genome.fa.s9639.2.7.7.80.10.50.1000.50.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  50  of  62  ( 7398 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11384832--11384885	16	3.4	16	74	23	60	59	0	5	35	1.21
11385052--11385156	50	2.1	50	82	3	122	22	30	27	19	1.98
11391689--11391718	10	3.0	10	95	0	51	60	23	10	6	1.52
11394228--11394266	3	13.3	3	94	5	71	33	0	0	66	0.92
11394273--11394310	14	2.6	15	84	16	53	21	10	0	68	1.19
11402250--11402304	17	3.3	17	80	14	69	58	29	0	12	1.35
11409661--11409719	6	9.7	6	82	17	77	84	0	13	1	0.69
11409663--11409716	13	4.3	13	88	6	85	87	0	11	1	0.63
11409661--11409719	25	2.4	25	88	11	95	84	0	13	1	0.69
11409663--11409726	19	3.4	18	87	8	92	85	0	12	1	0.66
11411344--11411381	20	1.9	20	88	0	58	39	2	0	57	1.12
11411354--11411395	16	2.6	16	96	3	75	33	4	0	61	1.17
11412633--11412672	17	2.4	17	91	0	62	32	17	7	42	1.77
11413294--11413357	16	3.9	16	72	10	58	25	1	1	71	1.03
11413300--11413356	23	2.6	21	78	10	60	24	1	1	71	1.04
11413297--11413350	23	2.5	22	81	6	65	24	1	1	72	1.05
11424223--11424262	21	1.9	21	85	10	55	37	0	22	40	1.54
11426476--11426519	18	2.4	19	81	7	56	31	4	6	56	1.46
11429073--11429114	18	2.4	17	88	8	57	47	7	0	45	1.30
11430881--11431044	90	1.8	88	90	2	265	37	10	6	45	1.64
11432906--11433243	167	2.0	166	97	2	635	35	21	13	30	1.91
11434011--11434059	25	2.0	25	91	0	80	48	20	12	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11437098--11437215	2	58.5	2	98	1	227	50	0	0	49	1.06
11446730--11446809	20	3.7	20	74	18	79	42	10	28	18	1.83
11446717--11446821	46	2.3	46	94	0	183	46	10	23	19	1.80
11447212--11447372	81	2.0	81	87	2	234	37	7	22	31	1.82
11448828--11448858	2	15.5	2	100	0	62	51	0	0	48	1.00
11452249--11452321	26	3.0	26	67	22	77	45	10	24	19	1.82
11452262--11452339	20	3.6	20	71	18	66	42	8	28	20	1.82
11452248--11452353	46	2.3	46	90	0	167	44	11	22	21	1.84
11452715--11452919	81	2.5	80	82	6	250	36	9	22	31	1.86
11453448--11453606	77	2.1	78	97	2	304	36	6	15	41	1.73
11457850--11458130	46	6.3	45	84	9	360	44	9	23	22	1.82
11457862--11458116	20	11.6	20	69	20	154	43	9	25	21	1.83
11458498--11458672	81	2.2	81	88	0	260	36	13	22	28	1.92
11458520--11458697	81	2.2	81	85	0	221	37	11	22	28	1.90
11465522--11465692	38	4.5	38	86	2	236	30	26	19	22	1.98
11476009--11476054	24	1.9	24	86	0	65	36	17	17	28	1.92
11484370--11484436	30	2.2	30	100	0	134	23	16	11	47	1.80
11484370--11484468	30	3.3	31	87	8	118	28	18	10	43	1.82
11486393--11486621	46	5.0	46	84	2	309	22	20	15	41	1.89
11487033--11487074	19	2.2	19	100	0	84	42	28	0	28	1.56
11493030--11493241	46	4.6	46	90	0	343	21	20	16	42	1.89
11493775--11493830	21	2.7	21	94	0	94	39	19	10	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11497542--11497580	20	1.9	21	85	15	55	51	0	25	23	1.49
11512946--11513026	40	2.1	39	84	6	103	32	19	25	22	1.98
11512962--11513041	40	2.0	40	87	0	115	28	20	27	23	1.99
11516152--11516207	17	3.2	17	78	12	60	35	7	12	44	1.70
11519046--11519171	58	2.2	58	86	2	182	31	30	15	22	1.95
11522352--11522382	15	2.1	15	94	5	55	25	16	22	35	1.94
11529969--11530025	28	2.0	28	96	0	105	29	7	5	57	1.47
11537717--11538265	45	12.2	45	86	0	760	23	20	14	40	1.90
11540867--11540907	18	2.3	18	86	0	55	46	17	2	34	1.61
11542981--11543155	90	2.0	89	93	1	296	37	10	5	46	1.62
11555317--11555372	20	2.8	20	72	20	53	30	17	25	26	1.97
11555781--11555831	19	2.6	20	96	3	95	31	15	5	47	1.70
11558801--11558839	20	1.9	21	89	5	62	23	7	12	56	1.62
11560669--11560905	57	4.2	56	80	5	237	36	8	17	37	1.81
11560675--11560917	58	4.3	57	80	4	267	38	9	16	36	1.80
11561686--11561736	19	2.6	19	84	3	66	29	11	9	49	1.72
11563258--11563290	18	1.9	17	88	11	50	30	6	9	54	1.56
11572033--11572081	24	2.0	24	100	0	98	32	12	12	42	1.79
11573048--11573097	21	2.4	21	83	12	59	34	4	8	54	1.49
11583621--11583672	5	10.4	5	78	14	54	63	0	21	15	1.31
11583644--11583672	11	2.7	11	94	5	51	62	0	20	17	1.33
11590121--11590292	47	3.8	45	89	3	229	32	21	7	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11597505--11597664	47	3.5	47	89	2	218	33	20	8	38	1.82
11597485--11597664	94	2.0	90	83	6	227	34	20	7	38	1.80
11601189--11601234	14	3.1	15	76	20	51	43	4	17	34	1.69
11601368--11601444	35	2.2	35	88	0	109	41	10	9	38	1.71
11601742--11602083	166	2.0	169	98	1	663	36	11	15	36	1.83
11602100--11602174	35	2.1	35	85	0	96	34	17	8	40	1.79
11602122--11602174	17	3.1	17	78	5	61	35	15	7	41	1.75
11605992--11606270	143	2.0	143	86	4	393	28	17	11	42	1.84
11619215--11619261	24	2.0	24	83	8	60	27	14	0	57	1.38
11621706--11621831	47	2.8	45	87	9	177	39	7	22	30	1.82
11624627--11624664	14	2.7	14	88	12	60	78	5	13	2	1.02
11626211--11626261	20	2.6	19	84	9	66	49	5	15	29	1.68
11628248--11628372	47	2.8	45	85	9	166	39	7	22	31	1.81
11631482--11631606	47	2.8	46	81	11	136	40	7	20	32	1.79
11631923--11631947	12	2.1	12	100	0	50	28	8	24	40	1.83
11633019--11633062	19	2.3	19	96	0	79	34	9	31	25	1.87
11633581--11633817	45	5.2	45	84	2	296	41	13	20	24	1.89
11633593--11633817	91	2.5	91	83	2	283	41	14	20	24	1.89
11637730--11637783	24	2.2	24	93	0	90	33	16	16	33	1.92
11637738--11637792	24	2.3	24	96	0	101	34	18	20	27	1.95
11641751--11641801	20	2.6	20	84	3	68	35	13	7	43	1.73
11643392--11643427	18	2.0	18	94	0	63	36	5	11	47	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11649315--11649354	20	2.0	20	85	0	53	75	7	10	7	1.20
11651909--11651950	15	2.6	16	88	7	59	14	19	0	66	1.25
11657724--11657768	20	2.2	20	96	0	81	20	22	13	44	1.85
11662458--11662503	23	2.0	23	83	8	58	36	6	8	47	1.60
11667038--11667083	23	2.0	23	83	8	58	36	6	8	47	1.60
11676276--11676325	20	2.5	20	90	3	75	38	10	6	46	1.62
11691719--11691765	23	2.1	23	84	4	60	36	17	25	21	1.94
11698606--11698648	18	2.4	18	88	0	59	11	13	6	67	1.41
11701946--11701978	10	3.3	10	95	0	57	21	3	0	75	0.93
11706798--11706840	17	2.6	16	82	10	50	37	13	9	39	1.78
11706896--11706941	18	2.6	18	89	6	67	30	6	15	47	1.70
11708558--11708760	45	4.6	44	87	4	282	31	22	7	39	1.81
11708558--11708760	89	2.3	89	89	1	309	31	22	7	39	1.81
11708848--11708969	59	2.1	59	82	0	145	28	22	17	31	1.96
11714309--11714372	25	2.5	26	68	12	60	34	21	7	35	1.83
11714399--11714456	29	1.9	31	86	6	84	31	22	6	39	1.80
11736651--11736690	21	1.9	21	85	10	55	62	0	17	20	1.33
11740639--11740678	21	1.9	21	85	10	55	62	0	17	20	1.33
11740701--11740741	22	1.9	21	95	5	73	26	0	39	34	1.57
11744352--11744401	20	2.4	21	86	3	75	22	14	14	50	1.77
11772651--11772702	24	2.2	23	86	6	77	28	5	9	55	1.55
11772657--11772706	24	2.1	24	96	0	91	26	4	10	60	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11793578--11793618	17	2.4	17	100	0	82	34	17	17	31	1.93
11808194--11808225	16	2.0	16	93	0	55	43	0	28	28	1.55
11809561--11809603	17	2.5	17	92	0	68	44	6	13	34	1.72
11818543--11818581	18	2.1	19	85	4	53	25	12	0	61	1.31
11821865--11821899	2	17.5	2	100	0	70	48	0	0	51	1.00
11823477--11823527	19	2.6	20	87	3	68	45	5	15	33	1.71
11828031--11828056	13	2.0	13	100	0	52	23	23	7	46	1.78
11828458--11828513	11	5.1	11	73	16	53	78	1	16	3	0.97
11832975--11833006	16	2.0	16	100	0	64	25	25	18	31	1.98
11833835--11833860	8	3.2	8	100	0	52	88	0	11	0	0.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62