genome.fa.s9643.2.7.7.80.10.50.1000.25.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   32   
          33   34   35   36   37   38   39   40   41   

This is table  25  of  41  ( 4862 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)
5258978--5259115	20	6.7	21	73	5	111	35	24	18	21	1.95
5259269--5259298	15	2.0	15	93	0	51	63	0	0	36	0.95
5260004--5260054	24	2.1	25	92	3	86	37	3	5	52	1.44
5262980--5263028	21	2.3	21	96	0	89	30	18	26	24	1.98
5270195--5270356	64	2.5	64	84	5	195	31	17	22	29	1.96
5270242--5270419	64	2.8	64	82	3	189	32	20	20	26	1.97
5270728--5270762	12	2.9	12	100	0	70	34	0	25	40	1.56
5270713--5270774	24	2.5	24	79	5	72	37	4	19	38	1.73
5270919--5270980	15	4.1	15	95	0	115	16	17	32	33	1.92
5277188--5277412	64	3.5	64	84	3	231	32	19	20	28	1.97
5277721--5277767	12	3.9	12	94	0	76	36	2	23	38	1.67
5277912--5277943	15	2.1	15	100	0	64	15	18	31	34	1.93
5281059--5281122	31	2.1	31	96	0	119	42	26	6	25	1.78
5283195--5283226	14	2.1	16	88	11	50	43	3	0	53	1.16
5286281--5286314	2	17.0	2	100	0	68	50	0	0	50	1.00
5286704--5286776	20	3.7	20	94	3	121	27	34	19	19	1.96
5286825--5286874	20	2.5	20	90	0	82	24	30	22	24	1.99
5287684--5287737	24	2.2	24	90	0	81	22	18	18	40	1.91
5290076--5290358	140	2.0	140	99	0	557	27	13	15	43	1.84
5290329--5290479	20	7.8	20	82	8	188	33	22	17	25	1.96
5290329--5290519	40	5.1	39	77	11	186	35	21	18	25	1.96
5290518--5290601	20	4.2	20	87	3	125	16	17	20	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5290719--5290870	27	5.7	27	71	15	104	50	16	2	30	1.59
5290735--5290771	14	2.6	14	95	0	65	48	18	0	32	1.49
5290689--5290831	77	1.9	77	98	0	277	51	16	2	29	1.58
5290690--5290815	36	3.4	36	70	14	119	52	15	3	28	1.58
5290796--5290870	27	2.7	27	87	6	107	50	16	2	30	1.58
5292195--5292297	21	4.9	21	73	4	82	24	20	33	21	1.97
5292175--5292297	42	2.9	42	77	4	124	24	18	34	21	1.96
5292803--5292871	20	3.5	20	89	0	102	36	26	20	17	1.94
5292886--5292948	19	3.3	19	88	0	72	55	25	12	6	1.60
5293005--5293072	20	3.4	20	76	8	66	17	17	25	39	1.91
5294134--5294298	64	2.6	64	84	7	194	31	20	21	26	1.98
5294872--5294925	16	3.4	16	67	23	51	38	12	16	31	1.87
5294868--5295058	31	6.2	31	96	0	355	39	12	14	33	1.84
5294950--5295033	15	5.5	15	64	25	50	40	13	14	32	1.84
5297130--5297184	25	2.2	26	80	9	69	50	21	9	18	1.74
5297331--5297386	20	2.8	20	91	0	85	50	23	16	10	1.76
5297334--5297402	20	3.5	20	89	0	84	42	24	17	15	1.88
5297394--5297464	33	2.2	33	87	5	99	45	22	18	14	1.85
5297423--5297454	14	2.3	14	94	0	55	50	21	21	6	1.71
5298995--5299056	26	2.4	26	100	0	124	30	11	17	40	1.85
5301689--5301751	26	2.3	28	78	15	69	47	1	4	46	1.33
5302426--5302559	3	43.7	3	85	7	180	36	0	0	62	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5304618--5304669	20	2.6	21	76	11	56	26	7	0	65	1.20
5311577--5312079	92	5.5	92	98	0	936	25	13	24	36	1.93
5314672--5314726	22	2.5	22	87	0	83	34	10	14	40	1.81
5315402--5316044	76	8.5	76	97	0	1180	21	21	21	35	1.96
5316170--5316291	3	39.7	3	83	8	156	36	0	0	62	1.01
5321172--5321217	20	2.3	19	89	10	74	54	10	17	17	1.70
5321339--5321385	20	2.4	19	82	10	67	53	10	17	19	1.72
5321348--5321390	20	2.3	19	88	11	63	51	11	16	20	1.75
5323619--5323659	21	1.9	22	85	5	57	41	14	26	17	1.88
5323717--5323782	33	2.0	33	87	0	96	27	0	48	24	1.51
5325578--5325626	19	2.6	19	93	0	80	30	2	10	57	1.43
5325745--5326714	198	4.9	198	98	0	1868	36	15	16	31	1.90
5328178--5328230	12	4.4	12	92	0	70	35	7	33	22	1.83
5328190--5328243	3	18.0	3	84	0	72	37	3	33	25	1.74
5328175--5328243	18	4.0	18	79	11	72	37	5	33	23	1.79
5328186--5328243	12	4.8	12	93	0	80	36	5	32	25	1.78
5329665--5330372	183	3.9	183	96	0	1283	35	14	16	33	1.89
5332840--5332904	25	2.6	25	80	0	85	35	9	13	41	1.77
5333247--5333319	23	3.2	23	88	0	101	34	4	21	39	1.73
5334443--5334600	85	1.9	84	81	9	196	48	10	6	34	1.62
5334839--5335043	100	2.0	100	81	0	248	45	12	13	29	1.79
5334881--5335461	176	3.3	174	84	5	704	42	12	12	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5335206--5335396	100	1.9	100	84	0	256	43	12	10	33	1.77
5335313--5335538	77	3.0	73	81	8	249	44	11	10	33	1.75
5335157--5335633	253	1.9	253	84	3	638	42	11	11	34	1.77
5335314--5335546	76	3.1	74	79	7	256	45	11	10	32	1.74
5336266--5336556	108	2.7	108	84	1	339	36	12	12	39	1.80
5337279--5337332	17	3.4	17	68	19	53	44	0	1	53	1.11
5337245--5337338	30	3.1	31	89	1	145	44	1	5	48	1.32
5346719--5346791	21	3.5	21	81	3	85	21	21	19	36	1.95
5346697--5346900	41	5.0	41	73	11	118	31	20	19	28	1.96
5346781--5346892	20	5.6	20	81	4	127	37	19	21	21	1.94
5347102--5347159	27	2.1	27	83	0	71	41	31	10	17	1.83
5347447--5347491	19	2.4	19	88	0	63	46	24	17	11	1.81
5347487--5347579	19	5.1	19	77	15	106	11	23	18	46	1.82
5347492--5347554	33	1.9	33	100	0	126	9	23	20	46	1.80
5349381--5349413	17	1.9	17	88	11	50	24	15	12	48	1.78
5349266--5349452	95	2.0	91	90	4	293	21	11	17	49	1.78
5349726--5349792	21	3.2	21	66	6	55	23	35	20	19	1.95
5351132--5351167	14	2.6	14	95	0	63	30	0	25	44	1.54
5351274--5351351	19	4.4	19	79	15	103	46	19	21	12	1.83
5351274--5351372	52	1.9	52	91	0	162	46	21	21	11	1.82
5351378--5351489	33	3.4	33	85	9	156	14	24	18	42	1.87
5351398--5351489	19	5.4	19	67	24	78	16	21	17	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5353781--5353817	12	3.1	12	100	0	74	0	27	0	72	0.84
5353992--5354045	24	2.2	24	90	0	81	40	20	16	22	1.91
5354830--5354881	21	2.5	20	87	9	70	36	17	25	21	1.94
5354866--5354957	20	4.6	20	73	8	69	40	21	17	20	1.92
5355244--5355292	19	2.6	19	96	0	89	16	20	14	48	1.80
5357231--5357337	40	2.7	40	82	1	117	40	25	18	15	1.90
5357231--5357316	20	4.3	20	87	0	109	37	26	19	16	1.93
5357339--5357384	19	2.4	19	82	7	58	47	23	17	10	1.79
5357383--5357491	19	6.2	19	70	21	85	13	21	21	44	1.86
5357397--5357455	14	3.9	14	78	20	64	11	16	22	49	1.78
5357383--5357471	33	2.7	33	96	0	160	13	19	20	47	1.82
5357456--5357499	20	2.2	20	88	4	63	18	25	20	36	1.95
5359362--5359420	20	3.0	20	87	0	73	44	22	18	15	1.87
5359676--5359724	22	2.3	21	80	10	55	24	14	40	20	1.89
5359683--5359726	22	2.0	22	90	0	70	20	15	43	20	1.88
5359893--5360030	41	3.4	41	78	2	161	23	15	25	35	1.94
5359913--5360026	20	5.7	20	78	6	104	23	16	27	32	1.96
5359960--5360048	41	2.2	41	83	4	108	20	20	24	34	1.96
5360021--5360067	20	2.3	20	85	3	58	21	21	17	40	1.91
5360057--5360109	21	2.5	22	81	6	74	33	18	26	20	1.96
5360476--5360563	43	2.0	43	100	0	176	13	13	23	48	1.78
5360598--5360817	110	2.0	110	99	0	431	17	25	29	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5364477--5364569	14	6.6	14	75	15	84	43	3	2	51	1.29
5364529--5364904	37	10.0	37	81	13	446	40	3	5	50	1.43
5364652--5364771	23	5.6	23	74	21	109	41	2	6	49	1.42
5364576--5364710	23	5.7	22	70	23	71	40	3	5	50	1.44
5364615--5364896	31	8.8	32	70	20	155	40	2	6	50	1.42
5364487--5364935	14	34.9	13	68	21	220	40	3	5	50	1.43
5364732--5364939	76	2.8	71	80	17	237	40	3	5	50	1.45
5365393--5365417	6	4.2	6	100	0	50	20	64	0	16	1.30
5367160--5367519	173	2.1	173	90	2	562	36	18	5	40	1.72
5367977--5368020	23	1.9	23	100	0	88	25	40	25	9	1.84

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   32   
          33   34   35   36   37   38   39   40   41