genome.fa.s8319.2.7.7.80.10.50.1000.14.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  14  of  21  ( 2487 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)
2974034--2974246	46	4.8	46	75	13	171	26	20	30	23	1.98
2973978--2974237	128	2.0	129	96	0	486	24	18	31	24	1.98
2974363--2974437	36	2.1	36	82	9	91	45	12	17	25	1.82
2974325--2974444	63	1.9	63	85	11	165	41	11	17	29	1.85
2974512--2974693	28	6.4	28	82	8	190	46	14	9	29	1.76
2974527--2974689	85	1.9	86	85	7	226	45	15	9	29	1.78
2974527--2974682	57	2.8	55	81	10	183	44	15	10	29	1.79
2974932--2975034	36	3.0	35	80	7	113	33	11	21	33	1.89
2975699--2975738	4	10.5	4	89	10	66	25	0	25	50	1.50
2983556--2983593	11	3.6	10	86	13	58	0	18	39	42	1.50
2983627--2983683	3	18.7	3	81	3	69	64	1	1	31	1.13
2989147--2989209	33	1.9	33	90	0	99	61	3	1	33	1.21
2990130--2990154	2	12.5	2	100	0	50	52	0	0	48	1.00
2993222--2993283	31	2.0	31	84	9	83	50	6	12	30	1.66
3002275--3002308	11	3.1	11	100	0	68	26	8	26	38	1.85
3004000--3004033	17	2.0	17	88	11	52	41	2	0	55	1.15
3005375--3005413	11	3.7	11	86	10	55	20	5	0	74	1.01
3005375--3005414	21	2.0	20	90	5	62	20	7	0	72	1.08
3005376--3005424	21	2.4	21	83	10	57	18	8	2	71	1.21
3005434--3005476	18	2.4	18	84	3	52	13	13	2	69	1.28
3005502--3005556	9	6.0	9	81	12	67	21	3	0	74	0.97
3005375--3005554	10	17.8	10	68	17	70	20	9	1	68	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3009649--3009687	19	2.0	20	90	5	62	15	20	38	25	1.92
3009708--3009758	18	2.8	18	96	0	93	43	21	11	23	1.85
3012505--3012630	21	5.8	20	75	20	96	29	18	25	26	1.98
3012503--3012630	44	2.9	43	84	11	145	29	17	25	26	1.98
3018375--3018434	18	3.1	19	85	11	77	18	20	35	26	1.95
3019487--3019537	2	25.5	2	100	0	102	50	0	0	49	1.00
3020554--3020591	20	1.9	20	88	0	58	34	13	21	31	1.91
3021414--3021512	18	5.5	18	83	0	117	22	23	28	26	1.99
3021416--3021520	54	1.9	54	86	0	147	23	23	27	24	2.00
3021679--3021722	7	6.4	7	92	5	72	34	0	25	40	1.56
3025721--3025758	20	1.9	20	88	0	58	34	13	21	31	1.91
3026580--3026678	18	5.5	18	83	0	117	22	23	28	26	1.99
3026582--3026686	54	1.9	54	86	0	147	23	23	27	24	2.00
3026845--3026871	7	3.9	7	100	0	54	29	0	25	44	1.54
3027521--3027582	24	2.7	23	72	18	56	9	20	6	62	1.47
3030121--3030390	100	2.7	99	88	2	348	33	16	16	32	1.92
3031507--3032037	84	6.3	84	81	1	544	33	22	18	25	1.97
3031507--3032040	168	3.2	167	81	3	649	33	22	18	25	1.97
3039778--3039806	7	4.3	7	95	4	51	13	24	0	62	1.32
3044842--3044875	17	2.0	17	88	11	52	41	2	0	55	1.15
3046035--3046069	17	2.1	17	94	0	61	14	11	0	74	1.08
3046384--3046460	31	2.7	29	79	18	81	18	10	2	68	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3046491--3046527	15	2.7	13	84	15	56	2	8	8	81	0.97
3046513--3046554	18	2.4	18	84	4	50	16	4	2	76	1.07
3048378--3048425	25	1.9	25	86	0	69	33	20	6	39	1.78
3050195--3050220	5	5.2	5	100	0	52	19	61	0	19	1.35
3050868--3050902	13	2.8	13	91	4	54	57	0	0	42	0.99
3053903--3053943	8	5.2	8	82	5	57	34	0	29	36	1.58
3054011--3054625	128	4.8	128	98	0	1185	22	25	19	32	1.98
3055013--3055112	33	3.0	34	83	2	139	39	3	4	54	1.35
3055631--3055724	21	4.5	21	92	5	129	20	26	35	18	1.95
3055728--3055775	21	2.3	21	85	0	60	22	12	39	25	1.89
3057498--3057586	34	2.7	32	77	10	90	58	2	0	39	1.11
3057498--3057577	34	2.4	34	79	12	94	60	1	0	38	1.05
3057533--3057605	34	2.1	33	85	7	92	64	5	0	30	1.16
3057527--3057592	19	3.7	18	75	20	66	60	3	0	36	1.12
3059858--3059889	2	16.5	2	93	6	57	50	0	0	50	1.00
3060035--3060067	15	2.1	16	88	5	50	66	0	3	30	1.06
3060731--3060755	13	1.9	13	100	0	50	48	0	0	52	1.00
3062983--3063033	26	2.0	26	88	0	75	39	1	0	58	1.09
3065697--3065739	23	1.9	23	85	4	61	51	6	2	39	1.42
3065708--3065918	36	5.9	35	76	11	164	45	7	3	43	1.49
3065705--3065925	37	6.2	33	75	10	118	45	7	4	43	1.50
3065756--3065956	37	5.6	37	78	11	167	45	6	3	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3065703--3065905	106	1.9	103	82	8	248	46	6	3	42	1.49
3065828--3065982	37	4.2	37	79	9	147	46	8	3	41	1.50
3065828--3065979	74	2.1	71	81	8	171	46	8	3	41	1.51
3066608--3067329	84	8.7	81	77	8	686	24	20	24	30	1.99
3066630--3067329	165	4.2	165	89	1	922	23	20	24	30	1.99
3066608--3067329	249	2.9	247	81	6	748	24	20	24	30	1.99
3073779--3073827	27	1.9	25	84	12	64	53	6	2	38	1.38
3073789--3074055	37	7.1	38	78	10	239	45	7	3	43	1.49
3073915--3074080	37	4.5	35	78	8	111	46	7	3	41	1.50
3089053--3089085	16	2.1	16	100	0	66	36	18	15	30	1.91
3099396--3099434	20	1.9	20	85	15	53	69	7	15	7	1.35
3103644--3103668	12	2.1	12	100	0	50	52	0	0	48	1.00
3104391--3104416	2	13.0	2	100	0	52	0	50	0	50	1.00
3109698--3109735	2	19.0	2	100	0	76	50	0	0	50	1.00
3112157--3112218	28	2.2	28	82	5	72	41	19	9	29	1.83
3120347--3120385	2	19.5	2	100	0	78	51	0	0	48	1.00
3120627--3120659	2	16.5	2	100	0	66	51	0	0	48	1.00
3123606--3123630	4	6.2	4	100	0	50	52	24	0	24	1.48
3127682--3127839	29	5.4	29	92	1	246	32	3	18	46	1.65
3128843--3128895	25	2.1	25	85	0	70	32	5	15	47	1.68
3134935--3134982	10	5.0	10	82	10	55	18	47	25	8	1.76
3134997--3135152	29	5.4	29	95	0	258	30	1	19	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3142927--3142955	3	9.7	3	100	0	58	0	31	0	68	0.89
3156296--3156357	31	1.9	33	83	6	83	41	12	6	38	1.69
3159080--3159119	21	1.9	21	85	10	55	17	37	2	42	1.63
3163198--3163249	19	2.7	19	81	0	50	25	25	26	23	2.00
3163281--3163334	20	2.8	20	91	2	83	22	18	27	31	1.97
3166014--3166110	44	2.2	44	85	7	126	25	20	27	25	1.99
3171518--3171571	20	2.8	20	88	2	83	24	16	29	29	1.97
3171681--3172763	541	2.0	541	100	0	2166	36	16	12	34	1.86
3173698--3173739	21	2.1	19	83	16	50	21	7	7	64	1.43
3174821--3174895	39	1.9	39	91	0	123	48	0	0	52	1.00
3174814--3174906	39	2.4	39	77	15	111	48	0	0	51	1.00
3174939--3174976	20	1.9	20	100	0	76	28	26	28	15	1.96
3175121--3175240	54	2.2	54	88	8	174	32	22	20	25	1.98
3179192--3179244	21	2.5	21	81	6	72	20	26	18	33	1.96
3179234--3179285	21	2.5	21	87	3	70	38	17	23	21	1.93
3179275--3179402	20	6.4	20	89	0	175	25	27	20	27	1.99
3179935--3179994	20	3.0	20	87	4	86	40	23	20	16	1.91
3179935--3179992	19	3.0	19	89	2	80	39	24	20	15	1.91
3180013--3180077	19	3.7	19	86	13	95	13	21	18	46	1.84
3182082--3182183	19	5.6	19	78	12	88	43	21	22	12	1.86
3182195--3182253	14	3.9	14	76	20	64	10	16	23	49	1.77
3182190--3182269	33	2.4	33	97	0	151	11	18	22	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3182211--3182289	19	4.4	19	75	16	78	13	21	20	44	1.86
3182242--3182308	20	3.4	18	78	13	62	14	22	22	40	1.90
3182843--3182890	18	2.7	18	90	0	78	14	12	43	29	1.82
3184193--3184230	20	1.9	20	94	0	67	52	21	15	10	1.72
3184740--3184817	41	1.9	41	91	0	129	19	16	25	38	1.92
3184720--3184805	20	4.2	20	81	8	93	22	18	25	33	1.96
3184807--3184854	20	2.3	20	85	3	60	20	22	16	39	1.92
3184740--3184835	41	2.3	41	83	3	113	19	19	23	36	1.95
3184844--3184896	21	2.5	22	81	6	74	33	18	26	20	1.96
3185591--3185642	26	2.0	27	84	3	70	42	19	13	25	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21