genome.fa.s7823.2.7.7.80.10.50.1000.27.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  27  of  33  ( 3920 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)
4964293--4964679	183	2.1	183	92	2	636	45	8	3	43	1.49
4964805--4964833	15	1.9	15	100	0	58	17	6	27	48	1.72
4970807--4970848	18	2.4	17	84	11	57	33	19	11	35	1.88
4970816--4970851	18	2.0	18	100	0	72	33	16	11	38	1.84
4976875--4976912	19	2.0	19	94	0	67	21	13	28	36	1.91
4977847--4977880	17	2.0	17	88	0	50	32	32	26	8	1.87
4985909--4985947	19	2.1	19	95	0	69	33	38	17	10	1.84
4994913--4994958	23	2.0	22	84	12	58	8	13	15	63	1.52
4995459--4995532	15	5.1	15	73	12	73	54	2	1	41	1.23
4995458--4995547	43	2.1	42	97	2	171	52	4	2	41	1.34
4998367--4998740	200	1.9	200	90	1	597	45	22	10	21	1.82
4999655--4999758	23	4.8	23	69	16	71	48	4	3	43	1.42
5001288--5001326	13	2.9	14	85	7	55	84	0	5	10	0.76
5001288--5001337	18	2.8	18	84	6	57	80	0	4	16	0.87
5001308--5001402	23	4.2	24	74	18	66	63	2	1	33	1.13
5001314--5001364	25	2.0	25	81	7	59	66	1	1	29	1.13
5001316--5001402	13	6.4	14	73	20	62	60	2	1	35	1.17
5001315--5001404	18	4.9	18	78	18	87	61	2	1	35	1.16
5001347--5001404	5	11.6	5	76	20	59	56	1	1	39	1.19
5001390--5001481	38	2.4	39	84	8	111	45	8	1	44	1.41
5001464--5001499	2	18.5	2	94	5	65	47	0	0	52	1.00
5001428--5001534	54	2.0	52	87	7	153	46	5	1	45	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5001568--5001617	23	2.2	23	89	7	75	46	4	4	46	1.40
5001481--5001677	39	5.4	36	79	10	197	42	6	2	48	1.43
5001481--5001684	34	5.7	35	78	12	191	43	6	2	47	1.45
5001702--5001729	14	2.0	14	100	0	56	42	14	7	35	1.73
5001709--5001768	30	2.0	31	83	9	79	45	11	5	38	1.63
5001759--5001795	2	18.5	2	89	10	58	48	2	0	48	1.15
5004199--5004252	18	2.9	19	81	18	69	57	3	1	37	1.27
5004199--5004254	12	4.7	12	81	14	71	57	3	1	37	1.27
5004244--5004304	31	1.9	32	83	9	81	50	6	0	42	1.28
5004238--5004522	77	3.7	75	83	6	331	44	5	2	47	1.41
5004260--5004524	38	6.9	37	82	8	291	43	6	2	47	1.41
5004550--5004577	14	2.0	14	100	0	56	42	14	7	35	1.73
5004617--5004658	2	21.0	2	90	9	68	47	2	0	50	1.14
5004617--5004665	8	5.8	9	88	9	52	48	2	0	48	1.12
5007119--5007170	5	10.4	5	80	15	54	80	0	3	15	0.85
5007119--5007177	31	1.9	31	86	6	84	79	0	3	16	0.86
5007119--5007173	18	3.1	17	79	10	56	80	0	3	16	0.86
5007116--5007191	31	2.5	31	76	8	75	73	5	2	18	1.14
5007186--5007238	18	2.9	17	81	18	63	54	1	1	41	1.22
5007183--5007238	25	2.3	24	85	11	71	55	1	1	41	1.21
5007183--5007233	14	3.7	14	78	19	54	54	1	1	41	1.22
5007186--5007237	20	2.7	19	82	11	54	53	1	1	42	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5007200--5007249	17	2.9	17	82	11	59	52	6	0	42	1.26
5007228--5007289	32	1.9	32	86	0	88	51	8	0	40	1.31
5007244--5007510	37	6.8	38	81	10	281	43	5	2	47	1.41
5007244--5007510	78	3.4	76	82	5	295	43	5	2	47	1.41
5007391--5007444	28	2.0	28	85	7	76	42	3	5	48	1.44
5008406--5008655	125	2.0	125	100	0	500	28	20	18	32	1.96
5010091--5010445	175	2.0	175	97	2	667	36	20	17	25	1.94
5010407--5010451	12	3.7	12	80	13	56	60	2	2	35	1.22
5010457--5010717	38	6.8	39	84	4	336	43	6	3	46	1.45
5010435--5010747	77	4.1	77	81	8	318	44	7	2	45	1.45
5010599--5010650	28	1.9	28	88	7	81	44	3	3	48	1.39
5010745--5010772	14	2.0	14	100	0	56	42	14	7	35	1.73
5015525--5015588	11	5.8	11	68	14	51	65	4	3	26	1.27
5015805--5015941	63	2.2	64	83	9	165	55	5	5	33	1.46
5016946--5017008	3	22.0	3	79	12	53	60	0	0	39	0.97
5017233--5017574	138	2.5	139	84	5	435	27	18	14	39	1.90
5017619--5017957	113	3.0	113	89	2	506	28	19	15	37	1.92
5018323--5018375	22	2.4	22	93	0	88	37	9	18	33	1.83
5019559--5019613	28	2.0	28	96	0	101	32	14	23	29	1.94
5019753--5019977	75	3.0	73	78	8	247	32	21	14	32	1.93
5026103--5026127	13	1.9	13	100	0	50	32	8	12	48	1.69
5030196--5030264	34	2.0	35	97	2	131	31	20	11	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5032340--5032413	37	2.0	37	100	0	148	32	16	21	29	1.95
5033391--5033477	43	2.0	44	84	2	113	37	22	8	31	1.83
5034736--5034771	2	18.5	2	94	5	65	50	0	0	50	1.00
5035290--5035321	2	16.5	2	93	6	57	50	0	0	50	1.00
5035304--5035348	24	1.9	23	81	4	54	48	0	4	46	1.22
5035391--5035431	18	2.3	18	86	0	55	65	2	0	31	1.05
5036100--5036124	13	1.9	13	100	0	50	16	52	24	8	1.70
5036871--5036957	3	30.0	3	76	9	65	60	1	0	37	1.04
5040324--5040496	49	3.5	47	76	14	154	67	1	9	21	1.27
5040324--5040496	50	3.5	46	75	16	143	67	1	9	21	1.27
5041662--5041713	6	9.0	6	83	12	65	80	0	1	17	0.80
5041680--5041709	5	5.8	5	92	7	51	83	0	0	16	0.65
5041680--5041713	16	2.1	16	100	0	68	82	0	0	17	0.67
5041662--5041709	11	4.3	11	89	10	71	81	0	2	16	0.79
5041687--5041746	16	3.8	16	77	16	54	70	3	0	26	1.03
5041682--5041803	3	40.3	3	70	22	62	63	2	0	33	1.07
5041727--5041803	14	5.2	16	76	16	85	58	1	0	40	1.06
5041730--5041837	34	3.3	34	86	8	129	54	2	1	40	1.25
5041727--5041806	29	2.8	29	94	3	137	57	1	0	41	1.07
5041727--5041845	29	3.9	29	86	10	132	54	3	1	40	1.27
5041906--5041937	2	16.5	2	93	6	57	46	0	0	53	1.00
5041861--5041972	57	2.0	58	87	5	167	44	5	2	47	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5041922--5042133	39	5.7	38	84	10	271	41	6	4	47	1.50
5042481--5042532	17	2.8	18	74	11	52	42	1	0	55	1.10
5042493--5042532	18	2.3	18	91	4	64	37	2	0	60	1.11
5042636--5042671	3	12.0	3	87	0	54	33	5	0	61	1.19
5043940--5043978	18	2.2	18	95	0	69	51	7	5	35	1.53
5051731--5052075	54	6.4	54	90	0	528	25	22	21	31	1.98
5056088--5056389	72	4.1	73	90	2	446	55	16	6	21	1.64
5060186--5060235	15	3.3	15	77	0	55	8	12	66	14	1.45
5067410--5067440	16	1.9	16	93	0	53	19	12	19	48	1.81
5068271--5068331	30	2.1	29	81	9	70	42	16	6	34	1.74
5069136--5069172	10	3.5	11	85	7	51	0	54	0	45	1.00
5072662--5072917	80	3.2	80	90	1	395	22	19	25	32	1.98
5075143--5075208	31	2.1	31	86	5	89	22	43	16	16	1.87
5076969--5077032	12	5.4	12	68	17	53	23	18	21	35	1.95
5076955--5077045	24	3.8	24	86	2	114	25	16	19	38	1.92
5077123--5077197	35	2.1	35	92	0	123	12	29	25	33	1.92
5078893--5078931	18	2.2	18	95	0	69	17	48	20	12	1.80
5078925--5078972	14	3.4	14	97	0	87	25	20	18	35	1.95
5081344--5081412	23	2.9	24	84	4	95	26	17	20	36	1.94
5081495--5081569	35	2.1	35	90	0	114	13	28	26	32	1.94
5091213--5091508	86	3.4	86	80	3	310	30	15	20	33	1.94
5091203--5091376	42	4.1	41	82	7	206	30	15	20	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5091203--5091463	44	6.1	42	77	8	215	31	14	20	33	1.93
5091204--5091466	129	2.1	127	80	4	287	30	14	20	33	1.93
5091219--5091545	173	1.9	173	80	6	385	30	15	19	33	1.93
5091221--5091543	44	7.5	44	73	11	145	30	15	20	34	1.93
5091696--5091762	20	3.3	20	97	0	125	13	25	5	55	1.61
5103549--5103594	16	2.8	17	77	9	60	34	15	17	32	1.91
5103862--5103906	12	3.7	12	80	14	56	35	0	2	62	1.08
5103864--5103906	13	3.5	13	78	12	54	34	0	2	62	1.08
5103854--5103915	24	2.6	24	87	7	92	30	0	4	64	1.14
5107462--5107503	16	2.6	16	85	7	59	64	2	0	33	1.07

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