genome.fa.s7957.2.7.7.80.10.50.1000.34.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  34  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)
6937827--6937979	61	2.5	60	88	1	216	13	21	22	42	1.87
6937823--6938019	101	2.0	100	84	8	256	14	21	22	41	1.89
6938007--6938032	13	2.0	13	100	0	52	30	15	23	30	1.95
6938631--6938670	6	6.7	6	100	0	80	0	17	50	32	1.47
6938768--6938817	22	2.3	22	96	0	91	38	28	16	18	1.91
6946641--6946842	100	2.0	100	94	0	350	20	36	14	28	1.92
6949904--6949933	15	2.0	15	100	0	60	40	26	0	33	1.57
6950640--6950676	15	2.5	15	95	0	65	5	16	70	8	1.30
6953380--6953415	15	2.5	14	86	8	54	47	0	0	52	1.00
6953380--6953440	29	2.1	29	85	11	81	45	0	0	54	1.00
6953417--6953466	18	2.7	19	79	17	61	50	0	0	50	1.00
6953628--6953701	33	2.2	35	77	18	86	50	1	0	48	1.09
6953591--6953716	37	3.9	32	74	20	102	46	1	1	50	1.20
6953633--6953727	14	6.9	14	67	11	54	48	1	1	49	1.15
6955106--6955251	40	3.7	40	93	0	238	30	17	6	45	1.74
6958460--6958550	45	2.0	45	93	0	155	31	29	13	25	1.93
6960845--6961195	175	2.0	173	95	3	580	46	9	20	23	1.79
6961680--6961726	2	23.5	2	100	0	94	48	0	0	51	1.00
6962432--6962486	3	17.7	3	81	7	65	65	1	0	32	1.03
6963070--6963148	42	1.9	41	92	7	133	21	17	18	41	1.90
6963122--6963198	17	4.4	17	66	23	52	19	22	10	48	1.79
6963170--6963254	44	2.0	43	88	8	131	25	16	15	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6963386--6963719	136	2.5	135	90	5	520	25	22	17	35	1.95
6963505--6963938	227	1.9	227	87	3	633	24	23	16	35	1.95
6964302--6964345	15	2.9	15	79	0	61	31	22	22	22	1.98
6964356--6964475	37	3.2	37	74	9	127	40	14	18	26	1.88
6964459--6964517	29	2.0	30	83	6	77	42	16	10	30	1.82
6964450--6964619	66	2.6	65	85	5	225	39	14	18	28	1.89
6964561--6964689	39	3.4	36	86	5	150	37	14	19	27	1.91
6964552--6965158	40	15.3	39	87	4	535	40	12	17	30	1.86
6964622--6965158	40	13.4	40	92	0	851	40	11	16	31	1.85
6964828--6964896	23	3.3	23	64	29	62	42	10	11	36	1.75
6964988--6965056	23	3.3	23	61	23	60	39	14	14	31	1.86
6968044--6968130	1	87.0	1	69	0	57	0	14	0	85	0.61
6968044--6968130	19	4.2	19	83	15	102	0	14	0	85	0.61
6968040--6968130	11	9.0	10	82	12	107	0	15	0	84	0.62
6968040--6968132	34	2.6	34	79	12	100	0	16	0	83	0.64
6971632--6971686	20	2.8	19	84	13	67	54	16	14	14	1.71
6971629--6971686	26	2.2	26	93	0	98	53	15	15	15	1.73
6973271--6973312	19	2.3	19	91	4	68	61	4	0	33	1.17
6974529--6974586	2	30.5	2	86	10	86	44	0	1	53	1.10
6975292--6975346	3	17.7	3	81	7	65	65	1	0	32	1.03
6976165--6976217	25	2.1	25	89	10	81	54	0	1	43	1.11
6976279--6976308	15	1.9	16	93	6	53	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6976285--6976349	24	2.8	24	80	15	73	53	0	0	46	1.00
6976299--6976368	30	2.3	32	85	7	92	52	1	0	45	1.09
6976459--6976511	24	2.2	24	83	6	63	56	1	1	39	1.21
6979578--6979629	26	2.0	26	96	0	95	46	30	5	17	1.71
6982017--6982050	2	17.5	2	93	6	61	50	0	0	50	1.00
6982129--6982167	12	3.2	12	85	0	51	61	0	0	38	0.96
6982270--6982318	2	24.5	2	100	0	98	51	0	0	48	1.00
6983874--6983952	30	2.7	29	86	5	106	32	10	18	37	1.85
6984137--6984421	37	8.1	36	66	21	133	36	12	19	31	1.90
6983907--6984414	102	5.0	102	93	0	849	37	13	18	30	1.89
6984397--6984773	72	5.2	72	90	0	556	40	13	17	27	1.88
6986092--6986284	95	2.0	95	88	2	289	31	16	17	35	1.91
6988998--6989056	30	2.0	29	83	9	75	44	22	5	28	1.74
6991313--6991370	24	2.3	26	88	8	93	72	0	6	20	1.07
6991317--6991397	22	3.6	23	79	14	89	70	1	9	18	1.22
6991873--6991903	13	2.5	12	94	5	53	74	0	0	25	0.82
6991961--6991985	2	12.5	2	100	0	50	52	0	0	48	1.00
6993064--6993094	14	2.2	14	100	0	62	51	0	0	48	1.00
6993569--6994621	106	10.0	105	87	3	1395	22	19	25	32	1.97
6993569--6994621	316	3.3	314	87	3	1438	22	19	25	32	1.97
7005996--7006077	25	3.3	25	81	9	98	73	1	8	17	1.15
7006461--7006519	2	29.5	2	100	0	118	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)
7008167--7008194	8	3.5	8	100	0	56	28	14	14	42	1.84
7015487--7015511	10	2.5	10	100	0	50	92	0	8	0	0.40
7019730--7019779	14	3.5	13	77	17	55	76	0	4	20	0.95
7022534--7022568	11	3.1	11	88	8	52	34	34	14	17	1.90
7023977--7024006	2	15.0	2	100	0	60	50	0	0	50	1.00
7024700--7024766	35	1.9	35	96	0	125	37	0	22	40	1.54
7024704--7024779	35	2.2	35	82	0	98	43	1	19	35	1.60
7026695--7026776	42	2.0	42	92	0	137	41	14	8	35	1.77
7029982--7030028	20	2.3	20	81	0	58	29	31	21	17	1.96
7030807--7030937	31	4.2	31	92	0	208	12	27	34	25	1.92
7031879--7032246	131	2.8	131	86	0	522	40	16	11	32	1.84
7033002--7033045	23	1.9	23	90	0	70	25	18	27	29	1.98
7033315--7033346	15	2.1	15	100	0	64	68	0	31	0	0.90
7033324--7033353	12	2.6	11	90	10	51	70	0	30	0	0.88
7033466--7033509	21	2.1	21	91	0	70	29	0	15	54	1.42
7033486--7033548	28	2.2	30	94	5	112	30	0	12	57	1.36
7034105--7034164	29	2.1	29	96	0	111	21	33	33	11	1.90
7034320--7034363	23	1.9	23	90	0	70	25	18	27	29	1.98
7034633--7034664	15	2.1	15	100	0	64	68	0	31	0	0.90
7034642--7034671	12	2.6	11	90	10	51	70	0	30	0	0.88
7034784--7034827	21	2.1	21	91	0	70	29	0	15	54	1.42
7034804--7034866	28	2.2	30	94	5	112	30	0	12	57	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7038695--7039117	49	8.6	49	89	4	584	41	0	12	46	1.45
7039334--7039430	16	5.9	15	69	24	54	37	1	11	50	1.45
7039334--7039402	8	8.2	8	73	19	52	36	1	11	50	1.48
7039325--7039447	35	3.5	35	85	5	151	38	1	11	48	1.49
7039395--7039666	12	22.2	11	71	16	148	43	2	9	45	1.48
7039404--7039666	14	20.1	13	72	20	155	43	2	8	45	1.47
7039404--7039666	26	10.6	26	77	11	241	43	2	8	45	1.47
7039324--7039509	19	10.0	19	64	24	76	38	2	10	48	1.50
7039794--7039835	17	2.5	16	85	11	57	42	0	0	57	0.99
7042036--7042084	22	2.2	22	96	0	89	38	12	2	46	1.53
7042028--7042147	30	4.3	30	77	17	127	45	10	0	42	1.45
7042210--7042324	41	2.9	37	74	19	99	44	13	1	40	1.53
7042359--7042413	18	3.4	18	65	31	52	52	9	0	38	1.33
7042538--7042604	27	2.4	29	80	9	77	44	17	1	35	1.58
7042551--7042603	28	1.9	27	84	3	70	47	18	1	32	1.60
7042662--7042703	21	1.9	23	90	9	70	61	14	0	23	1.32
7042658--7042708	21	2.4	21	83	9	68	58	13	0	27	1.36
7042833--7042890	23	2.5	23	88	0	80	39	17	22	20	1.92
7043046--7043119	30	2.5	29	87	8	105	18	25	37	17	1.93
7043146--7043176	16	1.9	16	100	0	62	19	35	38	6	1.77
7044568--7044637	3	23.0	3	94	2	122	64	0	1	34	1.03
7044645--7044704	6	10.0	6	85	0	57	50	15	15	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7044620--7044704	36	2.4	36	83	0	98	50	10	15	23	1.75
7049902--7049953	24	2.2	24	100	0	104	32	7	3	55	1.46
7051924--7052003	28	2.8	28	79	9	74	68	0	2	28	1.02
7052333--7052444	33	3.4	32	88	3	152	28	13	20	37	1.90
7052349--7052447	33	3.0	33	93	0	171	27	11	21	40	1.87
7052502--7052571	26	2.7	27	82	8	85	68	0	0	31	0.90
7052503--7052568	9	7.4	9	73	18	50	68	0	0	31	0.90
7052918--7053008	32	2.9	30	80	15	105	30	8	20	39	1.83
7053060--7053180	36	3.4	36	80	13	135	41	16	18	23	1.90
7053064--7053122	15	3.5	15	72	24	55	42	18	18	20	1.90

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