Locus 6443

Sequence ID	3R_DroMel_CAF1
Location	16,877,638 – 16,877,736
Length	98
Max. P	0.995354

overview

Window 9

Location	16,877,638 – 16,877,736
Length	98
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	72.62
Mean single sequence MFE	-32.14
Consensus MFE	-20.81
Energy contribution	-22.13
Covariance contribution	1.33
Combinations/Pair	1.31
Mean z-score	-2.55
Structure conservation index	0.65
SVM decision value	2.57
SVM RNA-class probability	0.995354
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16877638 98 + 27905053
CAACAACGGACGCCAACCCAAUCCCCGCCAGCCAGGUUGAACCGAAUUUUAACCUGG-CCCCGGAAAACUCUGCCACAUUGUGUCCGUUGUCGAGUGGU
(.(((((((((((.................(((((((((((......))))))))))-)..((((....)))).......))))))))))).)...... ( -35.60)
>DroSec_CAF1 7965 98 + 1
CAACAACGGACGCCAACCCAAUCCCCGCCAGCCAGGUUGAACCGGAUUUUAACCUGG-CCCCGAAGAACUCUGCCACAUUGUGUCCGUUGUCGAGUGGU
(.(((((((((((............((...(((((((((((......))))))))))-)..)).((....))........))))))))))).)...... ( -33.70)
>DroEre_CAF1 7887 98 + 1
CAACAGCGGACGCCAACCCAAUCCCCGCCAGCCAGGUCGAACCGGAAUUUAACCUGG-CCCCGGAGAACUCUGCCACAUUGUGUCCGUUGUCGAGUGGU
(.(((((((((((...........(((...(((((((..((......))..))))))-)..)))((....))........))))))))))).)...... ( -34.30)
>DroWil_CAF1 42297 93 + 1
CAACAAUAGACACAAAUCCCUUUCCA---UGCCAGAUGAAAAUUGG---UCAUCUGGUUUAUGGAAAUCCUUGCCACAUUUGGUCCAUUGUUGAGUGAU
(((((((.(((.(((((...((((((---((((((((((.......---)))))))))..)))))))..........)))))))).)))))))...... ( -30.52)
>DroYak_CAF1 8816 98 + 1
CAACAGCGGACGCCAACCCAAUCCCCGCCAGCCAGGUCGAAACGGAUUUUAACCUGU-CCCCGGAGAACUCUGCCACAUUGUGUCCGUUGUCGAGUGGU
(.(((((((((((...........(((...(.(((((..(((....)))..))))).-)..)))((....))........))))))))))).)...... ( -27.90)
>DroAna_CAF1 7302 77 + 1
CAACAACGAGCGCCAGUCCAUUUUCCGGGAGUCC---------------------CU-UCCCGGAAAACUUUGCCACACGGCGUCCGCUGUUGAGUGGU
(((((.((..((((......(((((((((((...---------------------.)-))))))))))....(.....)))))..)).)))))...... ( -30.80)
>consensus
CAACAACGGACGCCAACCCAAUCCCCGCCAGCCAGGUCGAACCGGAUUUUAACCUGG_CCCCGGAAAACUCUGCCACAUUGUGUCCGUUGUCGAGUGGU
(.(((((((((((..................((((((((((......)))))))))).....((((....)).)).....))))))))))).)...... (-20.81 = -22.13 +   1.33)

alignment

secondary structure

dotplot

Window 0

Location	16,877,638 – 16,877,736
Length	98
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	72.62
Mean single sequence MFE	-37.10
Consensus MFE	-26.77
Energy contribution	-26.17
Covariance contribution	-0.60
Combinations/Pair	1.48
Mean z-score	-2.36
Structure conservation index	0.72
SVM decision value	2.39
SVM RNA-class probability	0.993348
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16877638 98 - 27905053
ACCACUCGACAACGGACACAAUGUGGCAGAGUUUUCCGGGG-CCAGGUUAAAAUUCGGUUCAACCUGGCUGGCGGGGAUUGGGUUGGCGUCCGUUGUUG
......(((((((((((.((((.(((......(..(((.((-(((((((.((......)).)))))))))..)))..)))).))))..))))))))))) ( -39.20)
>DroSec_CAF1 7965 98 - 1
ACCACUCGACAACGGACACAAUGUGGCAGAGUUCUUCGGGG-CCAGGUUAAAAUCCGGUUCAACCUGGCUGGCGGGGAUUGGGUUGGCGUCCGUUGUUG
......(((((((((((..(((.((((.(((...)))...)-))).))).....((((..((((((.(....).))).)))..)))).))))))))))) ( -39.60)
>DroEre_CAF1 7887 98 - 1
ACCACUCGACAACGGACACAAUGUGGCAGAGUUCUCCGGGG-CCAGGUUAAAUUCCGGUUCGACCUGGCUGGCGGGGAUUGGGUUGGCGUCCGCUGUUG
......(((((.(((((.((((.(((......((((((.((-((((((..(((....)))..))))))))..))))))))).))))..))))).))))) ( -40.30)
>DroWil_CAF1 42297 93 - 1
AUCACUCAACAAUGGACCAAAUGUGGCAAGGAUUUCCAUAAACCAGAUGA---CCAAUUUUCAUCUGGCA---UGGAAAGGGAUUUGUGUCUAUUGUUG
......((((((((((((((((.(........(((((((...((((((((---.......)))))))).)---)))))).).))))).))))))))))) ( -33.40)
>DroYak_CAF1 8816 98 - 1
ACCACUCGACAACGGACACAAUGUGGCAGAGUUCUCCGGGG-ACAGGUUAAAAUCCGUUUCGACCUGGCUGGCGGGGAUUGGGUUGGCGUCCGCUGUUG
......(((((.(((((.(.....(((..((((((((.((.-.(((((..(((....)))..))))).)).).)))))))..))).).))))).))))) ( -32.90)
>DroAna_CAF1 7302 77 - 1
ACCACUCAACAGCGGACGCCGUGUGGCAAAGUUUUCCGGGA-AG---------------------GGACUCCCGGAAAAUGGACUGGCGCUCGUUGUUG
......((((((((..(((((.((..(...(((((((((((-..---------------------....))))))))))).))))))))..)))))))) ( -37.20)
>consensus
ACCACUCGACAACGGACACAAUGUGGCAGAGUUCUCCGGGG_CCAGGUUAAAAUCCGGUUCAACCUGGCUGGCGGGGAUUGGGUUGGCGUCCGUUGUUG
......(((((((((((.((((.(((......((((((....(((((((............)))))))....))))))))).))))..))))))))))) (-26.77 = -26.17 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:40 2006