Locus 3145

Sequence ID 2R_DroMel_CAF1
Location 10,750,472 – 10,750,570
Length 98
Max. P 0.668301
window5181 window5182

overview

Window 1

Location 10,750,472 – 10,750,570
Length 98
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 84.70
Mean single sequence MFE -31.57
Consensus MFE -20.98
Energy contribution -21.93
Covariance contribution 0.95
Combinations/Pair 1.32
Mean z-score -2.75
Structure conservation index 0.66
SVM decision value 0.07
SVM RNA-class probability 0.569875
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10750472 98 + 20766785
UU-UUGAUCUGCCGCUUGUGUGAUCAA-AUCGAUUUGGCAGAGCCAAACAGAUUUUGGG-AUCUUCUGGAUAAACAAAAACAAGC-GACAGGGGCUGUGAAA
..-....((((.(((((((..((((((-(((..((((((...))))))..)))))...)-)))...((......))...))))))-).)))).......... ( -27.20)
>DroSec_CAF1 14800 95 + 1
UU-UUGAUCUGCCGCUUGUGUGAUCAA-AUCAAUUUGGCAGAGACAAACAGAUUUUUGG-AUUUGCUGGAUAAACA--AACAAGC-GGCAG-GGCUGUGAAA
..-....((((((((((((.((((...-))))(((..(((((..((((......)))).-.)))))..))).....--.))))))-)))))-)......... ( -35.50)
>DroSim_CAF1 15969 95 + 1
UU-UUGAUCUGCCGCUUGUGUGAUCAA-AUCGAUUUGGCAGAGCCAAACAGAUUUUGGG-AUUUGCUGGAUAAACA--AACAAGC-GGCAG-GGCUAUGAAA
..-....((((((((((((.((((...-))))(((..(((((.(((((.....))))).-.)))))..))).....--.))))))-)))))-)......... ( -35.30)
>DroEre_CAF1 14412 96 + 1
UU-UUGAUCUGCCGCCUGUGCGAUCGA-AUCGAUUUGGCAGGGCCAAGCCGAUUCUGGG-AUCUGCUGGAUAAACA--AACAAGCAGGCAG-GGCUGUGAGA
..-....((.(((((((((((((((((-((((..(((((...)))))..))))))...)-))).))((......))--.....))))))..-)))...)).. ( -33.10)
>DroYak_CAF1 14705 98 + 1
UUUUUGAUCUGCCGCUUGUGUGAUCGAAAUGGAUUUGGCAGAGCCAAGCAGAUUUUAGG-AUCUGCUGGAUAAACA--AACAAGCAGGCAG-UUGUGUGAGA
........(((((((((((...(((..........((((...))))((((((((....)-))))))).))).....--.)))))).)))))-.......... ( -32.00)
>DroAna_CAF1 12836 95 + 1
UU-UUGAUCUUCUGACU-UGUGAUCAA-AUCGAUUUGGCAGGCCUCGACAGAUUUGGGAUAUCUGCUGGAUAAACA--AACAAGG-GGCUC-UGCUGUGAGA
.(-((((((........-...))))))-)(((....(((((((((((.(((((.......))))))((......))--.....))-))).)-)))).))).. ( -26.30)
>consensus
UU_UUGAUCUGCCGCUUGUGUGAUCAA_AUCGAUUUGGCAGAGCCAAACAGAUUUUGGG_AUCUGCUGGAUAAACA__AACAAGC_GGCAG_GGCUGUGAAA
........(((((((((((.((((....))))(((..(((((.(((((.....)))))...)))))..)))........)))))).)))))........... (-20.98 = -21.93 +   0.95)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,750,472 – 10,750,570
Length 98
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 84.70
Mean single sequence MFE -29.77
Consensus MFE -13.50
Energy contribution -15.58
Covariance contribution 2.09
Combinations/Pair 1.14
Mean z-score -4.23
Structure conservation index 0.45
SVM decision value 0.29
SVM RNA-class probability 0.668301
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10750472 98 - 20766785
UUUCACAGCCCCUGUC-GCUUGUUUUUGUUUAUCCAGAAGAU-CCCAAAAUCUGUUUGGCUCUGCCAAAUCGAU-UUGAUCACACAAGCGGCAGAUCAA-AA
...........(((((-(((((((((((......)))))(((-(...(((((.(((((((...))))))).)))-))))))..))))))))))).....-.. ( -33.60)
>DroSec_CAF1 14800 95 - 1
UUUCACAGCC-CUGCC-GCUUGUU--UGUUUAUCCAGCAAAU-CCAAAAAUCUGUUUGUCUCUGCCAAAUUGAU-UUGAUCACACAAGCGGCAGAUCAA-AA
..........-(((((-(((((((--((((.....)))))..-....(((((.(((((.......))))).)))-))......))))))))))).....-.. ( -26.90)
>DroSim_CAF1 15969 95 - 1
UUUCAUAGCC-CUGCC-GCUUGUU--UGUUUAUCCAGCAAAU-CCCAAAAUCUGUUUGGCUCUGCCAAAUCGAU-UUGAUCACACAAGCGGCAGAUCAA-AA
..........-(((((-(((((((--((((.....)))))..-....(((((.(((((((...))))))).)))-))......))))))))))).....-.. ( -32.80)
>DroEre_CAF1 14412 96 - 1
UCUCACAGCC-CUGCCUGCUUGUU--UGUUUAUCCAGCAGAU-CCCAGAAUCGGCUUGGCCCUGCCAAAUCGAU-UCGAUCGCACAGGCGGCAGAUCAA-AA
..........-(((((.((((((.--((......))((.(((-(...((((((..(((((...)))))..))))-))))))))))))))))))).....-.. ( -35.40)
>DroYak_CAF1 14705 98 - 1
UCUCACACAA-CUGCCUGCUUGUU--UGUUUAUCCAGCAGAU-CCUAAAAUCUGCUUGGCUCUGCCAAAUCCAUUUCGAUCACACAAGCGGCAGAUCAAAAA
..........-(((((.((((((.--((...(((..((((((-......))))))(((((...))))).........))))).)))))))))))........ ( -30.20)
>DroAna_CAF1 12836 95 - 1
UCUCACAGCA-GAGCC-CCUUGUU--UGUUUAUCCAGCAGAUAUCCCAAAUCUGUCGAGGCCUGCCAAAUCGAU-UUGAUCACA-AGUCAGAAGAUCAA-AA
((((...(((-(.(((-.(.....--((......))((((((.......)))))).).)))))))......(((-(((....))-)))).).)))....-.. ( -19.70)
>consensus
UCUCACAGCC_CUGCC_GCUUGUU__UGUUUAUCCAGCAGAU_CCCAAAAUCUGUUUGGCUCUGCCAAAUCGAU_UUGAUCACACAAGCGGCAGAUCAA_AA
...........(((((.((((((.............((((((.......))))))(((((...)))))...............)))))))))))........ (-13.50 = -15.58 +   2.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:33 2006