Locus 2106

Sequence ID 2R_DroMel_CAF1
Location 7,880,227 – 7,880,423
Length 196
Max. P 0.981390
window3489 window3490 window3491

overview

Window 9

Location 7,880,227 – 7,880,319
Length 92
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 73.76
Mean single sequence MFE -15.90
Consensus MFE -8.60
Energy contribution -9.27
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.48
Structure conservation index 0.54
SVM decision value 1.89
SVM RNA-class probability 0.981390
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7880227 92 + 20766785
AU--AAUUAUAGUAUCUAAUUUUA-UGUUUCUAUUGAACUGCACUCAUGUGUAGUACUACAGACAGCAUGCGAAACAUCCUUUUGCAACUACACU
..--.....((((..........(-(((((((...(.(((((((....))))))).)...))).)))))((((((.....)))))).)))).... ( -19.70)
>DroSec_CAF1 12210 93 + 1
AU--AAUUAUACUAUCUAAUAGUAUUGUUUCUAUUGAACUGCACUCAUGUGUAGUACUACAGGCAGCAUGCUAAACAUCCUUUUGCAACUACACU
..--...............((((((.((((((...(.(((((((....))))))).)...))).)))))))))...................... ( -16.50)
>DroEre_CAF1 9724 73 + 1
AUUGAAAUAAACUA-------------CAUCUAUUGAA---------UCUGUAGUACUACAAACAGUUCGCGAAACAUCCUUUUGCAACUACACU
..........((((-------------((((....)).---------..)))))).........((((.((((((.....))))))))))..... ( -11.50)
>consensus
AU__AAUUAUACUAUCUAAU__UA_UGUUUCUAUUGAACUGCACUCAUGUGUAGUACUACAGACAGCAUGCGAAACAUCCUUUUGCAACUACACU
................................................(((((((.((......))...((((((.....)))))).))))))). ( -8.60 =  -9.27 +   0.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,880,227 – 7,880,319
Length 92
Sequences 3
Columns 95
Reading direction reverse
Mean pairwise identity 73.76
Mean single sequence MFE -17.14
Consensus MFE -12.82
Energy contribution -13.27
Covariance contribution 0.45
Combinations/Pair 1.06
Mean z-score -1.08
Structure conservation index 0.75
SVM decision value 0.10
SVM RNA-class probability 0.582577
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7880227 92 - 20766785
AGUGUAGUUGCAAAAGGAUGUUUCGCAUGCUGUCUGUAGUACUACACAUGAGUGCAGUUCAAUAGAAACA-UAAAAUUAGAUACUAUAAUU--AU
..((((((.........(((((((...(((.....)))(((((.(....)))))).........))))))-)..........))))))...--.. ( -17.11)
>DroSec_CAF1 12210 93 - 1
AGUGUAGUUGCAAAAGGAUGUUUAGCAUGCUGCCUGUAGUACUACACAUGAGUGCAGUUCAAUAGAAACAAUACUAUUAGAUAGUAUAAUU--AU
.(((((((((((..((.(((.....))).))...))))..)))))))....((((.((..(((((........)))))..)).))))....--.. ( -22.70)
>DroEre_CAF1 9724 73 - 1
AGUGUAGUUGCAAAAGGAUGUUUCGCGAACUGUUUGUAGUACUACAGA---------UUCAAUAGAUG-------------UAGUUUAUUUCAAU
..((((((((((((((..((.....))..)).))))))..))))))((---------...(((((((.-------------..)))))))))... ( -11.60)
>consensus
AGUGUAGUUGCAAAAGGAUGUUUCGCAUGCUGUCUGUAGUACUACACAUGAGUGCAGUUCAAUAGAAACA_UA__AUUAGAUAGUAUAAUU__AU
.(((((((((((..((.(((.....))).))...))))..)))))))................................................ (-12.82 = -13.27 +   0.45)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,880,319 – 7,880,423
Length 104
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 72.79
Mean single sequence MFE -30.02
Consensus MFE -17.55
Energy contribution -15.92
Covariance contribution -1.63
Combinations/Pair 1.55
Mean z-score -1.60
Structure conservation index 0.58
SVM decision value 0.78
SVM RNA-class probability 0.849063
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7880319 104 + 20766785
AGCCGAGGAAACGUGGCAGGCUGGAAUUAUACCAUCCGACACAGAUUUCCGAAUUUUUCGGGACUUCGGAAACGUGCCCGGUAAGCUUAUAUGGUUAUGAAC-CA
.((((.(....).))))(((((((.......))..(((.(((.((.((((((.....))))))..))(....))))..)))..)))))...((((.....))-)) ( -30.90)
>DroPse_CAF1 8643 97 + 1
GGCUGAGGAGAUCUUUCAGAGUGGAAUUUUGCCAUCUGAUUCAGAUUUCCGAAUUUUCCGUGACUAUGGAGAUGUUCCCGGUGAGUAACUA-------AAAC-AC
.((((.((((((((.(((((.(((.......))))))))...))))))))(((((((((((....))))))).)))).)))).........-------....-.. ( -29.80)
>DroSec_CAF1 12303 104 + 1
AGCCGAGGAAACGUGGCAGGCUGGUAUUAUACCAUCCGACACGGAUUUCCGCAUUUUUCGGGACUUCGGAAACGUGCCUGGUAAGCUUAUAUUGCCAUGAAC-UA
..((((((...((((...((.(((((...))))).))..))))...(((((.......)))))))))))....((.(.((((((.......)))))).).))-.. ( -32.20)
>DroEre_CAF1 9797 104 + 1
AGCUGAGGAGACCUGGCAGGCUGGAAUUAUACCAUCUGACACGGAUUUCCGUAUCUUUCGGGACUUCGGAAACGUGCCAGGUCAGCUUCUACUGCAAUAAAC-UG
.((.((((.(((((((((.............((....((.((((....)))).)).....))....((....)))))))))))..))))....)).......-.. ( -35.00)
>DroAna_CAF1 9640 103 + 1
GGCCGAAGAGAUUUUUCAGAGUGGAAUUCUACCCUCUGACUCAGAUUUUCGUAUUUUUCGAGACUUUGGAAAUAUACCCGGUCAGU--AAUGAGUCAUAAACAUU
(((((..((((.(((((((((.((.......))))))))...))).))))(((((((((((....))))))).)))).)))))...--................. ( -24.30)
>DroPer_CAF1 9599 97 + 1
GGCUGAGGAGAUCUUUCAGAGUGGAAUUUUGCCAUCUGAUUCAGAUUUCCGAAUUUUCCGUGACUAUGGAGAUGUUCCUGGUGAGUAACUA-------AAAC-AC
.(((.(((((((((.(((((.(((.......))))))))...))))))))(((((((((((....))))))).))))....).))).....-------....-.. ( -27.90)
>consensus
AGCCGAGGAGACCUGGCAGACUGGAAUUAUACCAUCUGACACAGAUUUCCGAAUUUUUCGGGACUUCGGAAACGUGCCCGGUAAGCUUAUA__G__AUAAAC_UA
.((((.(((((.((..((((.(((.......)))))))....)).)))))(((((((((((....))))))).)))).))))....................... (-17.55 = -15.92 +  -1.63)

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 10:21:27 2006