genome.fa.s9625.2.7.7.80.10.50.1000.9.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  9  of  25  ( 2922 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)
2923739--2923796	6	8.7	6	75	20	53	51	3	1	43	1.28
2923737--2923797	21	2.9	21	97	0	113	52	3	1	42	1.27
2927263--2927355	46	2.0	46	100	0	186	47	4	6	41	1.49
2929266--2929317	25	2.2	25	90	10	83	55	3	3	36	1.36
2929266--2929321	23	2.4	22	81	18	69	57	3	3	35	1.34
2942297--2942355	17	3.5	17	88	0	82	33	23	11	30	1.91
2945372--2945419	22	2.2	20	79	13	51	41	4	18	35	1.70
2947063--2947189	44	3.2	43	65	28	116	25	1	11	61	1.39
2947060--2947213	76	2.0	76	93	0	263	26	1	11	60	1.39
2947164--2947201	19	2.0	19	89	0	58	31	0	15	52	1.43
2947143--2947263	63	1.9	63	91	3	199	27	0	14	57	1.44
2947866--2947899	9	3.8	9	88	0	50	20	0	0	79	0.73
2947865--2947895	13	2.4	13	94	0	53	22	0	0	77	0.77
2947966--2948017	21	2.4	22	80	3	61	23	1	0	75	0.91
2952342--2952380	2	19.5	2	100	0	78	51	0	0	48	1.00
2952542--2952611	12	5.8	12	80	6	79	51	18	15	14	1.77
2952540--2952648	48	2.3	47	85	3	137	47	17	16	18	1.83
2952540--2952648	24	4.5	25	78	6	109	47	17	16	18	1.83
2954179--2954301	63	2.0	63	100	0	246	27	28	9	34	1.89
2955222--2955252	15	2.1	15	93	0	53	29	25	32	12	1.93
2955244--2955282	13	3.0	13	96	0	69	15	25	43	15	1.86
2957172--2957210	2	19.5	2	100	0	78	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)
2957372--2957441	12	5.8	12	80	6	79	51	18	15	14	1.77
2957370--2957478	48	2.3	47	85	3	137	47	17	16	18	1.83
2957370--2957478	24	4.5	25	78	6	109	47	17	16	18	1.83
2960077--2960128	13	4.0	13	92	0	77	19	23	42	15	1.89
2963120--2963191	24	3.0	24	82	9	94	51	18	11	19	1.75
2963153--2963212	12	5.2	11	74	18	59	46	18	18	16	1.84
2967574--2967599	2	13.0	2	100	0	52	50	0	0	50	1.00
2967781--2967852	24	3.0	23	82	13	92	52	16	9	20	1.72
2968973--2969007	18	1.9	18	88	0	52	28	17	0	54	1.43
2972320--2972347	2	14.0	2	100	0	56	50	0	0	50	1.00
2972528--2972599	24	3.0	23	80	6	81	52	18	9	19	1.72
2972563--2972620	12	5.0	11	74	17	55	46	18	18	15	1.84
2973717--2973754	18	2.1	18	95	0	67	31	15	0	52	1.43
2975023--2975062	13	3.1	13	92	0	62	20	25	40	15	1.90
2978069--2978104	18	2.0	18	88	0	54	30	16	0	52	1.44
2979405--2979435	7	4.3	7	92	8	53	25	25	35	12	1.92
2979405--2979452	15	3.3	15	91	2	71	20	25	39	14	1.91
2979412--2979504	18	6.0	15	73	19	66	17	20	47	15	1.83
2979433--2979510	19	4.6	18	75	21	87	12	19	51	16	1.76
2979405--2979452	8	6.5	8	79	15	59	20	25	39	14	1.91
2979452--2979486	13	2.8	13	91	4	54	14	17	51	17	1.77
2979427--2979505	31	2.5	31	91	6	124	15	18	49	16	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2982605--2982640	18	2.0	18	88	0	54	30	16	0	52	1.44
2983748--2983777	7	4.1	7	91	8	51	26	26	33	13	1.93
2983748--2983793	8	6.4	8	79	20	57	21	26	36	15	1.93
2983748--2983793	15	3.2	15	90	6	69	21	26	36	15	1.93
2983775--2983850	18	4.6	18	78	18	101	11	21	50	17	1.77
2983769--2983846	30	2.5	31	91	4	140	14	21	47	16	1.82
2983793--2983827	12	2.8	13	86	8	54	14	20	48	17	1.81
2983754--2983798	13	3.3	13	90	6	63	17	24	42	15	1.88
2986022--2986236	76	2.9	75	87	2	281	28	1	12	56	1.46
2986833--2986877	21	2.0	21	83	12	54	26	6	0	66	1.16
2990928--2990997	12	5.8	12	73	6	61	17	14	17	51	1.77
2990928--2990999	24	3.0	24	81	0	90	18	13	16	51	1.77
2993949--2993985	18	2.1	18	85	14	51	43	10	13	32	1.79
2995593--2995640	24	2.0	24	91	0	78	18	14	14	52	1.75
2996477--2996766	102	2.8	99	74	9	271	41	9	11	37	1.73
3007845--3008124	101	2.8	101	77	10	239	39	11	11	37	1.78
3007704--3008129	102	4.2	102	74	10	327	36	11	12	38	1.80
3007705--3008089	203	1.9	204	80	4	456	35	12	12	39	1.80
3011267--3011322	29	2.0	28	82	3	67	42	30	3	23	1.71
3013413--3013437	11	2.3	11	100	0	50	40	20	0	40	1.52
3016866--3016944	30	2.7	29	71	7	70	41	5	16	36	1.70
3021541--3021755	45	4.7	45	87	4	308	20	24	10	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3021541--3021755	91	2.4	91	88	6	312	20	24	10	44	1.83
3022133--3022332	95	2.1	95	81	7	237	26	21	13	39	1.89
3023380--3023486	49	2.2	48	81	6	126	45	3	20	29	1.68
3025391--3025420	14	2.1	15	93	6	53	26	6	0	66	1.16
3028219--3028408	94	2.0	94	100	0	380	33	9	15	41	1.80
3053051--3053078	2	14.0	2	100	0	56	50	0	0	50	1.00
3057766--3057811	23	2.0	24	91	4	76	32	21	21	23	1.98
3059799--3059846	18	2.7	18	80	0	60	43	12	14	29	1.82
3067461--3067500	22	1.9	21	85	10	55	52	12	0	35	1.39
3070498--3070542	14	3.5	13	77	22	51	17	11	11	60	1.59
3070489--3070542	24	2.2	24	90	0	81	16	12	12	57	1.65
3070806--3070851	13	3.8	12	81	18	51	6	10	21	60	1.52
3070794--3070847	10	5.2	10	77	16	56	7	7	22	62	1.46
3070807--3070862	23	2.4	23	90	3	85	5	12	23	58	1.54
3077035--3077076	20	2.0	21	90	4	68	7	21	33	38	1.81
3077670--3077791	59	2.1	59	84	0	154	29	22	18	29	1.97
3086613--3086665	22	2.2	25	87	9	76	58	0	1	39	1.09
3086686--3086735	23	2.1	24	88	3	75	50	0	4	46	1.20
3088972--3089004	14	2.4	14	90	10	50	72	3	9	15	1.21
3089994--3090192	18	11.1	18	68	12	115	41	5	8	45	1.57
3090042--3090090	25	2.0	25	87	0	71	40	8	8	42	1.64
3090017--3090129	58	1.9	58	92	0	190	42	7	7	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3090075--3090207	36	3.9	35	79	7	134	42	6	7	43	1.57
3090268--3090333	2	32.0	2	74	17	55	50	1	4	43	1.32
3090268--3090333	20	3.4	19	83	8	80	50	1	4	43	1.32
3090268--3090329	22	2.9	22	83	9	67	50	1	4	43	1.33
3090258--3090381	51	2.5	50	84	8	155	48	5	5	40	1.50
3090349--3090410	24	2.5	24	86	2	79	48	4	4	41	1.46
3090424--3090497	20	3.5	20	72	16	67	51	2	8	37	1.46
3090296--3090448	24	6.1	23	70	18	65	47	6	6	39	1.55
3090515--3090552	13	2.9	13	84	0	58	50	34	0	15	1.45
3090562--3090611	22	2.2	22	92	7	82	50	4	0	46	1.20
3090566--3090684	17	6.5	17	71	14	62	49	3	1	45	1.28
3090648--3090750	20	5.1	20	69	12	75	41	5	6	45	1.55
3090577--3090695	11	10.6	11	66	16	66	48	2	1	47	1.25
3090737--3090797	27	2.2	28	88	2	88	39	4	8	47	1.55
3090789--3090859	2	35.0	2	86	8	99	49	1	1	47	1.18
3090763--3090858	16	5.4	18	78	9	76	46	3	2	47	1.29
3090884--3091697	216	3.8	212	90	2	1176	29	11	8	50	1.68
3094488--3094534	22	2.1	22	96	0	85	34	12	27	25	1.92
3096453--3096484	10	3.2	10	95	0	55	25	21	28	25	1.99
3097036--3097062	5	5.4	5	100	0	54	0	37	0	62	0.95
3101597--3101630	13	2.6	13	90	0	50	44	17	17	20	1.87
3101451--3101616	85	2.0	85	80	4	192	31	19	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3104986--3105037	21	2.5	21	84	3	70	32	9	26	30	1.89
3105712--3105786	23	3.3	23	81	3	91	25	13	26	34	1.93
3105712--3105799	44	2.0	46	84	4	117	26	14	26	32	1.95
3112296--3112338	2	21.5	2	100	0	86	48	0	0	51	1.00
3128754--3128838	41	2.1	41	84	4	109	42	21	7	29	1.79
3128783--3128906	41	3.0	41	81	3	135	34	21	12	30	1.91
3135796--3135956	44	3.7	43	78	10	116	36	21	14	28	1.92
3135836--3135956	44	2.8	43	82	8	131	37	21	13	28	1.91
3145737--3145777	14	3.1	13	89	3	55	39	0	39	21	1.54
3149676--3149730	27	2.0	27	82	10	67	9	20	3	67	1.34

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