genome.fa.s8323.2.7.7.80.10.50.1000.25.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  25  of  26  ( 3017 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)
5007245--5007478	6	38.7	6	74	16	84	48	3	4	43	1.40
5005980--5007478	18	83.4	18	83	4	598	35	0	14	48	1.50
5007329--5008022	142	5.1	139	71	19	444	51	3	7	37	1.47
5007422--5007601	30	6.4	28	69	16	90	50	1	9	38	1.45
5007499--5008059	30	18.0	30	67	25	175	52	2	8	36	1.46
5007499--5008059	8	75.1	8	69	23	163	52	2	8	36	1.46
5007609--5007692	36	2.3	35	80	13	91	52	3	8	35	1.49
5007448--5007818	20	18.0	21	65	24	63	51	2	8	37	1.46
5007669--5007711	15	3.0	15	76	13	54	44	4	9	41	1.57
5007643--5007809	46	3.5	46	78	12	171	52	4	7	36	1.49
5007797--5007846	27	1.9	25	84	8	64	58	2	8	32	1.39
5007723--5007933	21	9.8	21	70	16	98	55	3	7	32	1.46
5007598--5007915	22	14.5	21	68	21	81	53	3	7	34	1.47
5007882--5008050	34	5.0	33	75	18	122	50	1	8	38	1.44
5007405--5008059	266	2.5	272	78	14	665	52	2	8	36	1.46
5007980--5008223	46	5.2	46	68	21	129	48	2	6	43	1.39
5007975--5008201	15	15.9	14	67	25	68	49	2	6	41	1.41
5008192--5008460	22	11.7	23	78	15	231	38	7	0	53	1.34
5007971--5008440	2	239.0	2	62	24	114	44	4	3	47	1.40
5009406--5009462	28	2.0	30	89	6	91	31	22	19	26	1.98
5009450--5009522	31	2.4	31	90	0	110	28	13	15	42	1.85
5009477--5009618	32	4.5	32	81	7	123	33	16	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5009514--5009636	32	3.8	31	85	8	140	35	17	15	30	1.91
5009512--5009636	64	2.0	64	87	6	182	35	17	16	31	1.92
5010359--5010509	65	2.3	65	86	5	200	26	19	23	30	1.98
5011587--5011630	21	2.1	21	83	8	54	36	13	38	11	1.81
5014758--5015055	149	2.0	149	94	0	524	30	20	12	36	1.89
5019183--5019343	66	2.5	65	82	9	186	27	18	22	31	1.97
5019795--5019820	2	13.0	2	100	0	52	50	0	0	50	1.00
5021047--5021089	17	2.5	17	96	0	77	62	0	32	4	1.15
5021337--5021554	21	10.3	22	73	12	140	37	6	0	55	1.32
5021362--5021583	28	7.7	27	72	18	123	39	5	0	54	1.30
5021440--5021628	49	3.7	51	76	17	153	43	4	1	50	1.31
5021617--5021670	21	2.5	22	77	14	60	48	3	1	46	1.30
5021722--5021859	21	6.8	20	70	23	85	46	3	1	48	1.28
5021786--5021958	66	2.6	67	75	20	166	38	6	2	53	1.39
5021447--5022079	2	322.5	2	63	23	129	40	5	2	51	1.40
5021721--5022063	53	6.5	54	68	20	160	39	5	2	52	1.39
5021913--5022102	92	2.1	87	78	14	190	38	6	2	52	1.40
5022266--5022313	2	24.0	2	100	0	96	50	0	0	50	1.00
5022880--5023036	58	2.6	61	78	11	173	52	3	7	36	1.47
5022948--5023065	23	5.4	22	68	18	75	50	4	6	38	1.48
5022908--5023096	88	2.2	87	82	6	215	49	5	5	39	1.51
5022970--5023061	37	2.5	38	84	8	120	50	5	6	38	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5022986--5023048	11	5.6	12	73	19	55	50	3	6	39	1.44
5022970--5023762	35	22.4	34	68	22	149	51	2	6	39	1.43
5023001--5023065	20	3.4	19	72	20	64	52	4	6	36	1.47
5023129--5024211	2	549.0	2	62	25	142	47	3	5	43	1.43
5023027--5023505	150	3.3	143	74	19	389	50	2	6	40	1.43
5023120--5023768	21	31.9	21	68	23	169	52	1	7	38	1.40
5023377--5023419	15	3.0	15	76	13	54	44	4	9	41	1.57
5023414--5023480	11	5.7	12	73	23	54	53	2	2	40	1.31
5023422--5023479	19	3.2	19	72	27	54	53	1	3	41	1.28
5023898--5024623	22	33.0	21	71	20	300	36	7	1	54	1.40
5023681--5023940	134	1.9	134	93	5	445	46	2	5	45	1.41
5024168--5024619	50	9.0	49	65	24	153	34	7	2	55	1.42
5023994--5024418	7	63.7	6	70	19	103	35	7	2	55	1.40
5024242--5024386	43	3.4	44	78	10	147	33	8	2	55	1.44
5024242--5024501	85	3.2	85	76	13	237	33	8	2	55	1.45
5024467--5024556	13	6.9	13	70	18	55	35	6	0	57	1.25
5024523--5024888	2	188.0	2	63	24	99	43	4	4	48	1.41
5023698--5024688	26	37.6	26	68	21	192	39	6	2	51	1.42
5024329--5024623	137	2.1	137	81	9	330	34	7	2	54	1.43
5024523--5024888	15	23.8	15	63	23	70	43	4	4	48	1.41
5024642--5024694	17	2.9	17	83	8	52	50	3	1	43	1.30
5024682--5024726	21	2.2	21	80	7	58	48	2	4	44	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5024783--5024855	11	6.7	11	75	13	71	49	1	1	47	1.18
5027278--5027943	2	334.5	2	66	21	264	43	4	3	48	1.39
5027344--5027534	103	2.0	95	73	20	79	38	5	2	53	1.37
5028890--5028932	2	21.5	2	100	0	86	48	0	0	51	1.00
5028982--5029067	16	5.4	16	69	12	61	25	1	1	72	0.99
5029007--5029083	26	3.1	24	75	18	70	18	6	1	74	1.11
5029001--5029105	48	2.2	48	81	11	126	20	5	0	73	1.09
5032097--5032165	13	5.2	12	74	19	57	75	2	17	4	1.09
5032091--5032179	40	2.2	41	82	7	119	75	2	17	4	1.08
5033241--5033344	32	3.3	31	82	5	111	29	13	16	40	1.87
5033239--5033326	32	2.8	32	82	5	117	30	11	17	40	1.84
5033710--5034043	106	3.2	105	87	1	443	35	23	18	22	1.96
5034285--5034463	86	2.1	88	92	2	299	32	18	12	36	1.89
5034395--5034582	37	5.3	36	70	16	115	27	18	13	40	1.87
5034512--5034584	37	2.0	37	94	0	128	26	19	13	41	1.88
5034371--5034611	103	2.3	103	89	0	376	31	18	12	37	1.88
5034649--5034750	36	2.8	37	86	3	161	30	20	12	36	1.90
5034766--5034880	36	3.2	36	85	2	149	25	18	15	40	1.90
5034868--5034957	39	2.4	37	82	10	112	41	23	7	27	1.82
5036087--5036138	2	26.5	2	88	3	70	44	0	1	53	1.11
5036217--5036241	2	12.5	2	100	0	50	48	0	0	52	1.00
5036241--5036320	25	3.2	25	74	20	71	16	5	1	77	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5036158--5036433	4	69.8	4	71	17	80	23	5	0	70	1.12
5036099--5036296	17	11.8	16	66	17	55	30	1	1	66	1.10
5036235--5036349	23	5.0	23	71	18	78	20	5	0	73	1.07
5036113--5036227	45	2.4	50	71	18	59	33	1	0	64	1.10
5036191--5036433	14	15.9	15	68	19	87	21	5	0	72	1.10
5036371--5036430	26	2.4	25	83	10	77	25	3	0	71	1.01
5039067--5039103	3	12.7	3	94	5	67	32	0	0	67	0.91
5046612--5046656	20	2.2	20	84	0	54	51	2	2	44	1.26
5046987--5047017	3	10.7	3	93	6	55	32	0	0	67	0.91
5048090--5048139	16	2.8	18	82	17	52	30	8	4	58	1.45
5049874--5049935	30	2.1	30	93	0	106	12	14	11	61	1.57
5052568--5052604	2	18.5	2	94	0	65	54	0	0	45	1.00
5053608--5053634	14	1.9	14	100	0	54	51	29	0	18	1.46
5053985--5054077	37	2.5	37	82	5	89	29	16	11	43	1.83
5053999--5054077	37	2.1	38	86	4	108	29	16	10	44	1.80
5054243--5054342	21	4.8	21	95	1	175	20	23	18	39	1.93
5054320--5054465	66	2.2	68	81	3	163	22	22	13	41	1.88
5054491--5054598	42	2.7	39	79	12	112	25	36	18	19	1.95
5054756--5054852	40	2.3	40	82	8	115	25	32	13	27	1.93
5055015--5055074	3	19.3	3	83	13	77	31	0	1	66	1.01
5058025--5058056	15	2.1	15	94	0	55	40	3	25	31	1.71
5058891--5058926	16	2.2	17	90	5	56	50	2	0	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5059516--5059545	15	2.0	15	100	0	60	26	13	26	33	1.93
5059517--5059554	15	2.5	15	91	0	58	26	13	23	36	1.91
5061506--5061573	25	2.6	25	79	6	73	54	0	11	33	1.37
5062121--5062159	20	2.0	20	85	10	53	66	2	2	28	1.18
5065261--5065304	23	1.9	23	90	0	70	18	6	15	59	1.58
5067784--5067837	22	2.5	22	90	0	90	3	24	9	62	1.41
5075323--5075381	21	2.6	22	75	17	59	25	0	3	71	1.02
5075324--5075379	22	2.5	23	82	8	71	23	0	3	73	0.99
5075343--5075399	15	3.6	16	76	7	62	28	0	5	66	1.13
5075343--5075414	32	2.3	31	80	2	81	34	0	4	61	1.16

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