genome.fa.s8027.2.7.7.80.10.50.1000.21.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  21  of  38  ( 4505 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)
4420860--4420902	21	2.0	21	90	0	68	20	44	13	20	1.86
4421165--4421223	20	3.0	20	87	0	73	15	18	22	44	1.87
4421360--4421414	25	2.2	24	78	15	58	20	9	18	52	1.71
4422543--4422588	18	2.6	18	92	0	83	28	45	13	13	1.80
4423142--4423219	20	4.3	19	76	15	67	43	16	21	17	1.88
4423170--4423228	19	3.4	19	77	22	83	49	18	18	13	1.80
4423186--4423242	14	3.7	14	77	20	60	52	21	15	10	1.72
4423170--4423247	33	2.4	33	97	0	147	47	20	19	12	1.82
4423285--4423379	20	4.8	20	93	1	147	17	27	22	32	1.96
4423350--4423405	20	2.8	20	86	0	67	26	16	25	32	1.96
4423285--4423399	60	1.9	59	82	5	142	19	24	23	33	1.97
4423747--4423807	21	2.9	21	73	7	61	24	37	11	26	1.89
4423744--4423853	41	2.6	42	76	4	105	22	37	16	23	1.94
4425412--4425476	19	3.4	19	97	0	121	50	16	15	16	1.78
4425791--4425913	41	3.0	42	85	3	153	24	18	26	30	1.98
4425781--4425909	20	6.4	20	84	5	152	25	19	27	27	1.99
4425797--4425931	41	3.3	41	81	5	123	24	20	24	31	1.98
4425899--4425950	20	2.5	21	87	3	70	21	23	17	38	1.93
4425940--4425992	21	2.5	22	78	6	65	33	18	24	22	1.97
4426582--4426620	15	2.6	15	87	0	60	25	30	25	17	1.97
4428290--4428321	14	2.3	14	94	0	55	28	25	18	28	1.98
4431092--4431196	21	4.8	21	78	11	113	26	19	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4431092--4431196	44	2.4	43	85	6	140	26	19	24	29	1.98
4434981--4435020	21	1.9	21	85	10	55	35	7	2	55	1.42
4438559--4439003	249	1.8	243	85	4	633	27	9	17	44	1.81
4441845--4441934	31	3.2	31	64	23	88	42	4	16	36	1.69
4442867--4442908	21	2.0	21	95	0	75	47	21	4	26	1.70
4444588--4444620	12	2.8	12	95	0	57	36	21	27	15	1.93
4445063--4445276	118	1.8	119	79	7	256	37	6	7	49	1.55
4445613--4445684	20	3.5	20	68	17	58	18	18	9	54	1.70
4445930--4446013	42	2.0	42	85	0	114	50	11	19	19	1.78
4449469--4449527	31	1.9	31	86	6	84	33	18	1	45	1.60
4449940--4449986	21	2.2	21	88	0	76	19	25	17	38	1.92
4449982--4450085	20	5.2	20	80	4	102	38	19	18	24	1.93
4450058--4450098	20	2.0	20	90	0	64	36	21	19	21	1.95
4450095--4450168	20	3.7	20	98	0	139	31	25	17	25	1.97
4453470--4453554	20	4.2	20	90	3	136	34	25	22	17	1.96
4453530--4453625	33	2.8	33	88	3	129	40	20	25	13	1.89
4453563--4453629	20	3.7	19	72	22	72	44	19	22	13	1.85
4453640--4453735	33	2.8	33	88	3	138	12	22	20	43	1.86
4453841--4453877	14	2.6	14	86	0	56	48	21	0	29	1.50
4455272--4455364	42	2.2	42	80	3	107	22	17	39	20	1.92
4455844--4455912	20	3.5	20	85	0	93	36	24	18	20	1.95
4455935--4456090	34	4.4	34	73	13	145	16	20	21	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4455957--4456113	20	8.5	20	75	18	126	17	19	22	41	1.90
4457989--4458078	20	4.6	20	85	1	101	45	23	16	14	1.84
4458415--4458480	22	3.0	22	88	0	96	21	13	39	25	1.90
4458687--4458782	20	5.2	20	70	21	73	20	18	19	40	1.91
4458780--4458819	21	1.9	21	94	0	71	45	17	20	17	1.86
4470009--4470080	23	3.1	23	100	0	144	54	8	20	16	1.68
4470428--4470503	34	2.3	33	86	2	107	38	7	9	44	1.66
4473009--4473125	60	2.0	60	86	6	166	41	14	12	30	1.83
4475657--4475756	42	2.4	41	83	5	130	32	22	21	25	1.98
4475863--4476209	36	9.4	36	74	6	302	39	13	17	30	1.88
4475880--4476217	74	4.6	74	91	2	513	38	13	16	31	1.87
4479496--4479526	14	2.2	14	100	0	62	6	35	6	51	1.53
4482034--4482108	20	3.8	20	78	1	80	9	44	25	21	1.82
4483172--4483213	20	2.1	20	100	0	84	59	4	19	16	1.54
4484496--4484541	7	6.7	7	76	14	51	32	0	0	67	0.91
4498626--4498663	16	2.2	18	90	9	62	78	0	5	15	0.91
4498624--4498690	9	7.2	9	81	13	66	74	0	10	14	1.07
4498624--4498690	18	3.6	19	79	18	79	74	0	10	14	1.07
4498636--4498686	16	2.7	19	85	14	63	80	0	5	13	0.89
4499674--4500421	55	13.7	55	88	2	1069	27	15	28	27	1.96
4504321--4504567	63	3.8	63	74	16	179	43	5	8	42	1.57
4508397--4508437	20	2.0	21	85	4	57	58	2	2	36	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4509296--4509334	19	2.0	21	90	10	64	0	20	2	76	0.90
4509294--4509346	27	2.0	27	85	7	72	0	20	5	73	1.03
4509832--4509917	3	28.7	3	90	0	136	61	0	3	34	1.13
4512385--4512419	14	2.5	14	95	0	61	28	0	22	48	1.51
4516448--4516488	18	2.3	18	86	0	55	19	19	17	43	1.88
4520695--4520737	20	2.2	20	86	0	59	30	13	20	34	1.92
4525657--4525699	20	2.2	20	86	0	59	30	13	20	34	1.92
4530363--4530468	24	4.4	24	73	11	92	49	16	15	19	1.80
4531581--4531615	18	1.9	18	88	0	52	25	14	0	60	1.35
4532746--4532773	10	2.8	10	100	0	56	21	21	28	28	1.99
4534949--4535037	24	3.7	24	76	0	88	51	16	8	22	1.72
4534943--4535050	24	4.5	24	70	9	76	50	16	12	21	1.77
4536161--4536196	18	2.0	18	88	0	54	30	13	0	55	1.39
4537489--4537516	10	2.8	10	100	0	56	21	21	28	28	1.99
4541155--4541201	18	2.5	19	80	16	53	68	4	10	17	1.35
4542547--4542661	59	1.9	61	85	3	162	40	14	12	32	1.83
4549361--4549422	2	31.0	2	100	0	124	50	0	0	50	1.00
4553140--4553225	45	1.9	45	82	0	109	37	19	22	20	1.95
4553250--4553288	20	2.0	20	94	0	69	23	46	0	30	1.53
4555609--4555676	31	2.2	31	86	0	91	44	17	14	23	1.86
4560548--4560589	21	2.0	20	86	4	57	33	7	7	52	1.56
4560548--4560591	20	2.2	20	84	8	54	34	9	6	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4564194--4564308	60	1.9	60	83	3	151	40	11	13	34	1.81
4569804--4569885	20	4.1	20	82	3	85	18	19	28	34	1.95
4587131--4587546	39	11.1	37	67	11	204	40	11	16	31	1.84
4587111--4587546	74	5.8	75	84	3	511	40	11	16	31	1.84
4587111--4587546	149	2.9	149	83	3	527	40	11	16	31	1.84
4612749--4612773	10	2.5	10	100	0	50	28	28	0	44	1.55
4616563--4616669	42	2.6	42	82	4	137	25	19	21	33	1.97
4616464--4617294	236	3.4	236	78	10	744	33	14	16	34	1.90
4617077--4617177	41	2.4	42	86	4	134	25	20	21	31	1.98
4616799--4617492	257	2.7	257	82	4	821	32	15	18	34	1.92
4619050--4619095	19	2.5	19	96	3	85	23	4	32	39	1.75
4621373--4621530	21	7.8	20	72	7	86	38	25	17	18	1.92
4621497--4621806	20	15.5	20	83	5	281	37	24	17	20	1.93
4621497--4621806	60	5.2	60	83	5	324	37	24	17	20	1.93
4621497--4621806	40	7.8	40	89	4	367	37	24	17	20	1.93
4622489--4622535	24	2.0	24	87	8	69	25	14	21	38	1.92
4624964--4625128	33	4.7	34	81	13	183	46	18	21	13	1.83
4624978--4625166	19	10.7	19	78	17	219	45	17	21	15	1.85
4624964--4625166	52	3.9	52	86	10	281	45	18	21	14	1.85
4625175--4625272	19	5.4	19	84	13	143	14	22	17	45	1.84
4625156--4625272	53	2.2	53	96	1	218	13	24	17	43	1.86
4625379--4625415	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4627394--4627450	14	3.7	14	77	20	60	45	22	21	10	1.82
4627375--4627467	33	2.8	33	95	0	168	47	21	20	10	1.80
4627338--4627472	19	7.6	19	76	16	128	45	23	19	11	1.82
4627468--4627580	19	6.5	19	74	19	120	7	17	28	46	1.74
4627468--4627559	33	2.8	33	93	3	150	7	18	28	45	1.76
4627468--4627596	19	7.3	19	72	20	100	8	16	28	46	1.76
4627644--4628298	93	7.1	93	99	0	1294	46	19	12	21	1.83
4630005--4630094	14	5.7	14	69	23	63	44	22	23	10	1.82
4629997--4630111	33	3.5	33	97	0	221	46	20	22	10	1.80
4630019--4630116	19	5.7	19	69	22	90	44	21	22	11	1.83

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