Locus 1607

Sequence ID	2R_DroMel_CAF1
Location	6,029,723 – 6,029,855
Length	132
Max. P	0.828952

overview

Window 3

Location	6,029,723 – 6,029,815
Length	92
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	82.24
Mean single sequence MFE	-33.03
Consensus MFE	-23.00
Energy contribution	-23.12
Covariance contribution	0.11
Combinations/Pair	1.06
Mean z-score	-2.41
Structure conservation index	0.70
SVM decision value	0.71
SVM RNA-class probability	0.828952
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6029723 92 - 20766785
AAAAAGGACUUCCUGCCGCUGGCCUUUCAGAUGCAGGCCUCCACGGGAAUAGCCACCAAAUGGGAGGCCACCGCAUAGGG---AGGU-GGCCCCAA
....(((....)))((((((..((((....((((.(((((((...((........)).....)))))))...))))))))---.)))-)))..... ( -35.50)
>DroSim_CAF1 47713 92 - 1
AAAAAGGACUUCCUGCCGCUGGCCUUUCAGAUGCAGGCCUCCACGGGAAUAGCCACCAAAUGGGAGGCCACCGCAUAGGG---AGGU-GGCACCAA
....(((....)))((((((..((((....((((.(((((((...((........)).....)))))))...))))))))---.)))-)))..... ( -36.40)
>DroEre_CAF1 48188 95 - 1
AAAAAGGACUUCCUGCCGCUGGCCUUUCAGAUGCAGGCCUCCACGGGAAUAGCCACCAAAUGGGAGGCCACCGCAUAGGCUAACCAC-CAACUCCC
.....((....((((.((.((((((..((..((..(((.(((...)))...)))..))..))..)))))).))..))))....))..-........ ( -29.60)
>DroYak_CAF1 47535 95 - 1
AAAAAGGACUUCCUGCCGCUGGCCUUUCAGAUGCAGGCCUCCACGGGAAUAGCCACCAAAUGGGAGGCCACCGCAUAGAGGGAAGAU-GGUCCCAA
.....(((((..(((((...)))(((((..((((.(((((((...((........)).....)))))))...)))).))))).))..-)))))... ( -33.80)
>DroAna_CAF1 50544 92 - 1
AAAAAGGACUUCCUGCCCCUGGCCUUCCAGAUGCAGACCUCCA---GCCUCUCCACCAAAUGGGAGGCCACCGCAUAAGCAUAACUU-UGCUCAAA
.....(((....((((..((((....))))..))))...))).---(((((.(((.....)))))))).........((((......-)))).... ( -27.90)
>DroPer_CAF1 46322 90 - 1
AAGAAGGACUUCCUGCCGCUGGCCUUCCAGAUGCAGGCCUCC---GGCAUUCAGACCAAGUGGGAGGCCACCGCAUAAGG---GGCUAUGCUACAC
....(((....)))...(((((((..((..((((.(((((((---.((...........)).)))))))...))))..))---))))).))..... ( -35.00)
>consensus
AAAAAGGACUUCCUGCCGCUGGCCUUUCAGAUGCAGGCCUCCACGGGAAUAGCCACCAAAUGGGAGGCCACCGCAUAGGG___AGAU_GGCCCCAA
.....((......(((..((((....))))..)))(((((((...((........)).....))))))).))........................ (-23.00 = -23.12 +   0.11)

alignment

secondary structure

dotplot

Window 4

Location	6,029,735 – 6,029,855
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.93
Mean single sequence MFE	-24.83
Consensus MFE	-14.30
Energy contribution	-14.41
Covariance contribution	0.11
Combinations/Pair	1.22
Mean z-score	-1.92
Structure conservation index	0.58
SVM decision value	0.11
SVM RNA-class probability	0.589488
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6029735 120 - 20766785
CAACCUAACCAAGCACAUCAAGACCCAUUUUGCCAAAAUGAAAAAGGACUUCCUGCCGCUGGCCUUUCAGAUGCAGGCCUCCACGGGAAUAGCCACCAAAUGGGAGGCCACCGCAUAGGG
...((((.....((...........(((((.....)))))....(((....))))).((((((((..((..((..(((.(((...)))...)))..))..))..))))))..)).)))). ( -33.60)
>DroVir_CAF1 65589 114 - 1
UAAUUUAACCAAACAUAUUAAAACUCAUUUUGCCAAAAUGAAAAAGGAUUUCCUGCCGCUGGCAUUUCAAAUGCAGGCAGCCA---GCAUACAAACCAAAUGGGAA---ACGGCAUAAAA
........................((((((.....))))))...(((....)))(((((((((................))))---))..............(...---.))))...... ( -22.99)
>DroGri_CAF1 56284 114 - 1
UAAUCUAACCAAGCAUAUUAAAACUCAUUUUGCCAAGAUGAAAAAGGAUUUCCUGCCGCUGGCAUUUCAAAUGCAGGCAGCCA---GCAUACAAACCAAAUGGGAA---ACAGCAUAAAA
........(((.((..........((((((.....))))))...(((....))))).((((((................))))---))............)))...---........... ( -20.49)
>DroWil_CAF1 57851 117 - 1
UAAUUUGACCAAGCAUAUUAAAACUCAUUUUGCUAAAAUGAAAAAGGAUUUCUUGCCAUUGGCAUUUCAAAUGCAGGCCACCAGUUGCCUGCAAACUAAAUGGGAAA---CUGCUUAAAA
..(((((((((((((.(((.....((((((.....)))))).....)))....)))..))))....))))))((((((........))))))....(((..((....---))..)))... ( -25.30)
>DroMoj_CAF1 60845 114 - 1
CAACCUAACCAAGCACAUUAAAACCCAUUUUGCCAAAAUGAAAAAGGAAUUCCUGCCGUUGGCAUUUCAAAUGCAAGCAGCCA---CCAUACAAACCAAAUGGGAA---ACGGCAUAAAA
.......................(((((((((((((...(....(((....))).)..))))))........((.....))..---...........)))))))..---........... ( -18.90)
>DroAna_CAF1 50559 117 - 1
CAACCUCACCAAGCACAUCAAGACCCACUUUGCCAAAAUGAAAAAGGACUUCCUGCCCCUGGCCUUCCAGAUGCAGACCUCCA---GCCUCUCCACCAAAUGGGAGGCCACCGCAUAAGC
...........................((((((............(((....((((..((((....))))..))))...))).---(((((.(((.....))))))))....))).))). ( -27.70)
>consensus
CAACCUAACCAAGCACAUUAAAACCCAUUUUGCCAAAAUGAAAAAGGAUUUCCUGCCGCUGGCAUUUCAAAUGCAGGCAGCCA___GCAUACAAACCAAAUGGGAA___ACCGCAUAAAA
.......................(((((((...............((....(((((..((((....))))..)))))...))...............)))))))................ (-14.30 = -14.41 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:45 2006