genome.fa.s8716.2.7.7.80.10.50.1000.20.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  20  of  24  ( 2813 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)
4787281--4787519	66	3.6	66	87	1	345	28	19	13	38	1.90
4787348--4787462	36	3.4	35	70	18	98	30	20	13	35	1.91
4787272--4787576	132	2.3	130	83	8	368	30	18	14	36	1.91
4787488--4787781	102	2.9	101	81	1	338	34	17	12	36	1.87
4789314--4789380	28	2.4	27	80	7	73	26	13	2	56	1.51
4790402--4790443	22	1.9	22	85	0	57	33	2	11	52	1.51
4790806--4790855	18	2.8	18	81	0	64	34	18	24	24	1.96
4799505--4799572	28	2.3	29	92	7	111	50	7	33	8	1.61
4804493--4804540	18	2.7	18	90	0	69	18	20	31	29	1.97
4804887--4805279	137	2.9	134	84	3	464	26	15	29	27	1.96
4805278--4805396	36	3.3	36	92	0	193	38	16	23	21	1.93
4805296--4805417	21	6.4	21	70	21	115	38	15	24	21	1.92
4805332--4805453	57	2.1	57	95	0	217	38	15	24	21	1.92
4805389--4805464	36	2.1	36	90	4	118	40	17	22	19	1.91
4805296--4805464	93	1.8	93	90	2	277	39	16	23	20	1.92
4805425--4805526	54	1.9	53	89	2	159	39	10	18	31	1.85
4805536--4805778	37	7.1	36	63	23	123	40	15	17	26	1.89
4805478--4805791	67	4.7	67	89	1	477	41	14	17	27	1.87
4805555--4805734	30	5.6	30	66	18	103	39	15	16	28	1.89
4805907--4806005	36	2.8	34	80	8	99	40	12	18	29	1.86
4805907--4805989	36	2.4	37	84	8	102	36	13	19	31	1.90
4805944--4806034	35	2.5	35	85	3	119	38	13	16	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4807503--4807527	8	3.1	8	100	0	50	12	0	36	52	1.39
4810888--4810935	21	2.3	21	96	0	87	50	8	4	37	1.52
4812267--4812311	3	15.3	3	95	4	83	68	0	0	31	0.89
4813299--4813852	298	1.9	295	88	4	855	36	20	8	34	1.83
4821082--4821225	64	2.2	64	81	2	164	31	21	15	31	1.94
4826792--4826915	64	1.9	64	81	3	151	25	16	23	33	1.96
4827654--4827739	23	3.7	23	80	0	91	29	20	27	22	1.99
4827777--4827856	21	3.8	21	71	15	67	45	15	7	32	1.74
4833611--4833674	23	2.8	23	87	0	92	39	25	21	14	1.91
4840588--4840646	23	2.6	23	75	0	64	35	28	22	13	1.92
4844544--4844625	2	41.5	2	92	2	139	48	0	0	51	1.00
4850748--4851004	39	6.6	39	83	3	286	43	15	5	35	1.69
4850748--4851004	115	2.2	116	84	1	327	43	15	5	35	1.69
4851067--4851432	58	6.4	57	76	15	224	41	14	8	36	1.75
4851105--4851453	58	6.1	58	80	10	373	41	14	8	34	1.78
4851617--4851915	45	6.6	45	80	1	321	37	16	11	34	1.84
4855220--4855247	13	2.2	13	100	0	56	39	28	7	25	1.82
4855252--4855295	21	2.0	22	82	8	54	22	0	29	47	1.51
4856288--4856321	16	2.1	16	88	0	50	14	14	2	67	1.34
4857015--4857047	6	5.7	6	85	7	50	15	0	3	81	0.80
4858500--4858663	88	1.9	88	93	2	285	42	10	14	32	1.79
4858658--4859382	199	3.6	200	78	8	773	31	15	14	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4861859--4861895	19	1.9	19	100	0	74	48	5	8	37	1.56
4861860--4861904	19	2.4	19	92	0	72	53	6	6	33	1.53
4863715--4863756	22	2.0	22	86	9	61	35	9	9	45	1.69
4863453--4864421	200	4.9	199	84	4	1202	31	16	13	38	1.87
4863453--4864421	401	2.4	396	85	4	1250	31	16	13	38	1.87
4868547--4869671	199	5.7	200	83	6	1374	32	16	14	36	1.89
4868568--4869671	401	2.8	397	85	4	1473	32	16	14	36	1.89
4870023--4870071	19	2.6	19	96	0	89	55	10	2	32	1.45
4871630--4871665	18	2.0	18	100	0	72	5	38	0	55	1.23
4871849--4871948	33	3.0	33	88	0	155	25	45	0	30	1.54
4872087--4872119	15	2.2	15	94	0	57	15	60	6	18	1.54
4872398--4872453	24	2.4	23	80	8	69	53	3	0	42	1.18
4874396--4875251	182	4.7	181	87	2	1146	27	16	14	41	1.87
4877573--4877630	3	19.0	3	85	3	80	32	1	0	65	1.03
4879287--4879781	131	3.8	131	87	1	688	32	11	16	38	1.85
4879287--4879781	261	1.9	262	86	1	706	32	11	16	38	1.85
4883280--4883321	19	2.2	19	83	8	50	33	2	16	47	1.60
4883557--4883599	22	2.0	22	90	0	68	34	20	18	25	1.96
4897346--4900995	135	27.2	135	81	5	3696	31	21	15	31	1.94
4897346--4900995	404	9.1	403	80	5	3576	31	21	15	31	1.94
4902942--4903000	31	1.9	31	86	6	84	35	20	10	33	1.86
4911622--4911695	29	2.7	26	74	24	71	21	9	8	60	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4912300--4912788	131	3.8	128	86	3	601	34	11	16	38	1.84
4915159--4915197	20	2.0	20	84	0	51	51	12	25	10	1.71
4915964--4916150	65	2.9	64	81	7	218	27	19	22	30	1.98
4924677--4924785	57	1.9	56	85	5	148	26	20	23	29	1.99
4924677--4924802	57	2.2	55	81	10	139	26	19	23	30	1.98
4926495--4926520	3	8.7	3	100	0	52	69	0	0	30	0.89
4927868--4927900	2	16.5	2	100	0	66	48	0	0	51	1.00
4928053--4928147	29	3.2	29	65	16	77	40	4	22	33	1.73
4928013--4928182	60	2.8	59	83	5	216	37	4	24	33	1.76
4944442--4944531	42	2.1	42	82	10	112	22	21	11	45	1.82
4957012--4957083	19	3.8	19	71	8	58	77	1	11	9	1.05
4957040--4957087	14	3.6	14	94	5	82	77	0	10	12	1.00
4957012--4957083	9	7.8	9	71	20	51	77	1	11	9	1.05
4958168--4958605	133	3.3	131	80	4	398	29	20	17	32	1.95
4958167--4958662	263	1.9	264	80	4	579	28	20	17	33	1.95
4958880--4959024	3	48.0	3	97	1	272	33	0	0	66	0.92
4961123--4961375	131	1.9	131	89	0	389	35	10	16	37	1.83
4962010--4962150	48	3.0	48	98	1	275	38	9	17	34	1.83
4965251--4965296	19	2.4	19	75	17	51	36	0	0	63	0.95
4966273--4966320	23	2.1	23	88	0	69	72	4	4	18	1.17
4971396--4971420	13	1.9	13	100	0	50	48	20	0	32	1.50
4972199--4972245	24	2.0	24	82	0	58	48	19	10	21	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4972948--4973012	23	2.8	23	97	0	121	33	13	23	29	1.93
4978329--4978384	24	2.3	24	84	0	76	51	12	5	30	1.61
4978329--4978365	18	2.1	18	89	0	56	51	10	5	32	1.60
4978742--4978813	30	2.4	30	95	2	126	58	22	2	16	1.51
4980700--4980728	14	2.0	15	93	6	51	31	6	0	62	1.22
4980984--4981079	18	5.3	19	74	18	82	34	6	35	23	1.80
4981458--4981496	19	2.0	20	90	5	62	35	12	7	43	1.72
4981473--4982550	200	5.4	200	92	1	1716	32	15	12	39	1.86
4988176--4988204	2	14.5	2	100	0	58	51	0	0	48	1.00
4990702--4990868	90	1.9	90	93	0	289	35	11	7	45	1.69
4995718--4995757	21	1.9	21	85	10	55	35	10	2	52	1.48
4998961--4998991	13	2.4	13	94	0	53	35	12	12	38	1.82
4999100--4999588	184	2.7	181	83	4	631	29	15	13	42	1.84
5000174--5000231	27	2.1	28	84	9	75	46	13	17	22	1.83
5000261--5000285	13	1.9	13	100	0	50	20	16	16	48	1.82
5002675--5002716	21	2.0	21	95	0	75	30	14	7	47	1.71
5002711--5002809	33	3.0	33	92	1	155	33	7	14	45	1.71
5002795--5002849	13	4.2	13	75	13	58	34	3	12	49	1.59
5003515--5003569	15	3.6	15	82	4	74	30	12	12	43	1.80
5003517--5003566	17	3.1	17	80	11	61	34	10	12	44	1.75
5013190--5013222	12	2.8	12	95	0	57	48	12	0	39	1.40
5013814--5013871	21	2.6	22	81	10	64	25	17	17	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5019711--5019780	20	3.4	20	81	11	79	22	20	15	41	1.90
5019729--5019787	20	2.8	20	79	5	64	22	20	18	38	1.93
5020078--5020139	2	31.0	2	100	0	124	50	0	0	50	1.00
5022327--5022380	21	2.4	22	84	12	74	27	14	18	38	1.90
5029718--5029759	18	2.3	18	100	0	84	45	33	0	21	1.52
5030515--5030554	17	2.4	17	86	0	53	32	15	12	40	1.84
5030561--5030619	17	3.5	17	68	13	50	28	15	8	47	1.74
5030610--5030655	18	2.6	18	92	0	74	32	6	13	47	1.68
5031905--5031992	30	2.9	30	91	0	149	26	35	1	37	1.64
5034773--5034820	18	2.7	18	86	0	69	33	6	10	50	1.62

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