genome.fa.s8245.2.7.7.80.10.50.1000.28.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  28  of  33  ( 3922 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)
5624746--5625233	199	2.4	198	86	1	688	31	16	11	40	1.84
5624882--5625704	340	2.4	342	88	3	1185	32	15	12	39	1.86
5625421--5625704	145	2.0	145	87	2	410	33	15	13	37	1.87
5626192--5626298	54	2.0	54	81	3	126	42	14	17	25	1.87
5627754--5627901	66	2.3	65	84	3	199	25	43	2	29	1.66
5628048--5628087	9	4.4	9	87	0	53	2	55	2	40	1.27
5628321--5628370	24	2.0	24	84	3	64	46	6	0	48	1.27
5630341--5630755	183	2.3	183	91	2	665	27	15	14	42	1.85
5631644--5631713	19	3.5	19	79	12	77	31	14	25	28	1.95
5632031--5632198	57	3.0	56	90	2	275	32	9	19	38	1.84
5632402--5632676	68	4.0	68	90	0	397	30	14	26	28	1.95
5632710--5632836	46	2.8	45	81	2	155	46	8	22	22	1.79
5632809--5633031	45	5.0	44	88	3	329	34	12	23	28	1.92
5632809--5633060	135	1.9	135	84	6	341	36	12	23	28	1.91
5636880--5636913	17	2.0	17	88	0	50	38	8	0	52	1.33
5640141--5640179	20	2.0	20	89	0	60	33	17	10	38	1.84
5640500--5640524	2	12.5	2	100	0	50	52	0	0	48	1.00
5658381--5658413	17	1.9	17	100	0	66	60	9	0	30	1.27
5659065--5659113	22	2.2	22	96	0	89	20	44	16	18	1.86
5661161--5661258	21	4.6	23	69	12	59	21	12	34	31	1.90
5661550--5661632	21	4.0	20	85	6	94	21	32	18	27	1.96
5661551--5661641	42	2.2	42	83	0	110	20	35	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5661580--5661647	21	3.2	21	82	0	73	20	32	23	23	1.98
5662998--5663145	64	2.3	64	90	1	226	29	2	16	52	1.56
5663212--5663287	29	2.6	29	89	0	125	28	15	27	27	1.96
5663311--5663367	29	2.0	29	100	0	114	31	28	15	24	1.96
5663538--5663573	18	2.0	18	94	0	63	16	2	22	58	1.51
5665772--5665818	24	2.0	24	95	0	85	34	17	21	27	1.95
5665776--5665827	24	2.2	24	85	0	68	36	19	19	25	1.95
5666554--5666592	16	2.5	15	88	8	60	69	0	2	28	1.02
5666748--5666855	20	5.3	20	71	13	78	33	14	21	30	1.93
5666749--5666855	40	2.6	39	79	7	133	33	14	21	29	1.94
5666868--5666909	20	2.1	20	90	0	66	28	23	19	28	1.98
5668801--5668850	20	2.5	20	100	0	100	38	0	0	62	0.96
5671099--5671738	182	3.6	182	86	4	842	42	14	15	26	1.86
5674448--5674490	13	3.3	13	81	18	54	20	39	18	20	1.93
5674511--5674759	135	1.8	135	81	3	313	30	18	15	34	1.92
5681845--5682506	201	3.3	202	92	2	1073	38	14	15	31	1.88
5683161--5683208	2	24.0	2	100	0	96	50	0	0	50	1.00
5684029--5684090	3	20.7	3	89	0	97	38	0	32	29	1.57
5685782--5686467	200	3.4	199	85	2	885	39	14	15	31	1.86
5687956--5688024	20	3.2	21	69	15	52	43	4	4	47	1.42
5687986--5688158	90	1.9	89	94	1	301	43	5	10	40	1.61
5689422--5689478	2	28.5	2	100	0	114	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5689887--5689925	12	3.4	11	82	10	51	0	7	7	84	0.77
5690348--5690394	20	2.3	20	85	7	60	19	8	31	40	1.81
5690459--5690487	3	10.0	3	92	7	51	65	0	0	34	0.93
5690459--5690485	14	1.9	14	100	0	54	66	0	0	33	0.92
5690453--5690491	17	2.5	15	84	15	60	66	0	0	33	0.92
5691382--5691427	22	2.0	24	84	16	62	30	15	2	52	1.55
5691641--5691686	15	3.1	15	75	15	51	41	23	2	32	1.67
5695809--5695934	18	7.0	18	74	19	68	73	5	20	0	1.02
5695782--5695851	17	4.3	16	72	21	56	71	4	21	2	1.16
5695780--5695889	18	6.4	18	75	10	79	70	7	20	1	1.20
5695792--5695920	70	1.9	68	83	6	170	72	5	20	1	1.12
5695889--5695932	6	7.0	6	85	10	61	81	0	18	0	0.68
5695881--5695926	12	3.9	11	86	8	56	82	0	17	0	0.67
5699014--5699066	29	1.9	27	82	17	65	41	13	11	33	1.80
5699129--5699255	36	3.5	36	77	6	114	37	16	10	35	1.83
5699171--5699468	160	1.9	160	81	2	366	32	18	12	36	1.88
5699310--5699671	168	2.1	167	83	8	432	29	16	13	39	1.87
5699583--5699919	84	4.0	84	83	3	414	29	17	12	41	1.85
5700093--5700595	139	3.6	140	84	3	645	29	28	17	24	1.97
5701945--5701969	5	5.0	5	100	0	50	20	0	0	80	0.72
5702052--5702094	16	2.7	16	88	0	68	30	32	6	30	1.84
5706722--5706774	20	2.7	19	82	8	63	35	0	3	60	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5709102--5709172	26	2.7	26	97	0	133	38	25	18	18	1.93
5709744--5709788	18	2.5	18	96	0	81	48	24	2	24	1.62
5716005--5716067	10	5.8	11	80	12	69	74	0	17	7	1.05
5715998--5716093	34	2.8	34	85	10	124	73	0	17	8	1.06
5715976--5716089	33	3.5	33	85	12	130	72	0	17	9	1.10
5716020--5716088	15	4.3	15	72	24	52	73	0	17	8	1.07
5717980--5718320	38	8.8	37	82	6	340	24	17	18	40	1.90
5717995--5718315	76	4.2	76	84	1	390	24	16	18	40	1.91
5717995--5718277	114	2.5	114	90	0	449	23	17	18	40	1.91
5718289--5718621	45	7.4	45	82	2	391	21	17	19	41	1.91
5718244--5718621	90	4.2	88	83	5	420	21	17	19	41	1.91
5719283--5720096	133	6.1	133	86	2	1064	29	18	18	33	1.95
5719276--5720056	267	2.9	265	87	2	1118	29	18	18	33	1.95
5724353--5724438	29	3.0	29	84	3	102	19	38	29	12	1.89
5724593--5724665	29	2.5	29	81	0	74	17	27	35	19	1.94
5729893--5729956	12	5.2	12	72	20	51	34	0	3	62	1.11
5729916--5729961	13	3.5	13	80	16	58	34	0	0	65	0.93
5732226--5732250	13	1.9	13	100	0	50	20	0	8	72	1.10
5735587--5735611	9	2.8	9	100	0	50	60	0	0	40	0.97
5736078--5736172	41	2.3	41	82	7	113	25	34	21	18	1.96
5740659--5740727	26	2.7	26	77	8	70	76	7	1	14	1.06
5742516--5742560	23	2.0	23	90	0	72	33	8	15	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5743067--5743149	37	2.3	37	85	2	105	21	42	7	28	1.80
5743256--5743289	3	11.3	3	87	12	52	32	0	2	64	1.08
5748946--5749103	64	2.5	64	79	6	167	31	19	24	24	1.98
5750574--5750640	23	2.9	23	84	0	89	19	25	23	31	1.98
5754816--5754853	18	2.1	18	90	5	58	81	7	0	10	0.87
5757485--5757515	15	2.1	15	93	0	53	41	0	0	58	0.98
5760477--5760546	20	3.5	20	100	0	140	30	11	28	30	1.92
5760477--5760559	40	2.1	40	90	4	132	32	10	27	28	1.91
5761031--5761115	15	5.7	15	90	0	125	30	4	21	43	1.73
5761237--5761286	23	2.2	23	88	0	73	30	18	18	34	1.94
5761293--5761346	24	2.2	24	83	0	63	20	22	25	31	1.98
5763360--5763410	19	2.6	20	90	3	77	43	23	17	15	1.88
5763360--5763657	20	14.6	20	78	5	159	39	19	22	18	1.93
5763464--5763655	40	4.7	40	82	5	231	35	18	25	20	1.95
5763464--5763647	83	2.2	83	91	0	287	35	17	26	20	1.95
5763644--5763687	20	2.2	20	91	0	70	54	15	18	11	1.70
5763765--5763808	6	7.5	6	97	2	81	31	52	15	0	1.44
5764499--5764590	6	15.7	6	98	1	170	0	17	51	31	1.46
5764667--5764710	20	2.2	20	91	0	70	11	18	15	54	1.70
5764697--5765098	20	19.6	20	75	9	184	19	21	20	38	1.94
5764699--5764890	40	4.7	40	81	5	231	20	26	17	35	1.95
5764707--5764890	83	2.2	83	92	0	296	20	26	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5765021--5765103	21	4.0	21	73	6	78	25	16	24	33	1.96
5770779--5770822	21	2.1	21	86	0	61	29	0	13	56	1.38
5770792--5770857	28	2.4	28	80	10	89	33	0	10	56	1.34
5771354--5771395	22	1.9	22	90	9	68	33	0	14	52	1.42
5771603--5771658	26	2.2	25	81	12	60	46	10	0	42	1.38
5774648--5774686	15	2.6	15	95	0	69	30	0	7	61	1.24
5774843--5774884	23	1.9	23	90	9	70	35	7	9	47	1.64
5775029--5775076	14	3.7	13	78	16	55	35	0	20	43	1.52
5775029--5775077	25	2.0	25	91	0	80	36	0	20	42	1.52
5775282--5775347	11	5.5	11	75	19	60	37	0	12	50	1.40

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