genome.fa.s8620.2.7.7.80.10.50.1000.52.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  52  of  64  ( 7674 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)
10586111--10586206	41	2.4	39	80	11	106	40	16	16	26	1.90
10586809--10587305	245	2.1	237	91	4	800	32	15	15	36	1.90
10588250--10588293	23	1.9	23	95	0	79	38	18	20	22	1.93
10588516--10588552	16	2.2	17	90	4	58	59	13	5	21	1.54
10592113--10592146	2	17.0	2	100	0	68	50	0	0	50	1.00
10593422--10593447	3	8.7	3	100	0	52	34	0	0	65	0.93
10595758--10595800	15	2.9	14	82	6	50	34	6	4	53	1.49
10596269--10596401	69	1.9	69	95	0	239	24	14	19	41	1.89
10596844--10596868	13	1.9	13	100	0	50	0	16	12	72	1.13
10596881--10597007	63	2.0	63	89	0	191	22	18	16	41	1.90
10599449--10599495	19	2.5	19	83	10	62	27	17	29	25	1.97
10599403--10599547	65	2.2	64	85	8	186	27	16	26	29	1.97
10599883--10599910	13	2.2	13	100	0	56	17	50	0	32	1.47
10600557--10600600	21	2.1	21	86	0	61	38	15	36	9	1.80
10610734--10611058	126	2.6	126	91	0	506	29	24	19	26	1.98
10611258--10611292	3	11.3	3	93	6	61	37	0	0	62	0.95
10611817--10611857	16	2.5	17	80	8	57	68	14	7	9	1.39
10612059--10612102	20	2.2	20	91	0	70	40	6	38	13	1.71
10612812--10612895	29	2.8	30	83	1	107	20	10	7	61	1.51
10612850--10612935	30	3.0	28	72	8	75	16	9	12	61	1.55
10613284--10613323	16	2.5	16	88	8	55	15	0	5	80	0.88
10613603--10613644	16	2.7	16	78	14	52	28	4	4	61	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10613832--10613873	20	2.1	20	86	8	59	33	9	2	54	1.46
10614845--10614891	17	2.7	18	83	6	69	38	0	2	59	1.09
10617858--10617924	35	1.9	35	84	6	91	31	16	20	31	1.95
10620109--10620233	65	1.9	64	80	4	144	29	18	23	28	1.98
10620152--10620296	64	2.3	65	84	4	179	28	18	22	30	1.97
10620653--10620707	24	2.2	25	96	3	103	21	41	0	36	1.54
10622949--10623031	23	3.7	23	74	9	82	26	22	26	24	2.00
10623214--10623362	74	2.0	74	96	0	271	44	18	6	30	1.75
10626920--10626959	21	1.9	21	90	10	64	30	5	7	57	1.48
10628821--10628965	64	2.3	65	84	4	188	29	19	22	28	1.98
10631650--10631716	3	22.7	3	96	3	127	32	0	0	67	0.91
10636983--10637209	49	4.7	48	76	10	194	29	17	27	25	1.98
10636985--10637219	98	2.4	96	78	8	244	31	17	26	24	1.97
10638923--10638961	6	6.3	6	83	16	53	0	15	2	82	0.79
10638917--10638963	14	3.4	14	77	14	53	0	17	2	80	0.80
10642282--10642416	65	2.1	64	81	4	155	25	16	23	34	1.95
10646506--10646541	16	2.2	16	90	0	54	16	16	30	36	1.91
10646512--10646543	16	2.0	16	100	0	64	12	25	31	31	1.92
10651009--10651083	27	2.7	28	81	8	73	46	13	9	30	1.74
10657633--10658164	276	1.9	275	97	0	1010	25	21	29	23	1.99
10659872--10659931	25	2.3	26	85	2	86	78	3	5	13	1.04
10660125--10660166	9	4.8	9	80	13	52	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10661314--10661360	2	24.5	2	82	8	62	51	0	2	46	1.13
10661847--10661873	10	2.7	10	100	0	54	14	29	22	33	1.94
10664095--10665253	579	2.0	580	95	0	2070	24	24	15	35	1.94
10674362--10674409	11	4.5	11	80	15	57	75	6	12	6	1.19
10674404--10674429	13	2.0	13	100	0	52	84	0	0	15	0.62
10674454--10674479	13	2.0	13	100	0	52	69	0	0	30	0.89
10674550--10674583	9	3.7	9	96	4	59	67	0	0	32	0.91
10675690--10675719	2	15.0	2	100	0	60	50	0	0	50	1.00
10675688--10675775	8	10.0	9	70	18	53	52	3	2	42	1.31
10684103--10684184	29	2.8	29	84	0	101	18	40	29	12	1.87
10684399--10684457	29	2.0	29	86	0	82	10	35	32	22	1.87
10686438--10686468	13	2.4	13	94	0	53	6	9	0	83	0.79
10686402--10686457	25	2.3	24	78	6	67	8	5	7	78	1.08
10687845--10687870	13	2.0	13	100	0	52	0	61	7	30	1.24
10689669--10689744	14	5.7	14	74	14	63	17	9	14	59	1.60
10689666--10689752	38	2.3	38	87	0	129	17	9	13	59	1.59
10689694--10689752	24	2.5	24	83	5	75	18	8	11	61	1.55
10690522--10690567	18	2.6	18	92	0	83	19	52	19	8	1.72
10690549--10690595	8	6.5	8	72	22	50	14	36	25	23	1.93
10690545--10690572	13	2.2	13	100	0	56	17	46	21	14	1.84
10690549--10690595	15	3.3	15	85	5	62	14	36	25	23	1.93
10693018--10693132	24	4.8	24	87	6	153	22	16	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10693069--10693142	24	3.1	24	84	3	78	21	14	18	44	1.86
10694119--10694192	24	3.1	23	71	21	71	10	12	16	60	1.58
10694163--10694216	14	3.9	13	79	13	56	11	14	16	57	1.65
10698547--10698702	65	2.4	64	90	5	235	28	21	19	30	1.97
10704078--10704157	21	3.7	21	71	14	63	30	22	21	26	1.99
10704090--10704178	24	3.9	24	70	18	73	29	22	21	26	1.99
10704077--10704180	45	2.3	44	79	9	122	29	23	20	26	1.98
10704138--10704181	23	1.9	23	90	0	70	27	27	20	25	1.99
10704167--10704204	20	1.9	20	88	0	58	26	34	15	23	1.95
10706787--10706855	18	3.8	18	100	0	138	23	31	21	23	1.98
10706795--10706845	10	5.5	10	73	17	56	23	33	21	21	1.97
10706826--10706943	46	2.6	46	91	2	157	29	19	20	30	1.97
10706860--10706935	22	3.4	22	70	20	75	32	13	18	35	1.89
10706887--10707009	64	1.9	62	84	11	160	30	19	19	30	1.96
10709336--10709380	2	22.5	2	95	0	81	51	2	0	46	1.13
10711242--10711282	19	2.2	19	95	0	73	29	4	29	36	1.78
10717032--10717261	125	1.8	125	86	1	336	34	16	23	25	1.96
10718243--10719019	36	20.9	36	70	8	396	35	21	19	23	1.96
10718696--10718919	37	5.9	38	69	18	126	36	19	19	24	1.95
10718565--10718882	116	2.8	116	84	1	399	34	20	18	26	1.96
10718678--10719036	153	2.3	153	91	0	574	34	21	18	25	1.96
10718538--10719138	269	2.2	269	87	2	850	35	20	18	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10718833--10719137	116	2.6	116	90	0	448	36	20	18	24	1.95
10718725--10718983	79	3.3	78	71	9	260	33	21	19	25	1.97
10718949--10719020	37	1.9	37	94	0	126	40	20	16	22	1.91
10719674--10719752	35	2.2	35	84	4	95	55	12	24	7	1.62
10726335--10726367	2	16.5	2	100	0	66	48	0	0	51	1.00
10727487--10727528	7	6.1	7	86	13	61	61	9	0	28	1.27
10727466--10727533	21	3.2	21	93	2	109	61	7	0	30	1.23
10727484--10727532	14	3.5	15	81	18	61	63	8	0	28	1.23
10727766--10727818	19	2.8	19	94	0	88	24	32	18	24	1.97
10727854--10727909	24	2.3	24	90	0	85	28	16	17	37	1.91
10728084--10728108	12	2.1	12	100	0	50	72	0	28	0	0.86
10730239--10730336	19	5.7	19	69	22	90	43	19	24	12	1.85
10730239--10730332	33	2.8	33	98	0	179	43	19	24	12	1.85
10730332--10730374	20	2.2	20	83	4	52	16	16	23	44	1.86
10730515--10730551	14	2.6	14	91	0	65	45	24	0	29	1.53
10731906--10731972	21	3.2	21	68	4	55	19	20	35	23	1.95
10731906--10732028	42	2.9	41	80	7	113	22	17	36	22	1.95
10734012--10734073	20	3.2	20	81	4	72	43	17	24	14	1.86
10734039--10734095	19	3.3	19	69	23	61	35	26	24	14	1.93
10734035--10734131	33	3.0	33	87	1	133	39	26	22	11	1.88
10734038--10734131	32	2.9	33	87	1	127	39	27	21	11	1.88
10734103--10734192	19	4.7	19	93	2	144	45	21	20	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10734010--10734192	39	5.1	38	79	11	154	43	21	21	13	1.87
10734188--10734231	18	2.4	19	92	3	72	9	15	27	47	1.76
10734787--10734838	20	2.6	20	93	0	86	25	19	28	26	1.98
10734806--10734883	41	1.9	41	83	0	102	21	16	20	41	1.91
10734869--10734964	41	2.3	41	98	0	165	18	23	17	39	1.92
10734869--10734961	20	4.6	20	78	4	96	18	24	18	38	1.92
10735040--10735103	19	3.3	19	88	2	74	25	17	31	26	1.97
10735051--10735103	19	2.8	19	94	0	88	24	18	32	24	1.97
10744113--10744154	15	2.9	14	85	7	57	45	0	0	54	0.99
10744178--10744207	15	1.9	16	93	6	53	43	3	0	53	1.17

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   63   64