genome.fa.s8053.2.7.7.80.10.50.1000.15.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  15  of  32  ( 3749 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)
2861365--2861437	31	2.4	31	86	6	96	52	1	9	36	1.43
2861434--2861492	30	2.0	30	83	3	75	54	3	10	32	1.51
2861488--2861558	30	2.2	34	70	21	78	49	0	8	42	1.33
2861497--2861567	30	2.4	30	87	0	97	47	0	8	43	1.33
2862665--2862706	20	2.1	20	83	16	52	33	21	14	30	1.93
2863098--2863187	30	3.0	30	90	3	146	52	1	8	37	1.40
2863174--2863221	18	2.6	18	76	3	51	41	0	14	43	1.45
2863422--2863456	16	2.2	16	89	0	52	71	0	0	28	0.86
2863785--2863818	17	2.0	17	88	11	52	41	2	0	55	1.15
2868722--2868849	48	2.5	51	80	11	156	27	20	23	28	1.99
2871468--2871514	20	2.4	19	89	3	67	80	10	6	2	0.96
2871468--2871521	21	2.7	20	82	5	65	77	12	7	1	1.05
2877686--2877722	15	2.4	16	90	4	58	13	10	5	70	1.32
2879729--2879767	19	2.1	19	85	0	51	56	7	2	33	1.41
2882614--2882667	14	3.9	14	92	0	81	7	11	20	61	1.53
2882622--2882671	24	2.1	24	85	7	66	8	12	22	58	1.59
2883134--2883176	20	2.2	20	86	0	59	44	6	2	46	1.43
2887553--2887630	35	2.2	35	80	13	90	53	10	7	28	1.62
2889943--2889990	12	4.2	12	76	17	57	66	0	0	33	0.92
2889943--2889996	21	2.6	21	91	5	83	66	0	0	33	0.92
2891545--2891610	14	4.5	15	76	12	75	71	0	4	24	1.05
2891545--2891619	29	2.5	29	77	14	73	69	1	5	24	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2894902--2895123	112	2.0	108	86	11	308	16	24	29	28	1.97
2895387--2895433	18	2.6	18	100	0	94	25	14	36	23	1.93
2898763--2898827	14	4.6	14	76	16	62	43	3	1	52	1.26
2900654--2901011	172	2.1	173	90	2	569	37	18	5	39	1.72
2901043--2901100	29	1.9	29	86	6	80	43	10	6	39	1.66
2901463--2901506	23	1.9	23	100	0	88	25	40	25	9	1.84
2901523--2901576	22	2.5	22	87	0	90	16	35	18	29	1.93
2915394--2915467	35	2.1	35	87	0	103	33	27	28	10	1.90
2920648--2920703	19	2.9	19	85	12	78	16	21	28	33	1.95
2920648--2920696	10	4.8	11	83	16	70	16	20	26	36	1.93
2920649--2920703	9	5.6	10	83	12	78	14	21	29	34	1.93
2920719--2920767	18	2.7	18	93	0	89	18	48	20	12	1.79
2920775--2920871	29	3.4	28	82	5	95	23	7	24	44	1.78
2927479--2927530	9	5.3	10	82	13	72	13	19	30	36	1.90
2927533--2927565	13	2.5	13	95	0	57	15	48	21	15	1.81
2931878--2931911	17	2.0	17	88	0	50	26	29	29	14	1.95
2937904--2937944	18	2.3	18	95	0	73	41	29	14	14	1.86
2938527--2938563	19	1.9	19	94	0	65	40	8	0	51	1.32
2939148--2939238	22	4.2	22	82	1	85	37	26	10	25	1.89
2940215--2940247	2	16.5	2	100	0	66	51	0	0	48	1.00
2941782--2941907	65	2.0	65	84	4	166	32	21	15	30	1.94
2942715--2942791	23	3.4	23	66	20	63	27	20	24	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2946238--2946293	28	2.0	28	96	0	103	25	30	10	33	1.90
2947758--2947914	65	2.4	65	78	3	156	31	20	17	30	1.96
2949459--2949520	30	2.0	31	84	3	81	38	25	16	19	1.92
2949923--2949951	2	14.5	2	100	0	58	48	0	0	51	1.00
2950148--2950183	2	18.0	2	100	0	72	50	0	0	50	1.00
2954477--2954566	31	2.9	31	79	9	103	36	17	16	28	1.92
2954869--2954899	2	15.5	2	100	0	62	51	0	0	48	1.00
2956674--2956734	21	3.0	22	71	24	60	75	4	3	16	1.11
2956686--2956748	22	2.8	22	81	18	76	74	3	3	19	1.09
2957143--2957195	16	3.2	16	83	2	61	39	5	35	18	1.75
2957161--2957381	117	1.9	117	85	3	313	33	7	24	34	1.84
2957868--2958453	2	289.5	2	62	21	120	44	3	5	46	1.43
2957973--2958084	9	12.4	9	68	17	54	42	2	7	47	1.45
2958010--2958128	59	2.0	59	83	6	150	44	2	4	48	1.35
2958105--2958147	9	4.7	9	82	11	52	37	2	6	53	1.41
2958055--2958203	81	2.0	78	80	15	172	40	2	6	51	1.38
2958079--2958219	41	3.5	42	80	10	145	40	3	5	50	1.43
2958258--2958339	39	2.2	37	86	8	112	51	6	2	40	1.40
2958390--2958424	11	3.2	11	83	0	52	48	0	2	48	1.16
2958397--2958455	17	3.6	18	76	19	67	40	0	6	52	1.28
2968784--2968848	31	2.1	31	94	0	112	52	6	9	32	1.58
2971871--2972069	99	2.0	99	100	0	398	27	11	29	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2974972--2975029	19	3.1	19	97	0	107	29	18	31	20	1.97
2978418--2978475	28	2.1	27	83	3	71	25	3	20	50	1.64
2978496--2978535	19	2.0	20	85	4	55	45	2	0	52	1.14
2979635--2979664	14	2.1	14	93	0	51	63	0	0	36	0.95
2983479--2983518	21	1.9	21	89	0	62	20	17	40	22	1.92
2992064--2992115	25	2.1	25	82	7	61	44	11	11	32	1.77
2992494--2992730	51	4.8	50	79	9	254	47	16	10	25	1.79
2992541--2992730	94	2.0	97	86	7	273	48	16	10	24	1.77
2995539--2995637	46	2.2	46	81	0	117	53	11	18	17	1.72
2995911--2995988	42	2.0	41	80	14	92	38	0	3	57	1.17
2995994--2996023	14	2.1	14	93	0	51	63	0	0	36	0.95
2995978--2996013	19	1.9	18	88	5	54	61	0	0	38	0.96
2996674--2996698	10	2.5	10	100	0	50	32	16	0	52	1.44
3000701--3000748	21	2.3	21	85	0	69	29	14	10	45	1.78
3005351--3005398	21	2.3	21	96	0	87	27	18	12	41	1.86
3008830--3008872	18	2.5	17	85	7	61	25	4	2	67	1.22
3009125--3009194	24	2.8	26	69	8	72	24	4	1	70	1.14
3009386--3009428	2	22.0	2	95	4	79	48	0	0	51	1.00
3011466--3011505	18	2.2	18	100	0	80	20	32	12	35	1.90
3012026--3012065	8	5.1	8	84	6	55	10	17	12	60	1.59
3013247--3013308	9	6.4	9	83	9	61	82	6	9	1	0.91
3013254--3013292	12	3.3	12	85	3	53	82	7	7	2	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3013247--3013292	11	4.2	11	86	13	60	82	6	8	2	0.91
3013280--3013324	23	2.0	23	82	8	56	77	6	15	0	0.96
3013279--3013324	16	2.8	17	80	12	51	78	6	15	0	0.95
3013913--3013956	22	2.0	22	91	8	72	38	22	11	27	1.88
3014855--3015050	36	5.5	35	82	6	178	26	19	15	38	1.91
3014865--3015050	72	2.6	73	86	4	220	27	19	15	37	1.92
3015025--3015168	65	2.2	65	100	0	288	31	18	13	36	1.89
3015135--3015252	36	3.2	36	83	7	148	25	21	15	38	1.92
3014933--3015303	203	1.8	202	86	1	537	28	18	13	39	1.89
3015211--3015368	67	2.4	67	84	5	187	33	21	8	36	1.85
3015202--3015368	65	2.5	65	82	4	183	31	21	8	37	1.85
3015989--3016438	105	4.3	105	92	2	712	32	27	18	21	1.97
3017232--3017270	19	2.1	19	100	0	78	48	25	5	20	1.70
3017609--3017648	18	2.3	18	83	8	57	25	5	2	67	1.23
3019213--3019270	31	1.9	30	89	10	91	39	20	13	25	1.90
3019324--3019369	23	2.0	23	91	0	74	28	19	19	32	1.96
3022445--3022471	2	13.5	2	100	0	54	48	0	0	51	1.00
3022828--3022860	17	1.9	18	88	11	52	12	12	18	57	1.64
3023980--3024042	11	5.9	11	73	14	60	39	1	1	57	1.18
3025160--3025191	14	2.1	16	88	11	50	3	25	0	71	1.00
3026975--3027214	120	2.0	120	100	0	480	46	7	6	39	1.58
3029783--3029827	20	2.2	21	84	11	58	71	0	4	24	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3029798--3029836	20	2.0	20	85	10	53	71	2	0	25	0.98
3029935--3029960	2	13.0	2	100	0	52	50	0	0	50	1.00
3029966--3030010	17	2.8	17	80	6	58	77	0	2	20	0.87
3030506--3030535	12	2.5	12	94	0	51	13	60	26	0	1.34
3031226--3031266	21	1.9	22	90	5	66	75	0	2	21	0.92
3031292--3031342	26	2.0	26	88	7	77	45	7	3	43	1.51
3031319--3031572	39	7.4	33	70	19	132	44	5	3	46	1.43
3031361--3031422	29	2.2	28	85	2	79	46	4	3	45	1.40
3031326--3031458	65	2.1	62	86	6	178	44	5	3	46	1.44
3031388--3031572	38	5.1	37	72	18	138	44	7	2	45	1.45

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