genome.fa.s7923.2.7.7.80.10.50.1000.24.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  24  of  40  ( 4704 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)
4861570--4861616	19	2.5	19	96	0	85	34	17	23	25	1.96
4862261--4862320	23	2.6	23	86	0	75	20	25	26	28	1.99
4862903--4863493	110	5.4	110	93	0	975	34	23	17	25	1.95
4863409--4863556	67	2.3	64	85	9	194	33	22	18	25	1.97
4863690--4864214	84	6.3	83	80	6	571	29	25	20	24	1.99
4863690--4864214	165	3.2	165	93	1	879	29	25	20	24	1.99
4864841--4864947	40	2.7	39	85	9	137	45	5	6	42	1.53
4864942--4865018	40	1.9	41	89	2	120	49	2	5	42	1.39
4866611--4866637	6	4.5	6	100	0	54	44	0	0	55	0.99
4869794--4870095	152	2.0	152	92	1	507	31	16	10	40	1.84
4871397--4871432	17	2.1	17	100	0	72	52	11	0	36	1.37
4875262--4875324	21	3.0	21	74	2	74	53	1	3	41	1.26
4875262--4875327	20	3.2	20	73	10	71	54	1	3	40	1.25
4878853--4878910	3	19.3	3	100	0	116	67	0	0	32	0.91
4881297--4881336	2	20.0	2	100	0	80	50	0	0	50	1.00
4882431--4882523	4	24.0	4	73	12	70	72	2	6	19	1.17
4882623--4882673	2	25.5	2	91	0	84	50	1	0	47	1.12
4882615--4882678	8	7.9	8	91	1	65	53	3	0	43	1.16
4884914--4885206	111	2.7	111	82	5	327	22	18	24	33	1.96
4885253--4885321	21	3.2	21	64	18	52	15	17	34	31	1.92
4885217--4885338	43	2.8	43	96	0	226	20	16	32	30	1.95
4885232--4885300	22	3.2	22	63	19	54	20	10	37	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4886424--4886454	16	2.0	16	93	6	55	0	9	6	83	0.79
4897075--4897116	2	21.0	2	100	0	84	50	0	0	50	1.00
4897155--4897266	49	2.3	50	83	6	140	56	1	7	34	1.37
4898412--4898441	15	1.9	15	93	6	51	43	3	0	53	1.17
4899099--4899188	30	3.0	29	74	6	83	46	4	13	35	1.63
4904746--4904852	31	3.4	32	73	18	107	29	18	16	34	1.94
4905541--4905582	21	2.0	21	95	0	75	14	21	33	30	1.93
4911445--4911482	20	2.0	19	90	10	60	31	15	28	23	1.96
4911918--4912050	2	66.5	2	100	0	266	50	0	0	49	1.00
4912346--4912408	22	3.0	20	86	6	63	26	22	22	28	1.99
4912367--4912408	21	2.0	21	95	4	77	26	23	26	23	2.00
4913670--4913703	16	2.1	16	100	0	68	41	23	11	23	1.87
4920651--4920722	35	2.1	35	97	0	135	41	11	19	27	1.85
4921190--4921222	2	16.5	2	100	0	66	48	0	0	51	1.00
4921127--4921265	59	2.3	59	80	11	142	35	5	2	56	1.33
4921403--4921433	2	15.5	2	100	0	62	48	0	0	51	1.00
4921546--4921622	41	1.9	39	84	5	100	20	25	3	49	1.66
4921798--4921830	15	2.2	15	94	0	57	9	12	0	78	0.95
4933290--4933863	106	5.5	106	86	6	771	33	22	19	24	1.97
4933290--4933863	201	2.8	204	86	5	764	33	22	19	24	1.97
4933829--4933893	30	2.2	30	97	0	121	29	24	26	20	1.99
4933859--4934056	106	1.9	106	81	4	247	32	23	18	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4933630--4934057	240	1.8	229	81	9	531	32	22	20	23	1.98
4934947--4934986	18	2.3	18	83	8	57	25	5	2	67	1.23
4934984--4935016	2	16.5	2	93	0	57	45	0	3	51	1.16
4935051--4935093	2	21.5	2	100	0	86	48	0	0	51	1.00
4935189--4935223	17	2.1	17	88	0	52	40	11	0	48	1.39
4935414--4935490	41	1.9	39	84	5	100	18	28	5	48	1.69
4935506--4935593	44	2.0	44	85	8	119	31	4	7	55	1.49
4936465--4936501	18	2.0	19	94	5	67	37	10	21	29	1.88
4936653--4936693	19	2.1	20	86	4	57	36	19	14	29	1.92
4937654--4937695	21	2.0	21	81	9	50	54	4	2	38	1.34
4938177--4938297	58	2.1	58	93	0	206	38	5	7	47	1.56
4938325--4938399	22	3.3	22	72	22	64	44	2	1	52	1.23
4944248--4944288	13	3.1	13	85	3	55	56	14	2	26	1.51
4944298--4944424	47	2.8	45	75	14	127	65	8	3	22	1.35
4944336--4944418	43	1.9	44	90	2	132	67	6	2	24	1.25
4944512--4945256	6	124.2	6	97	0	1310	30	16	2	50	1.59
4949515--4949554	20	2.0	20	85	4	55	62	2	10	25	1.39
4949735--4949773	18	2.2	18	100	0	78	35	10	33	20	1.86
4954933--4954971	20	2.0	20	89	0	60	10	10	17	61	1.55
4959695--4959728	11	3.0	11	91	4	50	76	5	0	17	0.98
4960301--4960364	31	2.1	31	90	0	101	25	29	14	31	1.94
4962262--4962329	31	2.2	31	89	0	109	32	13	30	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4966865--4966916	23	2.3	23	100	0	104	53	7	28	9	1.61
4968285--4968343	30	1.9	31	86	13	86	50	3	6	38	1.45
4974814--4974869	21	2.7	21	94	0	94	21	25	30	23	1.99
4975140--4975234	36	2.6	36	91	0	154	38	24	9	27	1.86
4982955--4982987	14	2.4	14	94	0	57	24	39	30	6	1.79
4982969--4983053	33	2.6	33	90	0	125	24	28	37	9	1.86
4983106--4983246	10	13.1	10	68	14	75	11	33	30	24	1.91
4983102--4983190	33	2.7	33	91	0	133	11	37	26	24	1.89
4983139--4983226	20	4.2	20	78	8	95	12	30	31	25	1.92
4983213--4983240	14	2.0	14	100	0	56	7	28	42	21	1.79
4983539--4983605	29	2.3	29	94	0	116	14	37	32	14	1.88
4994202--4994240	17	2.4	17	86	4	53	64	2	0	33	1.08
4995260--4995285	7	3.7	7	100	0	52	0	53	0	46	1.00
4998087--4998111	2	12.5	2	100	0	50	48	0	0	52	1.00
5001355--5001391	2	18.5	2	100	0	74	51	0	0	48	1.00
5001915--5001965	26	1.9	25	88	8	66	60	5	0	33	1.21
5008819--5008876	24	2.4	24	83	8	73	22	5	5	67	1.31
5009094--5009136	14	3.1	14	93	0	68	9	9	18	62	1.51
5009314--5009352	10	3.9	10	86	0	60	17	12	10	58	1.61
5009314--5009351	20	1.9	20	94	0	67	18	13	10	57	1.63
5009314--5009440	57	2.2	57	76	15	138	14	14	14	55	1.70
5009426--5009457	14	2.3	14	94	0	55	9	15	18	56	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5009314--5009460	24	6.4	23	76	4	120	14	14	15	55	1.69
5014205--5014337	64	2.1	64	98	0	257	42	11	13	33	1.80
5015593--5015659	31	2.2	31	89	7	102	47	17	13	20	1.81
5023357--5023898	267	2.0	266	98	0	1048	30	11	16	40	1.84
5027386--5028140	251	3.0	250	86	3	1014	22	21	23	33	1.98
5027386--5028140	127	6.0	126	86	2	1000	22	21	23	33	1.98
5027386--5028129	378	2.0	379	88	2	1104	22	21	22	33	1.98
5028140--5028208	23	2.8	24	76	12	70	46	1	20	31	1.60
5028375--5028812	217	2.0	217	90	4	697	45	8	6	39	1.60
5029244--5029289	21	2.2	20	85	11	65	26	23	30	19	1.98
5029250--5029291	21	2.0	21	95	0	75	23	23	30	21	1.99
5031137--5031171	14	2.6	14	90	4	54	57	0	0	42	0.99
5033407--5033484	31	2.5	31	91	0	120	28	28	10	33	1.90
5034662--5034733	32	2.3	31	90	4	110	33	22	19	25	1.97
5034989--5035028	15	2.9	13	85	10	53	40	22	2	35	1.68
5035679--5035755	3	26.3	3	82	10	97	35	2	1	61	1.18
5035679--5035755	23	3.5	22	83	13	97	35	2	1	61	1.18
5039274--5039335	32	2.0	32	96	3	117	14	14	9	61	1.57
5040511--5040590	26	3.3	25	68	21	80	23	23	11	41	1.87
5041196--5041228	17	1.9	17	93	0	57	72	15	12	0	1.12
5042370--5042408	4	10.2	4	89	10	64	51	25	0	23	1.49
5042366--5042408	22	2.0	22	100	0	86	51	25	0	23	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5042374--5042408	18	1.9	18	100	0	70	51	25	0	22	1.48
5043018--5043136	36	3.4	36	79	7	113	31	21	12	35	1.90
5043033--5043136	36	3.0	36	81	4	124	32	20	11	35	1.88
5043375--5043485	30	3.8	30	89	4	174	30	10	14	44	1.79
5043382--5043499	30	4.1	27	84	7	83	32	10	13	44	1.77
5043444--5043603	87	1.9	84	84	6	214	29	12	11	46	1.77
5043528--5043590	29	2.1	30	85	11	85	34	9	12	42	1.76
5043545--5043742	64	3.0	65	90	7	314	29	12	12	45	1.79
5043611--5043722	29	3.6	29	69	22	93	29	13	13	43	1.82
5043695--5043790	48	2.0	50	92	8	164	27	11	13	47	1.77

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