genome.fa.s9616.2.7.7.80.10.50.1000.2.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: VEPZ01009616.1 Hibiscus syriacus cultivar Beakdansim tig00117002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  692457

Tables:   1   2   3   4   

This is table  2  of  4  ( 415 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)
145609--145640	12	2.7	12	95	0	55	6	46	12	34	1.67
151277--151318	15	2.7	16	82	13	52	35	2	19	42	1.64
151404--151544	23	6.1	23	72	9	92	17	24	22	34	1.96
151404--151502	46	2.2	46	83	3	119	17	24	22	36	1.95
154805--154866	21	3.3	21	68	29	66	33	4	20	40	1.74
154771--154914	72	2.1	69	83	7	175	33	4	19	42	1.72
154771--154916	35	4.1	36	86	6	176	33	4	19	42	1.72
159430--159490	21	3.2	21	65	29	64	31	4	21	42	1.74
159422--159540	35	3.3	37	88	8	174	31	5	19	43	1.72
163124--163159	6	6.0	6	100	0	72	0	66	0	33	0.92
165332--165380	23	2.2	22	82	10	55	46	2	4	46	1.33
165544--165607	32	2.0	32	87	6	94	18	15	14	51	1.76
178754--178803	24	2.1	24	100	0	100	50	8	12	30	1.68
188657--188686	15	2.0	15	93	0	51	30	3	0	66	1.07
189314--189378	32	2.1	31	88	2	94	47	0	3	49	1.17
189344--189385	14	3.1	14	79	6	59	47	0	2	50	1.14
189863--189906	23	2.0	21	86	8	61	50	2	0	47	1.13
192411--193347	6	156.5	6	95	4	1700	50	16	0	32	1.46
200578--200640	31	2.0	31	93	0	108	49	12	23	14	1.78
202080--202109	2	15.0	2	100	0	60	50	50	0	0	1.00
202109--202156	2	24.0	2	100	0	96	50	0	0	50	1.00
203059--203101	20	2.2	20	91	0	68	20	9	25	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
213297--213331	2	17.5	2	100	0	70	48	0	0	51	1.00
220422--220463	21	2.0	20	86	4	57	38	14	7	40	1.73
224900--224964	27	2.4	27	92	2	105	29	6	29	35	1.82
226245--226281	19	1.9	19	88	0	56	62	5	5	27	1.39
228211--228275	33	2.0	33	100	0	130	40	3	16	40	1.65
228580--228624	17	2.7	18	86	10	60	53	0	0	46	1.00
228586--228636	17	3.1	17	83	10	54	54	0	0	45	0.99
241072--241110	8	5.1	8	84	9	55	64	0	2	33	1.08
245298--245332	18	1.9	18	88	0	52	54	0	17	28	1.43
246839--246914	31	2.4	31	77	2	80	14	25	31	28	1.95
254842--254899	19	3.1	19	100	0	116	37	0	25	36	1.57
255602--255666	28	2.4	27	82	12	71	36	1	10	50	1.47
256792--256862	23	3.1	22	75	15	63	23	8	19	47	1.77
258749--258818	23	3.0	23	73	21	74	52	14	7	25	1.66
258725--258818	46	2.0	47	85	4	129	51	14	8	25	1.71
263064--263225	60	2.7	60	88	1	218	39	17	12	30	1.87
263064--263248	60	3.1	59	83	6	212	38	17	12	31	1.87
264180--264211	15	2.0	17	88	11	50	53	3	6	37	1.42
266786--266847	11	5.9	10	79	9	61	69	3	4	22	1.22
266895--266934	21	1.9	21	84	0	53	62	0	0	37	0.95
267450--267513	21	3.0	22	74	21	73	57	0	3	39	1.14
268792--268833	22	1.9	22	100	0	84	40	9	14	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273379--273446	2	34.5	2	88	2	93	45	1	1	51	1.19
276771--276821	13	3.7	14	84	10	70	76	3	17	1	1.03
276769--276822	28	2.0	26	92	7	90	75	3	16	3	1.08
277931--278018	32	2.8	31	84	5	113	31	13	20	34	1.92
277939--278032	31	3.0	31	84	4	109	32	10	20	36	1.87
278783--278863	39	2.1	39	85	0	108	30	18	9	40	1.83
278949--279010	21	3.2	21	63	25	55	25	22	12	38	1.90
278870--279031	36	4.5	36	87	3	227	25	21	14	38	1.91
278870--279031	73	2.2	73	89	3	247	25	21	14	38	1.91
278783--279169	174	2.2	174	92	1	621	27	19	13	39	1.89
278917--279403	138	3.5	138	90	3	723	26	20	13	40	1.89
278944--279133	102	1.9	102	87	2	283	27	20	13	38	1.90
279046--279169	36	3.4	36	79	7	135	25	21	13	39	1.90
278917--279403	137	3.5	138	91	1	746	26	20	13	40	1.89
279319--279403	37	2.3	35	82	7	107	23	21	11	43	1.85
279228--279472	102	2.4	100	79	6	253	29	19	11	39	1.87
279369--279520	65	2.3	65	79	2	171	30	18	11	39	1.87
279269--279644	166	2.3	167	88	2	553	28	17	11	41	1.85
279601--279673	37	2.0	37	88	0	110	27	17	15	39	1.90
279537--279776	102	2.4	101	90	2	365	31	17	13	37	1.88
283421--283454	17	2.1	16	88	5	50	14	8	0	76	1.01
298021--298056	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301629--301704	21	3.6	21	92	3	118	47	17	19	15	1.83
301951--301982	7	4.9	7	96	3	50	15	15	15	53	1.74
304263--304292	12	2.6	11	90	10	51	80	0	20	0	0.72
305598--305822	124	1.8	124	86	1	326	32	16	26	23	1.96
307599--308222	54	11.4	54	88	2	924	34	16	25	23	1.95
308615--308717	55	1.9	53	82	7	127	66	3	8	20	1.34
308798--308909	31	3.6	29	72	17	84	66	1	2	28	1.15
308823--308900	8	9.6	8	70	21	56	67	2	1	28	1.11
308798--308908	14	7.6	14	66	24	52	67	1	2	27	1.14
308827--308907	19	4.3	18	73	18	60	67	2	1	28	1.11
308809--308908	16	6.1	16	72	22	75	68	2	2	28	1.12
309103--309149	23	2.0	23	84	15	62	70	0	2	27	0.99
309557--309649	37	2.5	37	83	0	114	31	11	13	43	1.81
310411--311686	106	12.0	106	91	1	1923	22	18	24	34	1.96
313241--313302	16	3.9	16	82	15	60	1	9	9	79	1.02
313228--313304	23	3.3	22	75	17	66	1	11	10	76	1.08
313251--313300	26	1.9	26	84	15	68	0	10	10	80	0.92
318057--318086	2	15.5	2	93	6	53	53	0	0	46	1.00
318901--319405	55	9.2	56	93	1	751	34	14	22	27	1.94
323069--323278	65	3.3	63	78	14	191	27	18	23	30	1.98
323582--323692	36	3.1	36	76	12	120	21	21	17	39	1.92
323784--324016	84	2.8	84	81	0	286	31	22	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324832--324870	14	2.7	15	88	4	53	28	0	0	71	0.86
324977--325013	2	18.5	2	100	0	74	48	0	0	51	1.00
325200--325279	9	8.7	9	71	15	56	18	5	3	72	1.18
325207--325269	23	2.7	23	83	11	76	19	6	4	69	1.28
325252--325284	10	3.4	10	87	4	50	12	0	0	87	0.53
325235--325305	9	7.4	9	75	13	54	14	4	2	78	1.01
325231--325341	14	7.8	13	73	14	62	16	4	3	75	1.10
327031--327075	14	3.3	14	85	14	67	24	2	0	73	0.95
327610--327647	2	19.0	2	100	0	76	50	0	0	50	1.00
330189--330227	16	2.4	16	91	0	60	23	12	17	46	1.83
330308--330338	16	1.9	16	93	0	53	29	12	12	45	1.80
330129--330403	112	2.5	112	98	0	532	28	11	15	44	1.81
340124--340194	23	3.0	23	70	10	63	42	1	1	54	1.17
340459--340497	16	2.5	16	83	4	53	58	0	0	41	0.98
344118--344201	21	3.9	21	70	11	53	14	23	36	25	1.92
345288--345334	15	3.1	15	100	0	94	34	31	19	14	1.92
345479--345528	12	4.2	12	82	7	66	38	24	6	32	1.79
345822--345998	64	2.8	64	86	1	239	26	19	21	32	1.97
345822--346046	64	3.5	64	84	3	222	27	20	20	32	1.97
352250--352296	15	3.1	15	100	0	94	34	31	19	14	1.92
352441--352490	12	4.2	12	82	7	66	38	24	6	32	1.79
352784--352960	64	2.8	64	85	1	230	26	18	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352784--353008	64	3.5	64	82	3	213	27	19	20	32	1.97
357195--357234	21	1.9	21	85	10	55	35	10	2	52	1.48
369709--369748	20	2.0	20	85	0	53	55	7	0	37	1.29
374905--374969	24	3.0	23	82	10	75	47	29	10	12	1.75
376743--376791	18	2.7	18	100	0	98	22	0	48	28	1.50
378103--378144	22	2.0	22	85	4	59	38	19	9	33	1.84
378705--378752	15	3.2	15	90	0	78	41	16	27	14	1.87
379406--380123	361	2.0	361	96	0	1321	32	19	18	29	1.96
381033--381078	24	2.0	23	91	4	74	47	26	10	15	1.78
384888--384917	13	2.2	13	94	5	51	43	0	3	53	1.17

Tables:   1   2   3   4