genome.fa.s8016.2.7.7.80.10.50.1000.21.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  21  of  25  ( 2971 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)
4544681--4544717	16	2.2	17	90	4	58	2	32	0	64	1.07
4564307--4564431	66	1.9	66	89	0	196	10	28	25	36	1.89
4566550--4566591	22	2.0	21	85	4	57	19	11	26	42	1.85
4566734--4566767	17	2.0	17	94	0	59	32	23	20	23	1.98
4579247--4579283	2	18.5	2	100	0	74	48	0	0	51	1.00
4580527--4580561	10	3.4	10	92	4	52	20	2	0	77	0.90
4583360--4583398	20	1.9	21	84	5	53	61	5	23	10	1.48
4589984--4590036	1	53.0	1	76	0	52	88	0	11	0	0.51
4589987--4590031	8	5.5	8	85	15	65	88	0	11	0	0.50
4589986--4590036	9	5.9	9	88	11	72	88	0	11	0	0.52
4590758--4591521	105	7.4	105	92	4	1268	33	25	17	22	1.96
4591203--4591496	93	3.0	93	81	12	383	33	25	17	22	1.96
4593132--4593184	22	2.4	21	82	17	63	35	3	0	60	1.15
4598774--4598803	16	1.9	15	93	6	51	33	10	16	40	1.82
4607482--4607550	23	3.0	23	77	8	77	28	24	24	21	1.99
4607566--4607778	103	2.1	103	95	0	381	37	23	13	25	1.91
4609152--4609207	20	2.7	20	86	5	76	21	25	23	30	1.99
4610098--4610140	17	2.6	16	78	7	50	39	25	0	34	1.56
4610745--4610783	18	2.2	18	85	0	51	25	20	0	53	1.45
4612813--4612881	23	3.0	23	80	4	68	26	23	26	24	2.00
4612897--4613098	101	2.0	102	93	3	347	35	24	12	26	1.92
4614340--4614399	20	2.9	21	90	7	95	18	26	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4615291--4615333	17	2.6	16	78	7	50	39	25	0	34	1.56
4619770--4619943	36	4.8	36	84	6	190	36	14	23	25	1.93
4619768--4619944	72	2.4	74	86	2	232	36	14	23	25	1.93
4619883--4619999	55	2.2	55	90	6	188	36	14	27	21	1.92
4619919--4619958	15	2.7	15	88	0	53	32	17	32	17	1.93
4619847--4620035	91	2.1	87	84	3	234	36	13	26	23	1.92
4619929--4620037	36	2.9	37	80	5	103	35	14	25	23	1.93
4620017--4620355	76	4.6	75	78	6	338	41	11	14	32	1.82
4620021--4620353	149	2.2	147	83	6	397	40	11	14	32	1.82
4620086--4620414	149	2.2	149	80	6	366	40	11	15	32	1.84
4622780--4623004	111	2.0	111	100	0	450	24	25	19	30	1.98
4623724--4623756	13	2.5	13	100	0	66	27	27	0	45	1.54
4645602--4645633	15	2.1	15	100	0	64	21	18	21	37	1.94
4647808--4647924	42	2.7	43	82	15	143	47	13	5	34	1.65
4648564--4648665	12	8.5	12	71	12	84	23	18	16	41	1.90
4648566--4648658	24	3.9	24	90	4	134	21	17	17	44	1.87
4661041--4661161	58	2.1	59	85	1	163	33	22	6	38	1.80
4673948--4673992	2	23.5	2	91	8	76	51	0	0	48	1.00
4675635--4675665	2	15.5	2	93	0	53	51	3	0	45	1.17
4688820--4688938	50	2.4	50	73	19	113	50	0	0	47	1.12
4689019--4689069	23	2.2	23	82	0	57	45	0	1	52	1.12
4689057--4689137	19	4.3	19	72	20	64	48	1	1	49	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4689204--4689280	23	3.4	22	82	10	84	41	2	1	54	1.22
4689156--4689301	18	8.1	18	66	15	70	47	1	0	50	1.14
4689185--4689280	28	3.6	28	77	17	96	45	2	1	51	1.20
4691621--4691700	2	40.0	2	100	0	160	50	0	0	50	1.00
4691729--4691767	17	2.3	17	86	0	51	23	2	17	56	1.53
4691891--4691949	30	2.0	30	82	0	73	30	3	8	57	1.45
4692085--4692147	2	31.5	2	100	0	126	49	0	0	50	1.00
4691638--4692534	447	2.0	447	99	0	1776	32	5	16	45	1.71
4692176--4692214	17	2.3	17	86	0	51	23	2	17	56	1.53
4692338--4692396	30	2.0	30	82	0	73	30	3	8	57	1.45
4696774--4696818	22	2.0	22	86	0	63	6	11	26	55	1.59
4702193--4702219	14	1.9	14	100	0	54	37	7	40	14	1.74
4702701--4702792	30	3.1	30	74	3	87	33	9	9	46	1.70
4706549--4706926	41	9.2	41	73	14	201	33	17	20	28	1.95
4706616--4706885	82	3.3	82	79	11	293	35	17	19	27	1.95
4706566--4706763	40	4.8	41	76	15	185	31	19	22	26	1.98
4706790--4706948	41	3.9	41	84	6	198	35	15	18	30	1.92
4706616--4706948	82	4.1	79	80	9	239	34	17	18	29	1.94
4706771--4706964	41	4.7	39	75	12	149	34	15	19	31	1.93
4706812--4706981	82	2.1	81	80	8	184	34	14	18	31	1.92
4708338--4708745	41	9.8	42	85	2	463	26	20	18	34	1.96
4708355--4708745	166	2.4	166	87	1	543	26	20	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4709030--4709141	41	2.7	42	77	13	133	31	17	18	32	1.95
4708968--4709216	82	3.0	81	79	8	270	31	18	19	30	1.96
4711966--4712067	48	2.1	49	98	1	197	43	15	8	32	1.78
4715793--4715874	21	3.9	21	76	6	76	42	18	36	2	1.63
4716312--4716705	43	9.2	43	83	3	370	35	23	16	24	1.95
4716322--4716702	129	3.0	127	82	6	419	35	23	16	24	1.94
4719192--4719250	29	2.0	29	100	0	118	23	13	13	49	1.78
4723864--4723922	29	2.0	29	83	6	75	27	18	11	42	1.85
4723879--4723937	29	2.0	29	96	0	109	23	15	13	47	1.81
4729839--4729871	2	17.0	2	93	6	59	51	0	0	48	1.00
4745376--4745506	61	2.1	63	80	5	142	15	27	28	29	1.96
4753214--4753285	37	2.0	36	83	8	92	48	4	0	47	1.21
4753589--4753626	20	1.9	20	100	0	76	36	10	26	26	1.89
4757167--4757200	17	1.9	18	94	5	61	58	0	5	35	1.22
4758349--4758382	9	3.9	9	84	7	52	35	0	2	61	1.11
4758348--4758386	17	2.4	17	95	4	71	33	0	5	61	1.18
4766727--4766766	16	2.5	16	91	0	62	17	20	35	27	1.95
4768167--4768246	10	8.3	9	69	13	52	15	26	27	31	1.95
4768199--4768246	19	2.6	18	77	9	51	14	27	29	29	1.95
4768166--4768240	29	2.5	31	82	8	102	16	24	28	32	1.96
4768243--4768285	22	2.0	22	100	0	86	18	48	23	9	1.76
4769168--4769252	31	2.7	31	79	1	98	15	29	29	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4769168--4769291	63	2.0	63	82	6	153	18	27	27	26	1.98
4775480--4775578	10	10.3	9	76	12	90	15	27	28	29	1.96
4775480--4775578	19	5.2	19	80	13	89	15	27	28	29	1.96
4775479--4775578	29	3.4	30	85	9	127	16	27	28	29	1.97
4775574--4775634	17	3.3	17	79	20	77	18	45	22	13	1.83
4775575--4775641	22	3.0	22	88	4	98	17	44	23	13	1.85
4775580--4775622	12	3.8	12	87	12	72	18	46	23	11	1.82
4776517--4776593	31	2.5	31	82	2	100	14	25	31	28	1.95
4776517--4776640	63	2.0	63	80	6	144	17	27	28	26	1.98
4780007--4780120	31	3.7	31	91	2	185	21	20	21	37	1.94
4780008--4780130	62	2.0	62	92	6	205	21	20	19	38	1.94
4780666--4780757	31	3.0	31	87	6	125	23	19	19	36	1.95
4781535--4781575	20	2.0	20	100	0	82	36	34	0	29	1.58
4788232--4788311	2	39.5	2	87	2	115	48	3	1	46	1.28
4789547--4789583	17	2.1	18	90	5	58	27	54	2	16	1.56
4790870--4790904	2	18.0	2	94	5	63	51	0	0	48	1.00
4791894--4791924	12	2.6	12	100	0	62	48	6	0	45	1.28
4792422--4792470	17	3.0	16	82	11	55	65	0	0	34	0.93
4799246--4799270	12	2.1	12	100	0	50	44	0	16	40	1.47
4800293--4800399	31	3.4	31	77	11	110	32	16	17	32	1.93
4807426--4807486	20	2.9	21	87	7	79	18	26	34	21	1.96
4813219--4813258	21	1.9	21	89	0	62	17	27	35	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4814873--4814931	31	1.9	31	85	0	82	25	20	20	33	1.97
4816010--4816121	21	5.3	21	70	11	68	43	16	35	4	1.68
4816546--4816746	43	4.7	43	84	1	215	34	19	16	28	1.94
4816546--4816738	86	2.2	86	84	3	246	35	18	17	28	1.94
4819072--4819112	18	2.2	19	86	4	57	63	2	21	12	1.40
4822204--4822677	245	1.9	243	94	0	840	39	5	12	42	1.66
4822862--4823205	170	2.0	170	98	0	670	37	15	14	31	1.88
4825328--4825358	2	15.5	2	100	0	62	48	0	0	51	1.00
4827531--4827561	15	2.1	14	94	5	53	9	19	38	32	1.84
4830994--4831450	226	2.0	229	98	1	893	31	19	21	27	1.98

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