Locus 5895

Sequence ID 3R_DroMel_CAF1
Location 15,480,780 – 15,480,900
Length 120
Max. P 0.966565
window9635 window9636

overview

Window 5

Location 15,480,780 – 15,480,900
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.50
Mean single sequence MFE -46.77
Consensus MFE -24.00
Energy contribution -25.42
Covariance contribution 1.42
Combinations/Pair 1.39
Mean z-score -2.14
Structure conservation index 0.51
SVM decision value 0.76
SVM RNA-class probability 0.843758
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15480780 120 + 27905053
AAGACAUUCGCCACGCUCCACGAUUGCCAGAGAAUGGAUCCGUCCAGUCCGUUCAAGGCCACCACGCCGCCCUCGCAGGGCACCUCCUCCCCUUGCUGGGCGCACUGGCAGCGCGGCAAG
.........(((.((((........(((((.((((((((.......))))))))..(((......)))((((..((((((..........)))))).))))...))))))))).)))... ( -48.80)
>DroVir_CAF1 85316 120 + 1
AACACAUUCGCCACACUCCACGUUUGCCACAAUAGGGAACCAUCGCGUCCAUUGAGCGCCACGACGCCACCCUCGCAGGGCACAUCAUCGCCCUGCUGGGCCGAUUUGCAGCGUGGCAGC
.........(((((.((.((.(((.(((.((..((((.......(((((...((.....)).)))))..)))).(((((((........)))))))))))).))).)).)).)))))... ( -44.10)
>DroGri_CAF1 24800 120 + 1
AAUACAUUGGCCACGCUCCACGUCUGCCACAGAAUGGAACCGUCGCGACCAUUGAGAGCGACGACGCCACCCUCGCAGGGCACAUCGUCGCCGCCUUGGGCCGACUUGCAGCGCGGCAGU
.........(((.((((.((.(((.(((..((..(((...((((((...........))))))...)))..))..((((((...........))))))))).))).)).)))).)))... ( -45.80)
>DroWil_CAF1 4215 120 + 1
AAAACAUUCGCCACACUCCACGAUUGCCACAACGUGGAGCCAUCUCGUCCGUUGAGGGCUACAACGCCUCCUUCACAUGGUACCUCGUCAUUUUGCUGGGCAGAUUUGCAACGCGGCAGG
.........(((.(.(((((((.(((...))))))))))..((((.((((...((((((......))).((.......))...)))((......)).)))))))).......).)))... ( -31.60)
>DroMoj_CAF1 90178 120 + 1
AAGACAUUCGCCACGCUCCACGUUUGCCACAGCGUGGAGCCGUCGCGCCCGUUGAGCGCCACGACUCCGCCCUCGCAGGGCACGUCGUCGCCCUGCUGGGCGGACUUGCAGCGUGGCAGC
.........(((((((((((((((......))))))))(((((.((((.......)))).)))..(((((((..(((((((........))))))).)))))))...)).)))))))... ( -66.90)
>DroAna_CAF1 4519 120 + 1
AAAACGUUGGCCACGCUCCAGGACUGCCACAUAAUGGAGCCAUCAAUUCCAUUGAGAGCCACCACCCCGCCCUCGCAGGGUACUUCUUCCCCCUGCAUGGCAGCCUGACAUCGCGGCAAC
.........(((.((...((((.((((((...(((((((.......)))))))(((.((.........)).)))((((((..........)))))).))))))))))....)).)))... ( -43.40)
>consensus
AAAACAUUCGCCACGCUCCACGAUUGCCACAGAAUGGAGCCAUCGCGUCCAUUGAGAGCCACGACGCCGCCCUCGCAGGGCACAUCGUCGCCCUGCUGGGCAGACUUGCAGCGCGGCAGC
.........(((.((((.((.(.(((((.(((..(((...........))))))....................(((((((........)))))))..))))).).)).)))).)))... (-24.00 = -25.42 +   1.42)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 15,480,780 – 15,480,900
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.50
Mean single sequence MFE -57.55
Consensus MFE -30.61
Energy contribution -31.62
Covariance contribution 1.01
Combinations/Pair 1.40
Mean z-score -2.55
Structure conservation index 0.53
SVM decision value 1.60
SVM RNA-class probability 0.966565
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15480780 120 - 27905053
CUUGCCGCGCUGCCAGUGCGCCCAGCAAGGGGAGGAGGUGCCCUGCGAGGGCGGCGUGGUGGCCUUGAACGGACUGGACGGAUCCAUUCUCUGGCAAUCGUGGAGCGUGGCGAAUGUCUU
.((((((((((.(((((.(((((.(((.(((.(.....).))))))..)))))))..(((.(((..(((.(((((....)).))).)))...))).))).)))))))))))))....... ( -54.30)
>DroVir_CAF1 85316 120 - 1
GCUGCCACGCUGCAAAUCGGCCCAGCAGGGCGAUGAUGUGCCCUGCGAGGGUGGCGUCGUGGCGCUCAAUGGACGCGAUGGUUCCCUAUUGUGGCAAACGUGGAGUGUGGCGAAUGUGUU
..(((((((((.((.....(((((((((((((......)))))))).((((.(.(((((((...((....)).))))))).).))))..)).))).....)).)))))))))........ ( -57.60)
>DroGri_CAF1 24800 120 - 1
ACUGCCGCGCUGCAAGUCGGCCCAAGGCGGCGACGAUGUGCCCUGCGAGGGUGGCGUCGUCGCUCUCAAUGGUCGCGACGGUUCCAUUCUGUGGCAGACGUGGAGCGUGGCCAAUGUAUU
...((((((((.((.(((((((...((.(((((((((((((((.....)))).))))))))))).))...))))((.((((.......)))).)).))).)).))))))))......... ( -61.70)
>DroWil_CAF1 4215 120 - 1
CCUGCCGCGUUGCAAAUCUGCCCAGCAAAAUGACGAGGUACCAUGUGAAGGAGGCGUUGUAGCCCUCAACGGACGAGAUGGCUCCACGUUGUGGCAAUCGUGGAGUGUGGCGAAUGUUUU
..(((((((((.((....((((((((....(.(((.(....).))).).((((.((((....((......))....)))).))))..)))).))))....)).)))))))))........ ( -39.20)
>DroMoj_CAF1 90178 120 - 1
GCUGCCACGCUGCAAGUCCGCCCAGCAGGGCGACGACGUGCCCUGCGAGGGCGGAGUCGUGGCGCUCAACGGGCGCGACGGCUCCACGCUGUGGCAAACGUGGAGCGUGGCGAAUGUCUU
..(((((((((.((.((((((((.((((((((......))))))))..))))((((((((.(((((.....))))).)))))))).......))...)).)).)))))))))........ ( -73.30)
>DroAna_CAF1 4519 120 - 1
GUUGCCGCGAUGUCAGGCUGCCAUGCAGGGGGAAGAAGUACCCUGCGAGGGCGGGGUGGUGGCUCUCAAUGGAAUUGAUGGCUCCAUUAUGUGGCAGUCCUGGAGCGUGGCCAACGUUUU
(((((((((...((((((((((((...(((((....(.((((((((....)))))))).)..)))))((((((.........))))))..))))))).)))))..))))).))))..... ( -59.20)
>consensus
GCUGCCGCGCUGCAAGUCCGCCCAGCAGGGCGACGAGGUGCCCUGCGAGGGCGGCGUCGUGGCCCUCAACGGACGCGACGGCUCCAUUCUGUGGCAAACGUGGAGCGUGGCGAAUGUCUU
...((((((((((....((((((.(((.((((......)))).)))..))))))....))))).................(((((((............))))))))))))......... (-30.61 = -31.62 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:16 2006