genome.fa.s190.2.7.7.80.10.50.1000.24.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  24  of  62  ( 7381 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)
5784784--5784861	31	2.6	30	75	15	81	17	2	1	78	0.94
5784789--5784883	39	2.4	40	76	15	92	17	5	2	74	1.10
5787300--5787374	22	3.6	21	87	8	102	28	32	25	14	1.95
5788706--5788871	64	2.6	64	80	5	174	27	20	21	31	1.98
5792123--5792223	22	4.6	22	93	0	166	28	30	25	14	1.95
5793559--5793721	64	2.5	64	83	9	190	25	21	20	32	1.97
5796562--5796606	20	2.2	20	84	4	54	75	6	15	2	1.11
5796684--5796821	69	2.0	69	94	0	240	36	21	15	26	1.93
5797746--5797865	32	3.8	32	78	6	127	29	14	20	35	1.92
5798412--5798717	106	2.9	106	87	1	405	35	23	17	22	1.95
5798980--5799151	65	2.6	65	77	4	177	27	19	11	41	1.86
5798913--5799276	167	2.2	167	93	2	624	29	17	11	40	1.85
5799062--5799245	102	1.8	102	84	4	255	26	17	13	42	1.86
5799258--5799295	19	2.0	19	100	0	76	47	15	5	31	1.68
5799297--5799618	102	3.2	100	86	3	394	29	18	13	38	1.89
5799091--5799456	186	2.0	185	96	1	680	29	17	13	40	1.87
5799413--5799485	37	2.0	37	89	5	112	26	19	15	39	1.90
5799501--5799583	36	2.3	36	83	4	96	25	19	14	40	1.89
5799569--5799627	30	2.0	30	83	12	77	37	16	11	33	1.86
5799682--5799750	36	1.9	36	90	0	111	23	20	13	43	1.86
5800895--5800944	2	25.5	2	91	4	75	44	0	0	56	0.99
5800962--5801101	18	7.2	19	73	19	85	25	2	0	71	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5800985--5801101	22	4.9	23	71	25	66	23	2	0	72	1.02
5800930--5801027	39	2.3	44	84	10	125	32	2	1	64	1.12
5801002--5801082	26	3.1	27	73	21	66	23	1	1	74	0.97
5800932--5801057	41	3.1	40	79	16	134	29	2	0	67	1.09
5800930--5801047	39	3.0	38	80	14	107	30	2	0	66	1.11
5800903--5801114	49	4.2	50	75	14	139	29	2	0	67	1.09
5800962--5801104	20	7.3	19	69	21	66	25	2	0	71	1.02
5800994--5801104	26	4.2	25	66	22	50	23	1	0	73	0.98
5800981--5801108	8	15.9	8	68	19	54	25	2	0	71	1.02
5804297--5804364	2	34.0	2	100	0	136	50	0	0	50	1.00
5805898--5805942	23	2.0	23	91	8	74	53	0	2	44	1.13
5806098--5806148	14	3.6	15	75	21	56	35	0	0	64	0.94
5811684--5811720	14	2.6	14	91	4	56	51	0	2	45	1.15
5812764--5812893	60	2.2	60	80	6	138	34	17	17	30	1.94
5817276--5817323	25	2.0	25	84	12	64	27	37	2	33	1.69
5817735--5817765	15	2.0	16	93	6	55	38	22	6	32	1.80
5819857--5819881	12	2.1	12	100	0	50	24	16	36	24	1.94
5823652--5823703	18	2.9	18	97	0	95	28	32	21	17	1.96
5824802--5824844	21	2.1	21	86	4	61	39	25	0	34	1.56
5828894--5828938	22	2.0	22	87	8	65	51	15	4	28	1.63
5834068--5834173	52	2.0	52	82	7	126	37	18	3	39	1.69
5834954--5835014	24	2.5	24	94	0	104	27	14	21	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5836192--5836222	12	2.6	12	94	0	53	22	41	3	32	1.70
5839466--5839568	21	4.9	21	80	0	89	29	25	5	39	1.79
5840661--5840775	51	2.3	51	92	0	185	49	8	2	39	1.48
5842330--5842771	55	8.3	55	82	9	515	37	15	16	30	1.90
5842657--5842743	43	2.0	43	90	0	138	37	18	14	28	1.91
5859292--5859354	22	2.8	23	74	13	60	28	11	1	58	1.41
5863761--5863828	24	2.8	24	81	0	82	27	16	20	35	1.94
5867105--5867235	67	2.0	67	89	3	201	22	19	24	33	1.97
5871801--5872084	134	2.1	133	84	3	356	32	21	13	32	1.91
5876286--5876335	20	2.5	20	81	12	57	44	6	0	50	1.26
5876289--5876339	21	2.5	22	84	12	65	39	5	0	54	1.24
5878064--5878146	29	2.8	29	92	1	139	43	9	14	32	1.78
5882830--5882912	29	2.8	29	92	1	139	43	9	14	32	1.78
5888714--5889127	127	3.3	126	89	2	645	23	22	19	34	1.96
5889557--5889657	34	3.0	34	88	0	157	40	4	2	51	1.39
5890182--5890229	21	2.3	21	96	0	87	22	25	33	18	1.97
5890222--5890306	42	2.0	42	83	0	107	22	20	35	22	1.96
5892042--5892127	32	2.6	34	77	9	95	58	1	0	40	1.06
5892014--5892115	32	3.3	32	77	9	88	59	0	0	40	0.97
5893557--5893703	3	46.7	3	74	14	118	35	2	2	59	1.26
5893557--5893702	13	11.0	13	74	13	111	35	2	2	58	1.26
5893557--5893703	16	9.5	16	74	14	130	35	2	2	59	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5893564--5893659	46	2.1	46	84	7	124	33	2	1	63	1.13
5895118--5895151	10	3.4	10	87	0	50	29	0	0	70	0.87
5895721--5895861	65	2.2	64	83	6	169	30	24	19	25	1.98
5897792--5897831	21	1.9	21	90	10	64	55	5	7	32	1.50
5901637--5901714	23	3.5	22	78	7	95	23	25	25	25	2.00
5909195--5909284	6	14.5	6	78	15	94	80	0	16	3	0.85
5909195--5909284	19	4.8	19	81	8	96	80	0	16	3	0.85
5912538--5912675	3	43.3	3	74	11	114	39	2	2	56	1.24
5912538--5912675	13	10.8	12	75	11	114	39	2	2	56	1.24
5912538--5912674	16	8.8	16	78	9	140	39	2	2	56	1.24
5921540--5922076	282	1.9	282	93	0	923	31	17	12	38	1.87
5922752--5922968	47	4.8	46	81	6	228	32	19	6	41	1.77
5922766--5922943	91	1.9	92	85	5	245	33	18	6	42	1.75
5922752--5922968	91	2.4	92	81	5	244	32	19	6	41	1.77
5925285--5925361	38	2.0	38	94	0	136	29	7	7	54	1.57
5926061--5926101	20	2.0	20	100	0	82	48	0	19	31	1.49
5926917--5926941	2	12.5	2	100	0	50	52	0	0	48	1.00
5926974--5927106	30	4.4	30	75	10	96	56	8	15	20	1.64
5927876--5927921	21	2.1	21	84	4	56	0	30	10	58	1.32
5928503--5928563	3	20.3	3	79	0	68	67	3	3	26	1.22
5928772--5929071	135	2.3	131	87	6	417	25	18	31	26	1.97
5928772--5929086	130	2.4	132	86	4	420	25	18	30	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5929244--5929375	63	2.1	63	83	4	160	43	13	12	31	1.81
5929377--5929435	31	1.9	31	86	3	84	40	15	13	30	1.86
5929473--5929582	36	3.1	36	88	3	161	37	10	19	32	1.86
5929586--5929786	107	1.9	106	83	8	264	41	10	14	33	1.80
5932801--5932827	2	13.5	2	100	0	54	51	0	0	48	1.00
5935551--5935588	20	1.9	20	94	0	67	39	10	15	34	1.82
5935461--5935880	194	2.2	193	88	4	623	40	12	17	30	1.86
5938880--5939371	199	2.5	199	85	3	643	39	11	14	34	1.83
5939527--5939802	108	2.6	108	92	2	448	33	14	15	36	1.88
5939808--5939854	23	2.0	24	87	4	69	40	14	12	31	1.84
5940409--5940576	60	2.9	57	75	9	160	44	4	17	33	1.68
5943419--5943470	19	2.6	21	90	6	81	46	5	11	36	1.64
5946826--5946889	27	2.4	27	89	0	92	25	28	23	23	2.00
5949214--5949299	7	12.3	7	83	0	109	46	34	0	18	1.50
5949377--5949406	14	2.1	14	93	0	51	43	0	6	50	1.28
5951400--5951442	15	2.9	15	96	0	77	23	13	25	37	1.92
5951545--5951585	16	2.6	16	88	3	57	29	21	12	36	1.90
5954348--5954469	40	3.0	40	87	2	183	24	14	24	36	1.93
5954581--5954795	45	4.8	45	89	1	324	42	6	20	31	1.76
5958411--5958449	21	1.9	20	84	5	51	28	15	17	38	1.91
5960467--5960787	85	3.8	85	91	0	500	30	20	15	33	1.94
5960835--5960901	2	33.5	2	90	0	107	52	0	1	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5967624--5967663	20	2.0	21	85	14	57	42	5	7	45	1.54
5967872--5967922	19	2.7	19	80	19	63	23	33	15	27	1.95
5967870--5968030	65	2.5	65	85	5	211	30	25	16	27	1.96
5967870--5968050	64	2.8	64	83	4	213	29	25	17	27	1.97
5970107--5970146	20	2.0	21	85	5	55	40	12	5	42	1.64
5973468--5973523	22	2.7	21	83	10	62	30	23	17	28	1.97
5974211--5974274	21	3.0	21	77	4	67	21	42	6	29	1.78
5975074--5975117	21	2.1	21	91	0	70	6	36	15	40	1.74
5975911--5975950	20	2.0	21	85	14	57	42	5	7	45	1.54
5976181--5976219	19	2.1	19	95	0	69	20	38	15	25	1.92

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62