genome.fa.s9462.2.7.7.80.10.50.1000.23.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  23  of  91  ( 10815 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)
4651647--4651702	18	3.1	18	89	0	85	46	0	0	53	1.00
4651657--4651722	12	5.6	12	83	13	75	45	0	0	54	0.99
4653801--4653853	28	1.9	27	84	3	70	30	7	1	60	1.35
4657094--4657125	15	2.1	15	94	0	55	25	18	9	46	1.79
4664389--4664483	1	95.0	1	70	0	64	85	0	14	0	0.60
4664395--4664484	18	4.9	18	82	9	110	84	0	15	0	0.62
4664390--4664482	27	3.3	28	89	8	136	84	0	15	0	0.61
4665840--4666394	83	6.7	83	92	0	894	26	12	23	37	1.91
4667235--4667753	113	4.6	113	91	0	716	37	15	18	28	1.91
4667662--4667840	87	2.1	86	85	3	234	35	17	16	30	1.92
4668111--4668145	3	11.7	3	87	0	52	60	0	0	40	0.97
4668110--4668148	18	2.2	18	95	0	69	56	0	0	43	0.99
4670736--4670820	37	2.3	37	86	6	120	42	20	4	32	1.72
4671914--4671972	15	3.9	15	97	0	109	6	61	15	16	1.55
4680264--4680317	21	2.6	21	90	0	81	25	14	25	33	1.95
4680567--4680604	18	2.1	18	90	0	58	52	5	5	36	1.47
4690411--4690438	2	14.0	2	100	0	56	50	0	0	50	1.00
4691619--4691654	2	18.0	2	100	0	72	50	0	0	50	1.00
4691676--4691759	41	2.1	40	84	4	107	34	11	14	39	1.83
4693536--4693585	25	1.9	27	84	8	68	18	4	10	68	1.34
4698463--4698500	18	2.1	18	100	0	76	26	34	5	34	1.79
4706453--4706570	54	2.2	54	79	0	128	37	18	16	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4707160--4707211	22	2.5	21	84	6	61	26	23	11	38	1.89
4709347--4709405	21	2.9	21	80	9	68	33	13	15	37	1.86
4709346--4709405	20	3.0	19	81	13	59	33	13	15	38	1.86
4711557--4711629	35	2.2	33	85	5	92	21	30	15	32	1.94
4711913--4711954	21	2.0	21	95	0	75	26	28	21	23	1.99
4712067--4712152	34	2.4	36	88	3	140	18	25	36	19	1.95
4712117--4712157	21	2.0	21	90	9	66	17	29	36	17	1.92
4713603--4713650	19	2.5	20	82	3	62	29	12	6	52	1.63
4714865--4714906	21	2.0	21	90	0	66	26	26	21	26	1.99
4715020--4715075	15	3.5	15	71	21	51	19	23	35	21	1.96
4715019--4715101	33	2.5	33	92	2	139	18	26	33	21	1.96
4715047--4715118	19	3.9	19	72	22	64	13	27	33	25	1.94
4715080--4715118	21	2.0	20	90	10	62	10	30	33	25	1.89
4716296--4716324	3	9.7	3	100	0	58	0	34	0	65	0.93
4717408--4717632	44	5.1	44	90	1	362	42	12	22	22	1.87
4720411--4720460	22	2.3	22	85	0	64	42	8	12	38	1.71
4720694--4720751	29	2.0	29	100	0	116	34	34	10	20	1.87
4720697--4720759	29	2.2	29	91	0	99	38	28	9	23	1.86
4722498--4722532	16	2.2	16	89	0	52	40	14	14	31	1.86
4723277--4723340	27	2.4	27	91	0	101	35	9	29	25	1.87
4735194--4735251	22	2.9	19	80	14	64	27	36	17	18	1.94
4740989--4741087	42	2.3	43	84	5	130	22	29	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4740989--4741086	23	4.6	22	74	15	73	22	29	21	26	1.99
4741012--4741086	20	3.7	20	76	11	71	21	30	22	25	1.99
4745043--4745244	69	2.9	69	96	0	368	30	11	8	48	1.71
4745513--4745545	16	2.1	16	94	0	57	24	24	3	48	1.65
4753289--4753332	21	2.2	19	88	8	61	38	6	20	34	1.79
4753782--4754015	55	4.3	55	92	0	378	35	11	17	34	1.86
4754007--4754123	54	2.2	54	87	0	162	35	17	17	29	1.93
4754133--4754278	49	3.0	49	78	2	186	32	16	23	27	1.96
4756721--4756757	14	2.6	14	95	0	65	48	13	16	21	1.80
4757729--4757777	17	2.8	17	85	11	64	73	4	4	18	1.15
4765804--4765841	16	2.4	16	95	0	67	28	28	7	34	1.85
4765867--4766071	54	3.8	54	95	1	358	31	18	18	32	1.95
4765882--4766108	108	2.1	108	86	4	325	31	18	18	31	1.95
4768913--4768946	17	2.0	17	88	0	50	26	20	5	47	1.73
4773945--4773993	21	2.3	21	89	0	71	24	20	18	36	1.94
4773983--4774038	20	2.8	20	94	0	94	35	14	21	28	1.92
4774030--4774069	20	2.0	20	90	0	62	25	27	22	25	2.00
4774890--4774943	24	2.2	24	93	0	90	20	18	20	40	1.91
4778379--4778425	20	2.5	18	89	6	67	34	27	19	19	1.96
4778471--4778548	20	3.9	20	93	0	120	19	16	23	41	1.90
4780433--4780526	20	4.7	20	91	0	134	43	24	17	14	1.86
4781147--4781253	40	2.7	40	89	0	160	25	18	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4781147--4781236	20	4.5	20	94	0	153	23	18	26	31	1.98
4781147--4781253	20	5.3	20	90	0	142	25	18	25	30	1.98
4787703--4787802	48	2.1	48	94	0	173	22	10	20	48	1.79
4787822--4787933	53	2.1	53	83	3	145	25	18	21	33	1.96
4794841--4794931	46	2.0	47	88	2	139	25	9	16	48	1.77
4794951--4795067	53	2.2	52	84	4	153	25	20	18	35	1.96
4796620--4796660	17	2.4	17	100	0	82	41	7	19	31	1.79
4798315--4798350	15	2.5	14	90	4	54	38	2	0	58	1.13
4799246--4799285	21	2.0	20	85	5	53	32	5	0	62	1.17
4802231--4802268	15	2.5	15	91	0	58	50	13	23	13	1.76
4810121--4810247	65	2.0	65	90	0	200	31	18	15	34	1.92
4810634--4811612	38	24.8	38	76	13	761	26	16	16	40	1.90
4810649--4811612	273	3.5	269	79	9	855	26	16	16	40	1.90
4810634--4811568	235	4.0	231	79	10	863	25	17	16	40	1.90
4811483--4811894	45	9.2	45	79	5	289	23	16	17	42	1.89
4811850--4812008	51	3.1	47	74	16	122	27	18	15	38	1.91
4812741--4813068	134	2.4	135	86	1	444	29	17	18	33	1.95
4813224--4813284	3	20.3	3	96	0	113	36	0	0	63	0.94
4824447--4824501	19	2.9	18	76	10	56	27	3	0	69	1.05
4824458--4824507	26	2.0	25	84	11	66	30	4	0	66	1.10
4824455--4824506	12	4.2	12	76	13	52	26	3	0	69	1.06
4824685--4824734	3	16.3	3	80	19	59	34	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4824678--4824737	12	4.6	13	85	12	79	35	0	0	65	0.93
4824682--4824738	19	3.3	18	81	13	59	33	0	0	66	0.92
4824675--4824740	9	7.2	9	83	13	66	33	0	0	66	0.92
4824670--4824741	28	2.6	27	86	10	92	33	1	0	65	1.02
4836444--4836509	21	3.1	21	64	20	55	33	33	16	16	1.92
4837352--4837396	2	24.0	2	78	13	51	46	0	0	53	1.00
4837359--4837399	11	3.9	11	84	12	59	46	0	0	53	1.00
4837352--4837390	20	2.0	20	94	0	69	43	0	0	56	0.99
4838361--4838422	19	3.3	18	70	17	54	24	3	3	69	1.18
4838379--4838427	26	1.9	25	84	12	64	26	4	2	67	1.19
4838594--4838657	21	2.9	23	84	9	80	31	1	0	67	1.00
4838606--4838657	7	7.1	7	83	16	70	28	0	0	71	0.87
4838594--4838652	19	3.1	18	87	7	73	32	1	0	66	1.02
4838606--4838672	28	2.4	28	85	7	82	26	0	2	70	1.02
4844534--4844577	21	2.1	21	83	8	54	18	15	25	40	1.90
4850461--4850515	22	2.5	22	96	0	101	23	20	21	34	1.97
4852453--4852808	140	2.5	140	84	6	472	38	16	15	30	1.89
4852970--4853003	15	2.2	16	90	10	54	55	8	8	26	1.59
4855759--4855824	22	3.0	22	90	0	105	24	39	15	21	1.91
4856160--4856248	20	4.5	20	85	1	90	14	16	23	44	1.85
4856214--4856257	20	2.2	20	83	0	52	13	15	20	50	1.78
4858138--4858314	20	9.5	20	74	16	139	41	20	18	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4858359--4858447	20	4.4	20	92	0	142	19	20	23	37	1.94
4858927--4859034	21	5.1	21	70	7	76	20	35	19	25	1.96
4858928--4859036	42	2.6	42	75	8	114	20	35	19	24	1.95
4860421--4860456	14	2.6	14	90	0	54	30	0	22	47	1.52
4860595--4860640	19	2.4	19	100	0	92	47	17	19	15	1.82
4860643--4860737	33	2.8	33	85	4	120	11	22	21	45	1.83
4860709--4860797	20	4.5	19	87	8	124	16	19	25	38	1.92
4860721--4860817	40	2.6	36	81	14	110	17	20	24	37	1.94
4863246--4863297	24	2.2	24	85	0	68	38	21	17	23	1.93
4864125--4864191	20	3.3	20	91	0	98	25	19	23	31	1.98

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   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91