Locus 2750

Sequence ID 2L_DroMel_CAF1
Location 7,730,400 – 7,730,555
Length 155
Max. P 0.785925
window4370 window4371 window4372

overview

Window 0

Location 7,730,400 – 7,730,515
Length 115
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 68.77
Mean single sequence MFE -35.10
Consensus MFE -16.41
Energy contribution -18.20
Covariance contribution 1.79
Combinations/Pair 1.22
Mean z-score -2.10
Structure conservation index 0.47
SVM decision value 0.36
SVM RNA-class probability 0.704409
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7730400 115 + 22407834
CGGGCGGCUAGGGCCAGACUACCGCCCAUUCCGCCUCCGGACUCCGUUUCCACUGGCUCCCCGAUAAAAU-CACCGGGCAG-UUCUGUGCCAUGUUCACUAUUCUCACAGUCGCCCA
.((((((((..(((((((..((.((((.....(((...(((.......)))...))).....(((...))-)...)))).)-))))).)))..(....).........)))))))). ( -40.00)
>DroSim_CAF1 21347 115 + 1
CGGGCGGCUAGGGCCAGACUACCGCCCAUUCCGCCUCCGGACUCCGUUUCCACGGGCUCUCCGGUAAAAU-CACCGGGCAG-CUCUGUGCCAUGUUCACUAUUCUCACAGUCGCCCA
.((((((((.((((.........))))..((((....)))).........((((((((.((((((.....-.)))))).))-).)))))...................)))))))). ( -45.20)
>DroPer_CAF1 14066 109 + 1
CGCGUUGAGGCAGCCAAUCCUCC---UCCUCCGCCUCCGC-CUCC---UCCAACAGCAACUCCAUCUUCUACUCCA-GCUGCUGCGGCUUCAUCUCCACCGUUUUCGCAGUCGCCCA
.(((..(((((............---......))))))))-....---............................-((.(((((((.................))))))).))... ( -20.10)
>consensus
CGGGCGGCUAGGGCCAGACUACCGCCCAUUCCGCCUCCGGACUCCGUUUCCACCGGCUCCCCGAUAAAAU_CACCGGGCAG_UUCUGUGCCAUGUUCACUAUUCUCACAGUCGCCCA
.((((((((((((((..............((((....)))).............))))))...............(.((((...)))).)..................)))))))). (-16.41 = -18.20 +   1.79)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,730,400 – 7,730,515
Length 115
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 68.77
Mean single sequence MFE -45.26
Consensus MFE -21.25
Energy contribution -24.90
Covariance contribution 3.65
Combinations/Pair 1.21
Mean z-score -2.15
Structure conservation index 0.47
SVM decision value 0.57
SVM RNA-class probability 0.785925
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7730400 115 - 22407834
UGGGCGACUGUGAGAAUAGUGAACAUGGCACAGAA-CUGCCCGGUG-AUUUUAUCGGGGAGCCAGUGGAAACGGAGUCCGGAGGCGGAAUGGGCGGUAGUCUGGCCCUAGCCGCCCG
.((((((((((....)))))......(((.(((((-(((((((...-......((.(((..((.((....))))..))).)).......))))))))..))))))).....))))). ( -48.19)
>DroSim_CAF1 21347 115 - 1
UGGGCGACUGUGAGAAUAGUGAACAUGGCACAGAG-CUGCCCGGUG-AUUUUACCGGAGAGCCCGUGGAAACGGAGUCCGGAGGCGGAAUGGGCGGUAGUCUGGCCCUAGCCGCCCG
.((((((((((....)))))......(((.((((.-((((((((((-....)))))....(((((((....)....((((....)))))))))))))))))))))).....))))). ( -53.10)
>DroPer_CAF1 14066 109 - 1
UGGGCGACUGCGAAAACGGUGGAGAUGAAGCCGCAGCAGC-UGGAGUAGAAGAUGGAGUUGCUGUUGGA---GGAG-GCGGAGGCGGAGGA---GGAGGAUUGGCUGCCUCAACGCG
...(((.((.(((...((((.........))))(((((((-(..(........)..))))))))))).)---)...-...(((((((..((---......))..)))))))..))). ( -34.50)
>consensus
UGGGCGACUGUGAGAAUAGUGAACAUGGCACAGAA_CUGCCCGGUG_AUUUUAUCGGGGAGCCAGUGGAAACGGAGUCCGGAGGCGGAAUGGGCGGUAGUCUGGCCCUAGCCGCCCG
.((((((((((....)))))......(((.((((..((((((((((.....)))).....(((..((((.......))))..))).....))))))...))))))).....))))). (-21.25 = -24.90 +   3.65)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,730,437 – 7,730,555
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 77.56
Mean single sequence MFE -44.34
Consensus MFE -20.34
Energy contribution -25.03
Covariance contribution 4.69
Combinations/Pair 1.20
Mean z-score -2.46
Structure conservation index 0.46
SVM decision value 0.19
SVM RNA-class probability 0.625815
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7730437 118 - 22407834
AAGGGCAUCUGCGGUGAGCAGCUCAACAAUUGCAUGCUCCUGGGCGACUGUGAGAAUAGUGAACAUGGCACAGAA-CUGCCCGGUG-AUUUUAUCGGGGAGCCAGUGGAAACGGAGUCCG
..((((.(((((((.(((((((.........)).))))))))(((..(((((...((.(....)))..)))))..-...(((((((-....)))))))..)))........)))))))). ( -42.80)
>DroPse_CAF1 14184 115 - 1
AAAGGCAUCUGCGGGGAGCAGCUCAACAACUGCAUGCUGCUGGGCGACUGCGAAAACGGUGGAGAUGGAGCCGCAGCAGU-UGGAGUAGAAGAUGGAGUUGCUGUUGGA---GGAG-GCG
....((.(((.(.((.((((((((..(..((((..((((((((((..(..................)..))).)))))))-....))))..)...)))))))).)).).---))).-)). ( -42.47)
>DroSim_CAF1 21384 118 - 1
AAGGGCAUCUGCGGUGAGCAGCUCAACAAUUGCAUGCUCCUGGGCGACUGUGAGAAUAGUGAACAUGGCACAGAG-CUGCCCGGUG-AUUUUACCGGAGAGCCCGUGGAAACGGAGUCCG
..((((.(((.(((((((((((.........)).)))))(((((((.(((((...((.(....)))..)))))..-.)))))))..-.....)))).)))..((((....)))).)))). ( -48.30)
>DroPer_CAF1 14100 115 - 1
AAAGGCAUCUGCGGGGAGCAGCUCAACAACUGCAUGCUGCUGGGCGACUGCGAAAACGGUGGAGAUGAAGCCGCAGCAGC-UGGAGUAGAAGAUGGAGUUGCUGUUGGA---GGAG-GCG
....((.(((.(.((.((((((((..(..((((..((((((((((.((((......)))).........))).)))))))-....))))..)...)))))))).)).).---))).-)). ( -43.80)
>consensus
AAAGGCAUCUGCGGGGAGCAGCUCAACAACUGCAUGCUCCUGGGCGACUGCGAAAACAGUGAACAUGGAACAGAA_CAGC_CGGAG_AGAAGAUCGAGGAGCCGGUGGA___GGAG_CCG
.....(((((.(.(((((((((.........)).))))))).)...((((......))))..)))))...((((((((((((((((.....))))))))))))))))............. (-20.34 = -25.03 +   4.69)

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 10:35:19 2006