Locus 4539

Sequence ID	2R_DroMel_CAF1
Location	14,843,170 – 14,843,367
Length	197
Max. P	0.915649

overview

Window 7

Location	14,843,170 – 14,843,266
Length	96
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	87.68
Mean single sequence MFE	-23.04
Consensus MFE	-16.41
Energy contribution	-16.29
Covariance contribution	-0.12
Combinations/Pair	1.15
Mean z-score	-2.13
Structure conservation index	0.71
SVM decision value	0.55
SVM RNA-class probability	0.778465
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14843170 96 - 20766785
ACCACCACGAGCUUUUUACAUUU----AUUCCUUUUGAAAUGUGCUAAAAAGCAACAGACCAGAAGUAAUUUCUGUAAUCCCCUUGCAGCUGGUGGUGAU
..((((((.((((..(((((...----(((.((((((...((((((....))).)))...)))))).)))...))))).........)))).)))))).. ( -28.70)
>DroSec_CAF1 15563 97 - 1
AC---CACGAGCUUUUUACAUUUUCGUUUUCGUUUUUAAAAGUGCUAAAAAGCAACAGACCAGAAGUAAUUUCUGUAAUCCCCUUGCAGUUGGUGGUGAU
((---(((..((((((((((((((((....))......)))))).))))))))...................((((((.....))))))...)))))... ( -21.10)
>DroSim_CAF1 15666 93 - 1
AC---CACGAGCUUUUUACAUUU----AUUCCUUUUUAAAAGUGCUAAAAAGCAACAGACCAGAAGUAAUUUCUGUAAUCCCCUUGCAGCUGGUGGUGAU
((---(((..(((((((((((((----............))))).))))))))..(((....(((....)))((((((.....))))))))))))))... ( -22.20)
>DroEre_CAF1 15647 92 - 1
AC---ACAGAGCUCUUUGCAUUU----AUUCCAUUUUA-AAGUGCCAAAAGGCAACAGACCAGAAGUAAUUUCUGUAAUCUCCUUGCAGCUGGUGGUGAU
.(---((...((..(((((((((----...........-))))).))))..)).....(((((.........((((((.....))))))))))).))).. ( -20.30)
>DroYak_CAF1 15965 93 - 1
AC---ACAAAGCUUUUUGCAUUU----AAUCCAUUUUAAAAGUGCUAAAAAGCAACAGAGCAGAAGUAAUUCCUGUAAUCCCAUUGCAGCUGGUGGUGAU
.(---((...(((((((((((((----............)))))).)))))))..(((....(((....)))(((((((...)))))))))))))..... ( -22.90)
>consensus
AC___CACGAGCUUUUUACAUUU____AUUCCUUUUUAAAAGUGCUAAAAAGCAACAGACCAGAAGUAAUUUCUGUAAUCCCCUUGCAGCUGGUGGUGAU
..........(((((((((((((................))))).)))))))).((..(((((.........((((((.....))))))))))).))... (-16.41 = -16.29 +  -0.12)

alignment

secondary structure

dotplot

Window 8

Location	14,843,266 – 14,843,367
Length	101
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	79.56
Mean single sequence MFE	-24.46
Consensus MFE	-13.80
Energy contribution	-15.32
Covariance contribution	1.52
Combinations/Pair	1.21
Mean z-score	-2.27
Structure conservation index	0.56
SVM decision value	1.10
SVM RNA-class probability	0.915649
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14843266 101 + 20766785
AAUCUCUGCCAAUUUGUUUCUUUAAAGCCAGGCUAACAUAUAAACAGAGU--GUCUAUUUUAAAUGAAAUGCAAAUGGCAUAGAA-ACUAGUGCUUCUG--------GAAUU-
..(((.(((((.(((((((((((((((..((((.................--)))).))))))).)))..)))))))))).))).-.((((.....)))--------)....- ( -21.83)
>DroSec_CAF1 15660 106 + 1
AAUCUCUGCCAAUUUGUUUCUUUAAAGCCAGGCUAACAUA-AAACAGAGU--GUCUGUUUUAAAUGA-AUGCAAAUGGCAUAGAA-ACUAGUGCUUCUGU-GCACUUGAAUC-
..(((.(((((.((((((((((((((((.((((.......-.........--)))))))))))).))-).)))))))))).))).-.(.(((((......-))))).)....- ( -30.69)
>DroSim_CAF1 15759 106 + 1
AAUCUCUGCCAAUUUGUUUCUUUAAAGCCAGGCUAACAUA-AAACAGAGU--GUCUGUUUUAAAUGA-AUGCAAAUGGCAUAGAA-ACUAGUGCUUCUGU-GCACUUGGAUC-
..(((.(((((.((((((((((((((((.((((.......-.........--)))))))))))).))-).)))))))))).))).-.(((((((......-)))).)))...- ( -31.09)
>DroEre_CAF1 15739 96 + 1
AAUCUCUGCCAAUUUGUUCCUGUGAAGCCAGACUAACAUA-UAACCGAGUGUGUCUGCAUUAAAUGA-AUACAAAUGGCAUAGAAAACUAGUGC--------------UAUC-
..(((.(((((.(((((((...(((.((.((((..((((.-.......)))))))))).)))...))-..)))))))))).)))..........--------------....- ( -21.60)
>DroYak_CAF1 16058 102 + 1
AAUCUCUGUCAAUUU------UUGAAGCCACACUAGCAUU-UGACCAAGU--GUCUGUAUUAAAUGA-AUACAAACGGCUUAGAA-ACUAGUUAUUCUGUAGCACUUGUAUCU
.......(((((...------.((.((.....))..)).)-))))(((((--((.((((((.....)-))))).)).((((((((-........))))).))))))))..... ( -17.10)
>consensus
AAUCUCUGCCAAUUUGUUUCUUUAAAGCCAGGCUAACAUA_AAACAGAGU__GUCUGUUUUAAAUGA_AUGCAAAUGGCAUAGAA_ACUAGUGCUUCUGU_GCACUUGAAUC_
..(((.(((((.(((((.((((((((((.((((..((...........))..)))))))))))).))...)))))))))).)))............................. (-13.80 = -15.32 +   1.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:35 2006