genome.fa.s8245.2.7.7.80.10.50.1000.22.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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  22  of  33  ( 3922 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)
4488606--4488657	3	17.3	3	76	7	52	32	3	0	63	1.12
4495219--4495281	25	2.6	24	82	9	74	33	9	1	55	1.42
4497735--4498067	102	3.3	99	82	7	389	35	17	11	36	1.85
4498643--4498719	3	25.3	3	76	7	75	32	1	1	64	1.09
4500176--4500294	59	2.0	59	98	0	229	26	11	21	39	1.88
4507703--4508015	160	2.0	152	93	6	529	34	3	27	34	1.75
4508519--4508557	19	2.1	19	85	4	53	23	5	23	48	1.70
4508971--4509005	18	1.9	18	94	0	61	17	25	31	25	1.97
4513932--4514042	55	2.0	55	100	0	222	27	10	21	40	1.86
4522757--4522841	30	2.8	30	79	15	95	38	5	9	45	1.61
4527358--4527407	21	2.4	22	80	12	61	32	0	42	26	1.56
4532969--4533020	24	2.2	24	82	0	59	50	17	11	21	1.77
4532992--4533107	24	4.8	24	86	6	155	41	18	16	23	1.90
4533025--4533125	48	2.1	48	85	3	132	42	19	14	22	1.88
4532998--4533130	72	1.9	71	82	7	171	44	18	14	23	1.86
4535621--4535660	7	5.4	7	82	11	53	25	25	35	15	1.94
4535629--4535663	8	4.5	8	92	7	63	22	25	37	14	1.92
4535612--4535660	15	3.1	15	91	5	71	24	26	34	14	1.94
4536495--4537041	273	2.0	273	99	0	1078	26	17	26	29	1.98
4538927--4539021	29	3.2	28	71	12	73	36	18	2	42	1.63
4539257--4539388	60	2.2	60	84	8	171	37	6	24	31	1.82
4541200--4541273	21	3.9	19	76	23	68	25	1	0	72	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4541216--4541266	26	2.0	26	84	7	68	25	0	0	74	0.82
4541217--4541272	22	2.6	21	83	13	69	25	0	0	75	0.81
4541205--4541321	49	2.4	47	80	7	119	23	3	0	71	1.06
4541215--4541348	8	15.2	8	69	20	63	20	3	0	75	1.00
4541215--4541348	27	5.0	26	71	17	87	20	3	0	75	1.00
4544385--4544426	21	2.0	21	90	0	66	30	11	7	50	1.66
4544421--4544524	33	3.2	33	95	1	183	30	7	17	44	1.77
4544566--4544596	14	2.2	14	94	0	53	22	9	12	54	1.67
4545070--4545162	21	4.6	20	78	4	96	38	18	24	18	1.92
4545067--4545162	41	2.3	41	98	0	183	39	17	23	18	1.92
4545070--4545162	20	4.6	20	78	4	96	38	18	24	18	1.92
4545151--4545244	20	4.7	20	77	2	80	35	24	17	23	1.95
4545148--4545225	41	1.9	41	83	0	102	41	21	15	21	1.90
4545795--4545839	19	2.4	19	92	0	72	48	26	15	8	1.74
4545764--4545823	31	1.9	31	89	0	93	43	25	18	13	1.86
4545835--4546016	19	10.1	19	74	17	147	12	22	22	42	1.87
4545835--4545923	37	2.4	37	92	3	142	12	20	22	44	1.84
4545906--4545990	33	2.6	32	90	3	125	11	24	25	37	1.90
4545955--4546016	20	3.2	20	77	11	65	12	25	17	43	1.85
4547712--4547778	21	3.2	21	66	6	55	23	35	20	19	1.95
4547685--4547778	42	2.2	42	81	7	102	22	35	21	21	1.96
4548124--4548539	211	2.0	206	96	3	771	37	12	18	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4549337--4549372	14	2.6	14	95	0	63	30	0	25	44	1.54
4549530--4549647	19	6.7	19	66	19	76	13	23	20	42	1.88
4549534--4549627	33	2.8	33	98	0	179	12	24	19	43	1.85
4553088--4553143	20	2.8	20	94	0	94	35	23	23	17	1.95
4553090--4553154	20	3.3	20	86	2	60	38	21	23	16	1.93
4553154--4553226	14	4.5	15	74	22	60	13	20	19	46	1.83
4553150--4553216	18	3.8	19	83	16	92	13	22	17	46	1.83
4555232--4555298	19	3.5	19	83	4	89	37	23	23	14	1.93
4555287--4555344	14	3.9	14	79	16	71	48	25	17	8	1.75
4555271--4555349	32	2.4	33	95	2	142	46	24	18	10	1.80
4555403--4555457	20	2.8	19	83	8	65	16	23	23	36	1.94
4555929--4555973	18	2.5	18	85	0	63	15	15	42	26	1.87
4557533--4557576	22	2.0	22	95	0	79	18	15	45	20	1.85
4557764--4557857	20	4.7	20	80	2	89	23	18	24	34	1.96
4557784--4557861	41	1.9	41	86	0	111	21	16	21	39	1.92
4557744--4557858	20	5.7	20	78	5	88	23	17	23	35	1.95
4557847--4557943	21	4.7	21	84	2	133	16	25	18	39	1.91
4557784--4557879	41	2.3	41	80	3	104	20	19	21	37	1.94
4557827--4557960	62	2.2	62	82	6	166	18	24	19	37	1.94
4557866--4557963	41	2.4	41	96	0	178	18	23	18	39	1.92
4557847--4557960	21	5.6	20	83	3	111	17	25	18	38	1.92
4557827--4557975	62	2.4	62	76	2	147	20	23	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4561110--4561228	3	39.7	3	93	0	202	34	2	0	63	1.08
4561708--4561746	12	3.2	12	88	0	60	53	17	28	0	1.44
4561741--4561779	18	2.1	19	90	4	62	76	7	15	0	0.99
4563393--4563446	28	2.0	27	81	3	63	31	1	1	64	1.14
4563401--4563436	18	1.9	19	88	5	56	33	2	0	63	1.08
4574072--4574124	4	13.5	4	77	18	58	79	1	18	0	0.83
4574069--4574161	7	13.1	7	72	13	66	79	1	16	3	0.92
4574072--4574159	11	7.5	11	71	28	67	79	1	15	3	0.92
4574081--4574159	9	8.9	9	74	16	67	79	1	15	3	0.93
4574075--4574153	16	5.2	16	78	18	73	79	1	15	3	0.93
4574081--4574162	17	4.8	17	82	13	80	79	1	15	3	0.94
4574069--4574161	27	3.5	26	80	13	102	79	1	16	3	0.92
4574075--4574159	44	2.0	43	88	6	127	80	1	15	3	0.92
4574487--4574532	19	2.6	18	83	10	60	32	6	8	52	1.58
4575191--4575830	83	7.7	83	93	1	1022	27	13	22	36	1.92
4575191--4575830	250	2.6	249	94	2	1110	27	13	22	36	1.92
4575191--4575830	333	1.9	331	94	1	1129	27	13	22	36	1.92
4576571--4577199	114	5.5	113	90	5	876	37	13	20	28	1.91
4576571--4577199	227	2.8	226	88	5	894	37	13	20	28	1.91
4577336--4577433	3	32.7	3	91	0	160	34	3	0	62	1.11
4577909--4577949	12	3.4	12	89	0	64	53	17	29	0	1.44
4577944--4577981	19	2.0	19	94	0	67	76	5	18	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4586679--4586708	2	15.0	2	100	0	60	50	0	0	50	1.00
4588071--4588101	15	2.1	15	93	0	53	45	0	0	54	0.99
4588256--4588293	20	1.9	20	88	0	58	21	26	10	42	1.85
4590611--4590646	18	2.0	18	94	0	63	38	2	22	36	1.69
4593424--4593530	8	13.2	8	67	18	53	40	2	1	55	1.25
4593418--4593458	19	2.1	20	86	4	57	43	0	4	51	1.23
4593449--4593500	16	3.2	16	78	5	59	44	3	0	51	1.19
4593490--4593530	15	2.7	15	88	0	64	39	2	0	58	1.11
4595247--4595320	17	4.4	17	70	16	55	68	2	0	28	1.03
4595280--4595350	19	3.9	17	77	15	72	56	1	1	40	1.17
4595280--4595319	16	2.3	18	87	8	57	65	0	0	35	0.93
4595931--4595974	23	2.0	23	86	8	65	36	0	2	61	1.09
4604935--4605010	11	6.6	11	72	21	59	25	23	25	26	2.00
4604934--4605010	23	3.3	23	85	3	93	24	23	25	25	2.00
4605726--4606228	258	1.9	259	93	1	857	48	14	19	16	1.80
4606503--4606562	21	2.8	22	80	5	70	43	35	0	21	1.53
4606986--4607076	11	8.7	11	68	20	52	37	1	3	58	1.22
4607572--4607607	18	2.1	18	89	5	56	52	0	5	41	1.24
4608365--4608423	18	3.1	18	75	17	64	27	30	20	22	1.98
4610188--4610218	15	2.1	15	93	0	53	45	3	6	45	1.45
4610258--4610330	5	15.0	5	77	14	73	38	0	2	58	1.12
4610261--4610330	16	4.2	16	87	7	95	38	0	2	58	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4615678--4615766	26	3.4	26	96	0	160	29	6	14	49	1.69
4616354--4616400	22	2.1	22	84	4	58	57	4	4	34	1.38
4617057--4617107	21	2.5	21	70	3	50	52	1	0	45	1.12
4623564--4623647	23	3.7	23	85	0	123	28	25	26	20	1.99
4630404--4630464	23	2.7	23	87	5	88	27	27	24	19	1.99
4633711--4633749	17	2.2	18	86	4	53	10	2	5	82	0.93
4633711--4633756	20	2.2	22	84	7	60	10	2	4	82	0.89
4640496--4640582	41	2.1	41	85	6	113	33	19	18	28	1.95
4642143--4642168	4	6.5	4	100	0	52	23	0	0	76	0.78
4643148--4643249	51	2.0	51	100	0	204	19	25	17	37	1.94

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