genome.fa.s9605.2.7.7.80.10.50.1000.21.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  21  of  35  ( 4090 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)
4861763--4861800	16	2.4	16	90	0	58	57	2	28	10	1.45
4861913--4861942	2	15.0	2	100	0	60	50	0	0	50	1.00
4862471--4862547	21	3.7	21	73	3	75	23	14	27	35	1.93
4862452--4862540	41	2.2	41	91	0	151	19	17	26	35	1.94
4862536--4862691	22	7.6	21	69	9	90	21	17	22	38	1.93
4862556--4862625	19	3.5	19	74	11	77	18	20	21	40	1.92
4862575--4862669	22	4.5	22	72	7	97	20	16	24	38	1.92
4862536--4862643	41	2.7	41	94	1	182	20	17	23	38	1.93
4862536--4862640	19	5.2	20	71	11	72	20	18	22	38	1.94
4862769--4862810	6	7.5	6	97	2	63	28	54	16	0	1.42
4862773--4862813	5	7.6	5	97	2	55	26	53	19	0	1.45
4863329--4863362	6	5.7	6	100	0	68	0	17	50	32	1.47
4863475--4863565	22	4.3	22	68	8	80	37	23	16	23	1.94
4863497--4863588	41	2.2	41	84	5	114	36	22	18	21	1.95
4863557--4863694	41	3.4	41	68	13	131	33	24	22	19	1.97
4863557--4863620	21	3.1	21	72	4	58	34	28	18	18	1.95
4863578--4863705	33	3.4	34	68	28	98	34	24	22	18	1.96
4863601--4863734	40	3.3	40	66	13	112	34	21	25	18	1.96
4863560--4863734	81	2.2	81	96	2	325	33	22	24	19	1.97
4863661--4863701	21	2.0	21	85	0	55	34	29	17	19	1.94
4864299--4864396	49	2.0	49	97	0	187	43	1	8	46	1.40
4864615--4864649	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4865759--4865812	3	18.0	3	96	0	99	66	1	0	31	1.02
4866091--4866125	15	2.3	15	90	0	52	2	54	0	42	1.15
4867191--4867231	21	2.0	21	90	0	64	46	0	51	2	1.14
4871062--4871100	16	2.3	18	86	8	55	35	5	17	41	1.72
4878883--4879000	61	1.9	61	87	0	173	25	15	27	32	1.95
4880106--4880153	23	2.1	23	88	0	69	39	22	20	16	1.92
4886799--4886841	20	2.2	20	95	0	77	51	9	2	37	1.47
4887814--4888133	159	2.0	161	98	1	626	28	11	21	39	1.88
4897392--4897421	2	15.0	2	100	0	60	50	0	0	50	1.00
4898522--4898552	15	2.1	15	93	0	53	29	29	0	41	1.56
4899405--4899459	20	2.8	19	80	5	56	36	12	12	38	1.82
4903621--4903673	23	2.4	22	87	3	70	28	0	0	71	0.86
4903617--4903696	34	2.3	34	83	12	92	27	1	1	70	1.03
4903617--4903695	17	4.5	17	71	10	61	26	1	1	70	1.02
4906565--4906669	40	2.9	35	82	12	97	45	9	1	42	1.47
4906634--4906695	11	5.2	11	73	22	54	45	8	0	46	1.32
4906537--4906890	36	9.5	37	77	14	268	44	9	3	43	1.51
4906582--4906824	37	6.6	36	81	10	188	43	7	3	45	1.48
4906660--4906778	34	3.4	34	85	7	134	42	5	4	47	1.47
4906796--4906901	38	2.8	38	80	8	108	45	11	2	40	1.55
4907531--4907850	158	2.0	157	99	0	631	27	21	18	32	1.97
4908831--4908868	20	1.9	20	88	0	58	21	26	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4909720--4909910	99	1.9	99	86	2	267	32	17	16	33	1.92
4911304--4911342	17	2.3	17	100	0	78	28	15	7	48	1.72
4915926--4915983	18	3.0	20	69	16	52	77	3	1	17	0.99
4915973--4916296	39	8.5	39	80	11	307	44	7	3	43	1.50
4915987--4916308	38	8.5	38	80	13	280	43	8	3	44	1.52
4918996--4919046	26	2.0	24	85	11	66	50	5	0	43	1.26
4920317--4920365	3	16.7	3	83	12	66	63	0	0	36	0.95
4920685--4920760	35	2.1	36	85	2	100	28	18	19	32	1.96
4920563--4920865	159	1.9	155	95	4	554	25	20	16	38	1.92
4920563--4920971	159	2.6	156	86	7	508	24	21	14	39	1.91
4920913--4920979	20	3.3	20	66	22	59	16	23	7	52	1.69
4920875--4921007	40	3.5	39	90	9	195	18	23	10	47	1.80
4920948--4921003	17	3.2	16	69	26	51	21	19	12	46	1.83
4920951--4921293	112	3.1	110	91	5	555	29	18	16	36	1.92
4920951--4921293	113	3.1	110	89	5	489	29	18	16	36	1.92
4921194--4921453	93	2.8	93	96	0	475	29	16	17	36	1.92
4922142--4922364	114	2.0	114	88	0	338	31	18	13	36	1.90
4922658--4922706	16	2.7	19	81	18	77	46	8	6	38	1.58
4923854--4924220	181	2.0	185	97	2	697	29	19	20	29	1.97
4935682--4935718	3	12.7	3	94	5	67	67	0	0	32	0.91
4946398--4946437	2	20.0	2	84	0	53	50	2	2	45	1.28
4947843--4948682	105	8.0	105	93	0	1403	23	18	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4949418--4949479	6	9.3	7	80	8	60	0	16	1	82	0.75
4949411--4949477	26	2.5	26	74	11	64	0	17	1	80	0.79
4949429--4949466	9	4.3	9	86	3	51	0	15	0	84	0.63
4949418--4949482	22	2.9	22	80	11	69	0	15	1	83	0.73
4949418--4949482	8	8.2	8	80	14	64	0	15	1	83	0.73
4949411--4949481	31	2.2	34	85	7	94	0	16	1	81	0.76
4956672--4956700	10	2.9	10	100	0	58	79	0	0	20	0.74
4957981--4958012	2	16.5	2	93	6	57	53	0	0	46	1.00
4963231--4963712	71	6.7	73	76	9	282	33	20	8	37	1.84
4963446--4963742	71	4.2	69	79	9	203	30	21	9	39	1.84
4963534--4963639	32	3.1	35	72	13	103	31	19	9	39	1.84
4963326--4963712	37	10.8	35	66	13	182	33	19	8	37	1.83
4967541--4967711	93	1.8	92	86	3	245	38	11	9	40	1.74
4969040--4969081	21	2.0	21	85	0	57	54	2	4	38	1.34
4973321--4973561	41	6.0	41	74	13	160	27	17	19	34	1.95
4976455--4976680	42	5.3	42	78	4	213	24	21	19	34	1.96
4976455--4976683	126	1.8	127	84	3	318	24	20	19	35	1.95
4978593--4978634	20	2.0	21	86	4	59	33	2	4	59	1.31
4979392--4979449	23	2.6	21	79	12	62	63	8	0	27	1.23
4979395--4979445	23	2.2	24	85	3	68	64	9	0	25	1.24
4979395--4979451	22	2.5	23	80	11	64	64	8	0	26	1.22
4981238--4981275	20	2.0	20	89	5	60	44	7	7	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4985418--4985449	14	2.3	14	100	0	64	9	21	6	62	1.47
4991481--4991520	20	2.0	20	90	0	62	35	17	22	25	1.95
4991484--4991538	20	2.6	20	80	8	56	34	18	23	23	1.96
4991527--4991595	19	3.7	19	84	5	88	31	17	30	20	1.95
4991529--4991585	18	3.1	18	87	2	78	31	17	31	19	1.95
5009574--5009615	22	1.9	22	85	0	57	38	21	9	30	1.85
5009573--5009621	22	2.2	22	77	0	53	42	20	8	28	1.80
5011648--5011689	22	1.9	22	85	0	57	38	21	9	30	1.85
5011647--5011695	22	2.2	22	77	0	53	42	20	8	28	1.80
5011976--5012000	6	4.2	6	100	0	50	36	48	16	0	1.46
5014850--5014883	14	2.4	14	90	0	50	50	29	0	20	1.49
5019711--5019833	51	2.4	52	90	2	185	27	26	12	33	1.92
5027502--5027527	12	2.2	12	100	0	52	15	34	15	34	1.89
5031668--5031716	3	16.0	3	95	4	89	65	0	0	34	0.93
5031668--5031716	25	2.0	25	96	4	91	65	0	0	34	0.93
5031957--5032187	112	2.1	111	81	7	261	30	17	14	37	1.89
5032715--5032749	16	2.1	18	89	10	56	65	0	8	25	1.21
5032683--5032777	19	5.2	17	67	22	50	69	1	8	21	1.21
5032760--5032797	20	1.9	20	88	0	58	63	2	7	26	1.35
5032683--5032821	75	1.9	72	80	14	158	68	1	7	22	1.24
5032866--5032959	33	2.9	32	79	7	91	59	6	4	29	1.41
5033339--5033408	34	2.1	34	94	0	122	31	14	11	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5033940--5034771	105	8.0	105	92	1	1314	22	17	26	33	1.96
5035414--5035571	68	2.4	65	86	4	217	36	9	22	32	1.86
5035401--5035597	65	2.9	67	81	5	220	38	9	21	30	1.85
5035547--5035806	36	7.4	36	71	14	141	40	13	18	27	1.88
5035498--5035754	137	1.9	137	85	1	354	40	12	19	27	1.87
5036234--5036269	18	2.0	18	88	0	54	41	30	8	19	1.81
5036685--5036733	22	2.2	22	92	0	80	28	14	24	32	1.94
5036697--5036740	22	2.0	22	86	0	61	31	13	22	31	1.93
5037392--5037459	8	8.8	8	71	9	52	0	11	7	80	0.89
5037369--5037425	23	2.4	23	80	16	64	1	14	7	77	1.06

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