genome.fa.s7957.2.7.7.80.10.50.1000.26.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  26  of  43  ( 5063 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)
5260791--5262370	251	6.3	251	83	3	1777	23	18	24	33	1.97
5262381--5262412	15	2.1	15	100	0	64	25	18	18	37	1.94
5263526--5263790	100	2.7	99	89	2	390	31	18	16	33	1.94
5266357--5266398	22	2.0	21	85	4	57	66	0	9	23	1.21
5266855--5266883	2	14.5	2	100	0	58	0	48	0	51	1.00
5267762--5268013	38	6.8	36	76	11	206	45	5	4	44	1.48
5267898--5267948	27	2.0	25	88	7	75	47	5	3	43	1.46
5267747--5268060	147	2.1	146	82	8	350	45	6	4	43	1.48
5270869--5270927	19	3.2	19	75	15	70	44	11	0	44	1.41
5277251--5277287	11	3.5	11	88	7	58	43	0	10	45	1.39
5277366--5277418	19	2.8	19	80	8	63	30	7	20	41	1.80
5277477--5277577	20	5.4	20	72	21	76	32	14	13	38	1.86
5277527--5277577	19	2.6	20	87	3	68	33	15	13	37	1.87
5278747--5278800	20	2.8	19	77	5	63	29	7	20	42	1.79
5278858--5278958	20	5.4	20	72	21	76	32	14	13	38	1.86
5278908--5278958	19	2.6	20	87	3	68	33	15	13	37	1.87
5280796--5280889	45	2.0	48	93	6	167	32	8	9	48	1.66
5280898--5280933	11	3.5	11	85	14	58	38	0	16	44	1.48
5281013--5281085	19	3.7	20	82	7	69	35	9	15	39	1.80
5281195--5281239	19	2.4	19	100	0	90	33	13	11	42	1.79
5281195--5281264	19	3.6	19	90	5	79	35	14	11	38	1.82
5286956--5287053	21	4.7	21	80	0	115	35	23	9	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5290279--5290321	18	2.4	18	88	0	59	32	34	0	32	1.58
5293214--5293261	20	2.5	19	80	16	55	25	18	18	37	1.94
5294074--5294153	39	2.1	39	100	0	160	50	10	5	35	1.58
5294225--5294276	16	3.3	15	86	10	68	51	1	1	44	1.23
5299126--5299154	13	2.1	14	93	6	51	34	3	6	55	1.44
5305903--5305966	30	2.1	30	91	0	101	23	43	6	26	1.77
5311478--5311522	18	2.5	18	81	0	54	28	15	15	40	1.88
5313165--5313201	2	18.5	2	94	0	65	48	0	0	51	1.00
5314690--5314768	22	3.5	23	73	10	65	50	0	2	46	1.14
5314669--5314742	32	2.3	32	81	9	80	51	1	4	43	1.29
5314691--5314770	23	3.4	23	80	10	83	50	0	2	47	1.14
5316454--5316541	38	2.4	38	92	3	144	39	37	11	11	1.77
5316273--5316738	258	1.8	258	91	1	774	36	27	12	23	1.90
5318833--5318992	64	2.5	64	84	4	198	30	23	17	29	1.97
5318833--5319012	64	2.8	62	79	12	193	28	23	18	28	1.98
5321631--5321689	29	2.0	30	90	6	93	35	5	15	44	1.68
5321792--5321858	20	3.3	20	93	0	107	25	29	17	26	1.98
5321820--5321857	12	3.2	12	92	0	58	26	28	18	26	1.98
5325130--5325189	29	2.0	30	87	6	86	36	6	13	43	1.70
5325269--5325324	21	2.7	21	97	0	103	23	35	17	23	1.95
5325347--5325392	20	2.3	20	85	7	58	21	30	17	30	1.96
5331566--5331616	21	2.4	21	93	0	93	33	0	45	21	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5331988--5332166	64	2.8	62	80	9	191	29	23	17	29	1.97
5333922--5333952	15	2.1	15	100	0	62	29	12	25	32	1.93
5336202--5336282	32	2.5	32	85	0	117	27	17	16	39	1.90
5337538--5337590	21	2.7	19	82	5	61	26	26	16	30	1.97
5340450--5340483	2	18.0	2	88	11	54	47	0	0	52	1.00
5344232--5344287	21	2.8	20	82	15	62	25	25	14	35	1.93
5345512--5345568	12	5.2	11	76	19	57	19	28	26	26	1.99
5345514--5345575	32	1.9	32	87	6	90	20	25	25	27	1.99
5347928--5347992	24	2.7	24	95	0	112	27	10	18	43	1.83
5356788--5356833	3	15.3	3	100	0	92	34	0	0	65	0.93
5356880--5356927	23	2.1	22	92	3	78	43	39	8	8	1.65
5358637--5358846	65	3.3	63	81	9	226	31	24	18	26	1.97
5367477--5367525	19	2.6	19	84	9	57	24	28	20	26	1.99
5375935--5376041	42	2.6	41	76	5	117	25	19	21	33	1.97
5375578--5377437	248	7.5	248	87	3	2507	32	16	18	33	1.93
5375590--5377437	513	3.7	496	88	2	2509	31	16	18	33	1.93
5376678--5376784	42	2.6	42	78	1	126	24	20	22	32	1.98
5376954--5377056	42	2.5	42	75	1	100	24	21	23	31	1.99
5377191--5377297	42	2.6	42	77	7	119	28	18	21	31	1.97
5377621--5377686	3	22.3	3	89	9	100	36	0	0	63	0.95
5381984--5382101	57	2.1	54	84	9	148	43	0	3	52	1.23
5384231--5384349	2	59.5	2	100	0	238	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5387125--5387197	24	3.1	24	88	3	96	31	1	2	64	1.16
5387667--5387711	23	2.0	22	83	8	56	40	2	8	48	1.47
5387816--5387852	19	1.9	19	100	0	74	37	5	5	51	1.48
5388467--5388511	23	2.0	23	90	0	72	62	17	6	13	1.52
5391105--5391252	76	1.9	76	91	0	242	36	8	18	35	1.82
5392036--5392097	19	3.2	19	81	6	72	51	8	4	35	1.53
5392929--5392988	19	3.2	18	73	17	52	50	1	1	46	1.21
5393662--5393722	28	2.2	27	82	8	70	40	1	11	45	1.50
5400236--5400270	15	2.3	15	95	0	61	34	22	11	31	1.90
5400799--5400851	21	2.5	21	84	0	70	20	22	18	37	1.94
5400841--5400973	20	6.7	20	88	0	194	39	18	18	23	1.92
5400841--5400991	20	7.6	20	85	1	160	38	19	19	23	1.93
5401092--5401170	21	3.8	21	72	0	68	21	36	20	21	1.95
5401091--5401174	42	2.0	42	83	4	107	21	39	19	20	1.93
5402232--5402285	14	3.5	14	73	22	54	44	20	24	11	1.83
5402223--5402307	33	2.5	33	94	1	143	44	18	23	12	1.85
5402245--5402312	20	3.8	19	72	21	74	47	19	22	11	1.81
5402322--5402397	33	2.3	34	93	2	127	13	19	19	47	1.82
5402389--5402482	20	4.7	20	90	2	136	19	21	23	36	1.95
5404897--5404950	24	2.2	24	90	0	81	40	20	16	22	1.91
5405792--5405858	20	3.3	20	87	0	98	20	17	28	32	1.96
5405845--5405975	20	6.6	20	96	0	235	19	20	20	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5405977--5406019	21	2.0	21	90	0	68	41	16	23	18	1.89
5408160--5408547	185	2.1	182	87	6	570	45	8	3	43	1.49
5422676--5422722	12	3.9	12	77	5	51	63	8	8	19	1.48
5428050--5428097	23	2.1	23	84	7	62	50	2	8	39	1.44
5428529--5428602	31	2.4	31	86	0	103	20	24	13	41	1.88
5437768--5437828	34	1.9	32	87	12	90	54	4	9	31	1.55
5437901--5437944	13	3.5	13	84	3	54	70	9	4	15	1.30
5440180--5440219	20	2.0	20	85	0	53	35	0	37	27	1.57
5448068--5448609	268	2.0	268	98	0	1057	30	21	17	31	1.96
5455010--5455043	16	2.1	17	88	5	52	44	17	0	38	1.49
5455412--5455478	2	34.0	2	96	3	127	50	0	0	49	1.00
5455800--5455882	21	3.9	21	75	6	76	40	26	9	22	1.85
5456446--5456487	22	1.9	22	95	0	75	33	23	11	30	1.91
5456824--5456865	22	2.0	22	90	9	70	21	21	14	42	1.88
5466240--5466267	2	14.0	2	100	0	56	50	0	0	50	1.00
5467240--5467678	219	2.0	218	97	1	835	30	22	22	24	1.99
5470314--5470362	22	2.2	22	85	0	62	34	20	24	20	1.96
5472429--5472646	103	2.1	103	96	0	400	25	11	24	38	1.89
5472663--5472725	23	2.7	23	85	0	81	20	25	26	26	1.99
5478660--5478697	20	1.9	20	88	0	58	23	34	31	10	1.89
5479172--5479395	101	2.2	101	94	3	389	25	12	25	36	1.91
5479401--5479463	23	2.7	23	87	4	92	20	26	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5483749--5483841	26	3.1	31	75	20	99	41	32	7	18	1.78
5483905--5483956	27	1.9	27	92	0	86	51	25	5	17	1.67
5483903--5483967	27	2.4	27	84	0	85	49	29	6	15	1.68
5488590--5489170	288	2.0	290	96	3	1091	30	14	16	38	1.88
5493250--5493335	33	2.5	34	88	3	120	37	13	15	33	1.87
5493666--5493701	18	2.0	18	94	0	63	44	8	0	47	1.33
5494027--5494082	15	3.6	15	71	17	51	44	12	10	32	1.77
5494250--5494302	21	2.5	21	93	0	88	28	28	22	20	1.99
5494495--5494546	13	3.9	13	73	14	52	48	13	3	34	1.61
5494535--5494632	33	3.0	33	88	8	148	45	14	6	33	1.69

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