genome.fa.s8087.2.7.7.80.10.50.1000.24.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  24  of  37  ( 4336 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)
5482721--5482795	29	2.6	29	84	0	96	18	40	26	14	1.90
5482722--5482809	29	3.0	29	84	0	95	20	37	30	11	1.88
5483024--5483108	29	2.9	29	83	0	107	12	29	40	17	1.87
5495416--5495491	18	4.4	17	68	18	50	39	2	18	39	1.65
5495632--5495740	48	2.3	48	81	0	119	22	20	28	29	1.98
5504432--5504604	31	5.6	31	97	0	319	38	21	19	19	1.93
5507656--5507709	22	2.5	22	93	0	90	25	18	3	51	1.62
5515738--5515776	20	2.0	20	85	10	53	33	12	5	48	1.63
5517659--5517697	16	2.4	16	91	0	60	41	20	23	15	1.90
5521165--5521202	20	1.9	20	100	0	76	23	26	10	39	1.87
5521288--5521343	2	27.5	2	96	3	103	48	1	0	50	1.11
5521476--5521503	2	14.0	2	100	0	56	50	0	0	50	1.00
5521551--5521600	22	2.2	23	85	3	66	54	2	4	40	1.31
5521567--5521610	10	4.1	10	78	16	52	52	0	0	47	1.00
5521852--5521918	31	2.1	32	83	2	82	46	7	8	37	1.64
5526087--5526164	31	2.5	31	91	0	120	39	14	21	24	1.90
5526961--5527037	31	2.5	31	89	0	118	37	10	23	28	1.88
5527346--5527456	44	2.5	46	79	8	129	42	9	4	43	1.58
5528575--5528603	15	1.9	15	100	0	58	55	6	27	10	1.59
5533227--5533294	33	2.1	33	100	0	136	41	14	8	35	1.77
5537855--5537883	2	14.5	2	100	0	58	51	0	48	0	1.00
5548808--5548833	2	13.0	2	100	0	52	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5552207--5552248	19	2.2	19	86	0	57	76	0	0	23	0.79
5555630--5555671	17	2.6	17	88	7	61	35	11	19	33	1.88
5555630--5555677	17	2.9	17	84	6	55	33	12	20	33	1.90
5559439--5559490	22	2.4	22	100	0	104	40	11	3	44	1.59
5563414--5563725	154	2.0	154	95	5	556	39	26	12	21	1.89
5564226--5564265	19	2.1	19	100	0	80	55	5	5	35	1.44
5572130--5572156	2	13.5	2	100	0	54	51	0	0	48	1.00
5573828--5573914	42	2.0	45	82	6	108	59	4	1	34	1.25
5573872--5573951	32	2.5	32	74	12	83	57	2	0	40	1.12
5578628--5578661	2	17.0	2	100	0	68	50	0	0	50	1.00
5579220--5579297	39	2.0	39	100	0	156	15	28	20	35	1.93
5579682--5579843	76	2.1	76	93	0	270	30	11	30	27	1.91
5582256--5582461	8	29.4	7	63	24	62	43	4	2	49	1.37
5582258--5582403	70	2.1	70	89	2	231	43	4	2	50	1.35
5582309--5582529	42	5.3	42	90	2	302	41	5	3	49	1.43
5582281--5582550	28	9.6	28	76	9	219	41	5	2	49	1.42
5582505--5582618	42	2.7	42	87	0	156	43	4	3	48	1.40
5582435--5582596	70	2.3	70	95	0	288	40	5	3	50	1.44
5582334--5582623	84	3.5	82	77	11	220	43	5	3	48	1.42
5583482--5583539	16	3.6	16	72	4	53	72	5	0	22	1.04
5585385--5585546	76	2.1	76	93	0	270	26	30	11	31	1.91
5587435--5587858	72	5.8	72	77	5	381	26	18	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5587435--5587862	144	2.9	145	78	7	420	26	18	21	33	1.97
5592328--5592355	3	9.3	3	100	0	56	32	0	0	67	0.91
5597765--5597810	6	7.7	6	100	0	92	34	0	65	0	0.93
5598663--5598705	22	2.0	23	86	9	63	51	11	6	30	1.65
5600405--5600445	18	2.3	18	87	8	57	51	4	0	43	1.23
5608104--5608178	36	2.1	37	87	5	109	48	1	1	49	1.18
5614514--5614657	74	1.9	75	85	4	202	29	19	11	40	1.86
5617516--5617547	15	2.1	15	100	0	64	0	12	0	87	0.54
5629314--5629390	29	2.7	29	87	4	111	40	7	5	46	1.55
5631947--5631971	2	12.5	2	100	0	50	48	0	0	52	1.00
5633964--5634846	128	6.9	128	93	1	1319	22	23	20	34	1.97
5635102--5635131	14	2.1	14	93	0	51	30	0	10	60	1.30
5635247--5635341	28	3.0	33	77	17	119	40	4	4	51	1.41
5635861--5635930	21	3.3	20	90	5	95	18	27	35	18	1.94
5635934--5635981	21	2.3	21	85	0	60	22	12	39	25	1.89
5637705--5637793	34	2.7	31	81	6	97	59	2	0	38	1.10
5637705--5637784	34	2.4	33	83	8	101	61	1	0	37	1.04
5639577--5639702	54	2.3	54	88	1	180	35	4	3	56	1.36
5642028--5642107	27	2.9	27	74	10	81	26	10	6	57	1.55
5645950--5646113	55	3.0	54	73	14	149	30	6	17	45	1.74
5646166--5646712	228	2.4	228	86	2	760	28	23	16	32	1.96
5650496--5650529	2	17.5	2	93	6	61	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5651818--5651842	12	2.1	12	100	0	50	72	0	28	0	0.86
5654137--5654267	19	7.7	19	64	23	85	42	18	22	16	1.88
5654137--5654263	33	3.8	33	85	4	184	42	18	22	16	1.89
5654142--5654269	66	1.9	66	95	0	229	42	17	22	17	1.88
5654263--5654307	20	2.2	20	84	7	56	13	20	26	40	1.89
5654447--5654483	14	2.6	14	91	0	65	45	24	0	29	1.53
5655708--5655774	21	3.2	21	68	4	55	19	20	35	23	1.95
5655708--5655830	42	2.9	41	79	7	113	22	17	36	23	1.94
5657857--5657955	33	3.0	33	89	1	144	39	26	23	11	1.88
5657832--5658011	19	9.8	19	76	14	164	45	22	21	11	1.84
5657927--5658011	39	2.2	38	97	2	161	49	22	17	10	1.77
5658017--5658054	20	1.9	20	94	0	67	2	15	23	57	1.51
5658596--5658648	20	2.7	20	93	0	88	26	20	28	24	1.99
5658657--5658706	20	2.5	20	96	0	91	26	18	24	32	1.97
5660293--5660331	20	2.0	19	85	5	51	23	2	5	69	1.21
5660350--5660398	10	4.6	10	78	14	53	6	12	22	59	1.55
5660316--5660414	47	2.1	47	86	0	135	11	11	19	58	1.61
5660316--5660415	24	4.3	23	80	3	101	11	11	19	59	1.60
5663758--5663870	35	3.2	34	88	5	163	42	23	0	33	1.60
5664923--5665034	35	3.2	34	89	2	161	34	0	22	41	1.60
5665876--5665994	42	2.8	42	97	2	220	44	0	4	51	1.21
5669158--5669190	17	1.9	17	100	0	66	36	21	6	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5673810--5673844	18	1.9	18	88	0	52	54	0	17	28	1.43
5679597--5679831	43	5.5	43	82	8	255	35	21	21	21	1.96
5679597--5679831	128	1.8	129	82	8	309	35	21	21	21	1.96
5679595--5679831	86	2.8	84	82	8	282	35	21	21	21	1.96
5683107--5683628	41	12.6	41	81	3	526	34	17	19	28	1.95
5683107--5683615	166	3.1	165	90	0	766	33	17	19	29	1.95
5683107--5683615	125	4.1	123	80	4	527	33	17	19	29	1.95
5684810--5684857	2	24.0	2	100	0	96	50	0	0	50	1.00
5684855--5684901	4	11.8	4	95	0	85	27	0	21	51	1.48
5686844--5686878	2	17.5	2	88	11	54	48	0	2	48	1.16
5687030--5687059	13	2.3	13	94	0	51	43	6	20	30	1.77
5686978--5687221	98	2.5	98	82	4	251	31	16	18	32	1.94
5687128--5687166	13	3.0	13	80	0	51	33	17	20	28	1.96
5687933--5687966	3	11.0	3	93	6	59	64	0	0	35	0.94
5724295--5724431	60	2.3	60	80	12	149	40	5	0	54	1.28
5726115--5726154	14	2.9	14	96	0	71	62	0	2	35	1.09
5727134--5727184	22	2.2	22	89	6	75	50	13	0	35	1.42
5727143--5727188	22	2.1	22	100	0	92	43	13	0	43	1.43
5727796--5727856	18	3.2	18	80	17	70	1	27	0	70	0.97
5727809--5727874	21	3.0	21	93	4	105	0	27	0	72	0.85
5731738--5731767	2	15.0	2	100	0	60	50	0	0	50	1.00
5732131--5732165	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5740738--5740778	20	2.0	20	90	0	64	19	24	34	21	1.97
5740738--5740882	65	2.2	64	81	7	159	20	22	27	29	1.98
5741947--5742034	33	2.6	33	85	3	113	65	11	1	21	1.30
5744322--5744392	28	2.5	29	75	16	78	67	2	0	29	1.05
5744321--5744389	23	3.1	22	73	18	63	68	2	0	28	1.04
5744330--5744388	23	2.6	23	79	15	68	69	3	0	27	1.04
5748098--5748172	29	2.6	29	87	6	107	26	4	1	68	1.16
5748624--5748739	50	2.3	50	78	0	124	18	30	27	24	1.98
5748931--5748968	16	2.4	16	100	0	76	31	5	0	63	1.17
5749034--5749238	109	1.9	109	94	0	365	34	8	10	46	1.68

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