Locus 4687

Sequence ID 2R_DroMel_CAF1
Location 15,344,583 – 15,344,703
Length 120
Max. P 0.949225
window7546 window7547

overview

Window 6

Location 15,344,583 – 15,344,703
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.56
Mean single sequence MFE -45.85
Consensus MFE -22.40
Energy contribution -23.10
Covariance contribution 0.70
Combinations/Pair 1.42
Mean z-score -2.10
Structure conservation index 0.49
SVM decision value 0.69
SVM RNA-class probability 0.823296
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15344583 120 + 20766785
UCUUCCCAUUUGGCAGAUGCAUGCAACCCAUUUCGGCACAAGAUUAAAGUCCAUCAGCUUGGGCAGAAACCAAUGGAGCUGCAGAUGUCAGUUCUUGCAGGCCCUCACCUCGUAUGUGGC
.....((((((((((..((((.((...(((((((.......)).....(((((......))))).......))))).))))))..))))))....((((((......))).))).)))). ( -30.00)
>DroVir_CAF1 190630 120 + 1
ACUGCCCAUCUGGCAGCUGCAUGCGACACACUUUGGUCAGCGAUUGCGCGCCAUAUCGCUGGGGCGCAAUCAGUGGAGCUGCCGCUGCCAGUUCCUGCAGGCGCUCACCUCCUAUGUGGC
.((((....((((((((.(((.((..(((((....))....((((((((.(((......))).)))))))).)))..))))).)))))))).....))))..((.(((.......))))) ( -56.20)
>DroGri_CAF1 162349 120 + 1
ACUGCCCAUCUGGCAGCUGCAUGCCACACACUUUGGCCAGCGUCUCCGCGCCAUAUCUUUGGGGAGGAAUCAAUGGAGUUGUCGUUGUCAAUUCCUCCAGGCGCUGACCUCGUAUGUGGC
.(((((.....)))))......((((((.((...((.((((((((.....(((......)))((((((((((((((.....))))))...)))))))))))))))).))..)).)))))) ( -51.40)
>DroWil_CAF1 293780 120 + 1
UUUACCCAUCUGGCAAAUGCAUGCCACUCAUUUUGGGAAACGUUUGCGUUCCAUUUCCCUGGGACGCAAUCAGUGGAGCUGUCGCUGUCAAUUCCUGCAGGCUCUGACUUCGUAUGUCUC
....((((..(((((......))))).......))))..((..((((((((((......))))))))))...))((((((...((...........)).))))))(((.......))).. ( -37.00)
>DroMoj_CAF1 197469 120 + 1
CCUGCCCAUCUGGCAGCUGCACGCGACGCACUUUGGCCAGCGGCUGCGCGCCAUUUGGCUGGGCCGCAACCAGUGGAGCUGCCGCUGUCAGUUCCUGCAGGCGCUCACCUCCUACGUGGC
(((((....((((((((.(((.((..(((....(((...((((((.((.(((....)))))))))))..))))))..))))).)))))))).....))))).((.(((.......))))) ( -53.70)
>DroAna_CAF1 123126 120 + 1
CCUGCCCAUUUGGCAGCUCCAUGCCGUUCACUUCGGCUCCCGAUUGCGUUCCCUCACCCUGGGAAAGAAUCCGUGGAGCUGCCGUUGCCAGUUCCUGCAGGCCCUCACCUCCUAUGUGGC
...((((((..(((((((((((((((.......))))....((((.(.(((((.......))))).))))).)))))))))))...(((.((....)).)))...........))).))) ( -46.80)
>consensus
ACUGCCCAUCUGGCAGCUGCAUGCCACACACUUUGGCCAGCGAUUGCGCGCCAUAUCCCUGGGAAGCAAUCAGUGGAGCUGCCGCUGUCAGUUCCUGCAGGCGCUCACCUCCUAUGUGGC
.((((....((((((((.(((.((..(.......(((..(((....))))))......((((.......)))).)..))))).)))))))).....)))).....(((.......))).. (-22.40 = -23.10 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 15,344,583 – 15,344,703
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.56
Mean single sequence MFE -49.43
Consensus MFE -24.71
Energy contribution -24.83
Covariance contribution 0.12
Combinations/Pair 1.45
Mean z-score -2.39
Structure conservation index 0.50
SVM decision value 1.39
SVM RNA-class probability 0.949225
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15344583 120 - 20766785
GCCACAUACGAGGUGAGGGCCUGCAAGAACUGACAUCUGCAGCUCCAUUGGUUUCUGCCCAAGCUGAUGGACUUUAAUCUUGUGCCGAAAUGGGUUGCAUGCAUCUGCCAAAUGGGAAGA
((.((.((((((((((((((.((((.((.......))))))))(((((..((((......))))..))))))))).))))))))((.....)))).)).....(((.((.....)).))) ( -32.30)
>DroVir_CAF1 190630 120 - 1
GCCACAUAGGAGGUGAGCGCCUGCAGGAACUGGCAGCGGCAGCUCCACUGAUUGCGCCCCAGCGAUAUGGCGCGCAAUCGCUGACCAAAGUGUGUCGCAUGCAGCUGCCAGAUGGGCAGU
(((.(((.(.((((....)))).).....((((((((.(((((..(((.((((((((.(((......))).))))))))(((......))))))..)).))).))))))))))))))... ( -60.20)
>DroGri_CAF1 162349 120 - 1
GCCACAUACGAGGUCAGCGCCUGGAGGAAUUGACAACGACAACUCCAUUGAUUCCUCCCCAAAGAUAUGGCGCGGAGACGCUGGCCAAAGUGUGUGGCAUGCAGCUGCCAGAUGGGCAGU
(((((((((..((((((((((.((((((((..(....((....))..)..))))))))..........)))..(....))))))))...))))))))).....((((((.....)))))) ( -56.80)
>DroWil_CAF1 293780 120 - 1
GAGACAUACGAAGUCAGAGCCUGCAGGAAUUGACAGCGACAGCUCCACUGAUUGCGUCCCAGGGAAAUGGAACGCAAACGUUUCCCAAAAUGAGUGGCAUGCAUUUGCCAGAUGGGUAAA
..(((.......(((((..((....))..))))).(((((((.....))).)))))))(((((((((((.........))))))))........(((((......)))))..)))..... ( -38.60)
>DroMoj_CAF1 197469 120 - 1
GCCACGUAGGAGGUGAGCGCCUGCAGGAACUGACAGCGGCAGCUCCACUGGUUGCGGCCCAGCCAAAUGGCGCGCAGCCGCUGGCCAAAGUGCGUCGCGUGCAGCUGCCAGAUGGGCAGG
(((.(((.((((.((..(((.(((((...))).))))).)).)))).(((((.(((((...))).....((((((.((((((......)))).)).)))))).)).)))))))))))... ( -54.90)
>DroAna_CAF1 123126 120 - 1
GCCACAUAGGAGGUGAGGGCCUGCAGGAACUGGCAACGGCAGCUCCACGGAUUCUUUCCCAGGGUGAGGGAACGCAAUCGGGAGCCGAAGUGAACGGCAUGGAGCUGCCAAAUGGGCAGG
(((.(((.(...((.((..((....))..)).))..)(((((((((((.(((((.(((((.......))))).).)))).)..((((.......)))).))))))))))..))))))... ( -53.80)
>consensus
GCCACAUACGAGGUGAGCGCCUGCAGGAACUGACAGCGGCAGCUCCACUGAUUGCGCCCCAGGGAAAUGGAGCGCAAUCGCUGGCCAAAGUGAGUGGCAUGCAGCUGCCAGAUGGGCAGA
(((.(((....(((.(((((.(((.(((.(((.......))).)))...((((((.(.(((......))).).)))))).................))).)).))))))..))))))... (-24.71 = -24.83 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:52 2006