Locus 3072

Sequence ID 3L_DroMel_CAF1
Location 8,870,197 – 8,870,347
Length 150
Max. P 0.866732
window4792 window4793

overview

Window 2

Location 8,870,197 – 8,870,311
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.82
Mean single sequence MFE -35.78
Consensus MFE -18.82
Energy contribution -18.43
Covariance contribution -0.38
Combinations/Pair 1.30
Mean z-score -1.73
Structure conservation index 0.53
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8870197 114 + 23771897
GGUGAAAGUACUUGCCGUAGGAGUUCCACUUCAUCUGCAGAUACUUCUGACUGAGCGGAUGGGCCAGCAGCUCCACCCUGCCAUGUGUUACCAUGGUCUGAUCG--AGGGAUUAU----A
((..(......)..))...(((((((...((((((((((((....)))......)))))))))...).)))))).((((((((((......)))))).......--)))).....----. ( -33.71)
>DroVir_CAF1 151580 110 + 1
GAUGAAAAUAUUUGCCAUAAGAGUUCCAUUUCAUUUGCAAAUACUUUUGACUGAGCGGAUGGGCCAGCAGCUCCACGCGUCCAUGCGUGACCAUGGUCUAGUUG--AACAG--------A
...((((.(((((((.....(((......)))....))))))).))))..(((..(((.(((((((.......((((((....))))))....))))))).)))--..)))--------. ( -28.20)
>DroGri_CAF1 132444 114 + 1
GAUGAAAGUAUUUGCCAUAAGAGUUCCAUUUCAUUUGCAGAUACUUCUGGCUCAAGGGAUGGGCCAGCAGCUCCACGCGUCCAUGUGUGACCAUUGUCUAGUCA--CAGGAGUAU----A
.....((((((((((.....(((......)))....))))))))))((((((((.....))))))))..(((((..(((....)))(((((.........))))--).)))))..----. ( -34.90)
>DroWil_CAF1 172723 107 + 1
AAUGAAAGUAUUUGCCAUAUGAAUUCCAUUUCAUUUGCAAGUACUUUUGGCUAAGUGGAUGGGCCAAUAGCUCAACACGUCCAUGGGUGACCAUGGUCUAG--G--G-CGA--------A
...((((((((((((...(((((......)))))..)))))))))))).(((..(((..(((((.....))))).)))(.((((((....)))))).)...--)--)-)..--------. ( -43.40)
>DroMoj_CAF1 155111 118 + 1
GAUGAAAGUAUUUGCCAUACGAAUUCCAUUUCAUUUGUAAAUAUUUCUGGCUCAGCGGAUGUGCCAGCAGCUCCACACGUCCAUGGGUGACCAUGGUCUAGGCA--GACGGGAAGUGGGG
.....((((((((((.....(((......)))....))))))))))(((((.((.....)).)))))...((((((.(((((((((....)))))((....)).--))))....)))))) ( -38.80)
>DroAna_CAF1 128092 116 + 1
GAUGAAAGUAUUUGCCGUAGGAGUUCCACUUCAUCUGUAGAUACUUCUGGCUGAGAGGAUGGGCCAGCAGCUCCACCCGGCCAUGGGUUACCAUAGUCUAUCCCCCAGAAAUCAA----A
(((....((((((((.(..((((.....))))..).))))))))((((((..((..((.(((((.....)).))).))(((.((((....)))).)))..))..)))))))))..----. ( -35.70)
>consensus
GAUGAAAGUAUUUGCCAUAAGAGUUCCAUUUCAUUUGCAAAUACUUCUGGCUGAGCGGAUGGGCCAGCAGCUCCACACGUCCAUGGGUGACCAUGGUCUAGUCG__AACGA__A_____A
.....((((((((((.(...(((......)))..).))))))))))((((((.(.....).))))))...........(.(((((......))))).)...................... (-18.82 = -18.43 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 3

Location 8,870,237 – 8,870,347
Length 110
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 73.72
Mean single sequence MFE -28.64
Consensus MFE -15.99
Energy contribution -15.43
Covariance contribution -0.55
Combinations/Pair 1.25
Mean z-score -1.76
Structure conservation index 0.56
SVM decision value 0.85
SVM RNA-class probability 0.866732
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8870237 110 - 23771897
AGACUUUAUGCUACCCAUUUCUGAUAUAU--GUUUCCC-UAUAAUCCCUCGAUCAGACCAUGGUAACACAUGGCAGGGUGGAGCUGCUGGCCCAUCCGCUCAGUCAGAAGUAU
..((((....((((((...((((((....--(((....-...)))......))))))(((((......)))))..))))))..((((((((......)).))).))))))).. ( -29.60)
>DroPse_CAF1 159096 100 - 1
CAGAUGCUU--------UUCCUAACACA----UUCCCUCUCUGAUCC-CCGGCCAGACCAUGGUUACCCAUGGACGCGUGGAGCUGCUGGCCCAUCCACUCAGCCAGAAGUAU
...((((((--------((.........----........((((...-..((((((.((((((....))))))..((.....))..)))))).......))))..)))))))) ( -26.01)
>DroGri_CAF1 132484 108 - 1
CAAAUAAACUAU-----UCACUAAUAUAUAUCUUCUAUAUAUACUCCUGUGACUAGACAAUGGUCACACAUGGACGCGUGGAGCUGCUGGCCCAUCCCUUGAGCCAGAAGUAU
...........(-----((((..(((((((.....)))))))..(((((((((((.....))))))))...)))...)))))(((.(((((.((.....)).))))).))).. ( -30.90)
>DroSim_CAF1 127943 112 - 1
CAAAUAUAUCUUUCAAAUUACUAAUAUAUACAUUCCCU-UUUAAUCAAUCGAUCAGACCAUGGUAACCCAUGGCAGGGUGGAGCUGCUGGCCCACCCGCUCAGCCAGAAGUAU
...........................((((.(((...-................(.((((((....))))))).((((((.((.....)))))))).........))))))) ( -26.30)
>DroYak_CAF1 133578 110 - 1
CUAUUGCAUUCUUCGCAUUUCUGAUACAU--GUUAUCC-UGUAAUCCCUCGACCAGACCAUGGUUACCCAUGGCAGGGUGGAGCUGCUGGCCCAUCCGCUCAGCCAGAAGUAU
.....((.......))(((((((.((((.--(....).-))))....(((.(((...((((((....))))))...))).)))..((((((......)).))))))))))).. ( -33.00)
>DroPer_CAF1 151007 100 - 1
CAGAUGCUU--------UUCCUAACACA----UUCCCUCUCUGAUCC-CCGGCCAGACCAUGGUUACCCAUGGACGCGUGGAGCUGCUGGCCCAUCCACUCAGCCAGAAGUAU
...((((((--------((.........----........((((...-..((((((.((((((....))))))..((.....))..)))))).......))))..)))))))) ( -26.01)
>consensus
CAAAUGCAU__U_____UUACUAAUACAU___UUCCCU_UAUAAUCC_UCGACCAGACCAUGGUUACCCAUGGAAGCGUGGAGCUGCUGGCCCAUCCGCUCAGCCAGAAGUAU
.................................................(.((....(((((......)))))....)).).(((.(((((...........))))).))).. (-15.99 = -15.43 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:51 2006