genome.fa.s9643.2.7.7.80.10.50.1000.26.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  26  of  41  ( 4862 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)
5368050--5368096	22	2.1	22	92	0	76	12	34	21	31	1.91
5368054--5368103	22	2.3	22	85	0	73	14	34	16	36	1.88
5368125--5368209	34	2.5	34	94	0	143	36	24	23	15	1.93
5390955--5391016	23	2.9	21	85	7	81	20	35	25	17	1.95
5411763--5411801	20	1.9	21	89	5	62	51	5	23	20	1.67
5424594--5424630	20	2.0	20	89	10	60	59	2	2	35	1.26
5429933--5429971	9	4.3	9	100	0	78	20	20	35	23	1.96
5430022--5430083	27	2.4	26	86	7	83	35	16	19	29	1.93
5434042--5434068	13	2.1	13	100	0	54	44	7	0	48	1.31
5434063--5434154	32	2.9	31	75	3	103	45	5	5	43	1.50
5441825--5441879	27	2.0	27	96	0	101	21	12	21	43	1.86
5447194--5447231	20	2.0	19	90	10	60	47	10	23	18	1.79
5459032--5459088	18	3.2	18	78	14	64	15	8	0	75	1.04
5459006--5459090	32	2.6	32	83	16	111	17	11	0	70	1.16
5470646--5470899	65	3.9	65	93	1	411	33	26	19	19	1.96
5470840--5471058	106	2.1	106	92	1	368	32	26	20	21	1.97
5473030--5473086	18	3.2	18	78	14	64	15	8	0	75	1.04
5473004--5473088	32	2.6	32	83	16	111	17	11	0	70	1.16
5473868--5473908	21	2.0	21	85	0	55	39	14	0	46	1.45
5474317--5474353	18	2.1	18	100	0	74	24	32	5	37	1.78
5475874--5475904	16	1.9	16	93	0	53	45	3	0	51	1.17
5477414--5477551	72	1.9	72	82	11	176	28	10	25	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5479645--5479808	85	1.9	85	90	4	260	51	11	15	21	1.75
5480046--5480079	2	16.5	2	93	6	59	50	2	0	47	1.16
5487326--5487818	44	11.0	44	91	4	790	34	18	6	40	1.77
5487955--5488513	59	9.4	59	82	5	482	29	22	11	36	1.89
5487971--5488145	60	2.9	60	84	5	237	29	22	12	36	1.91
5488132--5488520	177	2.2	178	88	2	572	29	22	11	36	1.89
5493621--5493663	22	1.9	23	85	4	61	44	16	20	18	1.87
5494164--5494428	44	6.0	44	93	0	449	34	18	5	41	1.74
5494565--5494723	60	2.7	60	89	2	223	28	23	11	36	1.89
5494784--5495130	177	2.0	177	92	2	581	30	21	11	36	1.89
5494565--5495130	59	9.6	59	81	9	520	29	21	11	36	1.89
5497049--5497109	28	2.2	28	82	11	72	42	0	0	57	0.98
5515770--5515836	30	2.2	32	89	5	102	41	1	2	53	1.25
5515788--5515838	16	3.3	15	74	20	52	43	0	1	54	1.11
5531804--5531863	2	31.5	2	83	9	72	45	0	0	55	0.99
5537306--5537357	24	2.2	24	82	0	59	11	15	25	48	1.78
5537317--5537373	10	5.3	10	76	15	51	14	10	19	56	1.67
5537327--5537357	14	2.2	14	94	0	53	9	12	22	54	1.67
5538101--5538175	10	7.7	10	69	21	61	9	12	21	57	1.62
5538107--5538171	16	4.1	16	95	0	121	7	12	23	56	1.61
5538241--5538273	16	2.1	16	100	0	66	6	12	24	57	1.57
5540701--5540737	20	1.9	19	89	10	58	18	21	10	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5543009--5543052	19	2.2	20	84	4	54	50	0	0	50	1.00
5543064--5543123	23	2.5	24	75	5	59	51	0	6	41	1.28
5553862--5553909	25	1.9	25	91	8	80	58	4	2	35	1.29
5553902--5553948	24	2.0	24	91	0	76	72	2	0	25	0.96
5557857--5557998	21	6.8	21	75	12	139	33	24	19	21	1.97
5557860--5557998	63	2.2	63	93	0	233	34	25	19	20	1.96
5558020--5558060	21	2.0	21	90	0	64	19	19	31	29	1.96
5563674--5563716	19	2.3	19	95	0	77	32	25	4	37	1.77
5569111--5569169	31	1.9	31	89	0	91	37	6	11	44	1.68
5569193--5569279	22	3.8	22	73	11	84	51	12	0	35	1.40
5569263--5569822	32	19.4	32	69	26	380	52	12	0	34	1.44
5569295--5569822	54	9.8	54	84	7	698	51	12	0	34	1.44
5569215--5569698	86	5.9	84	75	14	299	52	12	0	34	1.44
5569329--5569377	22	2.2	22	85	3	62	55	12	0	32	1.37
5569381--5569423	22	2.0	22	100	0	86	51	13	0	34	1.42
5569383--5569431	22	2.2	22	88	3	71	55	14	0	30	1.40
5569435--5569477	22	2.0	22	100	0	86	51	13	0	34	1.42
5569437--5569485	22	2.2	22	88	3	71	55	14	0	30	1.40
5569183--5569822	188	3.4	185	82	8	726	52	12	0	35	1.43
5569491--5569565	22	3.2	22	75	14	69	54	16	1	28	1.50
5569603--5569651	22	2.2	22	85	3	62	55	12	0	32	1.37
5569757--5569801	22	2.0	22	100	0	90	48	17	0	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5569759--5569807	22	2.2	22	92	3	80	55	16	0	28	1.42
5569802--5569948	15	9.5	15	80	11	154	49	2	1	46	1.24
5569560--5569934	54	7.4	50	75	16	200	50	9	1	38	1.42
5579868--5579892	5	5.0	5	100	0	50	80	0	0	20	0.72
5581319--5581360	16	2.9	14	86	10	50	54	2	2	40	1.26
5583120--5583187	3	22.7	3	100	0	136	32	0	0	67	0.91
5594010--5594042	2	16.5	2	100	0	66	51	0	0	48	1.00
5596180--5596229	20	2.5	20	83	0	64	28	36	12	24	1.91
5596241--5596287	21	2.2	21	92	0	76	23	25	12	38	1.90
5596194--5596293	21	4.9	21	74	3	69	28	27	14	31	1.95
5596303--5596432	20	6.5	20	80	9	115	40	23	14	21	1.90
5596311--5596429	40	3.0	38	78	14	132	39	23	15	21	1.91
5596357--5596430	19	3.7	19	82	8	85	41	24	10	22	1.86
5596282--5596434	60	2.5	60	81	10	163	39	23	15	21	1.91
5596587--5596623	16	2.4	16	86	8	51	29	5	0	64	1.15
5597323--5597376	24	2.2	24	90	0	81	22	18	18	40	1.91
5600115--5600172	25	2.3	25	96	0	107	27	8	20	43	1.81
5600381--5600467	39	2.2	39	93	0	147	49	19	13	17	1.79
5602317--5602409	21	4.4	21	72	8	64	21	20	33	24	1.97
5605283--5605330	22	2.2	22	96	0	87	25	14	39	20	1.91
5605461--5605506	20	2.3	20	92	0	74	19	17	21	41	1.90
5605847--5605884	20	1.9	20	94	0	67	36	13	28	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5613270--5613303	2	17.5	2	93	6	61	50	0	0	50	1.00
5613960--5614020	21	3.2	21	65	29	64	32	3	21	42	1.69
5613952--5614060	35	3.0	36	90	5	175	30	4	20	44	1.71
5618564--5618672	35	3.0	36	94	5	193	30	5	19	44	1.73
5620130--5620172	20	2.2	20	83	8	52	37	0	20	41	1.53
5620423--5620479	20	2.6	22	83	8	73	29	19	21	29	1.97
5623013--5623050	20	1.9	20	88	0	58	52	0	5	42	1.24
5627069--5627108	21	2.1	18	86	13	53	37	7	0	55	1.29
5630730--5630862	70	1.9	70	92	0	221	12	15	18	52	1.74
5638250--5638290	16	2.8	15	82	13	50	68	2	2	26	1.15
5639336--5639642	154	2.0	154	87	2	438	33	22	12	31	1.91
5640903--5640939	16	2.2	17	86	13	51	37	0	2	59	1.12
5641944--5641970	2	13.5	2	100	0	54	51	0	0	48	1.00
5646861--5646920	31	1.9	31	93	0	102	40	6	10	43	1.64
5647472--5647514	17	2.4	18	88	7	61	62	2	0	34	1.08
5647752--5647805	16	3.5	15	76	16	56	35	1	1	61	1.18
5648248--5648363	24	4.8	24	76	2	106	13	12	14	59	1.61
5654499--5654531	4	8.5	4	90	6	50	51	18	3	27	1.60
5655318--5655346	8	3.6	8	100	0	58	44	0	0	55	0.99
5657037--5657072	17	2.1	17	100	0	72	16	0	41	41	1.48
5657088--5657121	4	8.8	4	87	6	52	23	0	23	52	1.47
5657228--5657319	30	3.1	30	90	3	141	41	0	13	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5657261--5657315	15	3.6	16	70	20	55	41	0	14	43	1.45
5657372--5657405	15	2.2	15	89	5	50	41	0	5	52	1.25
5658600--5658645	23	2.0	24	82	4	58	34	2	4	58	1.30
5659542--5659589	14	3.6	14	83	16	75	45	18	0	35	1.50
5659541--5659589	25	2.0	25	100	0	98	44	18	0	36	1.50
5659531--5659806	60	4.6	60	93	1	448	45	13	0	41	1.43
5659618--5660537	60	16.0	56	88	7	918	45	12	0	41	1.44
5659576--5660537	120	8.3	120	88	7	1438	45	12	0	41	1.43
5659541--5659716	21	8.4	20	69	18	78	45	14	0	39	1.45
5659888--5660639	21	37.0	22	62	23	120	45	12	0	41	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