genome.fa.s9620.2.7.7.80.10.50.1000.2.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: VEPZ01009620.1 Hibiscus syriacus cultivar Beakdansim tig00117009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1051670

Tables:   1   2   3   4   

This is table  2  of  4  ( 465 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)
289670--289783	56	2.0	57	98	1	221	32	15	15	35	1.90
294075--294120	23	2.0	23	82	0	56	10	19	13	56	1.66
300513--300568	27	2.1	27	93	3	96	50	17	12	19	1.78
302948--303014	35	1.9	35	87	0	98	58	7	4	29	1.46
305847--306083	77	3.1	76	71	12	189	27	16	17	38	1.92
307088--307132	10	4.6	10	77	22	51	2	11	6	80	0.99
307090--307139	18	2.7	19	78	12	59	2	14	6	78	1.03
314364--314450	16	5.2	17	70	20	58	63	1	2	33	1.15
314373--314451	42	1.9	41	84	2	104	62	1	2	34	1.17
314562--314621	24	2.5	23	79	12	68	61	0	1	36	1.06
314595--314625	14	2.2	14	94	0	53	64	0	0	35	0.94
318521--318554	11	3.1	11	82	0	50	26	26	8	38	1.85
320748--320780	3	11.0	3	93	0	57	3	30	0	66	1.06
321708--321763	22	2.5	22	88	0	76	21	19	26	32	1.97
324084--324119	18	2.0	18	89	10	56	33	2	0	63	1.08
327648--327702	21	2.5	22	82	11	78	72	0	20	7	1.07
327650--327702	20	2.5	21	84	12	72	71	0	20	7	1.10
327675--327788	18	6.3	18	74	9	74	73	0	18	7	1.10
327729--327790	19	3.2	20	88	6	92	77	0	11	11	1.00
327651--327760	23	4.8	22	73	21	77	72	0	20	6	1.11
327729--327815	19	4.6	19	78	16	83	73	0	14	11	1.09
327651--327790	19	6.5	21	71	24	73	73	0	17	7	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327717--327791	19	4.1	18	77	13	82	78	0	12	9	0.96
329035--329343	134	2.3	132	86	3	417	31	23	16	28	1.96
329606--329650	22	2.0	22	87	8	65	48	42	6	2	1.41
331743--331987	132	1.9	128	83	5	321	34	9	14	41	1.78
336956--337363	190	2.1	191	85	3	561	38	7	10	44	1.65
341485--341519	17	2.1	17	89	10	54	42	11	8	37	1.72
342060--342242	101	1.8	101	91	0	303	28	28	19	23	1.98
349145--349545	188	2.1	187	80	9	460	38	5	10	44	1.64
350355--350549	96	2.0	100	94	4	353	46	24	6	23	1.76
361807--361844	11	3.0	13	81	18	53	31	0	5	63	1.17
368394--368615	81	2.7	81	82	3	257	33	15	18	32	1.92
369625--369690	30	2.2	30	86	2	87	39	15	15	30	1.88
371292--371385	41	2.2	43	85	9	122	22	25	22	29	1.99
371449--371632	42	4.3	43	78	7	178	25	21	17	35	1.95
371449--371632	86	2.2	85	83	1	224	25	21	17	35	1.95
372008--372039	16	1.9	16	93	6	55	50	12	0	37	1.41
376138--376174	19	1.9	19	94	0	65	29	29	21	18	1.97
376994--377283	145	2.0	145	96	2	539	33	6	4	54	1.48
378386--378914	193	2.8	192	85	6	673	39	11	11	37	1.78
379380--379455	38	2.0	38	92	0	125	36	21	15	26	1.93
380916--381036	60	2.0	60	100	0	242	28	11	21	38	1.88
382735--382900	84	2.0	83	97	2	316	29	39	9	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383601--383649	21	2.3	21	96	0	89	44	2	0	53	1.12
383603--383637	18	1.9	18	94	0	61	42	2	0	54	1.15
383642--383674	3	11.0	3	100	0	66	66	0	0	33	0.92
383857--384005	42	3.5	42	73	10	131	29	16	22	31	1.96
383813--384010	86	2.3	86	84	0	261	29	17	21	30	1.96
384132--384591	234	2.0	237	83	3	590	34	16	17	31	1.92
384472--384578	42	2.6	41	77	4	108	29	20	25	24	1.99
386338--386797	54	8.5	54	88	0	643	38	16	13	32	1.87
391388--391519	66	2.0	65	97	1	246	38	29	6	25	1.80
393567--393619	21	2.4	21	78	6	52	30	16	5	47	1.70
394212--394261	24	2.3	23	86	13	70	26	22	20	32	1.98
394249--394389	64	2.2	63	80	9	153	26	23	17	32	1.96
402276--402314	18	2.1	19	90	4	62	58	0	0	41	0.98
406109--406157	23	2.1	24	84	3	64	16	14	20	48	1.80
416486--416817	43	7.4	46	83	7	405	41	11	20	25	1.86
416486--416817	45	7.4	45	82	9	358	41	11	20	25	1.86
416486--416817	88	3.7	89	86	6	415	41	11	20	25	1.86
417921--418067	74	2.0	73	94	4	260	43	29	2	23	1.68
417923--418073	73	2.1	73	92	5	252	45	29	2	21	1.66
419513--419587	27	2.7	27	84	8	98	45	21	14	18	1.85
421625--421661	17	2.2	17	100	0	74	10	21	48	18	1.78
422701--422782	26	3.1	26	65	25	71	40	23	13	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422701--422808	54	2.0	54	100	0	216	40	22	14	22	1.90
427221--427392	85	2.0	85	100	0	344	40	19	9	30	1.83
428874--428916	5	8.8	5	84	5	61	4	18	55	20	1.60
430275--430353	32	2.5	31	81	4	86	16	25	26	31	1.96
431878--432036	79	2.0	79	98	0	309	35	6	15	42	1.73
432800--432839	20	2.1	19	90	4	62	35	7	32	25	1.84
434850--434895	24	1.9	24	95	0	83	32	0	0	67	0.91
439795--439839	2	22.0	2	95	4	81	48	0	2	48	1.13
440473--440524	20	2.6	20	74	17	54	51	5	3	38	1.44
442006--442064	31	1.9	31	89	0	91	25	6	5	62	1.41
444363--444404	22	1.9	22	95	0	75	11	23	45	19	1.83
444375--444420	14	3.1	14	87	9	56	10	19	47	21	1.80
444417--444533	19	6.1	19	79	5	101	30	25	23	20	1.98
444457--444495	20	1.9	20	94	5	69	38	25	20	15	1.92
454645--454698	25	2.2	25	96	0	99	12	31	31	24	1.93
454794--455104	2	169.0	2	69	26	192	51	4	1	43	1.29
454781--455086	98	3.1	94	78	17	283	52	3	1	42	1.28
454782--455104	7	45.3	7	72	22	198	52	4	1	42	1.28
455602--455752	79	1.9	79	83	5	198	23	17	25	33	1.97
457888--458076	3	59.3	3	78	18	172	59	3	0	37	1.14
457953--458163	2	112.5	2	66	29	94	52	5	0	41	1.29
457899--458174	40	6.8	41	74	22	185	55	4	0	39	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457896--458158	83	3.2	84	81	14	243	55	4	0	39	1.22
457892--458174	24	11.4	25	75	17	133	56	4	0	39	1.22
458297--458331	18	2.0	17	88	5	52	45	0	0	54	0.99
460065--460207	78	1.8	77	83	4	189	39	8	16	36	1.78
460544--460571	14	2.0	14	100	0	56	42	0	21	35	1.53
460604--460830	77	2.9	76	76	13	210	36	6	15	41	1.73
459946--460714	264	2.9	262	77	7	674	39	10	16	33	1.84
464736--464977	96	2.5	96	81	9	255	36	19	9	35	1.83
464736--464997	95	2.7	94	75	11	221	37	19	9	33	1.84
468533--468603	16	4.5	15	76	11	70	21	23	18	36	1.95
468633--468675	16	2.7	16	85	7	61	27	16	9	46	1.77
468807--468835	14	2.0	15	93	6	51	55	0	0	44	0.99
468808--468866	23	2.4	25	86	13	88	59	0	0	40	0.97
469297--469388	21	4.3	21	80	6	105	41	3	6	48	1.45
469306--469346	2	20.0	2	90	5	64	46	0	2	51	1.14
469877--469947	24	3.0	22	74	13	61	59	1	1	38	1.15
469880--469947	23	2.8	24	78	17	77	60	1	1	36	1.15
470220--470277	14	4.1	14	76	8	55	20	0	27	51	1.47
470361--470416	2	27.0	2	82	7	67	48	3	3	44	1.37
469341--470368	509	2.0	492	88	7	1449	36	9	11	42	1.73
470548--470591	24	1.9	22	86	9	61	61	0	2	36	1.09
470794--470831	20	1.9	20	94	0	67	28	18	15	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470903--470954	21	2.5	21	81	6	52	17	1	30	50	1.57
471043--471086	2	22.5	2	95	4	81	50	0	0	50	1.00
470957--471052	48	2.0	48	85	4	131	38	7	6	47	1.56
472331--472362	15	2.1	15	100	0	64	25	37	0	37	1.56
473722--473758	13	2.8	13	91	0	65	16	48	21	13	1.80
473718--473784	31	2.2	31	88	0	98	19	47	17	14	1.82
473736--473790	18	2.9	18	78	8	56	20	45	18	16	1.86
473774--473807	15	2.1	17	89	10	54	14	35	23	26	1.94
476592--477234	42	15.1	42	90	2	901	17	26	24	31	1.97
476592--477234	128	5.0	128	89	2	936	17	26	24	31	1.97

Tables:   1   2   3   4