genome.fa.s7926.2.7.7.80.10.50.1000.23.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  23  of  42  ( 5024 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)
4871007--4871038	16	2.0	16	93	0	55	34	25	6	34	1.81
4871041--4871065	12	2.1	12	100	0	50	40	16	16	28	1.89
4871449--4871534	37	2.3	38	84	7	124	41	19	4	33	1.72
4875885--4876134	17	14.9	17	66	22	77	73	3	6	16	1.19
4875888--4875977	18	5.1	18	74	18	66	75	3	5	15	1.12
4875889--4875977	23	3.5	26	78	17	82	75	3	5	15	1.13
4875846--4875965	43	2.8	41	81	17	131	75	2	7	14	1.12
4875887--4875975	43	2.0	44	83	10	112	76	3	4	15	1.08
4875986--4876131	6	23.5	6	68	18	54	73	2	6	16	1.16
4875840--4876134	12	25.2	11	67	20	97	73	3	7	15	1.19
4876091--4876145	14	3.7	14	76	11	56	78	1	7	12	1.04
4876057--4876165	21	5.3	21	70	21	61	74	1	5	18	1.10
4875841--4876134	5	56.4	5	65	23	62	73	3	7	15	1.19
4876122--4876165	22	2.0	22	86	4	63	75	2	4	18	1.09
4876097--4876165	20	3.3	21	76	13	63	75	1	7	15	1.09
4877327--4877404	38	2.2	35	82	13	90	39	30	11	17	1.86
4877511--4877537	2	13.5	2	100	0	54	51	0	0	48	1.00
4882562--4882616	2	27.5	2	100	0	110	50	0	0	49	1.00
4882872--4882906	18	1.9	18	100	0	70	17	22	34	25	1.96
4889837--4889871	18	1.9	18	88	0	52	57	0	0	42	0.99
4890199--4890258	22	2.7	23	72	15	54	45	0	3	51	1.17
4893579--4894006	165	2.7	161	85	6	550	26	35	6	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4900296--4900331	17	2.1	17	100	0	72	50	22	11	16	1.77
4902011--4902125	20	5.7	20	76	9	99	33	23	17	25	1.96
4902008--4902125	61	1.9	62	84	8	161	35	22	16	24	1.95
4902051--4902125	21	3.7	20	71	10	62	36	24	17	22	1.95
4902034--4902126	41	2.3	41	86	0	132	34	23	17	24	1.96
4902293--4902336	22	2.0	22	90	0	70	20	43	15	20	1.88
4902570--4902613	20	2.2	20	87	0	61	11	18	20	50	1.77
4903933--4903977	18	2.5	18	85	0	63	26	42	15	15	1.87
4904470--4904525	20	2.8	20	81	2	69	39	21	23	16	1.92
4904498--4904589	33	2.8	33	96	0	166	48	21	17	11	1.79
4904498--4904594	19	5.6	19	69	22	88	47	21	18	12	1.81
4904514--4904578	14	4.4	14	77	19	69	50	23	15	10	1.75
4904606--4904729	14	7.9	14	70	22	86	11	16	22	49	1.78
4904601--4904745	33	4.4	33	96	0	265	11	17	22	48	1.80
4904654--4904715	19	3.5	19	68	20	62	12	16	19	51	1.76
4904730--4904785	20	2.8	19	86	7	76	16	25	23	35	1.94
4905151--4905238	41	2.1	42	85	2	124	21	43	14	20	1.88
4906658--4906693	14	2.6	14	90	0	54	30	0	22	47	1.52
4906820--4906872	14	3.4	14	77	22	61	47	20	20	11	1.81
4906830--4906866	19	1.9	19	88	0	56	51	16	21	10	1.74
4906886--4906973	20	4.4	20	77	5	97	17	21	25	36	1.94
4907368--4907401	12	2.9	12	86	4	52	17	41	5	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4907942--4908009	24	2.8	24	84	0	82	26	16	19	38	1.92
4908184--4908220	12	3.1	12	100	0	74	72	0	27	0	0.84
4910512--4910638	33	3.8	33	85	4	184	43	20	22	14	1.87
4910513--4910645	66	2.0	66	94	0	230	42	20	21	15	1.89
4910492--4910642	19	8.7	19	66	21	80	42	21	21	14	1.88
4910638--4910765	33	3.7	33	85	10	175	12	21	21	44	1.85
4910667--4910765	19	5.5	19	84	11	145	11	22	21	45	1.83
4912250--4912316	21	3.2	21	68	4	55	22	20	32	23	1.98
4912590--4912774	91	2.0	90	89	8	284	46	18	12	22	1.82
4914462--4914626	19	9.1	19	77	15	152	44	20	23	12	1.85
4914487--4914621	52	2.6	52	92	1	216	43	22	22	11	1.84
4914622--4914668	19	2.5	19	92	0	76	8	14	25	51	1.71
4915186--4915238	20	2.7	20	93	0	88	26	20	28	24	1.99
4915207--4915301	41	2.3	41	80	3	102	21	21	22	35	1.96
4918637--4918679	19	2.3	19	87	0	59	30	13	11	44	1.80
4919495--4919944	57	7.9	57	93	0	738	32	31	20	14	1.93
4920008--4920116	24	4.5	24	78	6	114	48	17	16	17	1.81
4920010--4920102	12	7.8	12	70	13	57	49	18	15	17	1.80
4929426--4929486	31	2.0	31	83	6	79	39	42	6	11	1.67
4930604--4930650	24	2.0	24	86	0	67	48	14	8	27	1.73
4931952--4931996	22	2.0	23	86	4	65	24	0	31	44	1.54
4937453--4937619	32	5.2	31	76	17	128	46	4	8	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4937465--4937621	34	4.8	31	73	17	113	47	3	7	41	1.50
4938793--4938998	103	2.0	103	100	0	412	23	20	17	38	1.93
4944814--4944865	2	26.0	2	100	0	104	50	0	0	50	1.00
4950807--4950846	15	2.8	14	81	7	53	27	5	0	67	1.11
4953773--4953839	15	4.5	15	88	3	100	37	7	17	37	1.79
4953841--4953881	14	2.9	14	88	0	55	29	14	19	36	1.92
4954005--4954078	19	3.9	19	72	13	64	47	1	1	50	1.18
4954015--4954061	17	2.6	18	80	19	53	46	2	0	51	1.13
4954007--4954061	18	2.9	18	77	22	60	50	1	0	47	1.11
4954007--4954066	21	3.0	21	75	22	67	51	1	0	46	1.10
4954170--4954205	16	2.2	16	90	9	56	50	0	0	50	1.00
4954280--4954359	31	2.5	33	78	17	89	50	0	1	48	1.08
4954196--4954341	59	2.4	62	75	15	144	47	1	0	50	1.14
4954309--4954352	22	2.0	23	86	4	63	54	0	0	45	0.99
4954263--4954369	52	2.0	52	82	10	128	51	0	0	46	1.13
4954547--4954659	42	2.7	41	88	2	172	50	19	14	15	1.78
4960801--4960847	18	2.7	18	90	3	69	36	8	27	27	1.86
4960838--4960962	43	2.9	43	91	1	196	30	14	18	36	1.90
4962410--4962465	21	2.7	21	97	0	103	39	17	23	19	1.92
4962451--4962548	41	2.4	41	89	0	142	38	22	17	21	1.93
4962454--4962548	20	4.7	20	73	11	77	36	23	17	22	1.95
4962451--4962513	20	3.0	22	77	13	78	39	25	17	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4962716--4962759	22	2.0	22	95	0	79	20	40	15	22	1.90
4963037--4963099	20	3.2	20	95	0	99	9	17	22	50	1.74
4964402--4964449	18	2.7	18	93	0	87	27	45	12	14	1.81
4965003--4965085	19	4.6	19	81	14	113	45	20	20	13	1.84
4965092--4965196	19	5.7	19	76	14	76	14	20	21	42	1.88
4965150--4965196	20	2.3	20	88	0	67	19	23	23	34	1.97
4965184--4965222	20	2.0	20	94	0	69	25	12	28	33	1.93
4965571--4965639	21	3.3	20	74	6	66	24	40	15	18	1.90
4965561--4965651	41	2.2	42	88	2	139	21	41	15	20	1.89
4967061--4967099	14	2.8	14	84	0	51	35	0	17	46	1.49
4967239--4967303	19	3.7	19	76	15	77	49	18	18	13	1.80
4967322--4967382	20	3.0	20	97	0	113	16	19	22	40	1.90
4970867--4970963	48	2.0	48	95	0	176	26	22	11	39	1.88
4971235--4971290	28	2.0	28	89	0	85	37	14	26	21	1.92
4972533--4972695	88	1.8	89	96	1	301	24	17	17	40	1.91
4972533--4972708	89	2.0	88	93	1	298	22	18	18	40	1.91
4973012--4973049	20	1.9	20	88	0	58	34	18	10	36	1.85
4978748--4978826	30	2.6	30	100	0	158	45	13	0	40	1.44
4980789--4980827	3	12.7	3	94	5	69	30	2	0	66	1.05
4987090--4987121	15	2.1	16	94	5	57	31	28	6	34	1.82
4989370--4989676	76	4.0	76	93	0	515	33	22	19	24	1.97
4989680--4990003	164	2.0	165	89	3	501	37	12	13	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4990513--4990567	22	2.5	22	90	0	92	41	14	9	34	1.77
4997075--4997124	12	3.9	12	80	14	55	58	6	12	24	1.56
4997063--4997122	27	2.3	27	91	2	95	58	5	13	23	1.55
4997182--4997220	8	5.1	8	81	12	55	61	10	15	12	1.56
4997182--4997220	15	2.6	15	91	0	60	61	10	15	12	1.56
4999444--4999494	21	2.5	22	81	12	63	62	0	0	37	0.95
5000815--5000839	3	8.3	3	100	0	50	32	0	0	68	0.90
5000842--5000894	3	17.3	3	92	3	79	62	0	0	37	0.96
5003201--5003236	18	2.0	18	88	0	54	27	0	5	66	1.13
5004554--5004587	13	2.7	13	90	4	52	50	14	0	35	1.44

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