genome.fa.s7823.2.7.7.80.10.50.1000.22.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  22  of  33  ( 3920 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)
4037814--4037868	21	2.6	21	82	0	74	49	5	7	38	1.54
4037915--4038045	24	5.6	22	72	15	70	44	6	6	43	1.54
4037943--4038006	2	32.0	2	80	12	69	45	4	3	46	1.39
4038112--4038177	21	3.0	21	70	16	55	30	3	19	46	1.65
4038167--4038205	17	2.4	17	86	4	53	35	5	2	56	1.35
4038241--4038274	2	17.0	2	100	0	68	50	0	0	50	1.00
4039601--4039703	36	2.9	36	91	0	170	40	10	17	31	1.84
4040456--4040494	7	5.6	7	81	0	51	15	0	33	51	1.44
4041581--4041801	64	3.5	64	82	7	236	27	18	19	33	1.96
4046372--4046592	64	3.5	64	83	7	245	27	18	19	33	1.96
4047388--4047446	18	3.3	18	81	11	59	47	1	3	47	1.29
4047400--4047475	17	4.4	17	79	14	75	46	1	1	51	1.17
4050444--4050565	28	4.3	27	79	8	118	37	6	22	32	1.80
4050457--4050605	29	5.2	28	75	7	122	38	6	20	33	1.79
4050455--4050605	57	2.6	57	80	5	153	38	6	21	33	1.79
4054379--4054428	18	2.8	18	93	0	82	26	22	22	30	1.99
4057088--4057162	29	2.7	29	81	10	84	33	2	26	37	1.71
4057115--4057249	29	4.7	29	77	2	139	37	5	21	34	1.78
4067758--4067820	31	2.0	31	96	0	117	33	9	30	26	1.88
4076378--4076605	115	2.0	115	99	0	447	40	10	11	37	1.77
4078673--4078714	20	2.1	20	82	8	50	47	2	2	47	1.28
4079593--4079643	20	2.5	20	100	0	102	19	25	35	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4081980--4082060	23	3.8	22	74	16	64	22	23	29	24	1.99
4087922--4089000	199	5.4	199	82	2	1236	34	11	20	34	1.88
4092534--4092575	22	2.0	21	81	13	50	47	0	7	45	1.30
4092629--4092671	19	2.2	20	88	8	63	39	6	4	48	1.51
4092664--4092728	2	32.5	2	90	6	105	50	0	1	47	1.10
4092870--4093074	112	1.8	110	85	2	284	28	13	11	46	1.77
4094329--4094363	18	1.9	18	88	0	52	40	2	0	57	1.14
4095616--4095686	21	3.6	20	80	12	67	29	14	25	30	1.94
4095632--4095686	20	2.7	21	83	11	69	29	14	27	29	1.95
4102388--4102432	18	2.5	18	96	0	81	26	24	24	24	2.00
4104489--4104577	32	2.9	31	77	8	83	34	0	7	57	1.28
4104554--4104598	20	2.3	19	81	7	54	33	0	6	60	1.23
4104564--4104615	20	2.6	21	85	8	65	34	0	3	61	1.14
4106046--4106118	30	2.4	29	84	2	92	38	4	0	57	1.18
4116597--4117202	302	2.0	303	99	0	1205	31	19	17	31	1.95
4117369--4117487	34	3.5	34	98	0	229	38	0	0	60	1.03
4117966--4118019	22	2.4	22	93	3	90	38	5	11	44	1.63
4131399--4131458	3	19.7	3	93	3	93	35	0	0	65	0.93
4131850--4131902	25	2.3	23	81	12	63	73	7	15	3	1.20
4132734--4132822	36	2.5	33	77	12	88	33	4	3	58	1.35
4133499--4133853	129	2.7	130	84	3	457	31	10	15	41	1.81
4137440--4137483	19	2.3	19	84	0	52	54	4	6	34	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4137573--4137619	18	2.6	18	86	10	60	74	0	2	23	0.93
4138870--4139008	14	10.3	14	73	18	64	61	1	1	35	1.14
4138901--4139006	10	10.4	10	72	19	69	59	0	1	37	1.15
4138904--4139008	32	2.9	32	73	18	68	59	0	1	38	1.15
4138880--4139009	26	5.4	25	72	22	100	60	1	1	36	1.16
4138898--4139009	39	2.8	37	77	17	102	58	0	1	38	1.14
4138880--4139011	37	3.7	37	71	18	102	59	1	1	37	1.16
4139074--4139131	23	2.6	21	76	12	62	44	5	3	46	1.42
4139094--4139226	37	3.6	37	75	14	125	40	10	4	44	1.59
4155181--4155823	5	131.0	5	90	8	1013	58	0	0	40	1.03
4155835--4156086	38	6.8	37	77	12	198	40	9	4	44	1.58
4155839--4156086	37	6.6	36	77	17	190	40	9	4	44	1.58
4157689--4157757	33	2.1	32	86	7	95	28	28	10	31	1.90
4158480--4158523	16	2.8	16	82	3	54	72	2	22	2	1.07
4160809--4160885	3	25.7	3	94	0	136	31	1	1	66	1.08
4162774--4163026	130	1.9	130	84	3	339	31	11	17	39	1.86
4164020--4164050	3	10.3	3	100	0	62	67	0	0	32	0.91
4173572--4173609	18	2.1	19	85	9	53	39	0	0	60	0.97
4177474--4177527	18	3.0	18	94	0	90	27	31	20	20	1.97
4178292--4178349	20	2.7	20	84	10	71	27	22	18	31	1.97
4178337--4178497	64	2.5	63	84	6	198	23	23	18	34	1.96
4180998--4181032	17	2.1	17	100	0	70	11	31	5	51	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4181754--4181802	18	2.7	18	90	0	71	30	26	22	20	1.98
4182571--4182628	20	2.6	22	89	10	84	25	22	20	31	1.98
4182616--4182753	64	2.2	64	82	5	163	22	21	19	36	1.95
4185134--4185184	21	2.3	23	83	10	70	50	0	13	35	1.42
4186429--4186476	23	2.1	23	88	0	69	39	10	16	33	1.83
4186507--4186566	23	2.6	23	86	0	84	43	8	15	33	1.76
4186401--4186661	87	3.0	87	91	0	423	42	11	14	32	1.80
4186594--4186642	23	2.1	23	88	0	71	36	10	18	34	1.85
4187068--4187498	111	3.9	110	89	3	634	45	11	9	32	1.73
4187034--4187476	220	2.0	220	89	2	676	45	11	9	32	1.74
4187945--4188421	111	4.3	111	87	3	644	45	10	10	33	1.73
4186932--4189577	911	2.9	911	93	1	4479	43	10	9	36	1.73
4188851--4189333	111	4.3	111	89	2	718	43	10	11	33	1.76
4188851--4189333	223	2.2	223	88	2	729	43	10	11	33	1.76
4189476--4189674	98	2.0	98	99	0	389	48	6	6	39	1.53
4189777--4190018	111	2.2	111	93	0	412	44	11	11	31	1.78
4190485--4190967	111	4.3	111	89	1	689	45	9	10	34	1.71
4190485--4190967	223	2.2	222	87	3	691	45	9	10	34	1.71
4191271--4191309	20	2.0	20	84	0	51	38	10	12	38	1.78
4192501--4192545	11	4.1	11	97	0	81	55	0	0	44	0.99
4197613--4197812	41	4.9	41	81	3	199	32	17	16	34	1.92
4197605--4197803	80	2.5	82	79	6	217	32	18	15	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4200133--4200189	16	3.4	17	81	15	73	14	12	47	26	1.79
4200183--4200277	49	1.9	49	89	0	145	14	29	34	21	1.93
4205529--4205572	2	22.0	2	100	0	88	50	0	0	50	1.00
4210322--4210388	22	3.1	20	75	14	62	70	4	2	22	1.19
4210763--4210797	18	1.9	18	88	11	54	65	8	8	17	1.44
4212179--4212324	74	2.0	74	91	2	240	23	18	20	37	1.94
4212241--4213015	91	8.6	91	91	2	1253	23	21	17	37	1.94
4225262--4225287	11	2.4	11	100	0	52	46	0	0	53	1.00
4225847--4225881	18	1.9	18	88	11	54	65	8	8	17	1.44
4232001--4232321	20	15.9	20	77	14	170	38	23	20	17	1.93
4232058--4232333	124	2.3	120	80	8	310	37	23	21	17	1.94
4232062--4232333	20	13.4	20	82	9	243	36	24	21	17	1.94
4232443--4232470	6	4.7	6	100	0	56	32	50	17	0	1.47
4233222--4233294	6	12.2	6	100	0	146	0	16	49	34	1.46
4233405--4233534	20	6.4	20	78	8	138	16	21	24	36	1.94
4233405--4233512	40	2.7	40	92	0	180	16	22	23	37	1.93
4233418--4233538	60	2.0	62	90	6	194	17	22	23	37	1.94
4233418--4233596	20	8.9	19	74	12	121	17	21	21	40	1.92
4235380--4235466	23	3.7	23	79	8	86	12	11	18	57	1.64
4236283--4236321	20	2.0	20	89	0	60	38	33	17	10	1.84
4236324--4236380	28	2.0	28	93	0	96	24	21	36	17	1.94
4236399--4236478	29	2.8	29	92	3	126	15	31	32	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4236554--4236609	27	2.1	27	96	0	103	28	25	19	26	1.99
4236755--4236800	23	2.0	23	95	0	83	47	4	36	10	1.58
4236971--4237059	41	2.2	41	78	8	92	42	1	10	46	1.45
4237040--4237131	46	2.0	47	85	10	127	40	0	11	47	1.40
4237171--4237247	34	2.3	33	81	14	88	40	0	12	46	1.42
4237293--4237339	16	3.0	16	84	9	53	29	0	10	59	1.31
4237314--4237344	15	2.1	14	94	5	53	38	0	6	54	1.26
4239487--4239519	17	1.9	17	93	0	57	45	12	6	36	1.66
4239504--4239572	22	3.0	22	73	19	77	47	7	4	40	1.51
4239711--4239797	38	2.4	37	81	9	99	51	4	2	41	1.35

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