Locus 915

Sequence ID 3R_DroMel_CAF1
Location 3,083,675 – 3,083,799
Length 124
Max. P 0.991689
window1449 window1450 window1451

overview

Window 9

Location 3,083,675 – 3,083,772
Length 97
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 94.59
Mean single sequence MFE -20.87
Consensus MFE -17.41
Energy contribution -17.77
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.75
Structure conservation index 0.83
SVM decision value 0.05
SVM RNA-class probability 0.556766
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3083675 97 + 27905053
CGAAAUGAAAUUGAAAUCAAAAAAGAUAUUUUUUAUAUCUUGGCCAUUUGGCAAACA-AACGGCAACUGCCCCCAGCAUUGGCGAUUACCGAAAGGCC
..............((((....(((((((.....))))))).((((((((.....))-)).(((....)))........)))))))).((....)).. ( -21.90)
>DroSec_CAF1 9566 97 + 1
CGAAAUGAAAUUGAAAUCAAAAAAGAUACUUUUUAUAUCUUGGCCAUUUGGCAAGCA-AACGGCAACUGCCCCCAGCAUUGGCAAUUACCGAAAGGCC
.((.((((((.....(((......)))...)))))).))..((((.(((((......-...(((....)))....((....)).....))))).)))) ( -20.20)
>DroSim_CAF1 10662 97 + 1
CGAAAUGAAAUUGAAAUCAAAAAAGAUACUUUUUAUAUCUUGGCCAUUUGGCAUGCA-AACGGCAACUGCCCCCAGCAUUGGCAAUUACCGAAAGGCC
.((.((((((.....(((......)))...)))))).))..((((.(((((..(((.-....)))..((((.........))))....))))).)))) ( -20.60)
>DroEre_CAF1 9923 97 + 1
CCGAAUGAAAUUGAAAUCAGAAAAGAUACUUUUUAUAUCUUGGCCGUUUGGCAAACA-AACGGCAACUGCCCCCAGCAUUGGCAAUUACCGAAAGGCC
........(((((....(((..((((((.......)))))).((((((((.....))-))))))..)))...((......))))))).((....)).. ( -24.30)
>DroYak_CAF1 9502 97 + 1
CAAAAGGAAAUUGAAAUCAAAAAAUAUACUUUUUAUAUCUUGGCCAUUUGGCAAACA-AACGGCAACUGCCCCCAGCAUUGGCAAUUACCGAAAGGCC
....((((...(((((..............)))))..))))((((.(((((......-...(((....)))....((....)).....))))).)))) ( -18.14)
>DroAna_CAF1 9682 98 + 1
CCAAAUGAAAUUGAAAUCAAAAAAGAUACUUUUUAUAUCUUAGCCAUUUUGCAAACAAAACGGCAACUGCCGCCAGCAUUGGCAAUUACCGAAAGGCC
..........(((....)))..((((((.......)))))).((((...(((........((((....))))...))).)))).....((....)).. ( -20.10)
>consensus
CGAAAUGAAAUUGAAAUCAAAAAAGAUACUUUUUAUAUCUUGGCCAUUUGGCAAACA_AACGGCAACUGCCCCCAGCAUUGGCAAUUACCGAAAGGCC
..........(((....)))..((((((.......))))))((((.(((((..........(((....)))....((....)).....))))).)))) (-17.41 = -17.77 +   0.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,083,675 – 3,083,772
Length 97
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 94.59
Mean single sequence MFE -28.52
Consensus MFE -25.00
Energy contribution -25.05
Covariance contribution 0.06
Combinations/Pair 1.09
Mean z-score -2.48
Structure conservation index 0.88
SVM decision value 2.28
SVM RNA-class probability 0.991689
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3083675 97 - 27905053
GGCCUUUCGGUAAUCGCCAAUGCUGGGGGCAGUUGCCGUU-UGUUUGCCAAAUGGCCAAGAUAUAAAAAAUAUCUUUUUUGAUUUCAAUUUCAUUUCG
((((....((((((.(((.........))).))))))(((-((.....)))))))))(((((((.....)))))))...(((........)))..... ( -25.20)
>DroSec_CAF1 9566 97 - 1
GGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU-UGCUUGCCAAAUGGCCAAGAUAUAAAAAGUAUCUUUUUUGAUUUCAAUUUCAUUUCG
((((....((((((((((.........))))))))))(((-((.....)))))))))(((((((.....)))))))...(((........)))..... ( -29.00)
>DroSim_CAF1 10662 97 - 1
GGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU-UGCAUGCCAAAUGGCCAAGAUAUAAAAAGUAUCUUUUUUGAUUUCAAUUUCAUUUCG
((((....((((((((((.........))))))))))(((-((.....)))))))))(((((((.....)))))))...(((........)))..... ( -29.00)
>DroEre_CAF1 9923 97 - 1
GGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU-UGUUUGCCAAACGGCCAAGAUAUAAAAAGUAUCUUUUCUGAUUUCAAUUUCAUUCGG
((((....((((((((((.........))))))))))(((-((.....)))))))))(((((((.....)))))))..((((............)))) ( -32.00)
>DroYak_CAF1 9502 97 - 1
GGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU-UGUUUGCCAAAUGGCCAAGAUAUAAAAAGUAUAUUUUUUGAUUUCAAUUUCCUUUUG
((((....((((((((((.........))))))))))(((-((.....)))))))))((((((((.....)))))))).................... ( -27.20)
>DroAna_CAF1 9682 98 - 1
GGCCUUUCGGUAAUUGCCAAUGCUGGCGGCAGUUGCCGUUUUGUUUGCAAAAUGGCUAAGAUAUAAAAAGUAUCUUUUUUGAUUUCAAUUUCAUUUGG
((((....((((((((((.........))))))))))((((((....))))))))))(((((((.....)))))))...(((........)))..... ( -28.70)
>consensus
GGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU_UGUUUGCCAAAUGGCCAAGAUAUAAAAAGUAUCUUUUUUGAUUUCAAUUUCAUUUCG
((((...(((((((((((.........)))))))))))...............))))(((((((.....)))))))...................... (-25.00 = -25.05 +   0.06)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,083,709 – 3,083,799
Length 90
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 80.42
Mean single sequence MFE -29.62
Consensus MFE -19.25
Energy contribution -20.17
Covariance contribution 0.92
Combinations/Pair 1.10
Mean z-score -1.96
Structure conservation index 0.65
SVM decision value 0.67
SVM RNA-class probability 0.818566
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3083709 90 - 27905053
GACUUCUGU------------CCGUCCGGCUGUCUUU-UUGGCCUUUCGGUAAUCGCCAAUGCUGGGGGCAGUUGCCGUU-UGUUUGCCAAAUGGCCAAGAUAU
.....((((------------((..(((((.(((...-..))).....(((....)))...)))))))))))..((((((-((.....))))))))........ ( -29.50)
>DroVir_CAF1 10197 72 - 1
GACUUCUGU------------CGGUCU-ACUGCCUAUGUUGGCCUUUUGUU-AUUACCAAUGCUGCCGGCAUUUA-----------GCCAA-------AGGUAU
(((....))------------)(((..-...))).......((((((.(((-(.....(((((.....)))))))-----------)).))-------)))).. ( -16.70)
>DroSec_CAF1 9600 90 - 1
GACUUCUGU------------CCGUCCGGCUGUCUGU-UUGGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU-UGCUUGCCAAAUGGCCAAGAUAU
(((....))------------).....((((....((-(((((....(((((((((((.........)))))))))))..-.....)))))))))))....... ( -32.50)
>DroSim_CAF1 10696 90 - 1
GACUUCUGU------------CCGUCCGGCUGUCUGU-UUGGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU-UGCAUGCCAAAUGGCCAAGAUAU
(((....))------------).....((((....((-(((((....(((((((((((.........)))))))))))..-.....)))))))))))....... ( -32.50)
>DroEre_CAF1 9957 90 - 1
GACUUCUGU------------CCGUCCAGCUGUCUGU-UUGGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU-UGUUUGCCAAACGGCCAAGAUAU
(((..(((.------------.....)))..)))..(-((((((....((((((((((.........))))))))))(((-((.....)))))))))))).... ( -35.30)
>DroAna_CAF1 9716 103 - 1
GACUUCUGUCUGCCUAAAUCUCCGUCUAUCUGUCUGU-UUGGCCUUUCGGUAAUUGCCAAUGCUGGCGGCAGUUGCCGUUUUGUUUGCAAAAUGGCUAAGAUAU
....(((..(((((..(((..(((.......(((...-..)))....)))..)))((((....)))))))))..(((((((((....)))))))))..)))... ( -31.20)
>consensus
GACUUCUGU____________CCGUCCGGCUGUCUGU_UUGGCCUUUCGGUAAUUGCCAAUGCUGGGGGCAGUUGCCGUU_UGUUUGCCAAAUGGCCAAGAUAU
..............................(((((...(((((....(((((((((((.........)))))))))))........))))).......))))). (-19.25 = -20.17 +   0.92)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:19 2006