genome.fa.s8209.2.7.7.80.10.50.1000.25.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  25  of  30  ( 3569 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)
5545503--5545561	31	1.9	30	83	10	75	25	15	25	33	1.95
5545620--5545695	19	4.0	19	84	0	98	42	9	19	28	1.82
5547827--5547851	4	6.2	4	100	0	50	24	0	0	76	0.80
5548970--5549043	3	24.7	3	100	0	148	33	0	0	66	0.92
5549404--5549474	23	3.1	23	78	7	74	35	18	25	21	1.95
5554346--5554433	39	2.3	39	95	0	158	23	17	14	44	1.86
5554435--5554465	10	3.1	10	100	0	62	0	9	0	90	0.46
5556800--5556827	14	2.0	14	100	0	56	35	7	28	28	1.84
5558658--5558815	21	7.8	20	72	7	86	38	25	17	18	1.92
5558782--5558936	40	3.8	40	82	4	186	37	26	18	18	1.93
5558782--5558935	20	7.7	20	80	7	168	37	26	18	18	1.93
5559318--5559388	33	2.2	33	92	0	115	11	22	18	47	1.80
5559468--5559577	21	5.8	20	74	17	108	45	18	24	11	1.83
5559461--5559577	41	3.1	38	81	14	145	46	17	25	11	1.81
5559528--5559584	14	3.7	14	75	20	60	43	22	24	8	1.81
5559520--5559600	33	2.5	33	95	0	144	46	22	22	8	1.78
5559622--5559707	14	5.4	14	68	24	55	10	23	22	44	1.83
5559601--5559715	33	3.5	33	95	0	203	12	21	20	46	1.83
5559596--5559693	19	5.7	19	66	22	72	13	21	21	43	1.86
5561413--5561788	93	4.1	93	97	0	709	22	12	18	46	1.82
5561836--5561933	19	5.4	19	75	16	84	44	28	17	9	1.79
5561871--5561963	33	2.8	32	91	4	150	46	27	18	7	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5561851--5561963	52	2.2	51	81	9	131	46	28	17	7	1.74
5561851--5561963	19	6.5	19	74	19	120	46	28	17	7	1.74
5561959--5562112	19	8.6	19	77	17	141	10	18	24	46	1.80
5561981--5562037	14	3.7	14	75	24	53	10	19	22	47	1.80
5561964--5562094	33	3.8	33	84	10	165	9	18	24	48	1.77
5561959--5562112	33	4.3	39	82	9	145	10	18	24	46	1.80
5564036--5564071	14	2.6	14	95	0	63	33	0	22	44	1.53
5564177--5564274	19	5.4	19	84	13	143	45	17	22	14	1.84
5564177--5564293	53	2.2	53	96	1	218	43	17	24	13	1.86
5564283--5564529	19	13.7	19	82	13	317	15	21	17	45	1.85
5564283--5564543	52	4.9	52	89	7	325	15	21	17	45	1.85
5564289--5564543	33	7.2	33	80	12	194	14	21	17	46	1.84
5566963--5567009	24	2.0	24	87	8	69	38	21	14	25	1.92
5567690--5567939	20	12.5	20	87	0	268	20	17	25	36	1.94
5567889--5567960	20	3.6	19	78	10	65	13	15	26	44	1.84
5568919--5569113	51	3.9	50	79	6	196	27	11	13	47	1.77
5568919--5569111	101	1.9	101	84	8	259	27	11	13	47	1.78
5569686--5569723	12	3.2	12	92	0	67	7	15	50	26	1.72
5569686--5569740	24	2.3	24	90	0	83	12	14	47	25	1.80
5569739--5569840	32	3.2	32	78	12	102	47	0	0	52	1.00
5569842--5569885	13	3.5	13	93	3	72	13	15	52	18	1.75
5569909--5569937	6	4.8	6	100	0	58	0	65	17	17	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5570470--5570536	31	2.2	31	91	0	107	25	10	10	53	1.66
5571827--5571970	51	2.8	52	85	3	202	24	12	15	47	1.80
5573333--5573873	268	2.0	268	100	0	1082	34	19	14	31	1.92
5583968--5584080	60	1.9	60	81	7	140	46	9	5	38	1.60
5585737--5585765	14	2.0	15	93	6	51	27	0	17	55	1.42
5586067--5586119	23	2.2	24	86	3	72	47	1	0	50	1.12
5586181--5586230	25	1.9	25	84	8	64	48	0	2	50	1.12
5586911--5586972	32	1.9	31	84	12	81	59	1	1	37	1.17
5586996--5587102	48	2.4	43	84	12	112	51	11	7	29	1.65
5592472--5592517	24	2.0	23	86	4	65	15	8	26	50	1.73
5594437--5594469	15	2.2	15	94	0	57	15	27	15	42	1.86
5596169--5596204	18	1.9	19	88	5	56	38	27	0	33	1.57
5596375--5596433	18	3.3	18	95	0	100	28	49	0	22	1.50
5598207--5598252	24	2.0	23	91	4	74	15	10	26	47	1.78
5598242--5598291	20	2.5	20	96	3	93	6	14	38	42	1.70
5599123--5599163	17	2.3	19	87	8	59	36	4	4	53	1.44
5599645--5599700	26	2.2	26	96	0	103	44	3	16	35	1.65
5601607--5601756	76	2.0	76	92	7	254	17	22	14	46	1.83
5605125--5605256	66	2.0	65	98	1	255	31	22	21	24	1.98
5609730--5609777	20	2.6	17	78	18	51	41	0	2	56	1.11
5613574--5613652	40	2.0	41	85	7	108	34	20	11	34	1.88
5613615--5613685	20	3.5	20	77	7	70	33	22	9	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5613839--5613884	22	2.1	22	95	0	83	28	15	30	26	1.96
5613941--5614000	22	2.9	20	76	9	66	28	8	26	36	1.85
5613941--5614004	21	3.1	20	82	8	83	26	7	26	39	1.83
5613941--5614016	21	3.6	21	77	11	75	27	7	26	38	1.84
5617871--5617911	21	2.0	21	90	0	64	29	31	0	39	1.57
5623971--5624060	46	1.9	47	88	4	137	30	15	13	41	1.85
5624797--5624825	15	1.9	15	100	0	58	34	3	13	48	1.60
5630657--5630704	19	2.6	18	83	9	62	29	16	25	29	1.97
5630756--5630811	20	2.5	23	86	11	73	30	21	23	25	1.99
5631762--5631857	31	3.1	31	96	0	174	19	21	26	32	1.97
5634934--5634971	20	1.9	20	94	0	67	28	23	23	23	1.99
5635921--5635985	31	2.1	31	91	5	105	20	20	26	33	1.96
5635971--5636042	29	2.4	30	86	2	92	18	20	29	31	1.96
5637987--5638036	25	2.0	25	84	7	66	46	4	0	50	1.20
5644909--5644958	21	2.5	20	83	3	64	30	12	12	46	1.77
5645395--5645445	25	2.0	26	85	11	70	47	3	0	49	1.20
5646087--5646383	146	2.0	146	94	0	522	36	6	5	52	1.48
5646527--5646620	27	3.6	27	81	8	104	41	4	1	53	1.27
5646523--5646582	25	2.6	22	80	17	68	43	5	0	51	1.23
5646582--5646639	27	2.2	27	84	9	75	37	3	1	56	1.26
5648539--5648589	14	3.6	14	89	0	75	60	15	11	11	1.58
5648534--5648590	14	4.1	14	83	0	69	57	14	12	15	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5653962--5654029	21	3.2	21	76	19	70	52	20	4	22	1.63
5658529--5658573	22	2.0	22	91	8	74	46	22	4	26	1.70
5658533--5658592	22	2.9	20	79	18	61	48	21	5	25	1.70
5671093--5671269	95	1.9	96	81	3	223	32	17	23	27	1.97
5671093--5671290	95	2.1	96	80	4	222	33	16	22	27	1.96
5671629--5671802	58	3.0	58	81	3	206	33	14	20	31	1.93
5671650--5671802	59	2.6	58	84	3	209	34	14	19	31	1.92
5672172--5672563	136	2.9	136	89	1	615	31	13	24	30	1.94
5672172--5672572	68	5.9	68	85	1	543	31	13	24	30	1.94
5672535--5673078	81	6.7	81	88	2	763	35	11	25	27	1.91
5673328--5673361	13	2.5	14	90	4	52	58	0	26	14	1.36
5675878--5677079	601	2.0	601	98	0	2298	36	7	20	34	1.82
5677272--5677324	21	2.5	21	96	0	97	35	15	24	24	1.94
5677346--5677419	22	3.7	20	81	12	71	28	17	29	24	1.97
5677272--5677477	95	2.2	96	83	6	260	32	16	24	27	1.96
5677292--5677512	95	2.3	95	82	3	230	31	15	25	27	1.96
5677855--5678006	57	2.6	57	87	4	207	33	11	19	35	1.88
5678378--5678573	68	2.9	69	89	0	286	33	14	23	28	1.94
5678455--5678597	69	2.1	69	80	7	157	33	13	23	29	1.93
5678457--5678693	120	2.0	121	91	0	386	33	13	24	28	1.93
5678578--5678772	68	2.9	69	83	3	234	32	13	26	27	1.93
5678724--5679235	81	6.3	81	86	0	657	36	11	23	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5679301--5679328	2	14.0	2	100	0	56	50	0	0	50	1.00
5684370--5684768	201	2.0	197	97	2	746	40	15	19	24	1.90
5689050--5689117	23	3.2	23	64	23	67	30	38	14	16	1.89
5689042--5689122	40	2.0	40	100	0	162	33	37	12	17	1.87
5693751--5693798	24	2.0	24	100	0	96	33	16	4	45	1.67
5694603--5694630	14	2.0	14	100	0	56	21	21	21	35	1.96
5697945--5697994	21	2.5	20	83	3	64	30	12	12	46	1.77
5699101--5699383	137	2.0	139	88	6	423	36	6	5	52	1.50
5699517--5699573	22	2.5	23	86	8	73	42	5	0	52	1.24
5701508--5701558	14	3.6	14	89	0	75	60	15	11	11	1.58

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