Locus 6020

Sequence ID 2L_DroMel_CAF1
Location 16,961,830 – 16,962,001
Length 171
Max. P 0.812542
window9558 window9559

overview

Window 8

Location 16,961,830 – 16,961,921
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 76.31
Mean single sequence MFE -25.27
Consensus MFE -15.62
Energy contribution -16.23
Covariance contribution 0.62
Combinations/Pair 1.33
Mean z-score -1.60
Structure conservation index 0.62
SVM decision value 0.65
SVM RNA-class probability 0.812542
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16961830 91 - 22407834
AUCGGAAUAUAGGUAUGUAUGCUCGUAUAUAUGUACAUAAUGCUGCCUCACAUGCGGUUGCAGCUUUGUGCGUCGGCAUGACUGCCAACCA
...........((((..(((((.((.....(((((((...(((.(((.(....).))).)))....))))))))))))))..))))..... ( -26.20)
>DroSec_CAF1 69476 91 - 1
AUCGGAAUAUAGGUAUGUAUGCACGUAUAUAUGUACAUAAUGCUGCCUCACAUGCGGUUGCAGCUUUGUGCGUCGGCAUGACUGCCGGCCA
............((((((((....))))))))(((((...(((.(((.(....).))).)))....)))))(((((((....))))))).. ( -29.70)
>DroSim_CAF1 71637 91 - 1
AUCGGAAUAUAGGUAUGUAUGCACGUAUAUAUGUACAUAAUGCUGCCUCACAUGCGGUUGCAGCUUUGUGCGUCGGCAUGACUGCCGGCCA
............((((((((....))))))))(((((...(((.(((.(....).))).)))....)))))(((((((....))))))).. ( -29.70)
>DroEre_CAF1 72288 83 - 1
AUCGGAAUAUAUGUAUGU--------UUGUAUGUACAUAAUAUUGCCUCACAUGCGGUUGCAGCUUUGUGCGUCGGCAUGGCUGCCGGCCA
...(((((((((((((((--------....)))))))).))))).))........((((((((((..((((....))))))))).))))). ( -27.80)
>DroYak_CAF1 71146 83 - 1
AUAGAAAUAUAUGUACGU--------UUGUAUAUACAUAAUAUGGCCUCACAUGCGGUUGCAGCUUUGUGCGUCGGCAUGACUGUCGGCCA
.........(((((((..--------..))))))).......(((((.(((((((.(.((((......)))).).)))))..))..))))) ( -23.80)
>DroAna_CAF1 63785 72 - 1
-------------------CACUCGCACACACAACUACCAGACAGCCUCACAUGCGGUUGCAGUUUUAUGCGUUGGCAUGACUCCCGGCCA
-------------------.........................(((...(((((.(.((((......)))).).)))))......))).. ( -14.40)
>consensus
AUCGGAAUAUAGGUAUGU_UGC_CGUAUAUAUGUACAUAAUACUGCCUCACAUGCGGUUGCAGCUUUGUGCGUCGGCAUGACUGCCGGCCA
................................(((((....(((((..(.......)..)))))..)))))(((((((....))))))).. (-15.62 = -16.23 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,961,881 – 16,962,001
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.47
Mean single sequence MFE -27.76
Consensus MFE -17.56
Energy contribution -18.12
Covariance contribution 0.56
Combinations/Pair 1.23
Mean z-score -1.96
Structure conservation index 0.63
SVM decision value 0.25
SVM RNA-class probability 0.654277
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16961881 120 + 22407834
UUAUGUACAUAUAUACGAGCAUACAUACCUAUAUUCCGAUGUGUUGCGAUGUCCUAUCUGAAAGUGUUCUUGCACGACACUCCCUACUUUUGGAAUUAGGCUUUAAUUCUAACUCUUCUC
.(((((.(........).)))))....((((.(((((((...((.(.(((((((.....)...((((....)))))))).)).).))..))))))))))).................... ( -20.70)
>DroSec_CAF1 69527 120 + 1
UUAUGUACAUAUAUACGUGCAUACAUACCUAUAUUCCGAUGUGUGGGGAUGUCCUAUCUGAAAGUGUUCUUGCAUGACACUCCCUACUUUUGGAAUUAGGCUUUAAUUCUAACUCUGCUC
.(((((((........)))))))....((((.(((((((...(((((((((((......(((....)))......)))).)))))))..))))))))))).................... ( -34.10)
>DroSim_CAF1 71688 120 + 1
UUAUGUACAUAUAUACGUGCAUACAUACCUAUAUUCCGAUGUGUGGGGAUGUCCUAUCUGAAAGUGUGCUUGCAUGACACUCCCUACUUUUGGAAUUAGGCUUUAAUUCUAACUCUAUUC
.(((((((........)))))))....((((.(((((((...(((((((((((.....((.(((....))).)).)))).)))))))..))))))))))).................... ( -34.00)
>DroEre_CAF1 72339 112 + 1
UUAUGUACAUACAA--------ACAUACAUAUAUUCCGAUGUGUGGGGAUGUUCCAUUUGAGAGCGUUCUGGCAUGACACUCCUUGUUUUUUGAAUUAGGCUAAAACUCGAACUCUGCUC
((((((........--------.(((((((........)))))))((((((((((....).))))))))).))))))....(((.((((...)))).))).................... ( -21.80)
>DroYak_CAF1 71197 112 + 1
UUAUGUAUAUACAA--------ACGUACAUAUAUUUCUAUGUGUGGGGAUGUUAUAUCUGAGGGUGUUCUGGCAAGACACUCCUUAUUUUUCGAAUUAGGCUAAAAUUCGAACUCUGCUC
....(((((.(((.--------.(.((((((((....)))))))).)..)))))))).(((((((((.((....)))))).)))))...((((((((.......))))))))........ ( -28.20)
>consensus
UUAUGUACAUAUAUACG_GCAUACAUACCUAUAUUCCGAUGUGUGGGGAUGUCCUAUCUGAAAGUGUUCUUGCAUGACACUCCCUACUUUUGGAAUUAGGCUUUAAUUCUAACUCUGCUC
.((((((..............))))))((((.(((((((...(((((((((((......(((....)))......)))).)))))))..))))))))))).................... (-17.56 = -18.12 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:00 2006