genome.fa.s9585.2.7.7.80.10.50.1000.21.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  21  of  35  ( 4106 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)
4482101--4482134	17	2.0	17	94	0	59	55	32	0	11	1.36
4484057--4484137	21	3.8	22	76	9	78	17	23	35	23	1.95
4484448--4484531	42	2.0	42	100	0	168	21	14	23	40	1.90
4489951--4490160	75	2.8	77	86	5	284	20	23	32	23	1.98
4497115--4497148	2	17.0	2	100	0	68	50	0	0	50	1.00
4497595--4497648	2	27.0	2	100	0	108	50	0	0	50	1.00
4498464--4498493	2	15.0	2	100	0	60	50	0	0	50	1.00
4501399--4501433	18	2.0	18	88	5	54	60	5	2	31	1.35
4509265--4509320	28	2.0	28	93	3	96	19	25	7	48	1.74
4512991--4513017	2	13.5	2	100	0	54	48	0	0	51	1.00
4533699--4533759	20	3.2	20	69	21	67	59	6	1	32	1.33
4543111--4543426	100	3.1	100	63	22	254	45	7	5	41	1.56
4543070--4543491	210	2.0	209	99	0	835	46	7	5	40	1.55
4543168--4543482	100	3.0	100	61	21	232	46	6	6	40	1.56
4547019--4547065	24	1.9	25	87	12	71	61	0	6	31	1.21
4552968--4553034	22	3.0	22	91	2	107	61	8	10	19	1.54
4552974--4553035	11	5.5	11	75	16	56	66	6	9	17	1.42
4552974--4553039	12	5.8	12	68	10	57	65	6	9	19	1.42
4555413--4555459	24	2.0	24	95	4	87	61	8	12	17	1.55
4555419--4555463	12	3.8	12	77	11	56	68	4	8	17	1.32
4556278--4556355	41	2.0	40	85	10	106	16	35	28	19	1.93
4559922--4560008	35	2.5	34	80	12	97	56	9	8	26	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4560604--4560647	18	2.4	18	85	10	63	27	20	20	31	1.97
4562330--4562371	18	2.4	18	88	4	59	61	2	7	28	1.35
4562410--4562441	10	2.8	12	81	18	50	43	0	28	28	1.55
4562769--4562856	40	2.2	41	93	2	151	43	13	22	20	1.87
4565345--4565384	21	1.9	21	85	10	55	55	22	10	12	1.67
4565685--4565747	25	2.9	22	74	19	60	30	6	31	31	1.83
4565721--4565757	19	1.9	19	100	0	74	37	5	29	27	1.79
4567063--4567135	28	2.6	28	97	0	137	19	42	12	26	1.86
4576087--4576276	36	5.2	36	85	1	229	36	22	19	21	1.95
4576461--4576753	51	5.7	51	85	6	351	33	18	23	24	1.97
4576600--4577149	55	10.3	55	84	8	427	30	16	27	26	1.97
4576719--4577137	55	7.7	55	87	3	573	29	14	28	27	1.95
4576717--4577137	108	3.9	108	91	1	664	29	14	28	27	1.95
4577948--4578020	28	2.6	28	97	0	137	19	42	12	26	1.86
4581720--4581765	20	2.2	21	84	7	58	23	17	4	54	1.61
4582203--4582253	26	2.0	25	84	3	66	64	1	7	25	1.31
4584333--4584379	22	2.1	22	88	7	69	36	0	6	57	1.24
4586909--4586956	22	2.1	23	81	11	55	37	6	4	52	1.46
4595257--4595291	13	2.6	13	95	4	61	54	0	0	45	0.99
4595217--4595290	20	3.8	19	77	7	78	58	1	0	40	1.07
4595257--4595290	7	5.0	7	92	7	61	55	0	0	44	0.99
4602625--4602681	27	2.1	27	93	3	98	43	12	5	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4602780--4602838	31	1.9	31	96	0	109	52	18	8	20	1.71
4618955--4619589	315	2.0	314	98	1	1236	25	17	20	36	1.94
4628424--4628557	45	3.0	45	93	2	227	23	23	21	30	1.99
4632684--4632712	2	14.5	2	100	0	58	51	0	0	48	1.00
4632849--4632901	3	17.7	3	96	0	97	67	1	0	30	1.01
4633050--4633098	25	1.9	26	84	12	66	48	6	0	44	1.27
4645774--4645815	2	21.0	2	100	0	84	50	0	0	50	1.00
4652814--4652954	36	4.0	35	91	2	219	19	21	24	34	1.97
4652814--4652954	71	2.0	71	90	2	221	19	21	24	34	1.97
4662705--4662765	16	3.6	16	91	8	86	40	11	24	22	1.87
4662905--4662985	37	2.2	38	80	13	96	50	3	1	44	1.27
4663212--4663410	96	2.1	95	94	0	353	35	23	16	25	1.94
4670511--4670552	15	2.8	15	88	0	57	33	7	28	30	1.84
4671219--4671251	2	16.5	2	100	0	66	48	0	0	51	1.00
4672797--4672850	26	2.0	27	82	13	67	61	0	0	38	0.96
4673305--4673347	17	2.5	17	88	7	61	72	0	0	27	0.85
4678200--4678236	8	4.6	8	100	0	74	24	10	0	64	1.25
4680737--4680825	29	3.1	29	100	0	178	13	31	37	17	1.89
4680847--4680899	18	3.0	18	97	2	99	39	22	20	16	1.92
4680864--4680980	60	1.9	60	86	6	164	27	14	41	16	1.87
4680945--4681108	15	10.1	15	72	18	123	20	7	53	18	1.69
4680876--4680960	44	2.0	41	86	9	116	27	14	42	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4680947--4681042	33	2.9	33	83	11	126	21	8	53	16	1.69
4680937--4681107	82	2.1	83	87	3	247	21	8	52	18	1.72
4680947--4681118	32	5.2	32	75	16	147	20	7	54	17	1.67
4680994--4681133	51	2.8	51	94	4	241	19	7	54	18	1.68
4681207--4681269	31	2.0	32	96	3	119	22	25	22	30	1.99
4681573--4681621	21	2.3	21	82	3	62	32	0	16	51	1.45
4681598--4681651	28	1.9	28	92	0	90	31	0	12	55	1.38
4681620--4681728	47	2.5	44	82	12	134	41	0	8	49	1.39
4682449--4682507	26	2.3	25	75	18	66	47	8	3	40	1.51
4686476--4686576	45	2.2	45	84	10	125	47	12	0	39	1.42
4686475--4686607	45	3.1	44	78	13	118	47	12	0	40	1.41
4686767--4686817	20	2.5	20	93	3	84	1	37	0	60	1.08
4686880--4686931	25	2.1	25	92	0	86	28	32	9	28	1.89
4687042--4687101	23	2.6	23	100	0	120	23	6	45	25	1.77
4687116--4687211	29	3.3	29	100	0	192	23	28	31	16	1.96
4687236--4687345	15	7.9	15	67	22	69	13	30	30	24	1.94
4687225--4687367	41	3.5	41	100	0	286	14	28	32	23	1.94
4687381--4687491	55	2.0	55	100	0	222	16	34	21	27	1.95
4687388--4687473	27	3.1	27	62	15	68	16	37	22	24	1.93
4687457--4687525	15	4.9	15	70	20	58	13	31	30	24	1.93
4687446--4687537	41	2.2	41	96	0	166	15	29	31	23	1.95
4687474--4687706	115	2.0	115	100	0	466	17	25	31	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4691273--4691372	24	4.2	24	74	5	94	47	17	14	22	1.82
4691266--4691374	48	2.3	48	77	0	119	48	16	13	21	1.80
4692509--4692543	18	1.9	18	88	0	52	28	11	0	60	1.32
4696204--4696296	27	3.5	27	92	1	152	39	10	12	36	1.79
4696444--4696484	15	2.6	15	88	7	55	43	0	0	56	0.99
4703059--4703100	2	21.0	2	100	0	84	50	0	0	50	1.00
4708845--4708889	14	3.2	14	83	0	63	57	8	13	20	1.62
4709117--4709183	29	2.2	30	82	12	84	44	7	4	43	1.52
4713563--4713634	27	2.7	27	91	0	117	6	18	30	44	1.76
4713641--4713699	27	2.2	27	84	0	73	16	18	25	38	1.92
4713649--4713712	27	2.4	27	91	0	110	12	21	26	39	1.89
4714196--4714243	9	5.0	9	76	14	51	4	18	33	43	1.69
4721117--4721188	20	3.5	20	90	1	108	37	22	15	25	1.93
4721182--4721288	20	5.4	20	80	9	105	43	23	15	16	1.87
4721164--4721287	40	3.1	40	77	10	130	42	22	16	17	1.89
4722012--4722045	12	2.8	12	90	0	50	55	29	0	14	1.40
4722166--4722212	24	2.0	24	95	0	85	27	21	17	34	1.95
4745342--4745377	18	2.0	18	94	0	63	55	25	2	16	1.55
4745680--4745724	20	2.2	20	92	0	81	17	22	24	35	1.95
4746179--4746215	18	2.1	18	89	0	56	32	5	10	51	1.60
4746160--4746223	24	2.6	25	76	9	71	37	4	9	48	1.56
4746525--4746611	39	2.2	39	95	4	158	47	19	14	18	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4746782--4746878	20	5.2	20	69	18	73	38	23	21	16	1.93
4746961--4747100	66	2.2	60	86	7	181	51	16	1	30	1.53
4750931--4750975	22	2.0	22	86	4	63	24	13	35	26	1.92
4751087--4751255	20	8.4	20	89	0	230	18	17	23	40	1.91
4751087--4751291	60	3.4	60	82	6	238	18	17	23	40	1.91
4760230--4760276	22	2.1	22	84	7	60	38	2	4	55	1.31
4760714--4760755	13	3.3	13	75	18	52	61	4	0	33	1.17
4765078--4765143	27	2.4	27	92	0	105	43	15	10	30	1.80
4765196--4765236	16	2.6	16	88	3	57	34	21	7	36	1.82
4767437--4767502	21	3.3	21	68	20	59	40	0	1	57	1.08

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