genome.fa.s8539.2.7.7.80.10.50.1000.29.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   30   31   

This is table  29  of  31  ( 3630 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)
5590366--5591060	200	3.5	199	83	5	829	40	14	14	30	1.85
5591095--5591221	64	2.0	63	87	3	184	32	12	11	43	1.79
5593360--5593402	17	2.5	17	100	0	86	34	9	13	41	1.77
5596437--5596489	21	2.5	21	84	0	70	20	26	18	33	1.96
5596479--5596543	21	3.2	20	78	6	78	36	23	21	18	1.95
5597422--5597475	24	2.2	24	93	0	90	20	18	20	40	1.91
5599975--5600029	20	2.8	19	83	2	65	40	21	20	18	1.92
5600020--5600071	14	3.4	14	72	23	50	44	19	25	11	1.84
5600002--5600128	33	3.8	33	95	0	227	44	18	24	12	1.84
5599982--5600126	19	8.4	18	68	22	89	44	18	23	13	1.85
5600138--5600217	33	2.4	33	91	0	124	10	20	22	47	1.79
5600157--5600217	19	3.5	19	68	21	60	11	21	21	45	1.82
5600324--5600360	14	2.6	14	91	0	65	45	21	0	32	1.52
5602268--5602369	14	6.6	14	74	18	87	47	20	24	7	1.77
5602283--5602390	33	3.3	33	94	2	191	46	21	23	9	1.80
5602557--5602841	94	3.1	93	92	2	455	48	17	11	22	1.80
5604527--5604639	33	3.1	38	76	17	130	45	19	23	11	1.83
5604527--5604639	19	6.1	19	79	13	128	45	19	23	11	1.83
5604673--5604716	20	2.2	20	95	0	79	15	9	25	50	1.74
5624626--5624669	20	2.2	20	91	0	70	29	15	38	15	1.89
5628686--5628715	15	2.1	14	93	6	51	36	0	0	63	0.95
5633463--5633556	34	2.6	36	85	9	122	45	8	1	44	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5633581--5633905	37	9.0	38	71	18	139	44	7	4	44	1.50
5633477--5633755	100	2.8	102	77	16	307	44	6	3	46	1.44
5633581--5633915	36	9.2	36	74	14	264	43	7	4	45	1.50
5634555--5635338	84	9.4	84	78	5	765	24	20	25	29	1.99
5634536--5635339	249	3.2	247	87	3	1053	24	20	25	29	1.99
5634536--5635338	165	4.9	165	81	7	799	24	20	25	29	1.99
5640072--5640098	12	2.2	12	100	0	54	55	0	7	37	1.28
5640468--5640533	2	33.5	2	96	3	125	51	0	0	48	1.00
5641683--5641967	100	2.8	99	80	9	267	44	5	3	46	1.45
5641759--5642125	37	10.2	36	75	12	276	43	6	4	45	1.51
5641840--5641895	27	2.0	27	89	6	85	42	5	3	48	1.43
5641683--5642127	37	12.6	35	73	16	273	43	6	4	45	1.49
5645917--5645972	14	4.3	14	78	17	66	10	12	23	53	1.69
5645924--5645992	24	2.9	24	86	0	102	13	10	18	57	1.63
5646624--5646690	16	4.3	16	86	3	84	10	7	17	64	1.47
5650160--5650200	16	2.5	16	88	4	55	68	0	4	26	1.10
5650403--5650450	23	2.1	23	84	7	62	62	4	16	16	1.48
5650426--5650463	19	2.0	19	89	0	58	52	2	23	21	1.59
5650703--5650760	30	2.0	29	86	3	80	72	0	6	20	1.07
5651911--5651949	13	3.0	13	82	10	53	53	0	2	43	1.14
5651911--5651948	7	5.7	7	84	9	53	55	0	2	42	1.14
5651903--5651951	24	2.0	24	84	7	64	48	0	6	44	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5652177--5652218	20	2.1	20	100	0	84	33	16	23	26	1.96
5652276--5653400	210	5.5	209	93	3	1675	22	17	25	34	1.96
5652276--5653400	315	3.7	314	87	6	1670	22	17	25	34	1.96
5654129--5654161	15	2.1	16	88	5	50	0	15	3	81	0.80
5654140--5654172	9	3.7	9	91	0	57	0	12	0	87	0.53
5660616--5660919	152	2.0	152	98	1	592	18	27	28	25	1.98
5664716--5664762	20	2.3	20	82	7	60	57	4	21	17	1.56
5664903--5664954	25	2.2	23	83	13	61	71	0	7	21	1.11
5666092--5666130	13	3.0	13	82	10	53	53	0	2	43	1.14
5666092--5666129	7	5.7	7	84	9	53	55	0	2	42	1.14
5666084--5666132	24	2.0	24	84	7	64	48	0	6	44	1.27
5666428--5666498	2	36.5	2	91	5	119	49	1	0	49	1.09
5668034--5668099	21	3.0	22	93	4	116	27	25	25	21	1.99
5668338--5668409	29	2.5	29	90	0	108	38	12	11	37	1.79
5668716--5668856	66	2.2	64	87	5	194	19	28	24	28	1.98
5668837--5668877	20	2.0	20	85	0	55	17	26	24	31	1.97
5674890--5674956	22	3.0	22	100	0	134	26	26	26	19	1.99
5675176--5675234	30	1.9	31	86	3	84	33	22	6	37	1.80
5675249--5675320	29	2.5	29	90	0	108	38	12	11	37	1.79
5675627--5675775	66	2.2	66	87	5	203	18	28	26	26	1.98
5675755--5675797	21	2.0	21	86	0	59	16	25	27	30	1.97
5675627--5675797	66	2.6	65	84	8	186	18	28	25	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5676813--5676853	21	2.0	21	85	9	57	68	2	9	19	1.29
5677994--5678054	31	2.0	31	87	3	88	39	3	6	50	1.45
5681764--5681819	22	2.6	22	81	10	55	51	1	0	46	1.11
5685148--5685272	31	4.0	31	92	2	198	37	22	19	20	1.94
5686231--5686276	21	2.2	21	84	0	56	13	26	30	30	1.93
5689366--5689490	31	4.0	31	91	2	189	38	22	18	20	1.93
5690449--5690494	21	2.2	21	84	0	56	13	26	30	30	1.93
5691738--5692363	277	2.3	277	91	2	981	21	19	24	33	1.97
5691738--5692363	138	4.5	137	89	2	930	21	19	24	33	1.97
5692520--5692569	23	2.2	23	82	7	57	48	0	20	32	1.50
5693377--5693426	21	2.4	21	93	0	91	24	26	30	20	1.98
5693404--5693509	42	2.5	42	77	6	106	21	20	34	22	1.96
5695032--5695082	17	3.1	17	72	13	52	62	0	1	35	1.06
5695257--5695294	20	2.0	19	85	10	51	60	0	0	39	0.97
5695235--5695291	17	3.4	17	70	18	55	57	0	1	40	1.09
5695227--5695303	34	2.3	33	84	8	95	62	0	1	36	1.04
5707503--5707892	185	2.1	185	90	3	626	45	8	3	42	1.50
5712285--5712309	3	8.3	3	100	0	50	68	0	0	32	0.90
5713954--5714028	35	2.1	35	90	0	114	58	17	6	17	1.59
5718830--5718868	19	2.1	19	95	0	69	20	38	15	25	1.92
5718816--5718974	65	2.5	65	86	3	205	30	25	16	27	1.97
5725743--5725786	21	2.1	21	86	0	61	9	36	15	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5726839--5726877	19	2.1	19	95	0	69	20	38	15	25	1.92
5726825--5726983	65	2.5	65	85	3	196	30	25	16	28	1.97
5729608--5729659	24	2.2	24	86	6	70	61	0	1	36	1.07
5729612--5729659	25	1.9	26	87	8	73	60	0	2	37	1.09
5730170--5730245	38	2.0	38	89	0	116	53	15	9	21	1.69
5730550--5730664	39	3.0	39	71	14	123	30	25	26	17	1.97
5740907--5740948	21	2.0	21	95	0	75	16	40	28	14	1.88
5743700--5743741	20	2.1	20	90	0	66	16	40	26	16	1.90
5746448--5746486	20	1.9	21	89	5	62	17	35	28	17	1.94
5749439--5749542	37	2.7	39	80	5	140	30	25	25	18	1.98
5749527--5749628	39	2.6	39	82	3	125	32	26	27	13	1.94
5751256--5751294	2	19.5	2	100	0	78	51	0	0	48	1.00
5751579--5751686	46	2.4	45	85	6	146	34	13	19	32	1.91
5755968--5756059	41	2.2	41	80	7	105	31	19	23	25	1.98
5756142--5756270	42	3.1	41	79	11	113	34	16	20	28	1.94
5758156--5758328	81	2.1	81	86	0	238	14	36	19	29	1.91
5766518--5766599	43	1.9	43	94	0	146	30	24	17	28	1.97
5770316--5770354	12	3.6	12	74	25	50	15	0	15	69	1.20
5770315--5770357	20	2.2	20	100	0	86	13	0	13	72	1.13
5771517--5771581	28	2.4	27	82	5	87	30	27	3	38	1.72
5791849--5791900	24	2.2	24	96	0	95	19	28	5	46	1.73
5791859--5791909	24	2.3	22	87	12	70	19	23	7	49	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5794126--5794252	20	6.3	20	79	8	134	40	23	15	20	1.91
5794126--5794252	40	3.2	40	93	0	209	40	23	15	20	1.91
5794142--5794255	20	5.7	20	85	4	167	39	24	16	19	1.92
5794370--5794420	22	2.3	22	96	0	93	19	45	15	19	1.86
5794770--5794803	14	2.4	14	85	0	50	50	26	14	8	1.72
5794844--5794877	14	2.4	14	95	0	59	8	20	20	50	1.75
5794826--5794863	20	1.9	20	100	0	76	7	21	21	50	1.74
5797056--5797154	21	4.7	21	76	9	103	24	35	19	21	1.96
5797056--5797154	42	2.4	42	81	6	128	24	35	19	21	1.96
5798450--5798624	66	2.6	64	89	8	244	28	2	17	52	1.56

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   30   31