genome.fa.s8912.2.7.7.80.10.50.1000.15.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: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3753803

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

This is table  15  of  18  ( 2121 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)
2981368--2981470	9	11.6	9	75	19	76	74	0	7	16	1.09
2981395--2981470	4	17.2	4	75	17	62	75	0	6	18	1.02
2981383--2981468	35	2.5	34	83	12	97	75	1	6	16	1.07
2981368--2981481	40	2.7	42	78	15	121	74	1	7	15	1.13
2981544--2981578	15	2.3	15	100	0	70	77	0	11	11	1.00
2981544--2981591	17	3.0	17	82	8	57	79	0	10	10	0.95
2981613--2981709	49	1.9	51	83	8	128	72	3	4	20	1.15
2981705--2981751	21	2.2	22	85	11	62	74	0	6	19	1.03
2981654--2981761	42	2.5	42	72	7	94	73	1	6	18	1.14
2983386--2983968	121	4.8	121	93	1	918	22	16	26	34	1.95
2983576--2983899	55	5.5	55	66	20	188	22	16	27	33	1.95
2983921--2984368	147	3.0	147	91	1	711	26	14	21	37	1.92
2987951--2987983	15	2.1	16	94	5	59	72	3	12	12	1.23
2987956--2988067	40	2.7	40	78	15	113	74	1	8	15	1.15
2987984--2988054	4	17.2	4	78	21	60	74	0	7	18	1.03
2987988--2988042	28	2.0	28	89	6	87	76	0	7	16	1.00
2987951--2988054	45	2.3	43	79	11	102	74	0	8	16	1.12
2988155--2988200	13	3.3	13	80	16	56	71	0	8	19	1.11
2988277--2988323	21	2.2	22	85	11	62	74	0	8	17	1.05
2988291--2988332	21	2.0	21	81	9	50	73	2	7	16	1.15
2988330--2988386	2	28.5	2	100	0	114	50	0	0	49	1.00
2989517--2989561	22	2.0	23	91	4	74	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)
2990602--2991214	82	7.5	82	88	2	838	35	15	14	33	1.89
2990602--2991214	165	3.7	164	87	4	855	35	15	14	33	1.89
2996984--2997017	15	2.3	15	94	0	59	35	14	5	44	1.70
3001100--3001134	11	3.3	10	85	14	52	40	0	11	48	1.39
3001771--3001873	31	3.2	31	67	12	89	24	14	18	42	1.87
3002058--3002090	2	16.5	2	100	0	66	51	0	0	48	1.00
3007628--3007743	58	2.0	58	93	0	196	50	5	4	40	1.44
3009312--3009337	7	3.7	7	100	0	52	42	30	0	26	1.56
3012603--3012649	22	2.1	22	84	7	60	38	4	0	57	1.18
3013372--3013410	19	2.1	19	90	0	60	23	56	7	12	1.62
3013740--3013773	16	2.1	16	94	0	59	50	29	11	8	1.69
3016477--3016528	5	10.6	5	93	2	70	0	40	26	32	1.57
3020705--3020743	19	2.1	19	95	0	69	20	5	33	41	1.74
3023225--3023266	20	2.1	20	100	0	84	35	19	19	26	1.95
3023435--3023493	30	1.9	31	82	3	75	30	15	6	47	1.71
3029772--3029813	22	1.9	22	90	0	66	11	21	45	21	1.84
3029783--3029815	17	1.9	17	93	0	57	12	18	48	21	1.80
3029814--3029889	20	3.9	19	89	6	100	32	25	25	17	1.96
3029814--3029889	9	8.0	9	87	11	89	32	25	25	17	1.96
3037068--3037104	7	5.3	7	93	0	65	27	29	24	18	1.98
3037060--3037104	21	2.1	21	91	0	72	31	28	22	17	1.97
3037111--3037209	9	10.3	9	77	10	81	26	27	30	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3037116--3037210	19	4.9	19	80	11	95	26	27	29	16	1.97
3037125--3037210	10	8.8	10	74	15	65	26	26	29	17	1.98
3037136--3037210	29	2.6	28	83	12	55	28	26	28	17	1.98
3039059--3039092	9	3.7	9	92	4	50	23	5	17	52	1.66
3046598--3046636	12	3.2	12	85	3	51	53	0	0	46	1.00
3049636--3049676	8	5.2	8	82	5	57	34	0	29	36	1.58
3049819--3049924	34	3.2	33	81	9	133	37	2	4	54	1.36
3049826--3049925	33	3.0	34	83	2	139	39	3	4	54	1.35
3050443--3050536	21	4.5	21	85	10	129	21	26	32	19	1.97
3050540--3050587	21	2.3	21	85	0	60	22	12	39	25	1.89
3052314--3052402	34	2.7	31	81	6	97	59	2	0	38	1.10
3052317--3052391	31	2.4	33	77	11	84	60	1	0	38	1.06
3052349--3052426	35	2.2	34	80	10	86	65	5	0	29	1.14
3057240--3057306	30	2.2	30	81	0	80	34	22	28	14	1.94
3061235--3061321	32	2.8	30	79	8	93	55	4	8	32	1.50
3069088--3069147	23	2.6	22	82	12	77	36	3	0	60	1.14
3069793--3069857	20	3.1	21	82	4	78	30	18	30	20	1.96
3071127--3071176	21	2.4	21	89	0	82	18	2	18	62	1.43
3072470--3072562	46	2.0	47	81	6	109	34	13	20	31	1.92
3076846--3076908	7	9.1	7	80	13	69	80	0	17	1	0.78
3076842--3076913	8	8.6	9	75	22	52	80	0	18	1	0.78
3076842--3076915	24	3.0	24	81	18	82	81	0	17	1	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3076849--3076915	34	2.1	30	89	10	98	82	0	16	1	0.75
3079872--3080144	119	2.3	119	89	1	413	33	16	17	32	1.93
3080070--3080123	20	2.7	20	91	0	81	24	25	22	27	2.00
3080145--3080198	20	2.7	20	82	0	63	27	24	20	27	1.99
3080064--3080219	75	2.1	75	93	0	267	29	19	21	29	1.98
3079945--3080338	194	2.0	194	91	0	635	32	17	18	31	1.94
3080139--3080413	119	2.3	119	91	1	435	33	17	18	31	1.94
3080575--3080609	17	2.1	17	88	0	52	40	8	0	51	1.33
3080557--3080641	23	3.8	22	82	10	86	40	5	0	54	1.25
3083426--3083744	54	5.9	54	86	4	419	30	17	16	35	1.92
3083439--3083837	108	3.8	106	82	7	466	30	17	17	34	1.93
3083432--3083837	162	2.6	154	85	5	518	30	17	16	34	1.93
3083707--3083785	41	1.9	41	89	0	122	27	18	17	35	1.94
3083653--3083837	95	1.9	95	90	2	291	28	19	16	35	1.94
3090416--3090892	54	8.8	54	85	1	616	31	17	15	34	1.92
3100536--3100566	16	1.9	16	93	0	53	61	22	12	3	1.46
3100622--3100709	10	8.1	10	72	16	68	56	19	12	11	1.65
3100658--3100717	23	2.6	22	76	10	66	60	18	10	11	1.58
3106949--3107022	29	2.5	30	80	2	87	37	4	21	36	1.73
3107743--3107789	15	3.1	15	73	8	51	34	0	27	38	1.57
3107943--3107975	9	3.7	9	88	12	50	12	0	0	87	0.53
3107949--3107974	11	2.4	11	100	0	52	7	0	0	92	0.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3107966--3108005	21	2.0	21	90	5	64	40	0	2	57	1.12
3113130--3113206	20	3.8	20	84	1	100	33	23	10	32	1.89
3113129--3113205	41	1.9	40	89	2	118	32	23	10	33	1.89
3116928--3117079	64	2.4	64	92	2	243	53	17	1	28	1.52
3117057--3117093	14	2.6	14	100	0	74	48	21	0	29	1.50
3118450--3118561	21	5.3	21	76	4	109	24	18	35	21	1.95
3118450--3118565	42	2.8	42	90	0	178	25	18	35	21	1.95
3118847--3118900	21	2.6	21	90	0	81	35	31	16	16	1.92
3120685--3120738	20	2.7	19	86	8	81	48	22	16	12	1.80
3120864--3120921	22	2.6	22	77	0	71	18	15	43	22	1.88
3121014--3121051	20	2.0	20	84	5	51	44	13	15	26	1.83
3124566--3124605	14	3.1	13	82	10	55	60	0	0	40	0.97
3126004--3126057	3	17.7	3	81	11	65	64	0	0	35	0.94
3126004--3126060	11	5.3	11	78	21	59	64	0	0	35	0.93
3126004--3126060	14	4.0	14	84	11	80	64	0	0	35	0.93
3126435--3126500	20	3.3	20	65	23	57	15	24	10	50	1.75
3126415--3126513	40	2.5	40	96	0	189	18	23	9	49	1.75
3126307--3126628	153	2.1	153	92	3	544	25	19	13	41	1.87
3126455--3126751	115	2.6	113	91	3	479	26	18	14	40	1.89
3127460--3127920	83	5.6	83	96	1	852	38	22	13	26	1.90
3129071--3129160	1	90.0	1	68	0	54	0	15	0	84	0.62
3129077--3129158	10	7.6	10	83	14	101	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3129071--3129163	34	2.7	34	90	6	152	0	16	0	83	0.64
3129077--3129163	44	2.0	44	90	4	140	0	16	0	83	0.64
3140293--3140317	12	2.1	12	100	0	50	68	8	0	24	1.16
3140525--3140564	14	3.1	13	82	10	55	60	0	0	40	0.97
3141964--3142020	3	18.7	3	82	10	71	64	0	0	35	0.93
3141967--3142027	9	6.7	9	78	10	52	65	0	0	34	0.93
3141965--3142027	12	5.4	12	71	21	53	66	0	0	33	0.92
3144426--3144477	21	2.5	21	100	0	104	25	21	26	26	1.99
3146639--3146770	46	2.9	44	84	7	158	39	7	21	31	1.81
3147591--3147615	5	5.0	5	100	0	50	0	20	40	40	1.52

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