genome.fa.s8717.2.7.7.80.10.50.1000.14.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

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

This is table  14  of  16  ( 1896 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)
2816391--2816421	2	15.5	2	100	0	62	51	0	0	48	1.00
2817630--2817680	19	2.6	19	87	3	66	35	33	11	19	1.88
2817638--2817705	20	3.5	20	76	9	68	30	33	14	20	1.93
2817766--2817819	24	2.2	24	90	0	81	20	16	20	42	1.89
2820082--2820122	18	2.3	18	91	0	64	53	24	2	19	1.57
2820546--2820595	25	2.0	25	96	0	91	26	8	22	44	1.80
2820981--2821017	18	2.1	18	89	0	56	32	5	10	51	1.60
2820973--2821025	24	2.2	24	86	0	70	35	3	13	47	1.61
2821973--2822008	18	2.0	18	94	0	63	58	25	0	16	1.38
2822481--2822517	14	2.6	14	91	0	65	45	24	0	29	1.53
2823737--2823835	21	4.7	21	77	8	103	21	19	35	24	1.96
2823737--2823835	42	2.4	42	79	6	119	21	19	35	24	1.96
2824899--2824947	7	6.4	7	80	15	53	14	28	24	32	1.94
2824905--2824958	24	2.2	24	100	0	108	12	29	20	37	1.90
2826444--2826498	21	2.6	21	97	0	101	36	29	12	21	1.91
2826501--2826624	65	1.9	63	80	6	142	32	34	14	18	1.91
2826578--2826627	21	2.4	21	89	0	82	34	32	16	18	1.92
2828366--2828403	20	1.9	20	94	0	67	47	21	23	7	1.77
2828415--2828460	20	2.3	20	96	0	83	10	17	21	50	1.77
2838200--2838309	45	2.4	45	92	3	186	39	29	23	8	1.84
2840072--2840156	6	14.2	6	97	0	125	28	49	16	5	1.69
2840154--2840197	5	8.8	5	92	0	52	20	34	40	4	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2846058--2846106	6	8.2	6	95	0	71	28	48	16	6	1.69
2846104--2846167	5	12.8	5	88	0	74	20	32	40	6	1.77
2850011--2850061	22	2.3	22	100	0	102	43	13	3	39	1.63
2850054--2850716	39	17.3	39	84	5	586	34	15	19	29	1.93
2850392--2850421	15	2.0	15	93	0	51	26	16	33	23	1.96
2850411--2850460	21	2.4	21	96	0	91	36	10	26	28	1.88
2850335--2850496	57	2.9	55	80	13	181	31	13	25	29	1.94
2850783--2850905	39	3.2	39	66	13	110	38	8	16	37	1.78
2850719--2851047	76	4.3	76	85	4	382	41	10	15	31	1.82
2856224--2856258	17	2.0	17	88	5	52	62	0	25	11	1.28
2856459--2856520	18	3.5	17	82	8	70	8	12	6	72	1.26
2858684--2858720	18	2.2	17	90	9	58	0	10	5	83	0.79
2865806--2865846	20	2.0	20	90	9	66	68	4	0	26	1.10
2870278--2870346	31	2.2	31	89	0	102	28	30	26	14	1.95
2872014--2873398	461	3.0	461	99	0	2707	36	18	15	29	1.92
2874580--2874611	3	10.7	3	100	0	64	65	0	0	34	0.93
2877076--2877340	140	1.9	137	84	5	354	31	22	16	29	1.95
2884101--2884138	20	1.9	20	88	0	58	36	10	23	28	1.88
2892977--2893030	21	2.6	21	100	0	108	18	24	38	18	1.93
2893461--2893494	16	2.0	17	88	11	52	52	20	0	26	1.46
2893725--2893788	25	2.3	27	76	20	69	48	31	1	18	1.58
2895326--2895369	20	2.2	20	84	8	54	31	4	4	59	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2895736--2895794	20	2.9	20	75	7	66	13	25	38	22	1.90
2895736--2895796	21	3.0	20	78	4	70	13	26	37	22	1.91
2899593--2899632	21	1.9	21	85	10	55	35	10	2	52	1.48
2901549--2901602	21	2.6	21	100	0	108	18	24	38	18	1.93
2913387--2913416	13	2.4	12	94	5	51	76	0	0	23	0.78
2913881--2913925	19	2.4	18	82	10	54	73	0	6	20	1.05
2914068--2914103	17	2.1	18	89	5	56	77	2	8	11	1.08
2918742--2918786	2	22.5	2	100	0	90	51	0	0	48	1.00
2920956--2921006	8	5.9	8	78	17	57	82	9	5	1	0.91
2920956--2921005	19	2.8	17	85	11	73	82	10	6	2	0.92
2920954--2921013	9	6.6	9	78	16	61	78	13	6	1	1.02
2920956--2921013	18	3.2	17	86	11	80	79	12	6	1	1.00
2926502--2926693	100	1.9	100	86	2	269	21	20	24	33	1.97
2927823--2927872	7	6.9	7	85	14	66	0	18	2	80	0.82
2938601--2938635	2	17.5	2	93	0	61	51	2	0	45	1.16
2951740--2951796	3	18.7	3	85	10	80	33	3	0	63	1.12
2951740--2951796	26	2.3	23	88	8	78	33	3	0	63	1.12
2951874--2951902	3	9.7	3	100	0	58	34	0	0	65	0.93
2953220--2953270	15	3.4	15	71	10	50	23	7	15	52	1.68
2959368--2959431	24	2.8	23	80	17	80	20	29	20	29	1.97
2963345--2963418	24	3.5	21	75	21	66	21	29	18	29	1.97
2970017--2970059	20	2.2	20	86	0	59	32	13	13	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2971325--2971389	10	6.5	10	79	16	73	78	4	16	0	0.91
2971322--2971394	6	11.7	6	74	20	53	76	4	17	1	1.01
2971331--2971405	25	3.0	25	78	5	62	73	6	18	1	1.12
2972672--2972975	67	4.6	67	85	3	364	27	23	13	35	1.92
2972684--2972975	66	4.4	67	86	3	358	26	23	13	36	1.92
2972684--2972929	133	1.8	133	86	3	361	26	24	13	35	1.92
2973039--2973110	22	3.3	22	65	18	60	25	30	19	25	1.98
2973262--2973367	43	2.5	42	80	4	108	27	32	17	22	1.97
2973537--2973566	15	2.0	15	93	0	51	30	6	0	63	1.20
2973528--2973576	24	2.0	24	84	7	64	30	6	0	63	1.19
2974871--2974950	35	2.3	35	100	0	160	22	10	11	56	1.64
2974878--2974936	20	3.2	20	65	30	58	23	10	11	54	1.67
2976503--2976541	20	1.9	21	84	5	53	33	12	5	48	1.63
2978214--2978264	15	3.4	15	71	10	50	25	5	15	52	1.65
2978289--2978327	20	1.9	21	84	5	53	30	12	5	51	1.62
2979519--2979552	17	2.1	16	88	5	50	79	0	8	11	0.94
2988663--2988755	37	2.5	37	84	5	109	37	15	6	40	1.72
2988634--2988771	36	3.8	36	78	5	125	38	16	9	35	1.81
2989112--2989153	21	2.0	20	86	4	57	19	16	16	47	1.83
2989114--2989200	36	2.4	36	92	0	138	22	17	14	44	1.85
2989142--2989264	64	1.9	65	85	5	169	24	18	16	40	1.90
2989104--2989300	100	2.0	101	89	1	306	23	18	15	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2989207--2989303	36	2.7	35	90	4	142	25	19	16	38	1.92
2989414--2989523	43	2.7	41	80	11	118	22	32	20	24	1.97
2989755--2989795	3	13.7	3	85	10	57	36	0	0	63	0.95
2991433--2991470	5	7.6	5	93	0	67	15	0	2	81	0.80
2995202--2995230	12	2.4	12	100	0	58	13	37	41	6	1.72
2999359--2999930	55	10.4	55	89	0	858	34	19	12	34	1.89
3002276--3002306	2	15.5	2	100	0	62	48	0	0	51	1.00
3006418--3006454	18	2.1	18	85	14	51	54	2	8	35	1.44
3026920--3027046	66	1.9	67	83	4	168	22	44	2	29	1.65
3027820--3027867	23	2.1	23	100	0	96	16	20	14	47	1.82
3029467--3029628	6	27.0	6	93	0	225	38	35	9	16	1.82
3031588--3031612	13	1.9	13	100	0	50	76	0	8	16	1.02
3032004--3032577	112	5.1	112	93	1	927	45	14	15	25	1.83
3032004--3032577	222	2.6	223	92	1	927	45	14	15	25	1.83
3032632--3032872	113	2.1	112	92	0	392	46	13	14	25	1.82
3032335--3033054	295	2.4	295	93	0	1228	44	12	15	27	1.83
3032117--3033054	407	2.3	399	70	14	879	44	13	15	26	1.83
3032746--3033195	182	2.5	182	92	1	715	44	12	15	27	1.83
3033576--3033623	23	2.1	23	92	0	78	37	18	8	35	1.81
3034172--3034249	32	2.4	33	82	4	106	44	6	1	47	1.36
3035636--3035758	60	2.0	60	87	6	178	32	19	16	31	1.94
3036820--3036844	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3042542--3042599	29	2.0	29	83	6	73	77	5	12	5	1.09
3043643--3043687	16	2.7	17	77	16	58	40	2	0	57	1.11
3044974--3045021	15	3.2	15	96	0	87	6	16	68	8	1.35
3046537--3046571	19	1.9	17	88	11	52	25	5	0	68	1.11
3048851--3048987	69	2.0	69	85	0	184	41	15	16	26	1.88
3049037--3049801	138	5.6	138	80	7	867	34	15	18	31	1.92
3049037--3049808	412	1.9	408	91	2	1235	34	15	18	31	1.92
3049966--3050786	138	6.0	138	82	7	911	34	14	19	31	1.92
3052266--3052432	90	1.9	89	96	1	307	46	7	11	34	1.69
3061757--3061821	3	21.0	3	78	6	67	38	4	0	56	1.20

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