genome.fa.s7926.2.7.7.80.10.50.1000.37.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  37  of  42  ( 5024 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)
8464473--8464684	40	5.2	40	83	5	235	21	24	17	36	1.94
8464473--8464684	83	2.6	83	86	2	277	21	24	17	36	1.94
8464738--8464788	19	2.6	20	90	3	77	15	17	23	43	1.88
8467019--8467063	20	2.3	19	84	7	54	68	11	4	15	1.34
8467019--8467063	21	2.2	20	84	4	54	68	11	4	15	1.34
8471213--8471281	22	2.9	24	74	10	79	52	2	1	43	1.25
8471213--8471309	47	2.1	47	92	0	158	53	5	2	39	1.35
8471584--8471693	31	3.5	31	78	10	116	36	7	9	47	1.63
8471870--8471932	22	2.9	21	68	29	51	52	0	4	42	1.22
8471853--8471911	27	2.3	27	91	8	97	57	0	3	38	1.15
8503674--8503718	21	2.1	22	83	4	56	42	6	4	46	1.50
8505067--8505110	17	2.6	17	77	0	52	27	13	0	59	1.35
8505596--8505646	26	2.0	26	85	7	70	39	15	3	41	1.66
8509226--8509260	2	17.5	2	100	0	70	48	0	0	51	1.00
8515067--8515196	63	2.1	63	98	0	251	23	22	18	36	1.95
8519648--8519685	18	2.2	18	95	4	69	18	50	21	10	1.76
8519690--8519720	7	4.3	7	92	8	53	12	32	29	25	1.93
8519674--8519719	15	3.3	15	85	8	62	15	34	26	23	1.94
8522153--8522284	48	2.8	48	78	9	144	22	15	18	43	1.88
8522170--8522284	24	4.8	24	86	6	153	23	17	18	40	1.91
8524431--8524468	11	3.5	11	78	7	51	13	10	28	47	1.76
8524423--8524476	21	2.6	21	100	0	108	12	14	27	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8524510--8524567	13	4.3	13	84	4	71	15	41	22	20	1.90
8524488--8524533	18	2.6	18	96	0	83	17	52	19	10	1.74
8524528--8524574	8	6.5	8	72	22	50	14	36	25	23	1.93
8524545--8524575	7	4.3	7	92	8	53	12	32	29	25	1.93
8524528--8524574	15	3.3	15	85	5	62	14	36	25	23	1.93
8527010--8527141	48	2.8	48	78	9	144	22	15	18	43	1.88
8527027--8527141	24	4.8	24	86	6	153	23	17	18	40	1.91
8529285--8529322	11	3.5	11	78	7	51	13	10	28	47	1.76
8529277--8529330	21	2.6	21	100	0	108	12	14	27	44	1.82
8529364--8529421	13	4.3	13	84	4	71	15	41	22	20	1.90
8529342--8529387	18	2.6	18	96	0	83	17	52	19	10	1.74
8529382--8529428	8	6.5	8	72	22	50	14	36	25	23	1.93
8529399--8529429	7	4.3	7	92	8	53	12	32	29	25	1.93
8529382--8529428	15	3.3	15	85	5	62	14	36	25	23	1.93
8531862--8531993	48	2.8	48	78	9	144	22	15	18	43	1.88
8531879--8531993	24	4.8	24	86	6	153	23	17	18	40	1.91
8532207--8532281	2	37.5	2	100	0	150	49	0	0	50	1.00
8533407--8533433	2	13.5	2	100	0	54	51	0	0	48	1.00
8535908--8535962	18	3.1	18	94	0	92	43	3	23	29	1.71
8535901--8535947	18	2.4	21	75	20	64	44	4	23	27	1.72
8540703--8540740	15	2.5	15	87	12	51	34	0	0	65	0.93
8540913--8540959	24	1.9	25	87	12	71	63	2	6	27	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8544350--8544433	23	3.7	23	96	0	150	25	27	27	20	1.99
8549418--8549501	23	3.7	23	95	0	141	23	27	27	21	1.99
8549809--8549867	27	2.2	27	82	11	68	37	22	0	40	1.54
8563304--8563347	19	2.3	18	88	7	61	18	27	27	27	1.98
8563344--8563400	18	3.2	17	82	7	69	15	43	26	14	1.85
8563413--8563554	29	4.8	29	71	13	83	30	7	18	44	1.76
8563407--8563579	91	1.9	91	83	7	226	30	5	19	45	1.73
8563533--8563595	29	2.2	29	85	0	81	33	1	19	46	1.59
8564305--8564350	24	1.9	24	86	0	65	26	10	19	43	1.84
8564306--8564357	24	2.2	24	82	0	59	26	11	19	42	1.85
8566134--8566175	19	2.3	19	79	4	50	26	4	7	61	1.42
8569954--8569978	4	6.2	4	100	0	50	52	0	24	24	1.48
8581647--8581706	2	30.0	2	100	0	120	50	0	0	50	1.00
8586314--8586381	18	3.8	18	82	1	75	35	11	8	44	1.72
8589394--8589442	16	3.0	17	74	14	50	57	2	2	38	1.22
8589856--8589895	19	2.1	20	86	9	57	27	10	0	62	1.27
8593854--8593930	29	2.7	29	87	0	118	31	18	5	45	1.71
8593947--8594037	29	3.1	29	67	19	80	40	5	19	34	1.75
8606472--8606663	74	2.6	74	89	2	287	43	10	19	26	1.83
8607822--8607933	58	1.9	59	85	7	156	45	3	16	34	1.64
8613481--8613507	2	13.5	2	100	0	54	51	0	0	48	1.00
8614007--8614301	149	2.0	149	97	0	563	31	21	21	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8616179--8616222	21	2.0	23	86	8	65	50	2	0	47	1.13
8616218--8616297	29	2.7	29	76	16	83	45	2	2	50	1.28
8616296--8616396	27	3.5	27	70	14	76	46	2	1	48	1.28
8616408--8616460	24	2.2	24	83	3	63	47	1	5	45	1.37
8619257--8619301	15	3.1	15	81	15	58	60	0	2	37	1.09
8619257--8619299	14	3.1	13	81	15	50	60	0	2	37	1.10
8619307--8619341	16	2.2	16	90	10	54	31	0	2	65	1.07
8620240--8620269	13	2.2	14	94	5	53	60	0	0	40	0.97
8632591--8632629	19	2.1	19	95	0	69	33	28	15	23	1.95
8632678--8632718	21	2.0	21	85	9	57	21	17	19	41	1.90
8632712--8632785	20	3.7	20	76	7	87	36	21	20	21	1.95
8632714--8632805	40	2.3	40	98	0	175	32	23	20	22	1.98
8632734--8632806	20	3.7	20	78	7	94	30	26	20	23	1.99
8632590--8632830	122	2.0	121	79	5	263	31	21	18	29	1.97
8632972--8633022	22	2.3	22	89	0	84	21	45	13	19	1.85
8633423--8633460	19	2.0	20	84	5	51	10	13	21	55	1.67
8635377--8635445	20	3.5	20	93	0	120	37	26	20	15	1.93
8635560--8635608	20	2.5	20	90	6	73	18	22	26	32	1.97
8635594--8635637	20	2.2	21	84	12	65	13	15	22	47	1.81
8636146--8636234	21	4.2	20	77	11	65	26	32	16	23	1.96
8636143--8636234	42	2.2	42	79	11	100	26	32	16	25	1.96
8637605--8637644	14	2.7	15	88	3	55	37	0	15	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8637766--8637819	20	2.7	20	80	5	65	44	27	16	11	1.82
8637813--8637855	20	2.2	20	83	4	52	25	20	25	27	1.99
8637828--8637964	54	2.5	54	86	2	177	21	17	23	37	1.93
8637862--8638046	74	2.5	74	88	0	253	25	16	22	36	1.94
8637868--8638046	20	9.6	20	75	14	148	25	16	22	35	1.94
8638017--8638299	140	2.0	140	94	0	494	44	14	11	29	1.81
8638357--8638391	18	1.9	18	100	0	70	17	5	22	54	1.64
8640651--8640704	24	2.2	24	90	0	81	40	20	16	22	1.91
8641561--8641614	21	2.6	21	78	0	63	33	18	20	27	1.96
8641620--8641673	20	2.7	21	71	8	58	25	16	29	27	1.97
8641648--8641693	19	2.4	19	85	3	56	21	17	30	30	1.96
8641659--8641695	19	1.9	19	94	0	65	21	16	29	32	1.95
8648194--8648221	14	2.0	14	100	0	56	42	14	0	42	1.45
8648774--8648825	16	3.2	16	94	0	95	53	0	15	30	1.42
8651516--8651552	14	2.6	14	95	0	65	29	5	21	43	1.75
8659751--8659818	15	4.4	16	68	18	54	50	0	0	50	1.00
8659746--8659819	32	2.3	32	86	9	114	50	0	0	50	1.00
8660787--8660858	34	2.1	34	92	0	117	52	8	9	29	1.63
8665534--8665627	3	31.7	3	86	2	136	35	3	0	61	1.12
8665653--8665705	20	2.7	20	96	0	97	30	30	20	18	1.97
8667041--8667084	20	2.1	21	87	4	63	36	2	2	59	1.23
8667782--8667830	18	2.8	18	78	9	57	24	0	2	73	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8678460--8678527	7	9.9	7	78	15	54	86	0	10	2	0.67
8678460--8678527	8	8.8	8	77	6	59	86	0	10	2	0.67
8678462--8678514	1	53.0	1	82	0	61	90	0	5	3	0.54
8679653--8680158	82	6.2	82	96	1	856	30	14	20	34	1.92
8680804--8681432	113	5.6	113	95	0	1037	38	13	20	27	1.90
8681684--8681769	3	28.7	3	87	0	127	34	3	0	61	1.13
8681690--8681778	12	7.5	11	79	14	54	37	3	0	59	1.14
8683168--8683211	20	2.1	21	87	4	63	36	2	2	59	1.23
8691566--8691623	29	2.0	29	96	0	107	37	8	6	46	1.61
8691574--8691638	29	2.3	29	86	7	89	43	9	7	40	1.65

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