genome.fa.s1547.2.7.7.80.10.50.1000.13.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  13  of  51  ( 6083 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)
2520383--2520438	13	4.5	13	70	28	50	53	0	8	37	1.32
2520210--2520430	22	9.9	22	72	20	92	51	0	7	40	1.33
2520126--2520469	179	1.9	179	96	1	636	52	0	7	39	1.35
2520108--2520445	36	9.5	35	71	19	202	52	0	8	38	1.36
2520439--2520511	21	3.7	21	72	18	75	43	4	0	52	1.20
2520442--2520504	18	3.3	19	74	17	67	44	4	0	50	1.23
2520660--2520710	16	3.2	16	80	0	66	33	15	29	21	1.94
2522155--2522213	29	2.0	29	96	0	109	40	11	13	33	1.81
2531748--2531785	17	2.2	18	81	13	53	60	2	2	34	1.24
2532615--2532662	24	2.0	24	100	0	96	45	0	25	29	1.53
2533083--2533450	131	2.8	131	83	2	470	39	15	11	33	1.82
2535883--2535954	22	3.3	22	90	3	101	27	18	20	33	1.96
2535883--2535946	21	3.0	21	90	4	101	26	18	23	31	1.98
2537408--2537469	3	20.3	3	96	3	115	66	0	0	33	0.92
2538141--2538188	18	2.7	18	96	0	87	43	4	12	39	1.62
2538219--2538251	15	2.1	17	88	11	52	42	0	6	51	1.26
2538675--2538808	66	2.0	66	98	0	259	31	2	4	61	1.31
2538750--2538784	18	1.9	18	88	0	52	22	2	0	74	0.95
2538760--2538789	14	2.1	14	93	0	51	16	0	3	80	0.85
2539664--2539741	39	2.0	39	84	0	102	28	12	19	39	1.88
2543042--2543106	6	11.0	6	83	9	53	58	0	1	40	1.07
2543042--2543104	10	6.2	10	87	3	63	57	0	1	41	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2543068--2543104	2	18.5	2	100	0	74	51	0	0	48	1.00
2545381--2545438	19	3.2	19	65	18	50	34	10	27	27	1.89
2545543--2545803	38	7.1	36	66	14	104	41	11	17	29	1.85
2545567--2545803	111	2.2	109	81	4	271	41	12	17	28	1.86
2545699--2545876	73	2.4	72	78	5	169	41	10	18	29	1.84
2549505--2549554	21	2.5	20	83	6	64	56	10	14	20	1.66
2550408--2552430	243	8.4	243	87	2	2814	31	21	11	36	1.88
2550408--2551576	81	14.4	81	90	0	1714	31	22	10	35	1.88
2551531--2551646	61	1.9	61	83	0	151	34	17	9	38	1.82
2551450--2551727	142	2.0	142	90	0	439	32	19	10	37	1.85
2551592--2552430	81	10.4	81	89	0	1210	31	20	11	37	1.88
2552531--2552651	57	2.2	55	81	3	134	38	19	7	34	1.80
2552658--2552696	18	2.2	18	90	0	60	43	20	7	28	1.79
2552979--2553035	22	2.7	21	78	7	62	28	24	14	33	1.94
2555669--2555712	10	4.4	10	88	0	52	56	0	2	40	1.11
2555664--2555712	4	12.2	4	82	0	53	57	0	2	40	1.10
2555712--2555768	2	28.5	2	100	0	114	0	0	49	50	1.00
2570884--2570930	12	3.9	12	97	0	85	51	19	6	23	1.70
2576095--2576145	27	1.9	26	92	4	84	23	11	29	35	1.90
2582303--2582335	15	2.2	15	94	0	57	45	0	0	54	0.99
2582488--2582527	20	2.0	20	90	0	62	22	22	10	45	1.82
2585703--2585838	69	2.0	69	85	0	182	35	33	10	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2590308--2590463	31	5.0	31	92	1	242	20	17	22	39	1.93
2592052--2592128	39	2.0	39	97	0	145	11	19	29	38	1.87
2592158--2592221	27	2.4	26	84	5	74	56	1	3	39	1.25
2592167--2592228	13	5.1	13	75	15	53	54	1	3	40	1.26
2592412--2592518	36	3.0	36	91	0	169	18	21	23	36	1.95
2599303--2599383	38	2.1	38	84	4	101	22	23	4	49	1.69
2599292--2599369	38	2.1	38	97	0	147	21	23	3	51	1.64
2605664--2605739	13	5.4	14	76	16	68	55	0	2	42	1.14
2605664--2605727	27	2.4	26	84	5	74	56	0	3	40	1.15
2605686--2605738	19	2.9	19	83	10	76	56	0	1	41	1.10
2605840--2605878	18	2.2	18	95	0	69	33	15	17	33	1.92
2607932--2608219	105	2.7	105	76	9	235	42	13	24	19	1.88
2608940--2609056	58	2.0	58	93	0	198	20	25	22	31	1.98
2616135--2616189	21	2.5	22	85	5	76	61	3	25	9	1.42
2617356--2617410	2	27.5	2	100	0	110	50	0	0	49	1.00
2618250--2618275	2	13.0	2	100	0	52	50	0	0	50	1.00
2618364--2618405	2	21.0	2	90	0	66	45	0	2	52	1.13
2619342--2619394	2	26.5	2	81	7	63	1	49	3	45	1.31
2620005--2620070	18	3.7	18	93	0	114	10	24	24	40	1.86
2620776--2620829	22	2.5	22	90	0	90	40	25	16	16	1.89
2624607--2624646	21	2.0	21	85	9	57	55	7	15	22	1.65
2625172--2625209	19	2.0	19	94	0	67	31	23	5	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2635435--2635468	12	2.8	12	81	0	50	41	14	17	26	1.88
2638254--2638292	18	2.2	18	90	0	60	51	0	17	30	1.46
2638370--2638422	26	2.0	26	82	7	63	39	16	18	24	1.91
2639401--2639491	24	3.8	24	89	5	139	21	16	19	41	1.90
2643162--2643200	18	2.2	18	90	0	60	51	0	17	30	1.46
2643278--2643330	26	2.0	26	82	7	63	39	16	18	24	1.91
2644307--2644397	24	3.8	24	88	5	130	23	15	19	41	1.89
2644322--2644360	12	3.2	12	79	13	53	28	12	23	35	1.91
2647518--2647710	95	2.0	95	100	0	386	25	24	9	40	1.85
2651773--2652031	46	5.6	46	88	2	385	44	10	21	23	1.83
2651773--2652029	93	2.8	93	89	4	385	45	10	21	22	1.82
2651691--2651951	119	2.2	119	83	10	354	44	10	22	22	1.83
2651771--2652023	139	1.8	139	92	1	427	45	10	21	22	1.83
2651790--2652071	139	2.0	139	83	5	338	46	9	20	23	1.80
2657984--2658013	13	2.3	13	100	0	60	20	23	40	16	1.91
2666357--2666492	60	2.3	59	80	8	159	33	18	15	32	1.92
2669185--2669223	20	2.0	20	100	0	78	53	5	0	41	1.23
2670520--2670559	20	2.0	20	90	0	62	60	10	10	20	1.57
2680869--2681168	117	2.6	116	86	6	409	33	33	15	18	1.92
2682085--2682232	29	5.1	28	78	8	120	41	18	5	34	1.74
2682247--2682280	18	1.9	18	94	5	61	11	23	47	17	1.81
2682257--2682282	13	2.0	13	100	0	52	15	23	46	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2688349--2688642	117	2.5	117	90	3	459	32	32	15	18	1.93
2689592--2689748	29	5.4	28	81	8	120	40	19	5	34	1.76
2689640--2689753	58	1.9	59	82	5	142	38	20	6	35	1.77
2689756--2689796	18	2.3	18	87	4	57	19	21	41	17	1.90
2695539--2695619	22	3.7	22	83	4	101	19	35	24	19	1.95
2695534--2695619	21	4.0	22	79	5	86	20	34	25	18	1.96
2696994--2697033	21	1.9	21	100	0	80	27	37	25	10	1.88
2698696--2698895	100	2.0	98	97	1	373	35	13	23	28	1.93
2700825--2700850	13	2.0	13	100	0	52	38	23	15	23	1.92
2701620--2701710	40	2.3	38	80	12	96	25	23	21	29	1.99
2701533--2703311	233	7.6	231	82	8	2013	32	16	17	34	1.92
2701528--2703311	468	3.8	458	82	7	1982	32	15	17	34	1.92
2702985--2703037	20	2.7	20	90	0	88	16	24	28	30	1.97
2703627--2703904	134	2.1	134	86	2	380	33	22	15	28	1.95
2703723--2704083	175	2.1	175	84	3	474	34	21	14	29	1.94
2710517--2710547	12	2.7	11	90	9	53	64	0	9	25	1.24
2714517--2715613	542	2.0	547	95	4	1991	27	16	18	38	1.92
2717533--2717575	20	2.2	20	100	0	86	30	37	23	9	1.86
2722010--2722088	22	3.6	22	78	10	81	20	31	25	22	1.98
2722005--2722088	21	3.9	21	72	14	64	21	29	26	22	1.99
2722636--2722668	16	2.0	17	88	5	50	15	0	9	75	1.03
2722679--2722713	13	2.6	14	95	4	63	25	17	11	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2724183--2724207	13	1.9	13	100	0	50	16	4	24	56	1.57
2730800--2730855	20	2.8	20	94	0	94	21	26	19	32	1.97
2730570--2732156	229	6.8	237	80	9	1252	32	16	17	33	1.92
2730822--2732246	229	6.2	230	82	6	1573	32	16	17	33	1.92
2730505--2732156	685	2.4	683	83	7	1914	32	16	17	33	1.92
2732546--2732839	130	2.2	132	80	8	298	35	20	14	29	1.92
2732667--2733044	175	2.2	175	82	2	447	35	22	13	28	1.92
2733082--2733166	41	2.1	41	95	4	154	54	22	7	16	1.66
2739384--2739575	96	2.0	95	98	1	375	36	15	21	26	1.93
2747495--2747653	60	2.6	59	73	11	144	31	20	5	42	1.75

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   41   42   43   44   45   46   47   48   
          49   50   51