genome.fa.s9587.2.7.7.80.10.50.1000.2.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   27   28   29   

This is table  2  of  29  ( 3457 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)
301447--301559	34	3.5	32	79	14	99	5	18	0	76	0.98
301456--301545	9	10.6	8	80	12	76	6	18	0	74	1.03
301438--301563	42	3.0	41	81	14	125	4	19	0	76	0.96
301455--301546	25	3.6	25	77	16	100	6	18	0	75	1.02
301490--301557	15	4.9	14	72	13	61	4	14	0	80	0.85
301446--301545	17	5.8	17	76	19	93	6	19	0	75	1.01
301437--301561	9	14.1	9	75	12	64	4	18	0	76	0.95
305199--305226	14	2.0	14	100	0	56	71	7	7	14	1.29
306712--306755	18	2.4	17	82	14	52	65	0	2	31	1.05
307529--307562	17	2.0	17	88	11	52	64	0	5	29	1.17
307568--307600	16	2.1	16	88	11	50	60	0	0	39	0.97
308856--308921	22	3.0	22	81	2	69	65	4	0	30	1.13
308874--308921	25	2.0	24	88	8	71	68	4	0	27	1.07
309994--310082	32	2.8	32	85	0	115	26	14	25	32	1.95
310260--310334	36	2.1	36	95	5	134	38	21	16	24	1.92
310296--310460	64	2.6	65	94	0	287	34	22	15	27	1.94
310472--310596	65	1.9	65	86	3	180	33	20	15	30	1.94
310606--310949	121	2.8	120	84	1	445	34	25	16	23	1.95
311003--311449	84	5.4	84	80	6	478	34	21	19	24	1.96
311028--311477	164	2.7	165	81	6	523	34	21	18	26	1.96
312725--312805	32	2.5	33	86	4	103	29	13	20	35	1.91
312975--313204	64	3.6	64	90	2	345	34	19	13	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313358--313700	121	2.8	120	84	0	461	32	23	18	25	1.97
313755--314198	84	5.3	84	85	3	506	34	22	19	22	1.96
313755--314208	164	2.7	164	82	5	536	34	22	19	23	1.97
314598--314678	3	27.7	3	95	5	148	34	0	0	65	0.93
316039--316079	22	2.0	20	85	9	55	24	2	7	65	1.30
329354--329431	23	3.4	23	77	7	86	16	2	21	58	1.49
329702--329747	21	2.2	21	88	3	67	41	15	2	41	1.59
332521--332595	13	5.8	13	83	13	84	80	2	14	2	0.94
332516--332576	24	2.5	25	79	12	74	81	1	14	1	0.84
337866--337895	14	2.1	14	93	0	51	40	20	3	36	1.69
338165--338504	107	3.2	105	77	8	319	44	3	8	43	1.52
338165--338442	37	7.8	36	83	6	305	42	3	8	46	1.50
338165--338448	36	7.9	36	82	7	310	43	3	8	45	1.49
338522--338582	9	7.2	9	80	14	67	18	1	1	78	0.91
338522--338581	17	3.6	16	78	13	68	18	1	1	78	0.92
338522--338581	4	14.5	4	76	13	59	18	1	1	78	0.92
343673--343757	26	3.3	26	88	4	120	21	11	30	36	1.89
347300--347384	26	3.3	26	88	4	120	21	11	30	36	1.89
350932--351016	26	3.3	26	88	4	120	21	11	30	36	1.89
355527--355591	28	2.4	27	82	10	78	29	6	7	56	1.51
365200--365239	6	6.7	6	91	8	64	12	15	2	70	1.28
365728--365800	26	2.9	24	82	10	83	36	12	5	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367880--367964	44	2.0	43	90	2	134	28	20	10	41	1.85
370076--370136	30	2.0	30	100	0	122	29	6	37	26	1.81
372129--372175	21	2.2	22	77	11	53	46	6	2	44	1.40
381243--381285	20	2.1	21	82	4	52	27	6	11	53	1.63
384472--384500	14	2.0	15	93	6	51	34	20	3	41	1.69
391718--391835	2	62.0	2	74	18	101	47	3	1	47	1.29
396541--396606	33	2.0	33	100	0	132	24	18	12	45	1.83
406441--406466	2	13.0	2	100	0	52	50	0	0	50	1.00
407664--407921	129	2.0	129	98	0	498	29	12	22	36	1.90
408040--408070	3	10.0	3	93	6	53	32	0	3	64	1.09
409222--409258	18	2.1	18	100	0	74	5	29	37	27	1.79
410149--410198	23	2.2	23	85	0	64	38	12	16	34	1.85
410158--410206	23	2.1	23	88	0	71	38	10	18	32	1.84
410236--410285	23	2.2	23	81	0	55	40	12	14	34	1.82
410245--410293	23	2.1	23	84	0	62	40	10	16	32	1.82
410132--410372	87	2.8	87	95	0	428	43	13	12	30	1.80
410332--410394	23	2.7	23	97	0	117	33	11	22	33	1.89
412676--412712	17	2.2	17	100	0	74	10	24	45	18	1.81
420648--420922	110	2.5	110	92	1	433	46	11	10	32	1.74
421386--421755	111	3.3	111	86	2	494	44	9	11	34	1.74
427375--427423	17	3.1	17	77	11	50	63	2	0	34	1.06
427505--427562	22	2.5	24	86	8	75	56	3	3	36	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432490--432587	26	3.7	26	86	5	126	41	21	19	17	1.90
437590--437630	18	2.2	20	86	8	59	24	19	4	51	1.66
441675--441945	58	5.0	52	72	13	190	30	11	18	39	1.86
441669--441945	110	2.6	107	85	6	353	30	11	18	39	1.86
442178--442719	39	14.0	39	90	0	856	31	16	16	35	1.92
442178--442719	194	2.8	193	91	1	845	31	16	16	35	1.92
442651--442717	22	3.3	22	63	26	56	37	16	14	31	1.89
442794--442929	59	2.3	59	84	0	164	30	31	15	22	1.95
449959--450040	42	2.0	42	90	0	128	30	18	25	25	1.98
450682--450736	22	2.5	22	90	3	83	32	12	10	43	1.78
451332--451484	45	3.4	44	72	8	148	39	14	23	22	1.91
451333--451496	89	1.8	89	89	2	258	40	14	23	22	1.90
453464--453511	17	2.9	16	71	17	53	50	0	2	47	1.12
453465--453511	15	2.8	18	71	18	55	51	0	2	46	1.13
455718--455769	18	3.1	16	84	13	61	23	1	1	73	1.04
456827--456863	18	2.0	19	89	5	58	56	0	2	40	1.13
463274--463306	15	2.3	15	89	5	50	51	0	12	36	1.39
463712--463740	2	14.5	2	100	0	58	51	0	0	48	1.00
464431--464474	22	2.0	22	86	4	61	72	4	0	22	1.02
465428--465472	24	1.9	23	86	4	63	31	0	4	64	1.13
467348--467396	2	24.5	2	82	0	53	42	2	4	51	1.32
469039--469085	22	2.4	19	77	19	51	42	6	4	46	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469276--469334	22	2.7	23	82	15	79	50	6	6	35	1.55
469285--469334	23	2.2	22	89	10	75	52	6	6	36	1.51
469453--469537	39	2.4	35	81	13	86	42	15	10	31	1.81
469574--469705	32	4.1	32	76	11	112	50	8	4	37	1.53
469586--469705	65	1.9	62	83	8	152	50	8	4	36	1.52
469586--469718	64	2.1	64	80	10	148	51	9	5	34	1.56
470275--470300	2	13.0	2	100	0	52	50	0	0	50	1.00
472347--472381	18	1.9	18	100	0	70	31	28	17	22	1.96
476024--476298	108	2.5	109	84	4	333	30	10	18	40	1.84
476356--476474	43	2.8	41	74	8	105	29	19	20	31	1.97
476553--477579	39	26.5	39	86	3	1371	32	16	16	34	1.92
477060--477154	19	4.9	20	65	14	65	31	13	18	35	1.90
477275--477373	19	5.2	19	60	13	51	34	18	17	30	1.94
477601--477788	59	3.2	57	78	9	207	30	27	17	24	1.97
478934--479194	132	2.0	132	87	6	386	33	9	20	36	1.85
485324--485377	21	2.6	21	100	0	108	31	11	11	46	1.74
485696--485734	17	2.3	16	83	12	51	51	7	10	30	1.64
489547--489805	129	2.0	130	97	0	493	23	18	19	38	1.93
494128--494157	15	2.0	15	100	0	60	60	0	0	40	0.97
494138--494193	29	1.9	29	85	0	76	57	12	3	26	1.52
496159--496492	131	2.6	132	84	2	424	41	16	9	33	1.80
498599--498653	3	18.7	3	78	10	60	61	1	0	36	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498599--498653	15	3.7	15	90	2	85	61	1	0	36	1.06
498793--499248	134	3.4	132	82	1	534	31	15	22	31	1.95
500491--500622	6	21.7	6	75	18	64	3	16	0	78	0.93
500488--500582	16	6.2	15	78	18	83	3	17	1	77	0.95
500495--500575	20	4.1	20	75	10	76	3	14	1	80	0.92
500477--500568	35	2.6	35	80	14	100	5	13	1	80	0.94
500501--500581	40	2.0	40	85	4	110	3	16	1	79	0.95
500492--500621	25	4.9	26	73	14	81	3	16	0	79	0.93
500511--500610	40	2.5	39	78	15	96	5	15	0	80	0.88
500477--500602	16	7.8	15	73	20	55	4	15	0	78	0.96

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   27   28   29