((..........((((((.....))))))((.(((....))).)).))))..................... (-14.83 = -16.02 +   1.18)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:28 2006