Locus 305

Sequence ID 3L_DroMel_CAF1
Location 874,824 – 874,977
Length 153
Max. P 0.970904
window457 window458

overview

Window 7

Location 874,824 – 874,940
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.98
Mean single sequence MFE -47.63
Consensus MFE -38.88
Energy contribution -36.50
Covariance contribution -2.38
Combinations/Pair 1.43
Mean z-score -2.68
Structure conservation index 0.82
SVM decision value 1.11
SVM RNA-class probability 0.916167
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 874824 116 + 23771897
CAUUUCUCAGCCGGCGUCUGUGUUACGUUCGUGGAAGAUGAAACGC--UCAGCCUCGCCUGCGUUUGGUGAUUGUUUCCGUUCUGGCGAUGGUC--ACCAGACGUUGGGGUUGAUGCACG
(((((..((.(..((((.......))))..)))..)))))....((--(((((((((...((((((((((((..((.((.....)).))..)))--)))))))))))))))))).))... ( -48.00)
>DroSec_CAF1 17717 116 + 1
CAUUUCCCAGCCGGCGUCUGUGUUACGUUCGUGGAAGAUGAAAUGC--UCAGUCUCGCCUGCGUUUGGUGAUUGUUUCCGUUCUGGCGAUGGUU--ACCAGACGUUGAGGUUGAUGCACG
(((((.(((.(..((((.......))))..)))).)))))...(((--(((..((((...((((((((((((..((.((.....)).))..)))--)))))))))))))..))).))).. ( -43.90)
>DroSim_CAF1 12485 116 + 1
CAUUUCCCAGCCGGCGUCUGUGUUACGUUCGUGGAAGAUGAAAUGC--UCAGCCUCGCCUGCGUUUGGUGAUUGUUUCCGUUCUGGCGAUGGUC--ACCAGACGUUGAGGUUGAUGCACG
(((((.(((.(..((((.......))))..)))).)))))...(((--(((((((((...((((((((((((..((.((.....)).))..)))--)))))))))))))))))).))).. ( -50.40)
>DroEre_CAF1 17795 116 + 1
CAUUUGCCAGCCGGCGUCUGUGUUACGUUCGUGGAAGAUGAAACGC--UCAGCCUCGUUUGCGUUUCGUGAUUGUCUCCGUUUUGGCGAUGGUC--ACCAGACGUUGGGGCUGAUGCACG
(((((.(((.(..((((.......))))..)))).)))))....((--(((((((((...((((((.(((((..((.((.....)).))..)))--)).))))))))))))))).))... ( -47.20)
>DroYak_CAF1 17843 116 + 1
CAUUUCCCAGCCGGCGUCUGUGUUACGUUCGUGGAAGAUGAAACGC--UCAGCCUCGUUUGCGUUGGGUGGUUGUCUCCGUUCUGGCGACGGCC--ACCAGACGUUGAGGUUGAUGCACG
(((((.(((.(..((((.......))))..)))).)))))....((--(((((((((...(((((.((((((((((.((.....)).)))))))--))).)))))))))))))).))... ( -52.00)
>DroAna_CAF1 16950 115 + 1
ACUU-----GCUGGCGUCUGUGUUACGUCCGUGGCAGAAAAAAUGCCAUCGGCCCCGUCUGGGUUCGACAACUGCCUCCGUUCUGGUGGCAUUUGCUUCUAACUUUGGGGUCGAUGCACU
...(-----((.(((((.(.((((((....)))))).)....)))))((((((((((...(((((.(((((.((((.((.....)).)))).)))..)).)))))))))))))))))).. ( -44.30)
>consensus
CAUUUCCCAGCCGGCGUCUGUGUUACGUUCGUGGAAGAUGAAACGC__UCAGCCUCGCCUGCGUUUGGUGAUUGUCUCCGUUCUGGCGAUGGUC__ACCAGACGUUGAGGUUGAUGCACG
.........((((.(((((...((((....)))).)))))...))...(((((((((...((((((((((((((((.((.....)).)))))))..)))))))))))))))))).))... (-38.88 = -36.50 +  -2.38)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 8

Location 874,864 – 874,977
Length 113
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.23
Mean single sequence MFE -40.71
Consensus MFE -32.97
Energy contribution -30.65
Covariance contribution -2.32
Combinations/Pair 1.48
Mean z-score -2.89
Structure conservation index 0.81
SVM decision value 1.67
SVM RNA-class probability 0.970904
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 874864 113 + 23771897
AAACGC--UCAGCCUCGCCUGCGUUUGGUGAUUGUUUCCGUUCUGGCGAUGGUC--ACCAGACGUUGGGGUUGAUGCACGUGCUCCGCUUUUUAAUAGAGAUAAUUGUAUUCAAUA--G-
....((--(((((((((...((((((((((((..((.((.....)).))..)))--)))))))))))))))))).))..((((....((((.....))))......))))......--.- ( -41.70)
>DroSec_CAF1 17757 113 + 1
AAAUGC--UCAGUCUCGCCUGCGUUUGGUGAUUGUUUCCGUUCUGGCGAUGGUU--ACCAGACGUUGAGGUUGAUGCACGUGCUCCGCUUUUUAAUAGAGAUAAUUGUAUUCAAUA--G-
...(((--(((..((((...((((((((((((..((.((.....)).))..)))--)))))))))))))..))).))).((((....((((.....))))......))))......--.- ( -36.50)
>DroSim_CAF1 12525 113 + 1
AAAUGC--UCAGCCUCGCCUGCGUUUGGUGAUUGUUUCCGUUCUGGCGAUGGUC--ACCAGACGUUGAGGUUGAUGCACGUGCUCCGCUUUUUAAUAGAGAUAAUUGUAUUCAAUA--G-
...(((--(((((((((...((((((((((((..((.((.....)).))..)))--)))))))))))))))))).))).((((....((((.....))))......))))......--.- ( -43.00)
>DroEre_CAF1 17835 113 + 1
AAACGC--UCAGCCUCGUUUGCGUUUCGUGAUUGUCUCCGUUUUGGCGAUGGUC--ACCAGACGUUGGGGCUGAUGCACGUGCUCCGCUUUUUAAUAGAGAUAAUUACAUUU---GUGUU
....((--(((((((((...((((((.(((((..((.((.....)).))..)))--)).))))))))))))))).))..(((.....((((.....)))).....)))....---..... ( -39.80)
>DroYak_CAF1 17883 116 + 1
AAACGC--UCAGCCUCGUUUGCGUUGGGUGGUUGUCUCCGUUCUGGCGACGGCC--ACCAGACGUUGAGGUUGAUGCACGUGCUCCGCUUUCUAAUAGAGAUAAUCAAAUGUAAUAUGGU
....((--(((((((((...(((((.((((((((((.((.....)).)))))))--))).)))))))))))))).))((((.......((((.....)))).......))))........ ( -45.04)
>DroAna_CAF1 16985 119 + 1
AAAUGCCAUCGGCCCCGUCUGGGUUCGACAACUGCCUCCGUUCUGGUGGCAUUUGCUUCUAACUUUGGGGUCGAUGCACUUGCUCCGCUAUUCGUCAGAGAUUCUAUAGUUAAUUAAGG-
...(((.((((((((((...(((((.(((((.((((.((.....)).)))).)))..)).))))))))))))))))))((((....(((((..(((...)))...)))))....)))).- ( -38.20)
>consensus
AAACGC__UCAGCCUCGCCUGCGUUUGGUGAUUGUCUCCGUUCUGGCGAUGGUC__ACCAGACGUUGAGGUUGAUGCACGUGCUCCGCUUUUUAAUAGAGAUAAUUGUAUUCAAUA__G_
....((..(((((((((...((((((((((((((((.((.....)).)))))))..)))))))))))))))))).((....))...))................................ (-32.97 = -30.65 +  -2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:49 2006