Locus 4479

Sequence ID	X_DroMel_CAF1
Location	11,855,092 – 11,855,189
Length	97
Max. P	0.579299

overview

Window 4

Location	11,855,092 – 11,855,189
Length	97
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	78.34
Mean single sequence MFE	-25.41
Consensus MFE	-15.73
Energy contribution	-15.87
Covariance contribution	0.14
Combinations/Pair	1.14
Mean z-score	-1.38
Structure conservation index	0.62
SVM decision value	0.02
SVM RNA-class probability	0.545304
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11855092 97 + 22224390
GACAAUG--GCCAUGGAAGACGUGCAGAAGCACAGCGUGCACACGCUGAUAUUCCGCUCCCUGAAGCGCACCCACGAUCUGUUCGUCUCCAACCAGGGA
..(..((--(...((((.((((.(((((....((((((....))))))......((((......)))).........))))).)))))))).)))..). ( -33.70)
>DroPse_CAF1 4741 97 + 1
--UAUUUGAUCAAUGGAGGACGUGCAAAAACACAGCGUGCACACGCUUAUAUUCCGCUCCCUAAAGCGCACACACGAUCUAUUCGUCUCCAAUCAAGGA
--..((((((...(((((...((((........(((((....)))))........(((......)))))))..((((.....))))))))))))))).. ( -27.60)
>DroWil_CAF1 12954 91 + 1
AA--------AAAUGGAAGAUGUACAAAAGCAUAGCGUGCAUACGCUUAUCUUUCGCUCUCUUAAACGUACACAUGAUUUGUUUGUCUCAAAUCAGGGA
..--------....((((((((...........(((((....)))))))))))))..((((......(....).(((((((.......))))))))))) ( -17.10)
>DroMoj_CAF1 11429 97 + 1
GGACAUA--AGCAUGGAAGAUGUACAAAAGCACAGCGUGCAUACGCUUAUAUUUAGAUCACUUAAACGCACACAUGAUCUGUUUGUCUCGAAUCAGGGU
(((((((--(((.((.........))...((((...))))....))))))...(((((((..............)))))))...))))........... ( -17.34)
>DroAna_CAF1 10338 94 + 1
GCCA-----GCGAUGGAGGAUGUGCAAAAACACAGCGUGCACACGCUGAUCUUCCGCUCCCUGAAGCGCACCCACGACCUGUUCGUCUCCAACCAGGGA
((((-----(.((((((((((((......)).((((((....)))))))))))))).)).)))..))...(((((((.....)))).........))). ( -29.10)
>DroPer_CAF1 4812 97 + 1
--UAUUUGAUCAAUGGAGGACGUGCAAAAACACAGCGUGCACACGCUUAUAUUCCGCUCCCUAAAGCGCACACACGAUCUGUUCGUCUCCAAUCAAGGA
--..((((((...(((((...((((........(((((....)))))........(((......)))))))..((((.....))))))))))))))).. ( -27.60)
>consensus
G_CA_U___GCAAUGGAAGACGUGCAAAAACACAGCGUGCACACGCUUAUAUUCCGCUCCCUAAAGCGCACACACGAUCUGUUCGUCUCCAAUCAGGGA
.............((((.(((((((........(((((....)))))........(((......)))))))....((.....)))))))))........ (-15.73 = -15.87 +   0.14)

alignment

secondary structure

dotplot

Window 5

Location	11,855,092 – 11,855,189
Length	97
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	78.34
Mean single sequence MFE	-29.16
Consensus MFE	-19.65
Energy contribution	-19.26
Covariance contribution	-0.39
Combinations/Pair	1.33
Mean z-score	-1.19
Structure conservation index	0.67
SVM decision value	0.09
SVM RNA-class probability	0.579299
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11855092 97 - 22224390
UCCCUGGUUGGAGACGAACAGAUCGUGGGUGCGCUUCAGGGAGCGGAAUAUCAGCGUGUGCACGCUGUGCUUCUGCACGUCUUCCAUGGC--CAUUGUC
....(((((((((((((.....))....((((((((....))))((((...((((((....))))))...))))))))))).))))..))--))..... ( -34.60)
>DroPse_CAF1 4741 97 - 1
UCCUUGAUUGGAGACGAAUAGAUCGUGUGUGCGCUUUAGGGAGCGGAAUAUAAGCGUGUGCACGCUGUGUUUUUGCACGUCCUCCAUUGAUCAAAUA--
...((((((((((((((.....))))..((((((((....))))((((((((.((((....)))))))))))).))))...)))))...)))))...-- ( -31.30)
>DroWil_CAF1 12954 91 - 1
UCCCUGAUUUGAGACAAACAAAUCAUGUGUACGUUUAAGAGAGCGAAAGAUAAGCGUAUGCACGCUAUGCUUUUGUACAUCUUCCAUUU--------UU
....(((((((.......))))))).((((((((((....))))(((((...(((((....)))))...))))))))))).........--------.. ( -21.20)
>DroMoj_CAF1 11429 97 - 1
ACCCUGAUUCGAGACAAACAGAUCAUGUGUGCGUUUAAGUGAUCUAAAUAUAAGCGUAUGCACGCUGUGCUUUUGUACAUCUUCCAUGCU--UAUGUCC
.....(((..(((......((((..((((((((((((.((.......)).))))))))))))....((((....))))))))......))--)..))). ( -20.90)
>DroAna_CAF1 10338 94 - 1
UCCCUGGUUGGAGACGAACAGGUCGUGGGUGCGCUUCAGGGAGCGGAAGAUCAGCGUGUGCACGCUGUGUUUUUGCACAUCCUCCAUCGC-----UGGC
...(..(((((((((((.....))))..((((((((....)))).((((((((((((....)))))).))))))))))...)))))..))-----..). ( -35.60)
>DroPer_CAF1 4812 97 - 1
UCCUUGAUUGGAGACGAACAGAUCGUGUGUGCGCUUUAGGGAGCGGAAUAUAAGCGUGUGCACGCUGUGUUUUUGCACGUCCUCCAUUGAUCAAAUA--
...(((((((((((((.((((..((((((..(((((...............)))))..))))))))))((....)).))).)))))...)))))...-- ( -31.36)
>consensus
UCCCUGAUUGGAGACGAACAGAUCGUGUGUGCGCUUAAGGGAGCGGAAUAUAAGCGUGUGCACGCUGUGCUUUUGCACAUCCUCCAUUGA___A_UA_C
........(((((..........((((..(((((((...............)))))))..)))).(((((....)))))..)))))............. (-19.65 = -19.26 +  -0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:08 2006