genome.fa.s8061.2.7.7.80.10.50.1000.22.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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  22  of  26  ( 3118 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)
4398623--4398713	4	21.8	4	70	24	55	0	70	0	29	0.88
4398623--4398687	10	6.7	10	70	12	55	0	72	0	27	0.85
4398647--4398683	14	2.6	14	100	0	74	0	67	0	32	0.91
4398622--4398722	14	7.2	14	77	17	70	0	68	0	31	0.90
4398622--4398721	6	15.7	6	75	10	65	0	69	0	31	0.89
4409212--4409323	35	3.2	34	83	5	125	41	21	0	35	1.59
4410346--4410457	35	3.2	34	86	7	154	33	0	23	41	1.60
4425488--4425549	31	2.0	32	90	3	99	40	16	11	32	1.83
4425489--4425573	32	2.7	32	83	1	100	38	15	10	35	1.82
4425976--4426416	219	2.0	220	95	1	803	27	17	21	33	1.96
4431780--4431846	33	2.0	33	88	0	98	47	7	25	19	1.75
4434865--4434898	2	17.0	2	100	0	68	50	0	0	50	1.00
4435150--4435357	97	2.1	97	92	0	353	33	10	10	45	1.72
4437995--4438128	38	3.5	37	84	2	160	26	24	21	26	1.99
4444158--4444292	38	3.6	38	88	0	180	27	25	21	25	1.99
4444199--4444263	17	3.6	17	66	22	51	27	29	23	20	1.98
4444216--4444284	21	3.5	21	64	22	58	30	23	23	23	1.99
4445010--4445047	20	1.9	20	88	0	58	23	31	31	13	1.93
4453800--4453839	2	20.0	2	89	0	53	47	0	5	47	1.24
4455467--4455511	3	15.0	3	100	0	90	66	0	0	33	0.92
4459482--4459556	35	2.1	35	85	4	98	44	20	0	36	1.52
4459552--4459664	35	3.2	35	80	0	118	37	0	20	41	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4459917--4459991	36	2.1	35	83	11	91	46	8	2	42	1.47
4462444--4462610	90	1.9	90	90	0	271	34	11	7	46	1.70
4469042--4469078	14	2.4	16	91	8	60	37	0	0	62	0.96
4479578--4479642	33	2.0	33	81	0	76	32	35	9	23	1.86
4486300--4486358	26	2.4	25	83	8	75	1	44	0	54	1.10
4486935--4486974	21	1.9	21	94	0	71	20	22	12	45	1.84
4493738--4493763	2	13.0	2	100	0	52	50	0	0	50	1.00
4512033--4512073	21	1.9	22	90	5	66	24	17	19	39	1.92
4512817--4512853	19	1.9	19	100	0	74	32	10	18	37	1.86
4513123--4513201	37	2.2	37	97	2	151	40	12	25	21	1.88
4513478--4513511	17	1.9	18	88	5	52	20	2	2	73	1.09
4513692--4513905	111	1.9	111	90	0	338	45	14	7	32	1.72
4517275--4517311	18	2.2	17	90	9	58	8	13	0	78	0.96
4518378--4518450	34	2.1	34	92	0	119	35	12	16	35	1.86
4523677--4523730	28	1.9	28	85	7	74	40	3	0	55	1.17
4524468--4524503	18	2.0	18	100	0	72	50	11	16	22	1.77
4526494--4526526	16	2.0	17	88	5	50	30	0	0	69	0.88
4528672--4528722	21	2.4	21	81	9	59	27	13	9	49	1.74
4531765--4531829	31	2.1	31	91	0	103	27	15	21	35	1.94
4544008--4544089	35	2.3	35	97	0	155	29	21	28	20	1.98
4545212--4545242	12	2.6	12	100	0	62	25	12	25	35	1.92
4545563--4545623	23	2.7	23	81	0	86	18	24	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4549711--4549739	14	2.0	15	93	6	51	13	13	13	58	1.63
4550082--4550119	20	1.9	20	100	0	76	23	34	31	10	1.89
4552279--4552323	22	2.0	22	95	0	81	22	31	24	22	1.99
4552941--4552982	2	21.5	2	95	4	77	0	0	50	50	1.00
4554659--4554684	13	2.0	13	100	0	52	61	0	30	7	1.24
4570936--4571010	30	2.5	30	84	2	87	34	18	17	29	1.94
4572751--4572839	42	2.1	42	85	4	117	51	8	17	21	1.73
4575163--4575296	20	6.8	19	77	10	67	44	20	20	14	1.86
4575182--4575298	20	5.8	20	77	15	100	42	20	20	16	1.89
4575244--4575311	20	3.4	20	91	4	102	38	26	20	14	1.91
4575422--4575463	6	7.0	6	100	0	84	33	50	16	0	1.46
4577328--4577358	15	2.1	15	93	0	53	41	0	58	0	0.98
4586889--4586953	28	2.3	28	89	0	103	21	13	26	38	1.91
4587802--4587844	16	2.6	16	79	20	52	53	2	0	44	1.13
4587814--4587844	16	2.0	15	93	6	53	51	3	0	45	1.17
4597248--4597342	45	2.1	46	84	5	122	34	13	9	42	1.77
4599882--4599929	20	2.4	20	92	0	87	22	14	8	54	1.67
4602649--4602728	5	14.8	5	75	14	70	7	23	51	17	1.71
4602642--4602728	22	4.0	22	98	0	165	9	24	49	17	1.75
4609922--4609964	22	2.0	22	95	0	77	11	23	46	18	1.82
4609922--4609960	12	3.4	12	79	13	55	12	23	46	17	1.83
4609974--4610023	20	2.4	22	87	12	79	30	24	28	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4609967--4610032	10	6.8	9	75	13	51	28	24	27	19	1.99
4609974--4610032	20	2.9	19	80	9	64	30	22	27	20	1.98
4612283--4612360	29	2.7	29	89	0	111	20	38	26	14	1.91
4612390--4612474	33	2.6	33	90	0	125	27	28	36	8	1.85
4612505--4612576	23	3.3	23	84	5	78	9	36	29	25	1.88
4612544--4612600	10	5.7	10	80	15	73	10	26	36	26	1.89
4612544--4612601	20	2.9	20	97	0	107	10	27	36	25	1.89
4622131--4622201	35	2.0	37	86	5	101	39	15	14	30	1.87
4622729--4622762	10	3.4	10	87	0	50	11	0	2	85	0.71
4622835--4622869	16	2.2	16	89	0	52	31	5	0	62	1.18
4623144--4623193	22	2.4	21	81	15	59	14	12	2	72	1.22
4623150--4623193	23	2.0	23	87	12	67	13	13	0	72	1.12
4626216--4626285	20	3.3	20	80	9	68	77	5	15	1	1.03
4626891--4626941	22	2.3	22	96	0	93	35	27	11	25	1.91
4627792--4627893	36	2.8	37	87	1	143	25	23	12	38	1.90
4628011--4628096	36	2.4	36	88	0	118	25	20	13	39	1.90
4627807--4628161	102	3.5	101	90	1	548	29	20	12	36	1.90
4628067--4628226	65	2.5	65	95	0	293	30	21	13	35	1.91
4627945--4628261	166	1.9	169	91	3	525	30	20	12	36	1.90
4627792--4628261	203	2.3	194	78	13	523	29	20	12	36	1.90
4628132--4628357	103	2.2	102	80	4	242	25	20	14	39	1.90
4628662--4629581	109	8.9	98	78	11	773	32	24	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4628670--4629625	203	4.6	202	84	6	1064	32	24	21	21	1.98
4630089--4630188	35	2.7	35	86	6	119	38	15	16	31	1.89
4630834--4630870	15	2.4	16	86	8	51	35	5	0	59	1.20
4637422--4637459	18	2.1	18	95	0	67	36	13	13	36	1.83
4637480--4637567	45	2.0	44	84	6	115	40	7	1	50	1.39
4638379--4638427	20	2.5	20	96	0	89	32	22	24	20	1.98
4641550--4641664	60	1.9	60	83	5	151	41	2	4	51	1.35
4641683--4641718	18	2.0	18	88	0	54	50	0	0	50	1.00
4642287--4642316	2	15.0	2	100	0	60	50	0	0	50	1.00
4642901--4642950	24	2.1	24	100	0	100	42	24	14	20	1.88
4643991--4644055	32	2.0	32	93	0	112	36	1	9	52	1.43
4652989--4653037	22	2.2	23	85	3	64	36	6	0	57	1.24
4653214--4653246	13	2.4	14	90	5	50	78	3	3	15	0.99
4653333--4653359	2	13.5	2	100	0	54	48	0	0	51	1.00
4660560--4660631	31	2.4	31	92	2	128	44	31	8	15	1.76
4660314--4660893	290	2.0	285	86	7	801	41	19	11	27	1.86
4679692--4679725	16	2.1	16	94	0	59	32	26	8	32	1.87
4682895--4682951	27	2.1	27	93	0	96	21	24	28	26	1.99
4693247--4693277	15	2.1	15	100	0	62	51	6	0	41	1.27
4695555--4695634	35	2.3	35	89	4	117	42	17	1	38	1.57
4697408--4697518	29	3.8	29	96	1	195	33	14	12	39	1.84
4702194--4702304	29	3.8	29	93	1	186	33	13	12	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4702750--4702777	2	14.0	2	100	0	56	0	50	0	50	1.00
4706081--4706107	11	2.5	11	100	0	54	33	11	29	25	1.91
4708128--4708260	51	2.9	43	77	16	140	15	27	33	24	1.95
4708161--4708261	51	2.0	51	96	0	184	13	26	31	27	1.94
4712326--4712473	80	1.9	80	86	2	217	37	10	6	45	1.63
4712326--4712494	80	2.1	79	83	4	205	36	10	6	46	1.65
4718902--4718947	22	2.1	22	100	0	92	58	17	0	23	1.38
4718906--4718952	22	2.2	22	92	3	78	59	17	0	23	1.37
4728181--4728222	20	2.1	21	82	8	52	30	11	0	57	1.35
4730607--4730640	17	2.0	17	100	0	68	41	0	35	23	1.55

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