genome.fa.s8082.2.7.7.80.10.50.1000.20.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  20  of  28  ( 3312 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)
4072658--4073393	251	2.9	249	90	3	1176	31	16	17	33	1.92
4073263--4073364	42	2.4	42	83	3	116	24	18	22	34	1.96
4073400--4073455	29	1.9	29	88	0	85	39	14	14	32	1.86
4073694--4073788	43	2.2	43	86	0	127	31	33	22	12	1.91
4078408--4078512	41	2.6	40	80	1	111	37	12	20	29	1.90
4078516--4078676	41	3.9	41	74	11	114	34	18	16	31	1.92
4078588--4078676	42	2.1	42	87	4	126	38	16	14	30	1.89
4078952--4078997	20	2.3	20	81	7	58	67	2	6	23	1.25
4086287--4086318	13	2.4	14	94	5	57	25	28	31	15	1.96
4086287--4086318	7	4.7	7	92	7	57	25	28	31	15	1.96
4086287--4086344	17	3.2	17	80	7	53	17	22	39	20	1.92
4086356--4086457	10	10.3	10	73	14	61	34	28	21	15	1.94
4086377--4086424	20	2.5	20	89	3	80	33	25	27	14	1.94
4094498--4094550	12	4.5	11	77	17	54	26	3	1	67	1.17
4094644--4094683	19	2.0	20	90	4	64	52	0	0	47	1.00
4095058--4095243	88	2.1	88	85	5	245	36	12	9	41	1.76
4105547--4105592	22	2.0	23	95	4	85	17	47	23	10	1.79
4105559--4105597	18	2.2	18	90	0	60	17	46	25	10	1.80
4105593--4105782	29	6.6	28	84	4	218	38	6	19	35	1.77
4105592--4105782	58	3.3	57	85	2	247	38	6	19	35	1.78
4106361--4106484	63	2.0	63	85	6	171	16	26	29	27	1.97
4106361--4106484	31	4.0	32	73	12	89	16	26	29	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4106501--4106560	27	2.2	27	87	3	84	26	6	16	50	1.70
4112672--4112892	29	7.6	29	84	4	239	36	4	19	38	1.73
4123063--4123114	22	2.4	21	84	9	68	46	3	0	50	1.20
4123062--4123115	23	2.3	23	87	6	74	48	3	0	48	1.19
4123167--4123228	31	1.9	31	83	9	79	48	8	0	43	1.32
4124314--4124352	21	1.9	19	85	10	51	56	12	10	20	1.65
4125548--4125612	32	2.0	32	100	0	130	49	0	29	21	1.50
4125556--4125607	16	3.2	16	73	10	61	53	0	26	19	1.45
4125550--4125623	32	2.3	32	93	4	123	52	0	28	18	1.46
4128653--4129040	197	2.0	197	100	0	776	35	20	14	29	1.92
4129258--4129329	21	3.3	21	73	21	76	33	27	16	22	1.95
4129245--4129330	44	2.0	44	95	0	154	31	25	19	23	1.98
4130681--4131340	329	2.0	328	98	0	1275	28	21	13	36	1.92
4135111--4135164	24	2.3	24	90	3	83	29	25	20	24	1.99
4136221--4136267	13	3.7	13	83	13	62	38	25	0	36	1.56
4136680--4136832	44	3.5	44	79	4	137	29	15	25	30	1.95
4144156--4144197	15	2.7	15	81	3	57	45	4	23	26	1.73
4144776--4144858	33	2.5	34	80	4	96	45	30	6	18	1.73
4146203--4146271	32	2.2	31	80	12	77	36	7	11	44	1.68
4151472--4152274	186	4.3	184	82	3	851	32	16	10	40	1.83
4151473--4152238	368	2.1	370	83	2	946	32	16	10	39	1.83
4151473--4152339	368	2.3	367	80	5	870	32	16	10	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4152573--4153265	158	4.5	157	79	9	740	28	17	5	48	1.69
4152862--4153147	146	2.0	144	87	6	418	27	18	4	49	1.68
4153871--4153934	28	2.3	27	83	5	74	60	1	4	32	1.26
4154276--4154379	4	28.0	4	71	14	80	50	0	0	50	1.00
4154276--4154379	6	18.7	6	78	15	80	50	0	0	50	1.00
4154276--4154379	52	2.0	50	92	3	172	50	0	0	50	1.00
4154897--4154940	19	2.3	19	96	0	79	40	9	0	50	1.34
4166165--4166287	43	2.9	43	97	0	228	29	14	18	37	1.91
4170077--4170119	17	2.5	17	81	7	52	20	41	23	13	1.88
4170122--4170255	29	4.6	29	90	0	196	35	5	21	37	1.76
4177560--4177608	22	2.2	22	85	7	64	16	46	24	12	1.81
4177610--4177742	29	4.6	29	92	3	214	35	5	23	36	1.77
4179876--4179948	37	2.0	37	91	0	119	41	12	16	30	1.85
4180438--4180503	27	2.5	26	77	20	66	27	1	4	66	1.20
4180533--4180618	8	11.1	7	69	26	50	22	1	2	74	1.00
4180537--4180645	27	4.2	26	75	20	75	19	3	1	75	1.05
4180474--4180596	40	3.1	39	74	19	96	27	3	2	66	1.19
4180536--4180644	17	6.3	16	71	17	60	19	3	1	75	1.05
4180459--4180640	79	2.2	85	80	11	193	23	3	2	69	1.18
4183684--4183731	8	5.8	8	81	16	53	81	2	12	4	0.93
4183703--4183748	24	1.9	24	82	8	58	80	4	13	2	0.95
4183698--4183760	30	2.1	29	88	2	90	79	4	12	3	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4183704--4183750	14	3.5	13	83	11	58	82	4	10	2	0.88
4185626--4185691	21	3.4	21	70	25	72	25	21	12	40	1.88
4185552--4185710	37	4.4	36	82	3	194	25	19	13	41	1.88
4185552--4185710	73	2.2	73	86	1	212	25	19	13	41	1.88
4185469--4185812	175	2.0	175	80	6	385	29	19	12	38	1.88
4185768--4185847	36	2.2	36	93	2	135	43	18	7	30	1.78
4186452--4186598	37	4.0	37	95	0	249	40	10	16	31	1.83
4187149--4187275	42	3.2	42	76	17	119	28	3	3	65	1.23
4187149--4187276	40	3.2	40	70	14	104	28	3	3	65	1.23
4187181--4187304	38	3.3	38	75	13	116	23	4	1	70	1.16
4187337--4187397	26	2.6	22	72	22	52	21	8	0	70	1.13
4187348--4187404	26	2.1	27	90	9	91	22	7	0	70	1.11
4188597--4188766	41	4.2	40	77	7	171	37	23	8	30	1.85
4188586--4188766	82	2.2	82	87	3	249	35	23	9	30	1.87
4195077--4195109	16	2.1	16	94	0	57	42	3	21	33	1.68
4198622--4198654	16	2.1	16	100	0	66	42	6	18	33	1.75
4199463--4199726	27	9.3	27	80	13	223	48	10	1	39	1.49
4199487--4199719	83	2.8	82	87	7	317	47	10	1	40	1.49
4199474--4199826	56	6.5	56	78	9	272	47	10	1	40	1.49
4199683--4199770	45	2.0	44	88	2	131	47	9	2	40	1.48
4199623--4199826	101	2.0	101	91	1	329	47	9	1	41	1.47
4199656--4199792	72	1.9	73	83	7	181	48	8	2	40	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4199728--4199821	29	3.3	28	73	20	97	47	8	1	42	1.41
4199724--4199839	57	2.1	56	85	4	153	46	10	1	41	1.48
4200026--4200351	41	7.7	41	71	11	194	27	19	21	30	1.98
4200023--4200689	129	5.3	124	74	11	416	28	18	21	31	1.96
4200033--4200689	126	5.3	125	75	11	497	28	17	21	31	1.96
4200595--4200726	47	2.8	47	80	7	153	28	16	24	31	1.96
4214184--4215078	448	2.0	448	96	0	1648	28	19	18	32	1.96
4215717--4216178	231	2.0	231	99	0	908	36	13	19	30	1.90
4219404--4219437	2	17.0	2	100	0	68	50	0	0	50	1.00
4219467--4219493	6	4.5	6	100	0	54	33	0	0	66	0.92
4226581--4226625	21	2.1	21	100	0	90	24	4	22	48	1.68
4229991--4230034	2	22.0	2	100	0	88	50	0	0	50	1.00
4230516--4230589	31	2.4	31	75	4	78	25	32	22	18	1.97
4230721--4230764	18	2.5	18	96	3	81	40	22	4	31	1.74
4232685--4232741	14	4.1	14	81	0	60	33	17	26	22	1.96
4237060--4237119	22	2.8	22	92	2	95	25	31	16	26	1.96
4237499--4237531	16	2.0	17	88	5	50	30	24	0	45	1.53
4237841--4237901	22	2.8	22	87	5	79	26	26	19	27	1.99
4238750--4238788	20	2.0	20	90	10	62	17	33	30	17	1.94
4238808--4238849	21	2.0	22	86	9	61	33	23	14	28	1.94
4239052--4239076	12	2.1	12	100	0	50	40	24	0	36	1.55
4246466--4246504	21	1.9	21	84	5	53	35	20	15	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4255903--4256015	42	2.7	42	80	0	136	29	8	16	45	1.78
4264241--4264296	23	2.5	22	77	8	58	39	3	0	57	1.16
4271984--4272072	20	4.6	20	79	12	105	28	15	29	26	1.96
4271984--4272053	36	1.9	37	94	2	124	30	17	27	25	1.97
4272296--4272352	21	2.9	20	80	10	73	49	10	12	28	1.73
4275432--4275485	20	3.0	18	80	15	67	27	14	27	29	1.95
4275455--4275485	16	1.9	16	93	0	53	29	16	22	32	1.95
4275435--4275506	36	2.0	36	86	5	101	29	16	23	30	1.96
4275534--4275644	21	5.6	21	84	11	101	28	15	27	27	1.96
4275553--4275644	20	4.8	20	84	11	102	27	15	30	27	1.96

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