genome.fa.s7984.2.7.7.80.10.50.1000.28.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   63   64   
          65   

This is table  28  of  65  ( 7696 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)
5551368--5551413	24	2.0	24	87	12	69	82	0	15	2	0.76
5551348--5551399	14	3.9	13	80	19	63	82	0	15	1	0.75
5551347--5551414	16	4.1	15	80	12	64	80	0	16	2	0.82
5552953--5553404	113	4.0	113	88	2	649	38	15	19	27	1.91
5553312--5553548	120	1.9	124	84	6	315	41	14	18	25	1.88
5553751--5553806	3	18.7	3	80	14	62	37	0	0	62	0.95
5553748--5553801	28	2.0	27	86	10	76	38	0	0	61	0.96
5555868--5555921	23	2.3	23	83	0	63	33	27	16	22	1.95
5557949--5558080	61	2.2	61	85	8	180	36	10	5	47	1.61
5558132--5558410	51	5.3	51	80	10	317	42	5	6	45	1.52
5558146--5558261	33	3.8	33	72	17	122	42	6	6	44	1.55
5558132--5558383	18	14.1	18	71	14	173	42	5	6	46	1.52
5558180--5558228	25	2.0	25	87	0	71	40	8	8	42	1.64
5558132--5558410	109	2.6	105	84	3	344	42	5	6	45	1.52
5558295--5558381	9	9.7	9	69	18	56	39	4	6	49	1.50
5558468--5558510	18	2.4	18	80	0	50	41	6	9	41	1.64
5558476--5558642	67	2.5	67	95	1	300	40	7	7	44	1.61
5558590--5558649	18	3.6	17	78	8	54	41	3	6	48	1.46
5558605--5558689	33	2.7	33	87	5	113	48	3	7	41	1.47
5558640--5558713	20	3.5	20	77	16	85	52	1	6	39	1.36
5558640--5558700	23	2.7	23	79	16	74	54	1	6	37	1.37
5558653--5558702	13	3.8	13	77	17	59	54	2	6	38	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5558669--5558737	29	2.4	29	80	11	79	53	0	7	39	1.29
5558769--5558881	11	10.6	11	67	17	62	46	3	1	48	1.29
5558973--5559009	2	20.0	2	84	15	53	48	0	0	51	1.00
5558973--5559007	9	3.9	9	96	0	61	48	0	0	51	1.00
5558973--5559011	11	3.7	11	83	13	55	48	0	0	51	1.00
5559049--5559835	208	3.7	213	91	2	1166	29	12	8	49	1.69
5560423--5560480	26	2.2	26	78	6	64	62	1	1	34	1.16
5560508--5560575	25	2.8	24	72	17	61	50	1	4	44	1.31
5560692--5561470	389	2.0	387	85	4	1061	33	11	14	39	1.83
5567732--5567867	44	3.2	44	77	3	143	31	19	19	29	1.96
5567608--5568062	194	2.4	194	88	0	671	31	20	16	31	1.95
5567950--5568065	44	2.6	44	81	0	133	36	20	15	27	1.93
5568180--5568285	42	2.6	41	77	3	113	30	20	22	26	1.98
5568000--5568954	215	4.3	215	86	6	1186	32	20	16	31	1.94
5568400--5568501	42	2.5	41	82	6	134	31	21	22	24	1.98
5572156--5572207	17	2.9	17	94	5	86	51	11	11	25	1.71
5578586--5578618	14	2.4	14	95	5	59	12	51	6	30	1.63
5580265--5580311	15	3.3	15	79	8	53	74	0	23	2	0.93
5584489--5584561	31	2.4	31	92	0	119	50	16	10	21	1.75
5585654--5585707	15	3.7	15	87	2	74	29	31	18	20	1.96
5586566--5586628	27	2.3	27	83	2	72	46	23	12	17	1.83
5600777--5600855	20	3.8	20	70	6	77	25	16	13	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5603463--5603531	21	3.3	21	91	4	95	26	15	21	36	1.94
5605771--5605808	15	2.5	15	91	0	58	57	13	28	0	1.36
5608782--5608821	19	2.0	20	85	9	55	70	12	7	10	1.35
5621464--5621530	21	3.0	22	82	16	77	26	13	20	38	1.90
5621471--5621542	21	3.3	21	90	5	99	26	15	22	36	1.93
5623783--5623820	15	2.5	15	91	0	58	57	13	28	0	1.36
5626796--5626835	19	2.0	20	85	9	55	70	12	7	10	1.35
5633906--5633962	27	2.1	27	86	3	78	49	19	14	17	1.80
5638664--5638721	25	2.3	24	77	8	62	32	6	13	46	1.70
5639146--5639223	21	3.6	21	86	8	95	25	12	23	38	1.90
5641463--5641500	15	2.5	15	91	0	58	57	13	28	0	1.36
5644475--5644514	19	2.0	20	85	9	55	70	12	7	10	1.35
5649917--5649943	3	9.0	3	100	0	54	33	0	0	66	0.92
5651233--5651305	23	3.2	23	76	3	58	34	26	20	19	1.96
5651522--5651551	15	1.9	16	93	6	53	43	16	0	40	1.48
5651609--5651642	17	2.0	17	94	0	59	26	17	2	52	1.58
5657592--5657642	15	3.3	15	76	15	50	39	17	3	39	1.68
5657542--5657679	62	2.2	62	88	5	215	39	15	4	39	1.68
5658133--5658203	22	3.5	22	62	25	55	23	25	14	36	1.92
5658132--5658220	39	2.3	39	98	0	169	24	28	13	33	1.93
5661569--5661636	30	2.4	30	83	11	90	5	29	0	64	1.17
5661576--5661636	15	4.1	15	89	8	90	6	27	0	65	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5671883--5671920	18	2.1	18	100	0	76	39	21	18	21	1.93
5677350--5677919	285	2.0	283	96	1	1043	36	25	14	24	1.93
5680033--5680073	3	13.7	3	84	0	55	29	31	2	36	1.71
5680033--5680094	15	4.1	15	76	12	56	30	29	1	38	1.67
5683100--5683166	30	2.2	30	97	0	125	26	16	17	38	1.91
5684484--5684810	111	3.0	110	84	6	432	44	12	22	19	1.85
5692221--5692280	16	3.5	17	77	15	61	46	0	0	53	1.00
5692221--5692272	20	2.6	20	81	0	68	46	0	0	53	1.00
5692221--5692279	20	2.9	20	80	7	66	45	0	0	54	0.99
5693137--5693216	42	1.9	42	89	5	126	25	27	11	36	1.90
5701972--5702037	25	2.6	25	87	2	96	21	9	6	63	1.45
5702761--5702964	112	1.8	110	85	3	266	35	19	14	30	1.91
5703152--5703193	22	1.9	22	95	0	75	38	11	0	50	1.40
5703133--5703168	18	2.0	18	100	0	72	33	11	5	50	1.61
5703296--5703358	21	3.0	21	88	4	92	17	25	22	34	1.95
5703452--5703539	44	2.1	42	83	12	110	43	2	3	51	1.31
5706738--5706790	3	19.0	3	81	14	60	66	1	0	32	1.03
5706716--5706794	22	3.8	21	77	14	74	62	1	0	36	1.04
5706739--5706801	19	3.3	18	80	8	72	66	3	0	30	1.07
5707118--5707648	113	4.7	114	87	2	725	28	19	13	38	1.90
5707124--5707684	225	2.5	225	86	2	768	28	18	14	37	1.90
5708448--5708554	53	2.0	54	81	5	128	29	18	14	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5717069--5717117	20	2.4	21	83	10	57	67	2	2	28	1.13
5717097--5717132	18	1.9	19	88	5	56	63	0	2	33	1.08
5717085--5717140	28	2.0	28	86	6	78	62	0	3	33	1.12
5719373--5719425	3	19.0	3	85	14	69	67	1	0	30	1.01
5719351--5719429	22	3.8	21	80	14	83	63	1	0	35	1.03
5719376--5719452	19	4.1	19	82	11	79	68	3	1	25	1.14
5720091--5720120	7	4.3	7	100	0	60	43	16	26	13	1.85
5751514--5751549	11	3.2	11	88	7	54	75	2	0	22	0.94
5751421--5751650	123	1.9	120	82	4	291	46	7	8	37	1.63
5751821--5751862	21	2.0	20	90	4	66	71	0	4	23	1.05
5753148--5753224	3	25.7	3	87	10	95	61	0	0	38	0.96
5753488--5754273	113	6.9	113	90	3	1116	28	20	14	37	1.92
5753486--5754273	337	2.3	338	88	3	1187	28	20	14	36	1.92
5754676--5754730	22	2.5	22	87	0	83	36	14	14	34	1.87
5759830--5759903	15	4.7	15	81	11	62	6	17	0	75	1.01
5759846--5759894	7	6.7	7	88	6	71	10	16	0	73	1.09
5759830--5759962	7	17.3	7	70	21	63	6	15	4	73	1.19
5759901--5759973	26	2.8	26	95	0	137	5	13	12	68	1.37
5763599--5763634	14	2.6	14	86	0	54	52	2	13	30	1.55
5765913--5765946	4	8.8	4	93	6	61	76	0	0	23	0.79
5765824--5766051	123	1.9	122	84	4	307	46	7	8	37	1.63
5766223--5766266	23	2.0	22	90	4	70	72	0	4	22	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5767559--5767651	3	30.7	3	85	12	84	56	0	0	43	0.99
5767684--5767731	23	2.1	23	96	0	87	27	8	14	50	1.71
5767740--5767778	2	19.5	2	89	0	60	46	0	5	48	1.24
5768607--5768655	24	2.0	24	84	4	62	38	2	0	59	1.09
5769526--5769630	37	2.8	37	85	0	129	42	13	12	31	1.81
5770210--5770309	24	4.3	24	72	22	88	28	5	1	66	1.19
5770268--5770320	23	2.3	24	81	15	67	30	0	1	67	1.01
5770583--5770683	30	3.4	29	75	12	75	14	5	3	75	1.14
5770616--5770684	28	2.6	27	78	15	72	14	7	2	75	1.13
5771744--5771781	19	2.0	20	89	5	60	7	23	0	68	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   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   63   64   
          65