Locus 1656

Sequence ID 2L_DroMel_CAF1
Location 4,478,097 – 4,478,212
Length 115
Max. P 0.959246
window2651 window2652

overview

Window 1

Location 4,478,097 – 4,478,212
Length 115
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 82.19
Mean single sequence MFE -45.46
Consensus MFE -39.34
Energy contribution -39.46
Covariance contribution 0.12
Combinations/Pair 1.28
Mean z-score -2.64
Structure conservation index 0.87
SVM decision value 1.50
SVM RNA-class probability 0.959246
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4478097 115 + 22407834
AUCCCACCAGCUAUCAUCGCAUCGGGAAAAGACAUGCACUGUGAAACGGGCGCCGGAAACGGAAAUUCGCUGCAUAGUUUCCGGCGCGUUGACAGUUGCAUGCUGUUCCCGAUGG
...................(((((((((.((.((((((((((.((....(((((((((((................))))))))))).)).)))).)))))))).))))))))). ( -53.19)
>DroPse_CAF1 37126 113 + 1
AUACUCUCAAUU-AACUCCCAUCAAGUACAGUGGCGCUCUAUG-AACAGGCACCGGAAACGAAAAUUCGCUGCGUAGUUUCCGGUGCGUUGACAGCAGCGGACUCUCCUUGCUGG
..........((-(((...(((..((..(....)..))..)))-.....(((((((((((................))))))))))))))))((((((.((.....)))))))). ( -35.19)
>DroSec_CAF1 14109 115 + 1
AUCCCACCAGCUACAAUUGCAUCGGGAAAAGACAUGCUCUGUGAAACGGGCGCCGGAAACGGAAAUUCGCUGCAUAGUUUCCGGCGCGUUGACAGCUGCGCGCUGUUCCCGAUGG
...................(((((((((.((.(.(((.((((.((....(((((((((((................))))))))))).)).))))..))).))).))))))))). ( -46.19)
>DroSim_CAF1 14106 115 + 1
AUCCCACCAGCUAUAAUCGCAUUGGGAAAAGACAUGCUCUGUGAAACGGGCGCCGGAAACGGAAAUUCGCUGCAUAGUUUCCGGCGCGUUGACAGCUGCGCGCUCUUCCCGAUGG
...................(((((((((.((.(.(((.((((.((....(((((((((((................))))))))))).)).))))..))).))).))))))))). ( -44.09)
>DroYak_CAF1 14487 115 + 1
AUCCCACCAGCAAUCAUCGCAUCGUGAAAAGACAUGCUCUGUGAAACGGGCGCCGGAAACGGAAAUUCGCUGCAUAGUUUCCGGCGCGUUGACAGAGGCGUGCUGUUCCCGAUGG
...................(((((.(((.((.((((((((((.((....(((((((((((................))))))))))).)).))))).))))))).))).))))). ( -45.89)
>DroAna_CAF1 17542 111 + 1
--UCCCGCAGCU-UGCUCGCAUCAGGGACAGAAGCGCUGCGU-AAACGGGCGCCGGAAACGAAAAUUCGCUGCAUAGUUUCCGGCGCGUUGACAGCAGCGCCCUCUUCCGGAUGG
--....((....-.))...((((..(((.(((.(((((((((-.(((..(((((((((((................)))))))))))))).)).)))))))..)))))).)))). ( -48.19)
>consensus
AUCCCACCAGCUAUAAUCGCAUCGGGAAAAGACAUGCUCUGUGAAACGGGCGCCGGAAACGGAAAUUCGCUGCAUAGUUUCCGGCGCGUUGACAGCUGCGCGCUCUUCCCGAUGG
...................(((((((((.((...((((((((.((....(((((((((((................))))))))))).)).)))).))))..)).))))))))). (-39.34 = -39.46 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,478,097 – 4,478,212
Length 115
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 82.19
Mean single sequence MFE -44.84
Consensus MFE -34.25
Energy contribution -34.26
Covariance contribution 0.00
Combinations/Pair 1.24
Mean z-score -2.26
Structure conservation index 0.76
SVM decision value 0.84
SVM RNA-class probability 0.863110
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4478097 115 - 22407834
CCAUCGGGAACAGCAUGCAACUGUCAACGCGCCGGAAACUAUGCAGCGAAUUUCCGUUUCCGGCGCCCGUUUCACAGUGCAUGUCUUUUCCCGAUGCGAUGAUAGCUGGUGGGAU
((((((((((.((((((((.((((.((((((((((((((................)))))))))))..)))..)))))))))).)).)))))...((.......)).)))))... ( -50.99)
>DroPse_CAF1 37126 113 - 1
CCAGCAAGGAGAGUCCGCUGCUGUCAACGCACCGGAAACUACGCAGCGAAUUUUCGUUUCCGGUGCCUGUU-CAUAGAGCGCCACUGUACUUGAUGGGAGUU-AAUUGAGAGUAU
(((.((((.(.(((.((((.((((.((((((((((((((................)))))))))))..)))-.))))))))..))).).)))).))).....-............ ( -38.09)
>DroSec_CAF1 14109 115 - 1
CCAUCGGGAACAGCGCGCAGCUGUCAACGCGCCGGAAACUAUGCAGCGAAUUUCCGUUUCCGGCGCCCGUUUCACAGAGCAUGUCUUUUCCCGAUGCAAUUGUAGCUGGUGGGAU
((((((((((.((((.((..((((.((((((((((((((................)))))))))))..)))..)))).)).)).)).)))))..(((....)))...)))))... ( -42.79)
>DroSim_CAF1 14106 115 - 1
CCAUCGGGAAGAGCGCGCAGCUGUCAACGCGCCGGAAACUAUGCAGCGAAUUUCCGUUUCCGGCGCCCGUUUCACAGAGCAUGUCUUUUCCCAAUGCGAUUAUAGCUGGUGGGAU
(((((((((((((((.((..((((.((((((((((((((................)))))))))))..)))..)))).)).)).))))))))...((.......)).)))))... ( -46.99)
>DroYak_CAF1 14487 115 - 1
CCAUCGGGAACAGCACGCCUCUGUCAACGCGCCGGAAACUAUGCAGCGAAUUUCCGUUUCCGGCGCCCGUUUCACAGAGCAUGUCUUUUCACGAUGCGAUGAUUGCUGGUGGGAU
(((((((.((((...(((((((((.((((((((((((((................)))))))))))..)))..))))))...(((.......)))))).)).)).)))))))... ( -42.39)
>DroAna_CAF1 17542 111 - 1
CCAUCCGGAAGAGGGCGCUGCUGUCAACGCGCCGGAAACUAUGCAGCGAAUUUUCGUUUCCGGCGCCCGUUU-ACGCAGCGCUUCUGUCCCUGAUGCGAGCA-AGCUGCGGGA--
...((((((.(..((((((((.((.((((((((((((((................)))))))))))..))).-))))))))))..).)))....(((.((..-..))))))))-- ( -47.79)
>consensus
CCAUCGGGAACAGCGCGCAGCUGUCAACGCGCCGGAAACUAUGCAGCGAAUUUCCGUUUCCGGCGCCCGUUUCACAGAGCAUGUCUUUUCCCGAUGCGAUUAUAGCUGGUGGGAU
.(((((((((.((((.((..((((.((((((((((((((................)))))))))))..)))..)))).)).)).)).)))))))))................... (-34.25 = -34.26 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:42 2006