genome.fa.s8620.2.7.7.80.10.50.1000.22.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   57   58   59   60   61   62   63   64   

This is table  22  of  64  ( 7674 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)
4266839--4266901	31	2.0	31	100	0	126	55	9	19	15	1.67
4282907--4282980	3	25.0	3	77	2	78	43	0	0	56	0.99
4284309--4284351	19	2.3	19	87	0	59	30	2	2	65	1.18
4284697--4284993	157	1.9	155	86	4	427	39	5	6	48	1.52
4294083--4294140	22	2.6	22	94	0	98	32	15	13	37	1.87
4294795--4294934	72	1.9	72	86	4	201	25	20	18	36	1.95
4294917--4294951	17	2.1	17	94	0	61	22	17	8	51	1.72
4294844--4295115	90	3.0	90	94	1	467	25	19	19	35	1.95
4295009--4295042	17	2.0	17	100	0	68	23	23	11	41	1.87
4295026--4295911	73	11.9	73	89	3	1116	24	20	21	33	1.97
4295845--4296038	46	4.3	46	97	1	356	22	22	20	35	1.96
4295845--4296038	91	2.1	91	96	1	354	22	22	20	35	1.96
4296158--4296261	3	35.0	3	88	5	158	37	0	0	62	0.95
4297589--4297631	19	2.3	19	87	0	59	30	2	2	65	1.18
4297600--4297646	18	2.5	19	90	10	71	25	2	2	70	1.10
4297600--4297646	19	2.6	18	89	3	67	25	2	2	70	1.10
4297890--4298257	153	2.5	140	77	16	374	37	7	6	48	1.56
4297976--4298268	153	1.9	151	87	5	430	39	6	6	48	1.53
4303107--4303167	24	2.5	25	84	5	81	26	21	18	34	1.96
4303108--4303174	24	2.8	24	82	8	66	26	19	17	35	1.94
4304524--4304683	51	3.1	51	79	5	162	21	26	11	40	1.87
4312017--4312134	59	2.0	59	86	6	168	38	19	16	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4314666--4314785	58	2.1	59	95	1	215	33	22	18	25	1.97
4327194--4327258	2	32.5	2	100	0	130	50	0	0	49	1.00
4328120--4328157	20	1.9	20	88	0	58	44	2	0	52	1.14
4328317--4328395	27	3.0	28	76	14	78	48	2	3	45	1.34
4328484--4328527	22	2.0	22	82	8	54	54	2	4	38	1.33
4330600--4330965	148	2.5	146	79	5	378	40	12	10	35	1.78
4330721--4331073	148	2.4	151	81	4	396	40	12	9	37	1.76
4333768--4333886	29	4.2	28	80	9	116	19	13	5	61	1.52
4333770--4333953	29	6.3	28	69	15	97	21	11	5	60	1.53
4341118--4341195	2	38.5	2	86	7	104	46	2	1	50	1.23
4342028--4342107	40	2.0	40	80	4	90	20	26	25	28	1.99
4345086--4345178	46	2.0	46	95	0	168	36	9	21	32	1.86
4348508--4348610	40	2.6	40	84	0	125	22	24	25	28	1.99
4351499--4351576	3	24.3	3	71	21	52	60	3	1	34	1.23
4351499--4351577	28	2.7	29	82	3	88	59	5	1	34	1.27
4351628--4351692	3	21.7	3	100	0	130	66	0	0	33	0.92
4351725--4351805	2	40.5	2	97	0	153	48	0	0	51	1.00
4356984--4357107	6	20.7	6	97	0	230	34	32	15	17	1.91
4357778--4357833	18	2.9	20	71	10	62	28	28	23	19	1.98
4358402--4358525	63	2.0	63	82	3	151	25	18	20	34	1.96
4362369--4362441	18	3.9	18	77	7	83	28	31	20	19	1.97
4363937--4364055	6	19.8	6	87	0	76	41	33	10	14	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4363986--4364389	6	67.7	6	90	1	434	34	41	15	8	1.78
4364454--4364497	3	14.7	3	90	0	70	63	0	4	31	1.14
4370613--4370645	13	2.5	13	100	0	66	15	9	30	45	1.77
4372870--4372899	2	15.0	2	100	0	60	50	0	0	50	1.00
4374378--4374437	3	20.0	3	92	0	102	68	1	0	30	0.99
4388714--4388776	20	3.2	20	69	13	67	50	25	1	22	1.58
4388718--4388804	39	2.2	39	95	0	156	44	26	3	25	1.70
4393090--4393175	39	2.2	39	87	0	118	46	24	2	26	1.65
4396531--4396600	35	2.0	35	100	0	140	37	17	11	34	1.85
4406583--4406647	19	3.4	19	95	0	112	27	18	13	40	1.89
4412526--4412579	24	2.2	24	96	0	99	25	31	9	33	1.88
4416882--4416965	39	2.2	39	86	0	114	45	22	4	27	1.72
4423715--4423920	43	4.8	43	72	12	129	30	14	20	33	1.93
4424359--4424413	20	2.7	20	80	2	65	1	34	16	47	1.57
4424359--4424408	21	2.4	21	83	3	66	2	34	16	48	1.57
4424409--4424448	21	1.9	21	85	10	55	2	27	25	45	1.66
4430434--4430482	22	2.2	22	92	7	82	30	18	10	40	1.84
4432625--4432688	24	2.7	24	77	0	65	50	17	7	25	1.72
4433379--4433452	29	2.5	28	83	12	87	40	24	5	29	1.77
4433495--4433528	12	2.8	12	90	0	50	17	20	41	20	1.91
4433482--4433515	17	1.9	18	94	5	61	11	23	47	17	1.81
4439805--4439868	24	2.7	24	77	0	65	50	15	9	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4440558--4440631	29	2.5	28	83	12	87	40	24	5	29	1.77
4440661--4440703	13	3.3	13	100	0	86	13	23	46	16	1.83
4440680--4440756	17	4.4	18	90	6	113	12	23	46	16	1.82
4441517--4443493	746	2.6	746	98	0	3819	34	17	14	33	1.89
4443464--4443527	20	3.5	19	70	25	66	29	10	12	46	1.76
4443460--4443527	34	2.0	34	100	0	136	32	11	11	44	1.77
4448383--4448546	53	3.1	53	91	3	267	39	18	16	25	1.91
4462574--4462620	18	2.6	18	86	0	67	27	29	19	23	1.98
4463553--4463601	18	2.8	17	79	14	55	55	18	0	26	1.43
4463838--4463884	18	2.6	19	83	10	62	63	4	8	23	1.40
4463846--4463891	18	2.3	21	85	10	62	67	4	8	19	1.35
4465588--4465632	17	2.6	17	85	0	54	11	17	11	60	1.59
4475713--4475755	14	3.1	14	82	0	59	23	25	11	39	1.88
4476617--4476681	27	2.4	28	84	2	87	46	24	10	18	1.81
4478614--4478853	79	3.1	79	91	3	366	28	24	11	35	1.90
4491332--4491365	18	1.9	18	88	5	52	11	8	2	76	1.12
4495721--4495755	18	1.9	18	94	0	61	31	22	8	37	1.85
4500251--4500418	59	2.9	58	87	3	230	30	14	20	34	1.92
4500796--4500936	68	2.2	63	83	8	169	29	18	24	27	1.98
4500826--4500997	68	2.5	68	85	3	222	29	14	26	29	1.95
4503766--4503804	21	1.9	20	84	5	51	35	25	10	28	1.89
4512710--4512927	81	2.7	81	87	1	294	36	12	22	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4516862--4517065	95	2.2	93	80	8	216	32	15	25	27	1.95
4517418--4517572	59	2.6	59	82	6	179	38	12	16	33	1.85
4517488--4517602	59	2.0	58	80	11	128	42	8	15	33	1.78
4517982--4518034	17	3.1	17	75	0	61	49	0	0	50	1.00
4518416--4518688	68	4.0	67	86	5	354	31	14	26	27	1.95
4518640--4518919	81	3.5	81	92	1	465	37	11	25	26	1.90
4518995--4519027	2	16.5	2	100	0	66	51	0	0	48	1.00
4522790--4522831	20	2.1	20	82	8	50	28	2	9	59	1.41
4528054--4528114	3	20.0	3	86	3	77	59	0	0	40	0.98
4528288--4528427	45	3.1	45	89	0	217	30	20	21	27	1.98
4528446--4528549	45	2.3	45	91	0	172	35	21	21	22	1.96
4528324--4528715	121	3.2	120	89	2	572	34	20	19	24	1.96
4528567--4528668	45	2.3	44	87	1	141	37	18	18	25	1.94
4529465--4529514	24	2.1	24	88	7	75	58	14	2	26	1.47
4531822--4531863	14	2.9	15	86	10	52	78	9	0	11	0.96
4535000--4535049	24	2.1	24	88	7	75	58	14	2	26	1.47
4535862--4536142	45	6.2	45	91	0	427	35	19	22	22	1.96
4536796--4536918	22	5.6	22	93	0	192	38	9	16	35	1.81
4540114--4540257	72	2.0	72	93	0	243	34	14	21	29	1.93
4542366--4542401	13	2.6	14	82	8	56	66	5	8	19	1.38
4547020--4547074	3	18.0	3	84	3	74	60	0	0	40	0.97
4549196--4549225	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4551102--4551515	182	2.3	182	89	0	632	43	13	16	26	1.85
4551709--4551743	17	2.1	17	100	0	70	37	5	17	40	1.73
4551929--4551973	22	2.0	22	86	0	63	44	6	11	37	1.66
4552001--4555174	361	8.8	361	96	0	5710	41	13	17	27	1.86
4552000--4555174	182	17.6	182	92	2	5332	41	13	17	27	1.86
4555405--4555449	23	2.0	23	86	0	63	37	15	8	37	1.79
4558569--4558628	27	2.2	27	96	3	111	21	15	31	31	1.94
4559112--4559138	2	13.5	2	100	0	54	48	0	0	51	1.00
4559129--4559178	25	1.9	26	88	8	75	36	0	6	58	1.23
4564285--4564464	99	1.8	99	89	2	281	32	17	20	29	1.95

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   57   58   59   60   61   62   63   64