genome.fa.s761.2.7.7.80.10.50.1000.17.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  17  of  23  ( 2686 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)
4224083--4224169	43	2.0	44	86	2	122	33	22	12	31	1.92
4228228--4228441	117	1.8	118	81	7	265	50	7	15	25	1.71
4228966--4229005	20	2.0	21	85	5	55	40	12	5	42	1.64
4234286--4234327	17	2.7	15	82	13	57	14	0	28	57	1.38
4234290--4234323	17	2.0	17	94	0	59	11	0	32	55	1.36
4235840--4235924	28	3.1	29	76	17	76	68	1	2	28	1.09
4236562--4236589	11	2.5	11	100	0	56	53	0	0	46	1.00
4236816--4236843	3	9.3	3	100	0	56	67	0	0	32	0.91
4238287--4238345	3	20.0	3	85	3	84	62	0	0	37	0.95
4244249--4244292	21	2.1	21	100	0	88	52	6	13	27	1.66
4246385--4246583	44	4.5	45	78	6	149	34	17	24	24	1.96
4246414--4246598	44	4.2	44	77	4	167	33	16	24	25	1.96
4259373--4259424	23	2.2	24	82	3	61	23	36	19	21	1.95
4264899--4264935	19	1.9	19	94	0	65	13	29	35	21	1.92
4269238--4269280	18	2.4	19	80	11	54	13	9	13	62	1.53
4270245--4270290	10	4.6	10	80	17	51	10	15	2	71	1.23
4274536--4274584	21	2.3	21	86	6	64	55	2	4	38	1.31
4277087--4277223	36	3.8	36	91	0	220	26	14	14	44	1.84
4277832--4277864	14	2.4	14	90	10	50	21	3	12	63	1.41
4284084--4284152	23	3.2	22	86	8	88	21	23	31	23	1.98
4288018--4288238	117	1.9	117	82	5	277	30	14	8	47	1.72
4300844--4300883	21	1.9	21	89	0	62	25	40	25	10	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4305100--4305146	24	2.0	24	95	0	85	38	12	14	34	1.85
4305732--4305822	36	2.5	36	98	0	173	25	17	13	43	1.85
4307753--4307785	14	2.4	14	90	10	50	21	3	12	63	1.41
4316730--4316779	20	2.5	20	83	0	64	28	28	16	28	1.97
4317355--4317533	19	10.1	19	71	19	136	12	24	20	43	1.85
4317355--4317471	52	2.2	52	93	0	198	11	23	21	43	1.85
4317410--4317508	33	3.0	33	95	1	171	11	25	23	40	1.87
4317429--4317484	14	3.6	14	74	21	58	10	25	25	39	1.87
4319678--4319744	21	3.2	21	66	6	55	23	35	20	19	1.95
4319626--4319744	42	2.8	42	76	12	102	23	36	17	22	1.95
4321102--4321137	14	2.6	14	95	0	63	30	0	25	44	1.54
4321244--4321310	19	3.8	19	75	18	81	44	19	22	13	1.85
4321297--4321439	33	4.3	33	81	12	177	17	23	18	40	1.91
4321316--4321440	19	7.4	19	65	24	91	15	22	18	44	1.87
4321297--4321439	66	2.2	66	93	2	243	17	23	18	40	1.91
4321314--4321440	33	3.8	33	87	8	195	14	22	18	43	1.87
4323732--4323756	12	2.1	12	100	0	50	0	28	0	72	0.86
4324757--4324808	21	2.5	20	84	3	59	38	19	23	19	1.93
4324793--4324884	20	4.6	20	74	8	78	40	22	17	19	1.91
4325098--4325144	20	2.3	20	100	0	94	36	25	23	14	1.93
4325180--4325249	19	4.2	16	83	16	58	12	21	18	47	1.82
4325191--4325239	19	2.6	19	100	0	98	14	20	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4325376--4325412	14	2.6	14	86	0	56	48	21	0	29	1.50
4327281--4327348	20	3.5	19	82	6	82	38	23	23	14	1.92
4327337--4327426	14	5.8	14	75	21	81	50	22	16	11	1.77
4327321--4327425	33	3.2	33	97	1	194	48	20	18	12	1.80
4327321--4327443	65	1.9	66	88	8	189	47	22	17	12	1.80
4327439--4327535	19	5.6	19	71	22	97	13	18	20	47	1.82
4327463--4327519	14	3.7	14	75	20	60	10	15	22	50	1.74
4327444--4327535	33	2.8	33	98	0	175	13	17	20	48	1.80
4327529--4327574	20	2.3	20	88	0	65	15	21	26	36	1.93
4328056--4328100	18	2.5	18	88	0	72	13	15	44	26	1.83
4329420--4329503	20	4.2	20	90	0	114	44	22	17	15	1.87
4329420--4329513	40	2.4	40	81	1	118	43	23	17	15	1.87
4329747--4329790	22	2.0	22	90	0	70	18	13	45	22	1.84
4329978--4330092	20	5.7	20	83	6	124	23	19	25	32	1.97
4329958--4330095	61	2.3	61	85	0	195	22	18	23	34	1.96
4330081--4330152	20	3.5	21	88	1	67	16	23	19	40	1.91
4329978--4330113	61	2.2	61	82	2	166	22	20	24	33	1.97
4330100--4330152	20	2.7	20	96	0	97	16	20	20	41	1.90
4330183--4330223	21	2.0	21	85	0	55	34	29	17	19	1.94
4335621--4335650	12	2.4	12	94	5	51	33	16	16	33	1.92
4336782--4337112	74	4.5	74	92	0	556	38	13	14	33	1.85
4342420--4342751	74	4.5	74	90	1	513	40	12	14	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4347263--4347292	13	2.2	14	94	5	53	40	13	26	20	1.89
4352596--4352670	3	25.0	3	82	5	53	54	0	0	45	0.99
4352579--4352679	33	3.0	33	81	7	114	53	0	0	45	1.07
4353169--4353333	73	2.2	74	97	1	314	29	21	18	30	1.97
4354559--4354784	114	2.0	114	91	0	362	30	21	15	32	1.94
4355615--4355641	13	2.1	13	100	0	54	33	22	7	37	1.82
4360395--4360448	14	3.8	14	80	2	54	50	9	14	25	1.73
4362111--4362142	10	3.1	10	95	4	55	71	0	0	28	0.86
4364139--4364223	9	9.6	9	75	7	57	48	0	1	50	1.08
4364174--4364251	3	26.3	3	86	2	104	60	0	0	39	0.97
4364174--4364262	12	7.0	13	79	16	89	60	0	0	39	0.97
4366278--4366315	19	2.0	19	89	0	58	39	13	18	28	1.88
4366776--4367221	55	8.1	55	90	2	693	35	10	17	36	1.85
4366776--4367221	109	4.1	110	92	1	707	35	10	17	36	1.85
4367187--4367257	36	2.0	36	94	0	124	23	9	23	42	1.84
4367132--4367307	91	1.9	91	96	2	327	29	9	21	39	1.85
4367223--4367407	54	3.4	54	91	0	280	31	11	19	37	1.87
4367226--4367458	109	2.1	109	83	4	283	30	11	20	37	1.88
4367526--4367746	80	2.7	81	86	2	284	37	10	23	28	1.88
4367798--4367884	45	1.9	46	88	2	131	39	14	22	22	1.91
4369954--4369998	23	2.0	23	90	0	72	24	26	26	22	2.00
4373508--4373604	48	2.0	48	94	6	169	29	21	16	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4376884--4376928	23	2.0	23	90	0	72	24	26	26	22	2.00
4376896--4377211	150	2.1	149	93	1	535	33	21	18	26	1.96
4381165--4381216	27	1.9	27	96	0	95	30	0	23	46	1.53
4381166--4381223	27	2.1	27	90	0	89	29	1	22	46	1.62
4381544--4381597	21	2.6	21	100	0	108	33	14	18	33	1.92
4382100--4382904	55	14.7	55	88	1	1145	35	10	18	35	1.86
4382104--4383000	110	8.2	107	86	5	595	35	10	18	35	1.86
4383154--4383262	49	2.2	49	83	1	139	32	12	22	33	1.92
4383250--4383337	45	1.9	46	90	2	142	42	13	21	22	1.88
4384888--4384965	23	3.3	23	80	8	95	33	23	17	25	1.96
4384972--4385184	100	2.1	102	91	2	342	37	22	13	27	1.91
4393619--4393643	13	1.9	13	100	0	50	48	0	24	28	1.52
4394214--4394291	3	26.0	3	100	0	156	66	0	0	33	0.92
4398834--4398888	17	3.3	18	75	14	55	32	0	10	56	1.34
4399022--4399060	19	2.2	18	86	9	53	15	7	30	46	1.74
4401060--4401109	19	2.6	19	80	0	55	38	6	18	38	1.75
4401888--4401972	32	2.7	32	96	0	152	38	18	16	25	1.92
4402756--4402896	64	2.2	63	82	5	158	37	18	17	26	1.93
4403377--4403594	103	2.1	103	96	0	409	25	12	24	37	1.91
4403611--4403673	23	2.7	22	88	9	90	22	25	26	25	2.00
4409774--4409931	64	2.5	63	82	7	176	35	17	20	26	1.95
4410391--4410607	102	2.1	103	92	0	364	25	11	24	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410632--4410686	23	2.4	23	90	0	83	21	21	27	29	1.99
4414228--4414269	11	3.8	11	87	12	68	54	0	16	28	1.42
4414229--4414273	22	2.0	22	95	0	81	53	0	15	31	1.43
4426521--4426574	9	5.8	9	80	20	58	85	1	0	12	0.69
4426535--4426564	8	3.6	8	95	4	51	90	0	0	10	0.47
4426520--4426574	18	3.0	18	84	10	67	83	1	0	14	0.73
4430707--4430809	53	1.9	53	92	0	170	31	20	11	36	1.88
4430991--4431021	16	1.9	16	93	0	53	32	9	12	45	1.75
4434214--4434283	8	9.2	8	77	17	62	60	2	0	37	1.12
4434229--4434290	31	2.0	30	84	9	81	54	3	1	40	1.26

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23