genome.fa.s9643.2.7.7.80.10.50.1000.32.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  32  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)
6786477--6786568	19	5.4	19	66	24	69	15	21	17	45	1.85
6786442--6786568	66	1.9	66	91	0	209	14	22	17	45	1.84
6788885--6788914	12	2.5	12	100	0	60	0	23	0	76	0.78
6789082--6789134	24	2.2	24	89	0	79	39	20	16	22	1.92
6789912--6789963	21	2.5	21	87	3	70	38	17	23	21	1.93
6789952--6790061	20	5.4	20	83	6	105	30	27	18	23	1.97
6789948--6790079	40	3.3	40	80	1	147	34	25	18	22	1.96
6789994--6790070	20	3.8	20	94	0	118	25	27	19	27	1.99
6790293--6790388	20	4.8	20	94	0	165	38	23	21	15	1.92
6792047--6792107	21	2.9	21	73	9	70	21	13	42	22	1.87
6792454--6792542	20	4.4	20	84	1	97	38	24	20	16	1.93
6792531--6792589	14	3.9	14	74	20	55	47	23	18	10	1.79
6792513--6792594	33	2.4	33	89	4	128	46	23	20	9	1.80
6792513--6792605	33	2.8	33	86	6	116	46	24	19	9	1.80
6792601--6792664	19	3.6	19	72	20	75	15	20	18	45	1.86
6792649--6792703	20	2.8	19	83	8	65	16	23	23	36	1.94
6793244--6793291	18	2.7	19	87	12	75	16	12	43	27	1.84
6794612--6794669	20	2.9	20	86	0	71	44	22	17	15	1.86
6794932--6794975	22	2.0	22	90	0	70	15	11	47	25	1.79
6795162--6795254	20	4.7	20	86	0	132	24	17	27	30	1.97
6795244--6795316	21	3.5	21	86	1	94	20	21	17	39	1.92
6795306--6795358	21	2.5	22	81	6	74	33	18	26	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6798573--6798706	71	1.9	73	87	6	202	37	20	7	35	1.81
6802047--6802084	20	1.9	20	89	10	60	7	10	21	60	1.54
6804151--6804196	17	2.7	17	86	0	65	52	2	0	45	1.13
6805547--6805597	20	2.7	19	87	6	68	17	25	27	29	1.98
6805548--6805597	9	5.3	9	83	9	64	16	26	28	30	1.96
6805585--6805617	14	2.4	14	94	0	57	15	48	24	12	1.78
6805608--6805660	22	2.4	22	93	0	88	20	49	20	9	1.77
6805630--6805667	17	2.2	17	100	0	76	18	47	23	10	1.79
6812862--6812895	14	2.4	14	95	0	59	14	47	26	11	1.79
6812871--6812939	17	3.9	17	92	3	111	17	46	23	13	1.83
6815229--6815291	30	2.2	30	85	5	85	20	6	3	69	1.24
6815255--6815304	6	8.0	6	78	8	55	22	4	0	74	0.99
6815240--6815302	18	3.5	17	80	8	63	22	4	1	71	1.13
6816369--6816420	23	2.5	19	82	14	59	17	7	0	75	1.03
6816377--6816420	21	2.2	19	84	8	52	18	9	0	72	1.10
6819309--6819548	95	2.7	95	83	10	281	30	17	19	32	1.95
6820729--6821105	100	3.8	100	76	15	348	29	19	9	40	1.84
6820858--6820968	29	3.6	29	72	19	107	31	20	9	37	1.86
6820832--6821195	65	5.7	65	75	14	328	30	19	9	40	1.84
6821058--6821158	29	3.6	28	78	15	100	35	17	7	38	1.79
6820789--6821227	190	2.3	192	83	10	561	29	20	10	40	1.85
6821044--6821129	27	3.0	27	82	17	104	33	20	10	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6821049--6821161	56	2.0	56	87	0	163	34	16	8	39	1.80
6823081--6823121	13	3.0	14	82	13	50	4	7	2	85	0.81
6823113--6823170	6	9.7	6	79	3	55	20	3	1	74	1.06
6823078--6823165	12	7.3	12	77	8	54	14	5	2	77	1.05
6829653--6829689	20	1.9	19	89	10	58	45	10	24	18	1.81
6835198--6835230	17	1.9	17	93	0	57	33	3	45	18	1.65
6837676--6837700	2	12.5	2	100	0	50	48	0	0	52	1.00
6838186--6838210	9	2.8	9	100	0	50	12	56	12	20	1.67
6840634--6840676	21	2.0	21	95	0	77	27	16	23	32	1.96
6850292--6850388	33	3.0	31	82	7	97	51	5	3	40	1.40
6850294--6850389	32	3.0	33	82	7	92	53	5	2	39	1.35
6862611--6862636	5	5.2	5	100	0	52	0	38	0	61	0.96
6863098--6863132	18	1.9	18	94	0	61	40	8	8	42	1.66
6867700--6867770	30	2.4	30	92	0	115	40	14	12	32	1.83
6869943--6869984	21	2.0	21	86	13	61	71	0	7	21	1.09
6871556--6871762	106	1.9	107	90	0	326	21	19	24	34	1.96
6872076--6872268	67	2.8	67	83	3	233	36	11	22	29	1.90
6872223--6872338	34	3.4	34	88	5	157	32	11	18	37	1.86
6872379--6872901	37	15.4	36	67	20	188	37	12	19	30	1.88
6872520--6872799	100	2.8	101	92	3	449	36	12	19	31	1.89
6872584--6872969	166	2.3	166	91	4	614	36	12	20	31	1.90
6872686--6872865	66	2.8	65	90	5	276	35	12	21	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6872749--6872990	102	2.3	105	90	3	366	36	13	20	30	1.90
6874188--6874537	183	1.9	183	93	1	603	30	21	20	27	1.98
6878494--6878535	21	2.0	21	86	13	61	71	0	7	21	1.09
6878710--6878756	2	23.5	2	100	0	94	51	0	0	48	1.00
6882060--6882084	13	1.9	13	100	0	50	56	20	8	16	1.65
6886135--6886488	122	2.9	123	87	5	481	26	19	14	39	1.90
6886403--6886936	112	4.7	113	87	3	650	29	17	14	38	1.89
6886403--6886926	226	2.3	222	84	4	642	29	17	14	39	1.89
6886954--6887126	76	2.3	76	91	0	283	32	20	21	25	1.98
6887803--6887854	22	2.4	22	90	0	77	38	15	9	36	1.80
6892887--6892955	23	3.0	23	89	0	102	26	26	27	20	1.99
6892963--6893188	103	2.2	103	93	1	391	37	24	12	26	1.91
6898110--6898178	23	3.0	23	82	0	84	26	23	27	23	2.00
6898198--6898411	103	2.1	103	95	0	383	37	24	12	25	1.91
6900950--6900990	19	2.2	19	91	4	66	2	19	0	78	0.87
6900949--6900995	19	2.4	18	83	13	58	2	17	2	78	0.94
6905754--6905807	28	2.0	27	85	3	72	59	1	5	33	1.31
6907861--6907895	14	2.4	15	85	9	54	14	17	31	37	1.89
6907956--6907988	3	11.3	3	93	6	59	66	0	0	33	0.92
6908456--6908489	15	2.3	15	94	0	59	8	67	17	5	1.37
6915726--6915796	6	11.5	6	84	11	63	54	1	1	42	1.17
6915715--6915787	3	23.7	3	79	8	76	58	2	1	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6916353--6916477	35	3.8	34	74	13	118	36	12	21	29	1.91
6916568--6916651	32	2.6	33	84	1	98	39	11	16	32	1.85
6916845--6916909	34	1.9	34	90	0	103	40	7	16	35	1.78
6922767--6922844	32	2.4	32	85	4	104	55	8	15	20	1.67
6926676--6926739	3	20.7	3	82	9	67	59	1	3	35	1.23
6932374--6932444	15	4.9	14	78	11	72	32	1	1	64	1.11
6932383--6932444	3	21.0	3	86	3	90	33	0	1	64	1.03
6933866--6934239	135	2.7	131	78	14	315	36	10	9	43	1.71
6940890--6941459	93	6.1	93	93	1	937	29	15	20	34	1.93
6943845--6943901	22	2.6	23	88	8	91	33	14	12	40	1.83
6944581--6945417	76	11.0	76	95	1	1423	22	20	22	34	1.96
6945564--6945626	14	4.2	14	84	13	74	30	1	1	66	1.10
6945573--6945627	3	19.0	3	87	7	78	32	0	1	65	1.03
6945573--6945627	20	2.7	20	82	2	74	32	0	1	65	1.03
6947036--6947409	150	2.7	131	77	13	304	36	9	9	44	1.70
6949097--6949148	15	3.4	15	71	23	54	50	3	11	34	1.57
6949093--6949157	31	2.1	31	100	0	130	47	6	12	33	1.66
6950259--6950283	2	12.5	2	100	0	50	48	0	0	52	1.00
6950543--6950599	15	3.9	15	76	19	66	24	1	3	70	1.13
6950543--6950599	16	3.9	14	77	22	64	24	1	3	70	1.13
6957431--6957490	20	3.0	20	90	0	93	25	20	23	31	1.98
6958424--6958482	27	2.1	28	84	3	75	45	18	11	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6961001--6961063	23	2.9	22	78	4	74	17	20	28	33	1.95
6960998--6961063	21	3.0	22	75	6	80	16	21	27	34	1.95
6962776--6962917	32	4.4	32	82	1	133	19	25	26	28	1.99
6962776--6962917	64	2.2	64	79	2	151	19	25	26	28	1.99
6963835--6963864	14	2.1	14	93	0	51	40	16	10	33	1.82
6964100--6964140	2	20.5	2	100	0	82	48	0	0	51	1.00
6966734--6966771	18	2.0	19	85	10	51	47	0	2	50	1.15
6971774--6971845	34	2.1	34	84	2	92	25	26	13	34	1.93
6972321--6972358	20	1.9	20	94	0	67	31	34	15	18	1.92
6972369--6972528	65	2.5	64	82	5	180	32	21	16	29	1.95

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