genome.fa.s8724.2.7.7.80.10.50.1000.19.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  19  of  23  ( 2733 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)
4273605--4273650	18	2.6	18	86	6	58	28	36	2	32	1.69
4274087--4274220	65	2.0	66	84	7	175	29	21	17	31	1.97
4274087--4274235	65	2.3	64	81	9	160	28	21	19	30	1.98
4279652--4279749	44	2.3	43	85	5	126	26	22	22	28	1.99
4279679--4279750	23	3.2	23	67	15	60	25	22	23	29	1.99
4281692--4281744	22	2.3	23	87	9	74	22	0	26	50	1.49
4282385--4282537	65	2.4	65	80	6	159	30	21	16	30	1.96
4285396--4285423	14	2.0	14	100	0	56	50	7	21	21	1.72
4285651--4285713	6	10.5	6	85	0	72	28	11	9	50	1.69
4285654--4285713	24	2.5	24	100	0	120	30	10	10	50	1.69
4287093--4287139	19	2.4	19	82	3	58	51	12	6	29	1.65
4287452--4287495	20	2.2	20	80	4	54	22	13	11	52	1.72
4289745--4289787	22	2.0	22	85	0	59	23	13	13	48	1.79
4289832--4289867	2	18.0	2	100	0	72	50	0	0	50	1.00
4290398--4290443	23	2.0	22	87	4	65	30	21	13	34	1.91
4290010--4290933	225	4.1	226	90	1	1437	32	16	12	38	1.87
4293539--4294178	323	2.0	322	92	1	1059	32	14	11	42	1.81
4301148--4301183	13	2.8	13	91	0	63	47	8	27	16	1.75
4301242--4301271	14	2.2	13	94	5	51	80	0	20	0	0.72
4309951--4310024	18	4.1	18	100	0	148	44	5	28	21	1.74
4312093--4312155	21	3.0	21	83	6	74	66	4	1	26	1.20
4312138--4312234	38	2.5	39	79	15	103	48	8	2	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4312279--4312315	16	2.3	16	100	0	74	45	10	5	37	1.62
4312306--4312350	24	2.0	24	86	8	67	57	6	0	35	1.25
4312893--4313256	201	1.8	201	81	2	453	28	19	20	32	1.97
4320840--4320877	18	2.2	18	90	4	60	63	5	10	21	1.46
4327170--4327207	18	2.2	18	90	4	60	65	7	5	21	1.38
4334241--4334306	24	2.6	26	85	11	100	50	4	0	45	1.22
4334229--4334320	24	4.0	24	80	8	86	50	3	1	45	1.25
4334288--4334319	2	16.0	2	100	0	64	50	0	0	50	1.00
4334491--4334541	3	17.0	3	92	8	86	66	0	0	33	0.92
4335648--4335677	14	2.1	14	100	0	60	66	6	0	26	1.16
4340303--4340337	16	2.2	16	89	0	52	42	2	0	54	1.15
4340904--4340978	37	2.0	37	100	0	150	20	16	24	40	1.91
4342395--4342641	123	2.0	123	88	4	365	35	11	18	34	1.87
4346854--4346953	49	2.1	47	82	12	116	32	1	14	53	1.48
4365295--4365419	59	2.1	59	100	0	250	18	37	20	24	1.94
4366729--4366771	22	2.0	22	86	9	61	51	6	0	41	1.29
4366916--4366970	2	27.5	2	100	0	110	50	0	0	49	1.00
4370766--4370825	15	4.0	14	77	14	57	78	1	20	0	0.84
4370749--4370816	24	2.8	24	86	8	84	76	1	20	1	0.94
4370776--4370811	17	2.1	17	94	5	63	83	0	16	0	0.65
4370746--4370826	28	3.0	27	75	17	80	76	1	20	1	0.92
4370746--4370826	14	6.1	14	68	21	57	76	1	20	1	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4373532--4373849	36	8.8	36	69	9	198	30	15	12	41	1.84
4373519--4373849	73	4.5	73	91	4	535	31	14	12	41	1.84
4373518--4373849	145	2.3	144	90	5	524	31	14	12	40	1.84
4373856--4374052	93	2.1	93	88	2	297	37	15	19	26	1.92
4378288--4378477	36	5.3	36	86	3	258	35	22	23	18	1.96
4381609--4381640	2	16.0	2	100	0	64	50	0	0	50	1.00
4382386--4382410	5	5.0	5	100	0	50	20	0	0	80	0.72
4382498--4382552	16	3.5	15	72	22	51	20	3	5	70	1.22
4386378--4386516	36	3.9	36	98	0	260	25	16	16	41	1.89
4393990--4394092	36	2.9	36	98	0	197	25	16	16	41	1.89
4400193--4400277	6	14.2	6	71	18	61	76	0	22	1	0.85
4400197--4400245	19	2.8	17	85	14	64	75	0	22	2	0.90
4400172--4400277	36	3.0	33	72	18	88	75	0	22	1	0.90
4403228--4403252	12	2.1	12	100	0	50	48	36	0	16	1.46
4406897--4406957	24	2.5	24	83	0	77	36	18	19	26	1.94
4412291--4412353	20	3.1	20	72	4	54	26	19	19	34	1.95
4411845--4412985	239	4.8	240	84	2	1415	32	16	16	35	1.91
4411845--4412979	479	2.4	478	84	2	1501	32	16	16	35	1.91
4413581--4413610	3	10.0	3	92	0	51	36	0	0	63	0.95
4413578--4413640	12	5.3	12	81	9	60	38	0	0	61	0.96
4413581--4413641	18	3.4	18	78	15	72	37	0	0	62	0.96
4435901--4435952	22	2.4	22	93	0	95	32	26	19	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4436120--4436170	20	2.5	20	87	0	66	31	15	23	29	1.95
4440110--4440148	18	2.2	18	100	0	78	35	10	15	38	1.81
4443781--4443820	2	20.0	2	100	0	80	50	0	0	50	1.00
4451303--4451349	20	2.3	21	88	3	69	42	8	12	36	1.74
4451336--4451388	23	2.3	23	83	9	63	37	9	18	33	1.83
4460689--4460744	3	18.7	3	96	0	103	33	1	0	64	1.04
4462145--4462191	14	3.5	13	80	13	51	40	2	2	55	1.24
4462831--4462865	17	2.1	17	88	0	52	34	5	0	60	1.21
4462869--4462906	15	2.8	13	88	11	51	23	5	2	68	1.23
4473822--4473866	16	2.8	16	83	10	56	28	8	6	55	1.56
4474634--4475001	83	4.4	83	97	0	673	29	13	22	35	1.92
4475798--4476561	113	6.8	113	93	2	1261	38	13	18	29	1.89
4476885--4476982	3	32.7	3	97	0	187	33	1	0	65	1.00
4478392--4478438	14	3.5	13	80	13	51	40	2	2	55	1.24
4482545--4482572	2	14.0	2	100	0	56	50	0	0	50	1.00
4486816--4486880	33	2.0	33	84	0	85	46	16	15	21	1.84
4490226--4490278	22	2.4	22	77	3	52	45	3	1	49	1.31
4490296--4490491	30	6.5	30	72	15	136	54	2	4	39	1.31
4490312--4490527	57	3.7	56	72	13	173	53	2	4	39	1.35
4490299--4490556	121	2.2	119	88	4	378	53	3	5	37	1.38
4490328--4490518	60	3.2	58	69	18	165	54	3	4	37	1.37
4490473--4490585	31	3.6	32	74	12	101	54	4	5	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4490575--4490660	25	3.3	26	79	11	97	54	2	2	40	1.26
4491894--4491957	28	2.3	28	83	0	74	43	1	10	43	1.49
4491922--4492147	37	6.2	36	80	10	219	44	3	8	43	1.51
4491922--4492147	74	3.1	71	79	7	265	44	3	8	43	1.51
4492125--4492185	22	2.6	23	77	17	63	40	3	9	45	1.53
4492138--4492191	21	2.5	21	90	3	81	44	1	7	46	1.42
4492209--4492244	3	12.0	3	100	0	72	33	0	0	66	0.92
4492225--4492272	16	2.8	16	84	9	60	20	2	0	77	0.88
4495119--4495482	192	1.9	191	91	0	602	37	13	25	23	1.92
4499994--4500036	17	2.5	17	96	0	77	23	27	30	18	1.98
4504468--4504524	21	2.7	21	97	0	105	24	28	24	22	2.00
4510913--4510956	21	2.1	21	82	0	52	9	43	15	31	1.79
4524774--4524798	12	2.1	12	100	0	50	36	0	16	48	1.46
4524714--4524908	101	1.9	102	81	6	236	45	2	7	44	1.46
4524772--4524826	28	2.0	28	85	0	74	43	1	9	45	1.46
4524800--4525192	36	10.5	35	71	16	184	44	2	8	44	1.48
4524878--4524990	49	2.3	49	89	1	172	38	3	9	47	1.54
4524915--4524950	13	2.8	13	86	0	54	36	5	13	44	1.68
4524941--4525206	76	3.6	75	82	8	318	43	3	8	44	1.50
4524965--4525209	37	6.7	35	78	10	226	44	2	8	44	1.48
4525197--4525236	21	1.9	21	89	0	62	42	2	12	42	1.56
4526424--4526465	19	2.1	20	86	8	59	14	14	0	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4528229--4528294	28	2.4	28	78	9	82	21	19	21	37	1.94
4531371--4531426	15	3.6	15	79	9	67	42	12	12	32	1.80
4531374--4531424	17	3.1	17	77	11	61	43	11	9	35	1.75
4531822--4531876	13	4.2	13	75	13	58	49	12	3	34	1.59
4531862--4531959	32	3.0	32	92	4	153	44	15	7	32	1.73
4531954--4531993	21	1.9	21	94	0	71	47	7	15	30	1.72
4534282--4534327	12	3.6	12	81	16	56	17	19	17	45	1.85
4534281--4534320	15	2.9	14	85	14	57	20	17	15	47	1.83
4540034--4540062	10	2.9	10	100	0	58	20	31	0	48	1.50
4540112--4540152	18	2.3	18	91	4	66	29	4	2	63	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23