genome.fa.s8087.2.7.7.80.10.50.1000.30.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  30  of  37  ( 4336 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)
6884146--6884195	21	2.4	21	79	0	55	32	34	14	20	1.92
6885756--6885842	39	2.2	38	88	6	129	49	20	17	12	1.79
6885757--6885842	20	4.4	20	91	4	131	50	20	17	11	1.77
6886181--6886218	20	2.0	20	89	5	60	47	13	13	26	1.79
6886228--6886275	20	2.4	20	96	0	87	22	12	20	43	1.86
6886268--6886333	21	3.2	21	82	2	71	36	13	22	27	1.92
6887828--6887903	29	2.5	31	75	12	86	19	22	27	30	1.98
6895029--6895095	20	3.4	20	93	2	109	17	25	23	32	1.97
6895030--6895138	9	11.3	9	70	13	74	18	24	25	31	1.98
6895135--6895167	5	6.8	5	86	6	50	21	54	21	3	1.58
6895134--6895161	14	2.0	14	100	0	56	21	50	21	7	1.72
6910190--6910234	12	3.8	12	84	0	63	42	4	2	51	1.34
6910276--6910560	2	141.5	2	71	16	198	42	4	2	50	1.37
6910401--6910485	29	2.9	29	83	11	102	40	3	2	54	1.31
6910374--6910478	7	13.6	7	77	13	57	39	3	1	55	1.29
6910371--6910543	13	13.0	13	71	18	58	40	5	2	51	1.39
6910462--6910580	59	2.0	59	81	12	138	41	5	5	48	1.47
6914880--6914968	46	1.9	46	88	0	133	38	12	8	40	1.74
6916772--6916879	31	3.5	31	94	0	180	20	18	20	40	1.91
6920397--6920497	21	4.8	21	83	2	123	22	25	26	24	2.00
6924602--6924640	20	2.0	20	89	0	60	20	23	35	20	1.96
6928441--6928480	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6931503--6931542	12	3.6	12	83	12	50	45	5	0	50	1.23
6931529--6931694	22	7.6	22	90	1	262	40	0	11	47	1.44
6931526--6931694	87	1.9	87	93	0	293	41	0	11	46	1.44
6931529--6931694	65	2.5	66	88	1	235	40	0	11	47	1.44
6931718--6931776	31	1.9	31	89	0	91	45	10	1	42	1.48
6933937--6933976	21	1.9	21	85	10	55	35	10	2	52	1.48
6939695--6939719	11	2.3	11	100	0	50	52	0	8	40	1.31
6941627--6941727	27	3.7	27	89	5	143	12	32	34	19	1.90
6944274--6944395	29	4.2	29	91	0	190	25	29	33	11	1.91
6944386--6944449	31	2.1	31	96	0	119	23	10	45	20	1.82
6944428--6944466	20	2.0	20	94	0	69	15	7	48	28	1.72
6944446--6944550	52	2.0	52	96	0	192	18	18	40	22	1.91
6944676--6944781	44	2.4	44	93	0	176	23	25	22	28	1.99
6951325--6951364	21	1.9	21	89	0	62	25	40	25	10	1.86
6951725--6951771	26	1.9	25	87	12	71	63	4	2	29	1.25
6951767--6951815	18	2.8	17	82	14	55	24	2	14	59	1.46
6954788--6954849	28	2.1	30	91	5	101	32	0	11	56	1.35
6954809--6954922	50	2.4	47	80	13	146	42	0	7	48	1.38
6955360--6955404	24	1.9	24	81	4	56	42	0	8	48	1.34
6956752--6956785	15	2.2	16	94	5	61	55	5	0	38	1.24
6956860--6956928	35	1.9	36	82	2	86	43	8	0	47	1.34
6956943--6957032	45	2.0	47	84	8	123	50	11	1	37	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6960449--6960524	40	1.9	40	89	2	118	22	10	18	48	1.78
6968714--6968769	27	2.1	26	96	3	103	35	3	8	51	1.51
6971594--6971651	21	2.8	21	94	0	107	20	41	17	20	1.90
6971712--6971784	20	3.7	20	86	0	92	19	24	23	32	1.97
6972140--6972209	34	2.1	32	84	5	86	34	15	27	22	1.95
6974224--6974263	21	1.9	21	89	0	62	30	10	10	50	1.69
6974486--6974563	21	3.8	20	80	14	95	23	37	17	21	1.94
6974583--6974635	20	2.7	20	90	0	79	18	24	24	32	1.97
6974992--6975061	34	2.1	32	81	5	77	32	14	27	25	1.94
6975645--6975720	15	5.3	15	72	15	70	53	2	1	42	1.23
6975644--6975735	42	2.2	42	98	1	177	51	4	2	42	1.34
6981289--6981323	17	2.1	17	88	0	52	57	20	0	22	1.41
6986514--6986551	7	5.4	7	96	0	58	28	7	63	0	1.23
6986739--6986790	20	2.7	18	80	14	59	51	7	1	38	1.42
6992153--6992233	20	4.0	20	75	1	63	14	17	24	43	1.87
6992182--6992233	20	2.6	20	84	0	77	9	19	23	48	1.78
6992157--6992300	61	2.4	60	81	10	152	19	18	20	42	1.90
6992388--6992412	6	4.2	6	100	0	50	36	48	16	0	1.46
6992894--6992926	12	2.8	12	90	4	50	0	15	57	27	1.38
6993013--6993102	41	2.2	41	93	0	153	36	23	21	18	1.95
6993031--6993102	22	3.4	22	69	18	71	34	25	22	18	1.96
6993123--6993237	20	5.7	20	73	4	104	40	23	20	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6993094--6993230	41	3.3	41	93	2	229	35	24	20	18	1.95
6993706--6993749	22	2.0	23	90	4	72	38	2	2	56	1.24
6993707--6993756	22	2.2	22	85	3	64	42	2	2	54	1.23
6993814--6993843	15	1.9	16	93	6	53	53	3	0	43	1.17
6993812--6993850	15	2.6	14	84	11	51	48	2	0	48	1.15
6993855--6993972	28	4.2	27	72	20	73	50	0	0	48	1.12
6993916--6993961	22	2.1	22	88	8	67	54	0	0	45	0.99
6993889--6993967	30	2.5	33	85	10	110	51	0	1	46	1.08
6993941--6993977	11	3.2	12	81	11	51	51	0	0	48	1.00
6993929--6993995	23	3.0	22	82	10	66	50	0	0	49	1.00
6994841--6994880	2	20.0	2	100	0	80	50	0	0	50	1.00
6997420--6997505	2	43.0	2	97	0	163	50	1	0	48	1.08
6997687--6997756	35	2.0	35	86	10	99	25	24	18	31	1.98
7000635--7000677	21	2.0	21	82	8	52	20	9	23	46	1.79
7002002--7002113	59	1.9	59	83	3	145	39	16	12	31	1.86
7002370--7002396	14	1.9	14	100	0	54	74	0	0	25	0.83
7004678--7004802	61	2.0	61	98	0	241	39	8	9	42	1.69
7009573--7009644	36	2.0	36	100	0	144	25	22	25	27	2.00
7017386--7017535	35	4.3	35	78	5	176	29	20	18	32	1.96
7017424--7017562	71	2.0	71	89	0	215	30	20	17	31	1.96
7017786--7017819	13	2.6	13	90	0	59	50	5	2	41	1.42
7018495--7018535	16	2.6	16	88	3	57	39	9	19	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7018587--7018653	27	2.5	27	90	0	107	29	16	16	37	1.91
7020515--7020634	21	5.6	21	77	11	136	19	18	27	35	1.95
7020515--7020655	21	6.6	23	75	13	115	19	18	25	36	1.95
7020515--7020659	44	3.4	44	87	7	219	20	18	25	35	1.95
7020522--7020659	42	3.2	42	89	4	206	21	18	25	35	1.95
7021374--7021552	21	8.6	21	69	11	118	34	22	19	23	1.96
7021359--7021527	42	4.1	42	93	1	288	35	21	19	23	1.96
7021561--7021634	21	3.5	21	94	0	121	20	21	28	29	1.98
7022802--7022915	57	2.0	56	89	1	174	29	14	21	34	1.93
7023038--7023079	20	2.1	20	95	0	75	30	14	23	30	1.94
7022981--7023136	77	2.0	77	91	0	249	32	14	18	34	1.91
7022795--7023193	134	3.0	133	82	5	472	29	14	19	37	1.91
7023052--7023227	57	3.1	56	86	3	262	28	14	19	37	1.91
7027194--7027220	2	13.5	2	100	0	54	48	0	0	51	1.00
7029854--7029895	22	1.9	22	85	0	57	7	7	28	57	1.52
7047311--7047339	3	9.7	3	100	0	58	34	0	0	65	0.93
7050951--7051019	30	2.2	30	85	15	95	34	5	17	42	1.73
7050960--7051019	30	2.0	30	93	6	104	33	6	16	43	1.74
7051206--7051285	41	2.0	41	84	0	106	22	31	21	25	1.98
7051390--7051429	20	1.9	21	85	10	55	37	37	12	12	1.81
7056803--7056852	17	3.1	17	68	26	54	18	6	24	52	1.67
7057902--7057967	24	2.8	23	78	15	64	50	3	3	43	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7059047--7059121	35	2.1	35	92	0	123	33	29	28	9	1.88
7059189--7059279	24	3.9	24	83	1	78	38	18	13	29	1.89
7059229--7059288	23	2.6	23	91	0	93	41	20	13	25	1.88
7071825--7071900	40	1.9	40	84	10	102	52	3	1	42	1.28
7071824--7071914	40	2.3	40	79	11	98	52	3	2	41	1.30
7073396--7073420	2	12.5	2	100	0	50	48	0	0	52	1.00
7076684--7077026	181	1.9	181	92	1	580	41	6	10	40	1.66
7077532--7077604	20	3.3	20	67	26	58	17	9	47	24	1.77
7077532--7077624	46	2.0	46	97	0	177	17	10	47	24	1.79
7078168--7078211	21	2.1	21	91	0	70	29	0	15	54	1.42

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