genome.fa.s7923.2.7.7.80.10.50.1000.27.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  27  of  40  ( 4704 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)
5528058--5528110	12	4.6	12	79	13	58	33	3	0	62	1.13
5528056--5528114	11	5.2	12	78	13	63	30	3	0	66	1.08
5528125--5528173	2	24.5	2	100	0	98	48	0	0	51	1.00
5528186--5528404	114	1.9	114	80	9	259	38	10	7	44	1.66
5539279--5540002	46	15.8	46	95	0	1281	24	21	18	35	1.96
5540124--5540166	21	2.0	21	86	8	61	51	0	0	48	1.00
5540137--5540194	18	3.3	18	76	13	68	46	0	0	53	1.00
5540342--5540384	21	2.0	21	100	0	86	25	23	18	32	1.97
5541916--5541974	23	2.6	24	82	17	81	32	3	0	64	1.10
5541917--5541974	12	5.0	12	77	14	59	32	3	0	63	1.11
5541916--5541975	11	5.3	11	78	13	68	31	3	0	65	1.09
5547210--5547244	17	2.1	17	94	0	61	60	0	0	40	0.97
5547374--5547931	35	15.8	35	87	3	751	18	18	19	43	1.89
5547411--5547929	106	4.9	106	88	1	749	19	18	20	42	1.90
5547374--5547931	176	3.2	175	87	3	762	18	18	19	43	1.89
5547975--5548211	81	2.9	82	80	2	280	25	18	20	35	1.95
5547956--5548226	82	3.3	82	80	2	303	26	18	20	35	1.95
5548133--5548513	129	2.9	129	90	0	573	32	15	19	32	1.93
5548624--5549023	62	6.4	62	83	5	423	36	14	20	28	1.92
5548623--5549033	125	3.3	123	83	5	445	36	14	19	28	1.92
5551289--5551362	20	3.6	20	77	12	78	28	21	16	33	1.95
5552256--5552441	38	4.8	37	70	16	126	29	25	13	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5552259--5552521	81	3.3	80	83	7	306	29	23	13	32	1.93
5552289--5552514	81	2.8	81	86	7	309	29	21	14	34	1.93
5552304--5552526	38	5.7	38	67	16	114	29	22	13	33	1.93
5553588--5553626	2	20.0	2	89	5	62	48	0	0	51	1.00
5558994--5559036	3	14.7	3	80	4	52	58	2	2	37	1.24
5558982--5559027	21	2.2	20	85	14	67	54	2	4	39	1.32
5560881--5561560	336	2.0	338	93	3	1161	26	17	21	34	1.95
5561840--5561904	17	3.8	17	91	2	103	29	27	7	35	1.85
5571057--5571104	12	4.1	12	75	2	53	14	8	37	39	1.76
5571576--5571623	21	2.3	20	86	10	69	22	25	18	33	1.97
5571653--5571709	21	2.7	21	100	0	114	43	29	8	17	1.79
5575588--5575624	19	1.9	19	100	0	74	32	37	5	24	1.78
5576068--5576154	45	1.9	45	88	0	129	28	24	13	33	1.93
5580051--5580112	23	2.8	22	80	4	88	17	27	30	24	1.97
5586073--5586134	21	3.0	21	90	4	99	17	40	27	14	1.89
5587359--5587397	20	2.0	19	85	5	51	56	12	0	30	1.37
5588904--5588986	20	4.0	20	86	9	112	18	36	28	16	1.93
5588904--5588986	21	4.0	21	87	4	114	18	36	28	16	1.93
5588905--5588987	43	2.0	42	92	2	139	18	34	28	18	1.94
5595136--5595187	21	2.5	21	90	0	77	19	7	34	38	1.80
5598534--5598564	14	2.2	14	100	0	62	32	6	29	32	1.83
5599968--5600076	15	7.3	15	89	0	164	9	64	17	9	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5601328--5601366	17	2.3	17	95	0	69	61	0	5	33	1.18
5602201--5602233	14	2.3	15	89	5	50	78	0	12	9	0.95
5606783--5606811	3	9.7	3	100	0	58	68	0	0	31	0.89
5609820--5609848	14	2.1	14	100	0	58	27	17	13	41	1.87
5622986--5623046	29	2.0	31	84	6	81	40	0	14	44	1.46
5626369--5626422	27	2.0	26	82	13	65	42	1	1	53	1.22
5626369--5626426	30	2.0	27	83	9	71	44	1	1	51	1.21
5626712--5626760	22	2.2	22	85	0	62	42	14	18	24	1.87
5627501--5627754	31	8.1	32	86	7	351	34	20	18	25	1.96
5627501--5627754	63	4.0	64	90	5	371	34	20	18	25	1.96
5629444--5629493	25	2.0	25	84	7	66	44	0	0	56	0.99
5629636--5629687	20	2.6	20	96	0	95	38	26	13	21	1.90
5629743--5629936	20	9.6	20	76	8	76	35	25	19	19	1.95
5629739--5629936	40	5.0	39	81	4	200	35	26	19	19	1.95
5629743--5629935	60	3.2	60	83	0	251	35	25	19	19	1.95
5630317--5630387	33	2.2	33	92	0	115	11	22	18	47	1.80
5630508--5630562	14	3.6	14	73	21	56	41	23	25	9	1.83
5630508--5630578	33	2.2	33	94	0	124	43	25	22	8	1.81
5630574--5630671	19	5.7	19	70	22	81	10	24	22	42	1.84
5630596--5630685	14	5.7	14	74	23	81	8	25	23	42	1.83
5630579--5630693	33	3.5	33	95	0	212	9	24	20	45	1.81
5632392--5632858	185	2.5	186	99	0	918	21	12	19	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5632392--5632858	93	5.0	93	99	0	918	21	12	19	46	1.83
5632890--5633018	19	7.3	19	75	17	125	45	28	17	8	1.77
5632926--5633018	33	2.8	32	91	4	150	46	27	18	7	1.76
5632890--5633018	52	2.5	52	74	14	140	45	28	17	8	1.77
5633014--5633148	19	7.6	19	75	16	128	11	19	23	45	1.82
5633036--5633092	14	3.7	14	77	20	60	10	21	22	45	1.82
5633019--5633111	33	2.8	33	95	0	168	10	20	21	47	1.80
5635072--5635107	14	2.6	14	95	0	63	33	0	22	44	1.53
5635214--5635315	19	5.6	19	84	13	151	44	17	23	14	1.86
5635322--5635645	33	9.5	33	78	14	181	13	20	18	46	1.83
5635322--5635617	52	5.6	52	91	3	255	14	21	17	46	1.83
5635322--5635559	85	2.8	85	89	6	351	14	21	18	46	1.83
5638115--5638161	24	2.0	24	87	8	69	38	21	14	25	1.92
5638844--5639192	20	17.5	20	86	3	409	19	18	26	35	1.95
5639418--5639480	32	2.0	32	84	6	83	47	0	0	52	1.00
5639484--5639528	14	3.1	14	81	12	56	57	0	2	40	1.11
5639540--5639594	25	2.2	24	81	12	67	40	0	3	56	1.17
5639973--5640048	2	38.0	2	100	0	152	50	0	0	50	1.00
5643320--5643420	29	3.6	29	88	4	127	33	1	14	49	1.55
5645648--5645788	72	1.9	74	85	2	196	41	7	12	38	1.71
5648761--5648806	23	2.0	23	82	0	56	67	2	2	28	1.14
5651089--5651126	20	1.9	20	94	0	67	26	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5651132--5651283	64	2.4	63	89	6	218	28	21	17	32	1.96
5657041--5657120	23	3.6	22	77	6	90	30	22	17	30	1.97
5658515--5658552	20	1.9	20	94	0	67	26	28	21	23	1.99
5658636--5658703	19	3.7	19	74	7	68	23	29	19	27	1.98
5658626--5658702	36	2.1	36	95	0	136	24	25	18	31	1.97
5658626--5658683	17	3.3	17	76	9	71	24	24	18	32	1.97
5662239--5662287	20	2.5	20	83	9	57	20	2	12	65	1.35
5662307--5662339	12	2.6	13	90	4	50	36	15	6	42	1.71
5664472--5664508	18	2.0	19	89	5	58	27	29	24	18	1.98
5669660--5669708	20	2.5	20	83	9	57	20	2	12	65	1.35
5673591--5673716	3	42.0	3	85	3	173	34	1	0	64	1.03
5675817--5675894	21	3.6	21	68	28	56	30	3	0	65	1.10
5686495--5686581	5	17.6	5	73	21	69	80	0	17	2	0.81
5686494--5686581	16	5.6	16	74	23	71	80	0	17	2	0.81
5686490--5686581	32	2.7	33	85	8	123	80	0	17	2	0.81
5687699--5687988	51	5.7	50	95	2	517	24	14	23	37	1.92
5687699--5687988	101	2.8	102	95	2	521	24	14	23	37	1.92
5688626--5689542	118	7.9	118	96	1	1472	35	14	21	28	1.93
5689791--5689916	3	42.0	3	85	3	173	34	1	0	64	1.03
5706153--5706218	33	2.0	33	100	0	132	36	18	6	39	1.75
5706380--5706414	17	2.1	17	88	0	52	54	0	11	34	1.37
5714222--5714288	29	2.3	29	100	0	134	35	11	17	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5719708--5719742	18	1.9	18	94	0	61	25	34	20	20	1.96
5730096--5730144	21	2.3	22	79	13	57	51	14	2	32	1.54
5731053--5731291	127	1.9	126	91	0	388	37	31	10	20	1.87
5744678--5744727	20	2.5	19	81	9	64	36	20	16	28	1.93
5750171--5750229	22	2.6	23	86	5	84	25	27	20	27	1.99
5755071--5755110	20	2.0	20	95	0	71	40	22	10	27	1.86
5758137--5758203	27	2.5	27	97	0	125	31	19	13	35	1.90
5758425--5758458	14	2.4	14	90	0	50	35	14	17	32	1.91
5758656--5758725	31	2.2	29	77	20	70	47	0	4	48	1.21
5758755--5758805	23	2.2	23	82	0	57	45	1	1	50	1.24

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