genome.fa.s8356.2.7.7.80.10.50.1000.24.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  24  of  56  ( 6656 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)
4900134--4900191	19	2.8	21	79	15	66	50	3	34	12	1.57
4900141--4900188	19	2.5	19	93	0	78	54	4	31	10	1.53
4900440--4900473	17	2.0	17	88	11	52	58	0	0	41	0.98
4900505--4900560	18	3.2	18	82	5	62	44	0	3	51	1.18
4902025--4902074	24	2.0	25	84	11	66	56	8	2	34	1.40
4902068--4902133	2	33.0	2	75	6	62	48	4	3	43	1.38
4903860--4904078	89	2.4	90	95	1	395	33	22	17	26	1.96
4904072--4904834	39	19.6	39	90	0	1022	36	17	17	29	1.92
4904743--4905072	36	9.4	37	70	15	93	35	14	20	28	1.93
4904917--4905128	36	6.3	36	68	21	156	36	13	20	29	1.91
4904859--4905047	66	2.9	64	83	5	227	36	16	19	28	1.93
4905197--4905330	39	3.5	39	71	13	116	41	11	14	32	1.82
4905105--4905364	76	3.4	76	84	6	246	42	11	15	31	1.81
4905173--4905291	37	3.2	37	67	16	93	44	11	15	28	1.81
4907592--4907658	6	10.5	6	74	16	55	52	11	20	14	1.74
4907597--4907658	20	3.2	20	74	17	67	51	12	20	14	1.75
4907599--4907659	27	2.3	27	94	2	106	50	13	21	14	1.76
4909882--4909944	26	2.4	27	82	10	78	55	4	3	36	1.37
4911804--4911957	60	2.6	61	78	11	167	57	8	18	15	1.63
4911801--4911972	30	5.8	30	75	13	124	56	8	17	17	1.64
4913500--4913558	3	20.0	3	79	10	59	61	1	3	33	1.23
4913502--4913554	17	3.1	17	75	10	54	60	1	3	33	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4913498--4913566	10	6.8	10	75	20	63	59	1	4	34	1.26
4913500--4913566	15	4.0	16	71	22	57	59	1	4	34	1.26
4917817--4917881	31	2.1	31	97	0	121	23	23	12	41	1.87
4918122--4918200	25	3.2	25	87	0	113	35	10	21	32	1.87
4920589--4920623	17	2.0	18	88	5	54	40	5	0	54	1.24
4924090--4924137	23	2.1	23	100	0	96	27	16	8	47	1.75
4925204--4925261	18	3.2	18	95	0	107	31	27	10	31	1.90
4932540--4932580	20	2.0	20	95	0	73	36	19	12	31	1.89
4950679--4950720	21	2.0	21	81	9	50	35	2	4	57	1.33
4951842--4951898	8	7.2	8	77	14	57	57	1	3	36	1.26
4951842--4951898	15	3.6	15	82	13	78	57	1	3	36	1.26
4963735--4963786	20	2.5	21	87	6	70	26	13	26	32	1.94
4970304--4970375	30	2.4	30	90	0	108	31	22	19	26	1.97
4975524--4975596	30	2.4	30	93	0	119	31	24	19	24	1.98
4975582--4975646	31	2.1	31	85	0	85	33	23	18	24	1.96
4980477--4980516	20	2.0	20	85	0	53	32	10	7	50	1.64
4987806--4987881	22	3.5	22	81	0	89	32	19	21	26	1.97
4992192--4992233	17	2.5	17	88	0	57	28	23	19	28	1.98
4992510--4992593	21	4.0	21	78	6	98	47	28	0	23	1.52
4992526--4992626	35	2.9	35	84	8	109	46	26	0	26	1.53
4992526--4992618	42	2.2	43	84	7	120	46	26	0	26	1.53
4992881--4992921	14	3.1	14	76	20	52	41	0	4	53	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4996270--4996376	28	3.7	29	78	7	110	37	7	0	54	1.35
4996299--4996429	29	4.6	28	70	12	88	38	10	1	49	1.47
4996465--4996489	13	1.9	13	100	0	50	40	0	8	52	1.31
4996696--4996797	30	3.4	30	86	4	134	60	1	3	33	1.26
4999574--4999617	18	2.4	18	100	0	88	25	31	0	43	1.55
5002318--5003309	511	1.9	510	92	1	1657	38	10	14	36	1.81
5003991--5004080	31	2.8	31	78	9	74	34	7	7	50	1.60
5004030--5004115	33	2.6	31	72	16	75	36	3	10	50	1.54
5004018--5004426	199	2.1	197	87	3	606	37	5	8	48	1.57
5004469--5004511	22	2.0	22	90	0	68	46	2	6	44	1.43
5007728--5007772	10	4.1	10	79	20	54	8	11	22	57	1.60
5007711--5007782	24	3.0	24	89	0	63	11	13	25	50	1.75
5007732--5007806	14	5.9	14	69	23	58	10	10	21	57	1.62
5007721--5007806	24	3.6	24	91	0	127	11	11	20	55	1.66
5008878--5008951	10	7.6	10	66	22	50	9	9	21	59	1.57
5008883--5008947	16	4.1	16	93	0	112	7	10	23	58	1.57
5009212--5009252	3	13.7	3	94	0	73	31	2	0	65	1.05
5013213--5013383	85	2.0	85	83	6	213	29	18	19	32	1.96
5015240--5015316	9	8.3	9	77	11	68	18	1	3	76	1.01
5015220--5015314	42	2.2	42	83	11	111	23	2	3	71	1.11
5015238--5015311	36	2.1	34	83	11	89	18	1	4	75	1.03
5015251--5015329	18	4.2	19	76	19	67	21	2	2	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5015407--5015507	12	8.1	13	70	17	54	40	1	1	55	1.22
5015300--5015436	71	1.9	70	82	12	172	29	4	3	62	1.31
5015467--5015507	2	21.5	2	90	9	68	51	0	0	48	1.00
5015741--5015775	4	8.8	4	100	0	70	0	22	0	77	0.78
5015773--5015846	35	2.2	35	83	9	91	10	0	2	86	0.67
5015777--5015870	27	3.2	27	72	17	80	13	0	4	81	0.82
5015710--5015881	12	14.8	12	74	16	64	11	5	2	79	1.01
5015773--5015815	1	43.0	1	85	0	59	4	0	2	93	0.43
5018034--5018081	21	2.3	21	85	0	60	33	27	18	20	1.96
5018094--5018140	21	2.2	21	80	0	58	21	23	21	34	1.97
5018167--5018191	6	4.2	6	100	0	50	36	48	16	0	1.46
5018818--5018956	21	6.6	21	76	12	115	35	25	18	20	1.96
5018793--5018941	42	3.5	42	91	1	226	36	23	18	21	1.94
5020100--5020183	42	2.0	42	86	4	116	33	13	16	36	1.87
5022622--5022660	3	13.0	3	94	0	69	64	0	2	33	1.08
5022897--5023087	75	2.6	74	87	0	256	32	19	19	27	1.96
5023045--5023261	45	4.8	45	93	2	339	37	18	19	24	1.94
5025117--5025278	75	2.2	75	87	2	227	32	21	15	30	1.94
5028026--5028087	32	1.9	32	93	0	106	19	17	19	43	1.88
5034395--5034426	2	16.0	2	93	0	55	50	3	0	46	1.17
5035773--5035810	19	2.0	19	94	0	67	71	0	2	26	1.00
5036593--5036622	14	2.2	13	94	5	51	36	0	26	36	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5037377--5037430	18	2.9	18	83	8	65	61	0	14	24	1.34
5038005--5038091	43	2.0	43	97	0	165	40	3	18	37	1.68
5041097--5041168	3	23.7	3	88	2	99	61	0	0	38	0.96
5041446--5041994	113	4.8	112	85	2	686	28	17	14	39	1.89
5041446--5041994	226	2.4	225	90	2	830	28	17	14	39	1.89
5042806--5043024	83	2.6	83	92	0	366	37	23	13	25	1.91
5042963--5043088	64	2.0	64	96	0	234	38	21	15	24	1.92
5042877--5043171	147	2.0	147	92	0	491	38	21	12	26	1.90
5043024--5043596	83	6.9	83	89	0	894	36	22	12	28	1.91
5043024--5043596	249	2.3	249	99	0	1119	36	22	12	28	1.91
5044743--5044835	1	93.0	1	71	0	60	0	15	0	84	0.61
5044743--5044832	7	11.7	7	87	12	108	0	15	0	84	0.62
5044743--5044833	25	3.8	24	84	9	125	0	15	0	84	0.62
5044743--5044834	32	2.9	31	87	6	141	0	15	0	84	0.62
5044743--5044836	23	4.0	25	73	23	87	0	15	0	84	0.63
5054934--5054958	9	2.8	9	100	0	50	52	0	0	48	1.00
5055291--5055344	28	2.0	27	85	3	72	61	1	7	29	1.34
5055299--5055352	28	1.9	28	84	0	72	61	0	9	29	1.27
5057402--5057473	3	23.7	3	85	2	72	56	0	0	43	0.99
5065695--5065729	17	2.0	18	94	5	63	45	11	0	42	1.40
5066787--5066851	29	2.3	28	84	12	80	60	6	10	23	1.52
5068240--5068286	23	2.1	22	88	4	67	6	12	42	38	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5070019--5070074	19	2.8	19	75	21	53	71	1	5	21	1.15
5070126--5070168	18	2.4	18	88	0	59	69	0	9	20	1.15
5070870--5070917	25	2.0	24	84	12	62	60	12	2	25	1.43
5072847--5072895	10	4.5	11	82	12	57	73	8	6	12	1.24
5075960--5076097	75	1.9	74	89	3	197	57	13	0	28	1.41
5079359--5079438	39	2.1	38	83	6	99	33	12	0	53	1.39
5079403--5079461	21	2.7	22	82	10	68	38	5	0	55	1.22
5079430--5079508	27	2.9	27	77	14	81	34	0	1	64	1.02
5079450--5079498	18	2.7	18	82	17	57	28	0	2	69	1.00
5079548--5079578	15	2.1	15	93	0	53	29	0	6	64	1.18

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56