genome.fa.s7984.2.7.7.80.10.50.1000.25.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  25  of  65  ( 7696 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)
4962130--4962189	20	3.0	20	92	2	95	31	13	15	40	1.85
4962469--4962983	126	4.1	126	91	0	796	27	26	20	26	1.99
4962545--4963181	126	5.0	128	81	7	359	27	27	19	26	1.99
4963573--4963616	22	2.0	23	86	13	65	72	6	20	0	1.07
4969959--4970046	26	3.2	28	85	9	135	40	19	1	38	1.59
4971015--4971046	2	16.0	2	100	0	64	50	0	0	50	1.00
4971801--4971844	7	6.3	7	89	0	52	50	31	0	18	1.47
4971806--4971845	21	1.9	21	89	0	62	50	27	0	22	1.50
4971900--4971942	7	6.1	7	86	0	50	51	32	0	16	1.45
4972104--4972149	7	6.6	7	79	0	56	43	36	2	17	1.61
4971811--4972231	207	2.0	207	90	0	662	41	19	9	29	1.84
4974195--4974256	23	2.7	23	84	0	79	35	22	17	24	1.95
4975699--4975768	34	2.1	34	94	0	122	31	11	10	47	1.73
4976296--4976404	54	2.0	55	89	5	168	10	24	17	47	1.78
4976734--4977317	308	1.9	308	89	1	911	25	25	16	32	1.96
4980276--4980330	20	2.6	22	83	13	71	32	7	3	56	1.44
4983189--4983320	5	26.4	5	100	0	264	59	0	0	40	0.97
4983687--4983737	24	2.0	24	85	11	66	58	0	1	39	1.09
4983842--4983894	16	3.5	16	78	16	60	52	5	0	41	1.25
4983854--4983894	13	3.4	12	81	18	50	53	4	0	41	1.22
4985119--4985166	16	2.9	17	90	6	73	79	0	4	16	0.89
4985120--4985166	8	5.8	8	78	14	51	80	0	2	17	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4990400--4990498	52	1.9	52	93	0	171	36	1	18	44	1.56
4992476--4992505	14	2.1	14	100	0	60	26	6	0	66	1.16
4995665--4995742	2	39.0	2	100	0	156	50	0	0	50	1.00
4996392--4996463	29	2.4	30	80	13	76	61	1	0	37	1.05
5005607--5005644	20	1.9	20	94	0	67	71	2	0	26	1.00
5005830--5005960	40	3.4	39	68	21	114	53	18	4	23	1.63
5005816--5006070	75	3.4	75	91	0	366	51	17	4	26	1.64
5008681--5008722	22	1.9	22	90	0	66	33	7	21	38	1.81
5009149--5009187	20	2.0	20	84	0	51	35	23	7	33	1.83
5018234--5018273	15	2.7	15	84	0	53	50	10	20	20	1.76
5019940--5019995	24	2.3	24	90	0	94	44	5	1	48	1.36
5023244--5023330	35	2.5	34	80	12	97	55	10	8	26	1.61
5023360--5023450	49	1.9	49	84	8	127	65	3	4	26	1.26
5023546--5023585	21	1.9	21	100	0	80	7	37	25	30	1.83
5025443--5025664	111	2.0	111	95	0	399	44	10	8	36	1.69
5025951--5026076	50	2.5	50	85	0	162	20	30	34	15	1.93
5026250--5026276	14	1.9	14	100	0	54	70	0	0	29	0.88
5026843--5026926	31	2.8	31	71	16	77	39	4	9	46	1.58
5027773--5027851	34	2.4	33	83	8	90	39	0	1	59	1.06
5027763--5027851	34	2.7	31	79	6	88	39	0	2	58	1.11
5030197--5030294	34	2.9	34	87	0	133	55	5	3	36	1.38
5030697--5031424	128	5.7	128	93	1	1247	33	20	24	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5031505--5031545	8	5.2	8	82	5	57	36	29	0	34	1.58
5036206--5036239	17	1.9	18	88	5	52	61	0	29	8	1.26
5036354--5036490	51	2.7	51	96	0	247	14	31	33	20	1.93
5040144--5040230	35	2.5	34	75	18	90	55	10	6	27	1.59
5040225--5040308	34	2.5	33	80	16	84	63	13	2	21	1.41
5042549--5042596	16	2.8	18	78	12	57	62	2	0	35	1.07
5042576--5042618	22	1.9	23	86	13	63	67	2	2	27	1.15
5055696--5055728	3	10.7	3	93	6	57	0	33	0	66	0.92
5056252--5056388	63	2.2	64	83	1	168	34	21	17	26	1.96
5056627--5056686	25	2.4	25	80	8	68	35	11	10	43	1.75
5056731--5056790	31	2.0	30	83	9	77	36	1	25	36	1.66
5057012--5057068	23	2.5	23	97	0	105	17	26	28	28	1.98
5057012--5057080	23	3.0	23	89	0	75	17	24	28	28	1.97
5063575--5063634	31	2.0	30	83	9	77	36	1	25	36	1.66
5063855--5063915	23	2.7	23	86	0	86	21	24	24	29	1.99
5065933--5065964	2	16.0	2	100	0	64	50	0	0	50	1.00
5066559--5067363	55	14.8	55	85	3	986	35	14	16	33	1.89
5071165--5071763	55	10.9	55	85	2	763	35	15	16	32	1.91
5073825--5073855	16	1.9	16	100	0	62	25	6	9	58	1.54
5082756--5082821	22	2.7	23	88	11	89	42	0	19	37	1.52
5082760--5082797	11	3.5	11	79	13	51	39	0	18	42	1.50
5088498--5088542	20	2.3	19	84	7	54	57	0	2	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5091578--5091651	30	2.5	29	91	6	121	52	0	0	47	1.00
5094109--5094155	24	2.0	24	91	4	78	31	29	23	14	1.95
5095928--5095993	23	2.9	23	88	0	96	28	18	25	27	1.98
5101229--5101299	20	3.5	20	77	9	65	36	11	22	29	1.89
5102096--5102186	23	4.0	23	89	2	130	25	24	23	27	2.00
5104527--5104574	23	2.2	21	79	13	60	37	12	27	22	1.90
5104533--5104589	23	2.5	23	94	0	96	42	7	28	22	1.80
5106352--5106481	66	2.0	66	85	0	179	36	23	20	20	1.95
5107234--5107326	44	2.1	44	89	0	141	31	18	5	45	1.72
5107500--5107559	27	2.2	27	84	0	75	31	13	10	45	1.76
5107508--5107560	27	2.0	27	88	0	79	30	15	11	43	1.81
5109461--5109494	3	11.7	3	93	6	61	64	0	0	35	0.94
5109678--5109746	23	3.0	22	76	14	68	14	13	15	56	1.67
5114908--5114959	21	2.6	21	84	6	72	11	11	3	73	1.23
5115043--5115212	80	2.1	80	95	0	304	24	14	17	44	1.85
5124796--5124904	54	2.0	54	87	0	155	20	22	22	35	1.96
5124893--5124988	28	3.4	28	75	7	104	28	20	18	32	1.97
5124857--5125022	56	2.9	57	84	0	190	27	20	17	34	1.95
5137472--5137530	30	2.0	30	82	0	73	30	8	16	44	1.78
5154963--5155013	17	2.8	19	85	14	72	62	0	0	37	0.95
5154963--5155008	20	2.3	20	88	3	67	63	0	0	36	0.95
5158065--5158129	28	2.4	28	76	2	69	61	1	1	35	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5159743--5159808	23	2.9	22	74	17	71	15	9	18	57	1.63
5161384--5161410	14	1.9	14	100	0	54	59	0	0	40	0.98
5164635--5164669	11	3.4	11	84	15	56	77	0	5	17	0.96
5164632--5164680	20	2.5	20	96	0	89	73	0	4	22	1.00
5164632--5164686	9	5.7	9	78	16	56	74	0	3	21	0.97
5164632--5164680	10	4.8	11	71	19	52	73	0	4	22	1.00
5167131--5167156	7	3.7	7	100	0	52	23	0	0	76	0.78
5170587--5170845	30	8.8	30	71	9	149	57	8	13	19	1.62
5170624--5170747	29	4.2	29	71	10	117	58	8	14	18	1.62
5170633--5170845	61	3.6	59	77	8	200	56	9	13	20	1.64
5170718--5170825	55	1.9	56	86	1	155	59	8	9	23	1.55
5172791--5172867	30	2.6	29	80	10	75	42	14	18	24	1.87
5172814--5172892	30	2.7	30	78	2	88	41	18	11	27	1.85
5172838--5172997	66	2.5	66	88	4	227	42	17	11	28	1.84
5173004--5173076	37	1.9	38	86	8	105	34	10	23	31	1.89
5173157--5173219	32	2.0	32	93	0	108	30	28	15	25	1.96
5173348--5173408	25	2.6	23	83	16	81	49	0	16	34	1.46
5173348--5173407	23	2.5	24	85	15	81	50	0	16	33	1.46
5174268--5174318	23	2.2	24	89	3	77	3	15	5	74	1.16
5177931--5178019	30	3.0	30	85	3	108	58	8	16	15	1.62
5177952--5178252	30	10.1	30	76	6	227	58	9	13	18	1.61
5177952--5178245	60	4.9	59	79	5	313	58	9	13	18	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5181180--5181235	3	19.3	3	78	14	55	58	1	0	39	1.08
5181416--5181485	3	23.7	3	91	8	117	65	0	0	34	0.93
5184332--5184407	35	2.2	34	83	6	100	42	21	1	35	1.61
5184352--5184426	35	2.1	35	82	0	87	40	26	2	30	1.70
5184863--5184960	35	2.8	35	82	0	124	40	28	2	28	1.68
5186363--5186402	15	2.6	15	84	15	55	72	0	2	25	0.97
5186410--5186476	19	3.4	19	72	15	55	74	4	1	19	1.07
5186417--5186484	29	2.4	29	76	16	79	75	2	1	20	1.02
5186417--5186484	11	6.0	11	71	19	59	75	2	1	20	1.02
5186417--5186484	18	3.5	20	77	20	74	75	2	1	20	1.02

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