genome.fa.s7923.2.7.7.80.10.50.1000.14.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   
          33   34   35   36   37   38   39   40   

This is table  14  of  40  ( 4704 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)
2791261--2791307	16	3.0	16	84	9	53	29	0	10	59	1.31
2791282--2791312	15	2.1	14	94	5	53	38	0	6	54	1.26
2793593--2794060	26	17.4	26	72	20	215	45	9	2	43	1.48
2793593--2794060	12	34.8	13	71	20	215	45	9	2	43	1.48
2793592--2794118	124	4.3	124	95	1	911	44	9	2	43	1.48
2796934--2796992	26	2.3	24	78	16	64	40	3	8	47	1.51
2797802--2797864	28	2.2	30	91	5	103	57	11	0	31	1.34
2797806--2797871	28	2.4	28	85	10	98	56	10	0	33	1.34
2797841--2797889	21	2.3	21	85	3	71	53	16	0	30	1.43
2798391--2798448	25	2.3	25	79	5	64	25	43	13	17	1.86
2798507--2798586	29	2.8	29	96	0	142	16	28	33	21	1.95
2799470--2799496	2	13.5	2	100	0	54	48	0	51	0	1.00
2799726--2799809	43	2.0	43	92	0	141	30	11	15	41	1.83
2818179--2818252	16	4.6	16	82	12	89	71	0	21	6	1.09
2818178--2818252	32	2.3	34	84	9	102	72	0	21	6	1.08
2819201--2819509	130	2.3	130	85	4	415	26	29	19	23	1.98
2821740--2821838	25	4.0	25	94	3	166	28	15	20	36	1.92
2821967--2822018	3	17.7	3	80	11	63	65	1	0	32	1.04
2832577--2832676	47	2.2	47	85	3	132	51	1	5	43	1.30
2833755--2833841	10	8.0	10	72	16	57	10	12	18	58	1.62
2833742--2833805	33	1.9	33	87	0	92	9	10	18	60	1.56
2833789--2833819	14	2.2	14	100	0	62	0	12	29	58	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2841228--2841274	19	2.5	19	100	0	94	29	17	29	23	1.97
2845428--2845480	19	2.8	19	91	0	88	30	18	30	20	1.97
2845525--2845588	24	2.8	24	73	21	66	29	18	29	21	1.97
2847799--2847846	24	2.0	24	100	0	96	29	4	25	41	1.74
2849801--2849859	20	2.7	21	80	17	66	30	16	32	20	1.95
2852477--2852516	18	2.4	16	87	8	53	35	5	20	40	1.74
2852477--2852517	16	2.4	18	88	8	59	34	4	19	41	1.73
2856602--2856674	14	5.0	14	73	14	58	45	13	1	39	1.52
2856599--2856692	44	2.1	46	90	4	147	42	13	2	41	1.56
2856591--2856659	30	2.3	30	80	7	79	44	14	1	39	1.54
2856610--2856683	14	5.0	15	73	25	52	41	14	1	41	1.54
2856877--2856908	2	16.0	2	100	0	64	50	0	0	50	1.00
2857050--2857173	49	2.5	49	88	6	178	15	34	28	21	1.94
2861569--2861609	18	2.3	18	91	4	66	63	2	4	29	1.28
2861650--2861680	10	3.1	10	95	0	53	35	0	32	32	1.58
2866824--2866879	26	2.2	26	90	0	85	7	42	26	23	1.79
2868745--2868781	2	18.5	2	100	0	74	48	0	0	51	1.00
2872044--2872075	6	5.3	6	100	0	64	0	50	15	34	1.45
2872217--2872269	27	2.0	27	85	7	72	43	0	0	56	0.99
2872282--2872417	72	2.0	68	83	12	172	44	2	4	48	1.38
2872232--2872564	63	5.0	68	74	17	252	44	3	5	47	1.42
2872308--2872405	36	2.8	33	71	18	81	45	3	3	47	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2873127--2873173	18	2.4	21	80	13	57	46	0	0	53	1.00
2873227--2873318	23	3.6	26	72	16	75	48	0	2	48	1.13
2881334--2881404	34	2.1	34	84	2	90	22	26	15	35	1.94
2881804--2881856	19	2.8	19	100	0	106	16	22	33	26	1.96
2881883--2881960	20	3.9	19	88	8	120	25	16	30	26	1.97
2885448--2885537	20	4.8	20	82	13	100	26	18	31	23	1.98
2885468--2885498	15	2.1	15	100	0	62	25	19	29	25	1.99
2885447--2885518	35	2.1	35	91	0	117	26	19	30	23	1.98
2890598--2890660	27	2.3	28	83	2	74	20	12	14	52	1.74
2893579--2893628	18	2.6	19	81	12	57	62	0	2	36	1.07
2894699--2894815	60	2.0	60	98	0	225	33	13	19	33	1.91
2895737--2895761	9	2.8	9	100	0	50	88	0	0	12	0.53
2897029--2897077	3	16.0	3	91	8	73	63	0	0	36	0.95
2897442--2897732	36	8.2	36	78	11	298	40	13	19	27	1.88
2897479--2897732	138	1.8	138	88	3	386	40	12	19	27	1.88
2897634--2897757	36	3.4	35	83	9	142	37	13	20	27	1.91
2901070--2901107	19	2.0	20	85	15	53	26	0	15	57	1.38
2906631--2906669	21	1.9	20	89	5	60	38	28	7	25	1.83
2907468--2907575	36	3.0	35	85	6	128	51	13	11	23	1.73
2923184--2923228	23	2.0	23	82	8	56	44	17	4	33	1.69
2923227--2923288	31	2.0	31	90	3	99	41	33	1	22	1.64
2928642--2928681	21	2.0	21	86	13	59	52	2	0	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2930060--2930118	24	2.5	24	78	10	75	40	15	15	28	1.87
2933126--2933172	2	23.5	2	100	0	94	48	0	0	51	1.00
2933871--2933937	30	2.2	30	100	0	134	17	29	19	32	1.95
2938126--2938206	22	3.6	22	93	1	135	25	29	25	18	1.98
2938855--2938900	2	23.0	2	100	0	92	50	0	0	50	1.00
2939919--2939963	21	2.1	21	87	0	63	15	24	28	31	1.96
2941421--2941489	2	34.5	2	91	0	111	46	0	4	49	1.21
2948337--2948392	2	29.0	2	92	7	98	50	0	0	50	1.00
2948628--2948667	18	2.1	20	86	9	57	55	2	0	42	1.13
2950850--2951310	113	4.0	113	85	9	608	26	17	16	39	1.91
2950733--2951292	237	2.4	236	92	2	894	26	18	15	39	1.90
2951663--2951716	22	2.5	22	93	0	90	35	12	14	37	1.85
2954414--2954462	23	2.1	23	100	0	98	40	16	18	24	1.90
2955207--2955244	18	2.1	18	85	9	51	55	2	0	42	1.14
2960092--2960138	17	2.6	18	76	6	51	29	0	4	65	1.11
2961569--2961739	86	2.0	86	98	0	333	28	9	23	38	1.87
2965788--2965818	16	1.9	16	93	0	53	29	0	22	48	1.51
2966668--2966720	21	2.5	21	81	0	61	26	18	20	33	1.96
2966707--2966828	20	6.0	20	76	14	115	31	25	18	24	1.98
2966706--2966820	41	2.8	41	93	0	185	33	25	18	23	1.97
2967657--2967710	24	2.2	24	93	0	90	20	18	20	40	1.91
2967900--2967932	14	2.3	15	94	5	59	48	24	21	6	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2970050--2970472	140	3.0	140	97	0	792	28	12	15	43	1.83
2970443--2970517	20	3.8	20	91	3	107	32	22	18	26	1.97
2970836--2970945	42	2.6	42	81	5	141	26	18	35	20	1.95
2971335--2971422	20	4.4	20	82	2	106	37	26	18	18	1.93
2971339--2971422	40	2.1	40	90	0	132	38	26	17	17	1.92
2971415--2971493	32	2.4	33	80	2	88	46	22	18	11	1.81
2971458--2971494	19	1.9	19	100	0	74	48	29	16	5	1.68
2971538--2971605	20	3.4	21	87	4	79	19	20	25	35	1.96
2973499--2973536	20	1.9	20	88	0	58	60	18	10	10	1.57
2973939--2974007	22	3.2	22	86	8	90	24	13	43	18	1.86
2974171--2974269	20	5.2	20	71	18	95	24	20	26	29	1.99
2974171--2974289	40	3.1	40	90	7	178	24	20	24	31	1.98
2974218--2974291	20	3.7	20	76	7	87	21	20	21	36	1.95
2974285--2974331	21	2.2	21	80	0	58	34	19	21	25	1.96
2974376--2974412	19	1.9	19	88	0	56	24	16	27	32	1.96
2975273--2975320	21	2.2	23	85	7	64	56	0	10	33	1.34
2975850--2976222	30	12.6	29	74	11	206	40	7	1	51	1.38
2975893--2975997	29	3.6	29	79	8	115	39	4	2	53	1.37
2975853--2976222	59	6.2	58	74	12	193	40	7	1	51	1.38
2975930--2976140	90	2.4	89	79	3	244	37	9	1	51	1.42
2976086--2976191	54	2.0	54	83	7	135	39	9	0	50	1.41
2976111--2976170	24	2.5	24	86	5	77	38	8	0	53	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2976133--2976211	31	2.5	32	83	8	108	40	6	0	53	1.26
2976132--2976222	31	2.8	32	80	12	89	42	5	0	51	1.25
2976229--2976319	29	3.1	29	83	3	110	54	0	6	38	1.26
2979049--2979106	25	2.3	25	87	0	80	36	22	18	22	1.95
2979416--2979463	18	2.6	19	80	9	55	66	2	12	18	1.33
2990342--2990389	18	2.7	18	90	6	71	27	16	31	25	1.97
2993459--2993503	23	2.0	23	82	8	56	55	11	4	28	1.54
2997118--2997224	44	2.4	45	81	4	119	34	28	16	19	1.94
2997462--2997496	17	2.1	17	88	0	52	37	14	0	48	1.44
3002917--3002963	22	2.2	22	84	3	60	14	29	23	31	1.95

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   
          33   34   35   36   37   38   39   40