genome.fa.s8235.2.7.7.80.10.50.1000.2.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: VEPZ01008235.1 Hibiscus syriacus cultivar Beakdansim tig00110879_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  820011

Tables:   1   2   3   4   

This is table  2  of  4  ( 451 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)
236823--236978	54	2.9	54	92	0	258	23	23	16	37	1.93
238897--239119	114	2.0	114	94	0	392	30	21	15	32	1.94
243533--243567	17	2.1	17	100	0	70	17	5	34	42	1.73
247136--247178	22	1.9	22	85	4	59	55	0	0	44	0.99
248295--248345	3	17.3	3	80	11	61	58	0	0	41	0.98
248295--248343	20	2.4	20	93	3	80	59	0	0	40	0.98
248966--249030	32	2.0	32	90	0	103	40	18	13	27	1.89
257897--258169	42	6.5	42	81	1	287	27	24	24	24	2.00
262801--262846	20	2.3	20	92	0	74	36	2	10	50	1.50
264051--264135	35	2.5	33	76	14	82	27	7	10	55	1.60
265993--266040	14	3.3	14	77	11	51	70	6	2	20	1.19
268446--268504	29	2.0	29	96	0	109	49	15	13	22	1.79
273121--273177	27	2.1	28	96	3	107	49	14	14	22	1.79
275755--275877	31	4.0	31	96	0	219	20	18	22	38	1.94
279532--279637	31	3.5	31	90	5	180	18	19	20	40	1.92
279597--279969	185	2.0	184	98	1	730	27	18	21	31	1.97
283630--283679	15	3.4	15	76	13	59	48	8	2	42	1.44
284907--284941	2	17.5	2	100	0	70	51	0	0	48	1.00
290858--290905	3	16.0	3	100	0	96	33	0	0	66	0.92
294640--294925	150	1.9	144	85	5	385	18	21	16	43	1.87
308582--308615	14	2.4	14	90	5	50	52	2	0	44	1.16
310010--310073	28	2.3	28	97	0	119	34	26	14	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310203--310239	17	2.2	17	100	0	74	13	16	10	59	1.61
312530--312582	22	2.4	22	87	0	70	33	20	3	41	1.70
316706--316768	29	2.2	29	83	11	85	39	9	15	34	1.80
317414--317634	112	2.0	109	92	2	370	35	17	17	29	1.92
328642--328820	61	3.0	61	80	7	170	32	17	6	43	1.75
328678--328820	61	2.3	60	84	2	178	33	18	5	42	1.73
328949--329104	60	2.6	60	83	8	176	40	4	21	33	1.73
328993--329140	60	2.5	60	77	12	151	43	6	17	33	1.74
336009--336060	11	4.6	11	81	13	61	25	23	25	26	2.00
338553--338594	22	1.9	22	85	0	57	14	30	30	23	1.94
339153--339265	44	2.6	43	75	10	111	40	7	15	35	1.77
339598--339691	23	4.0	24	73	14	88	20	23	24	31	1.98
345255--345294	16	2.4	17	83	4	55	22	2	25	50	1.62
346541--346595	2	27.5	2	100	0	110	49	0	0	50	1.00
346677--346718	22	2.0	22	90	4	68	16	23	35	23	1.95
347952--348107	7	22.3	7	72	0	69	19	0	30	49	1.53
348000--348102	21	4.9	21	80	2	91	21	0	25	52	1.53
348007--348081	14	5.4	14	82	6	89	21	1	26	50	1.56
348242--348284	15	2.9	15	82	0	50	58	2	2	37	1.24
352183--352308	51	2.3	55	81	14	170	34	22	12	30	1.91
352873--352959	37	2.4	37	98	1	167	24	16	19	40	1.91
354217--354281	31	2.1	31	88	0	94	30	9	4	55	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354227--354293	31	2.2	31	86	0	89	26	11	8	52	1.68
354396--354472	37	2.1	37	97	0	145	36	16	7	38	1.78
357919--357979	2	30.5	2	96	0	113	47	0	1	50	1.10
359434--359507	39	1.9	38	91	2	121	41	5	8	44	1.57
359686--359745	29	1.9	29	83	12	75	53	3	0	43	1.17
360790--360870	29	2.7	29	90	7	117	14	33	28	23	1.94
360926--360963	14	2.7	14	87	0	58	7	28	39	23	1.83
363327--363374	20	2.4	19	77	19	53	56	14	2	27	1.50
364544--364605	3	19.3	3	84	15	72	67	0	0	32	0.91
364544--364605	19	3.2	19	93	6	99	67	0	0	32	0.91
364546--364606	10	6.2	10	88	11	99	68	0	0	31	0.89
364544--364606	16	3.9	16	80	16	76	68	0	0	31	0.90
364835--365068	46	5.4	44	74	15	175	24	20	29	26	1.99
364881--365120	43	5.7	41	73	11	159	23	20	31	25	1.98
364802--365110	127	2.4	127	93	3	512	24	19	30	25	1.98
365274--365456	66	2.8	63	74	8	161	38	15	19	26	1.91
365797--365871	31	2.4	30	82	8	80	40	13	14	32	1.85
365904--365983	40	2.0	40	87	4	117	37	11	20	31	1.87
365965--366089	64	2.0	64	88	1	189	43	11	14	31	1.80
365987--366210	120	1.9	119	81	8	276	42	12	14	30	1.83
366322--366448	37	3.6	37	69	16	117	44	11	11	31	1.77
366269--366480	67	3.3	66	85	6	265	45	12	11	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
366436--366492	27	2.1	27	93	0	96	45	15	7	31	1.73
366594--366749	83	1.9	82	85	6	217	46	15	11	26	1.80
366594--366745	27	5.6	27	88	6	200	46	15	11	26	1.80
366579--366756	27	6.5	27	87	6	198	47	14	11	26	1.79
366998--367095	36	2.8	35	81	3	117	33	13	18	34	1.89
367275--367356	36	2.3	36	78	4	94	31	12	19	36	1.89
367275--367369	36	2.6	36	78	3	93	35	11	17	34	1.86
367459--367576	36	3.3	35	82	9	148	36	12	16	34	1.86
368122--368149	14	2.0	14	100	0	56	21	0	28	50	1.49
371158--371219	32	2.0	32	93	3	108	59	9	14	16	1.60
375328--375388	3	19.3	3	87	12	79	67	0	0	32	0.91
380498--380542	17	2.6	18	82	13	58	42	0	6	51	1.28
380507--380540	16	2.1	17	88	5	52	41	0	5	52	1.25
388841--388873	10	3.3	10	100	0	66	36	9	9	45	1.68
393268--393313	23	2.0	23	86	0	65	30	26	23	19	1.98
397226--397639	204	2.0	204	97	0	774	42	23	8	25	1.82
413193--413253	3	20.0	3	89	3	95	62	0	0	37	0.96
413501--413693	84	2.3	83	88	2	278	30	16	16	37	1.90
413758--414352	224	2.6	224	96	0	1091	29	18	13	37	1.90
413764--414354	113	5.3	111	82	9	779	29	18	13	38	1.89
414449--414889	124	3.7	123	80	8	450	25	20	14	38	1.91
415694--415733	19	2.1	19	100	0	80	22	17	15	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415758--415812	22	2.5	22	90	0	92	38	14	12	34	1.84
416237--416374	54	2.6	54	84	4	197	21	23	15	39	1.91
425723--425777	16	3.7	15	83	13	69	72	0	1	25	0.94
427889--427958	3	23.0	3	91	2	113	62	0	0	37	0.95
434651--434771	35	3.4	35	71	10	102	38	17	18	25	1.92
434651--434792	72	2.0	72	83	5	180	36	19	19	24	1.95
434651--434791	36	3.9	34	70	16	97	36	19	19	24	1.94
436477--436501	13	1.9	13	100	0	50	48	20	16	16	1.82
436491--436549	19	3.1	19	87	4	75	35	16	25	22	1.95
441836--442299	229	2.0	234	97	2	884	32	15	17	33	1.92
448897--449100	101	2.0	101	97	0	381	32	16	23	28	1.96
451303--451361	12	4.6	13	74	16	52	35	1	1	61	1.16
451623--451659	20	1.9	19	89	10	58	45	10	24	18	1.81
451808--451872	32	2.1	32	85	5	89	46	3	0	50	1.17
452676--452721	16	3.0	15	79	20	51	28	0	32	39	1.57
454362--454750	194	2.0	195	91	2	640	38	22	13	25	1.91
456745--456849	3	35.0	3	90	0	165	62	0	1	34	1.12
457078--457736	114	5.9	113	91	4	987	28	19	13	38	1.89
458192--458801	83	7.4	83	95	2	1106	38	23	10	27	1.88
458779--458824	23	2.0	23	100	0	92	47	26	8	17	1.76
458696--458906	105	2.0	106	99	0	415	39	23	11	25	1.88
458613--458985	188	2.0	185	97	2	703	39	23	11	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458802--459191	161	2.4	164	94	4	698	38	22	11	27	1.89
458802--459191	83	4.8	83	94	4	704	38	22	11	27	1.89
460310--460396	17	5.1	16	80	12	84	2	16	0	81	0.79
460313--460390	25	2.9	26	79	12	86	2	16	0	80	0.82
460310--460393	46	1.9	46	86	11	124	2	15	0	82	0.78
460307--460391	30	2.7	30	82	12	100	2	17	0	80	0.83
460310--460393	11	8.2	10	75	15	73	2	15	0	82	0.78
470825--470862	15	2.8	13	88	11	51	68	2	5	23	1.23
470824--470903	32	2.5	30	80	17	81	68	2	5	23	1.21
471400--471585	98	1.9	97	81	9	227	39	8	10	42	1.68

Tables:   1   2   3   4