genome.fa.s7960.2.7.7.80.10.50.1000.13.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  13  of  39  ( 4646 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)
2560838--2560886	26	2.0	26	88	8	75	38	4	4	53	1.39
2561299--2561336	20	1.9	20	88	0	58	13	26	36	23	1.91
2567433--2567470	8	4.8	8	81	12	51	0	28	0	71	0.87
2568444--2568495	25	2.1	24	82	10	61	55	11	0	32	1.36
2568896--2569404	59	8.6	59	92	0	813	31	21	11	35	1.89
2575451--2575499	25	2.0	24	84	4	62	55	8	0	36	1.30
2575905--2576337	59	7.4	59	93	1	737	32	21	12	34	1.90
2575898--2576337	176	2.5	177	93	1	742	32	21	12	34	1.90
2581094--2581122	11	2.6	11	100	0	58	17	34	27	20	1.95
2583732--2583761	15	1.9	16	93	6	53	73	0	0	26	0.84
2586131--2586183	3	17.7	3	100	0	106	67	0	0	32	0.91
2587743--2587877	18	7.5	18	89	0	198	26	31	22	19	1.98
2591672--2591740	33	2.1	31	78	10	66	73	1	20	4	1.07
2592373--2592453	28	2.9	28	88	0	126	40	33	2	23	1.68
2594429--2594463	18	1.9	18	94	0	61	34	20	17	28	1.95
2595405--2595632	119	1.9	117	90	1	366	35	14	23	26	1.94
2595151--2595644	259	1.9	260	86	1	713	35	16	22	25	1.95
2595705--2595959	117	2.2	117	83	5	320	38	16	18	26	1.92
2595944--2596086	42	3.4	42	83	2	155	30	23	17	29	1.97
2596756--2596798	20	2.2	20	86	0	59	32	13	18	34	1.90
2597028--2597080	27	2.0	27	96	0	97	30	24	22	22	1.99
2605407--2605449	20	2.2	20	86	0	59	30	13	20	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2605679--2605731	27	2.0	27	96	0	97	30	24	22	22	1.99
2607874--2607939	28	2.4	28	82	5	71	31	19	9	39	1.83
2608079--2608286	30	7.0	30	77	8	165	33	20	9	37	1.85
2608079--2608286	60	3.5	60	89	0	301	33	20	9	37	1.85
2608079--2608279	90	2.2	89	84	0	276	32	20	9	36	1.86
2608356--2608443	38	2.3	38	92	0	140	25	25	23	26	2.00
2608606--2608670	33	2.0	33	96	0	121	27	15	13	43	1.85
2610648--2610711	30	2.1	31	80	8	78	34	17	7	40	1.78
2611550--2611594	9	4.8	9	84	10	63	8	11	0	80	0.92
2611548--2611594	20	2.3	20	85	7	69	8	10	0	80	0.89
2614459--2614630	30	5.8	30	86	2	222	31	18	10	38	1.85
2614717--2614774	17	3.0	21	65	19	61	22	22	25	29	1.99
2614692--2614820	38	3.4	37	88	4	186	24	24	23	27	2.00
2614963--2615027	33	2.0	33	96	0	121	27	15	13	43	1.85
2622612--2622651	3	13.3	3	100	0	80	67	0	0	32	0.91
2632438--2632499	24	2.6	24	92	0	106	22	17	27	32	1.97
2636592--2636659	20	3.4	20	74	8	75	23	17	10	48	1.78
2636578--2636660	40	2.1	40	97	0	157	24	16	10	48	1.78
2637668--2637730	31	2.0	31	90	0	99	36	17	17	28	1.93
2637831--2638122	139	2.1	139	97	0	548	31	19	9	38	1.84
2643751--2643813	31	2.0	31	93	0	108	34	17	19	28	1.94
2648332--2648420	20	4.5	19	75	15	65	68	2	0	29	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2648366--2648429	22	2.9	22	81	15	78	68	3	0	28	1.04
2648362--2648434	20	3.5	20	77	17	69	67	2	1	28	1.13
2648807--2648853	7	6.6	7	81	11	51	29	0	4	65	1.11
2648799--2648853	14	3.9	14	79	11	60	32	0	3	63	1.12
2649192--2649222	13	2.4	13	100	0	62	70	0	0	29	0.87
2649192--2649221	7	4.4	7	91	8	53	73	0	0	26	0.84
2649303--2649409	27	3.9	26	73	21	76	75	4	1	17	1.06
2649354--2649409	26	2.1	26	87	9	78	80	1	0	17	0.80
2649321--2649412	4	23.2	4	72	20	52	76	4	1	18	1.02
2649355--2649412	19	2.8	20	84	10	82	79	1	0	18	0.82
2649313--2649412	31	3.1	31	76	22	100	75	5	1	19	1.05
2649334--2649412	35	2.4	33	78	16	83	77	3	0	18	0.92
2650098--2650164	27	2.5	28	83	9	77	71	0	1	26	0.94
2650106--2650165	19	3.5	18	76	15	56	68	0	1	30	0.99
2650489--2650688	81	2.5	81	90	0	321	23	21	26	29	1.99
2650685--2650807	34	3.6	34	91	4	185	29	8	18	43	1.79
2650793--2650944	37	4.3	36	70	18	115	38	12	21	28	1.89
2650916--2650959	21	2.0	22	95	4	81	40	11	18	29	1.85
2651549--2651696	73	2.0	73	100	0	296	22	14	22	39	1.90
2651645--2652412	110	7.0	110	89	1	1100	24	17	22	35	1.95
2656071--2656101	13	2.4	13	94	0	53	67	0	0	32	0.91
2656202--2656292	29	3.1	28	82	16	105	79	3	1	16	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2656219--2656354	14	9.5	13	73	18	94	75	2	2	19	1.05
2656236--2656307	6	11.8	6	78	15	69	79	1	0	19	0.81
2656213--2656309	9	10.1	9	77	17	81	78	3	0	18	0.88
2656219--2656358	44	3.2	42	76	12	124	75	2	2	20	1.04
2656219--2656309	29	3.1	28	75	20	89	78	2	0	19	0.86
2656199--2656327	16	7.7	16	72	20	61	75	4	1	17	1.04
2656984--2657042	8	7.5	8	71	17	52	69	0	1	28	0.98
2656987--2657038	26	2.0	26	85	11	70	67	0	1	30	1.02
2657940--2658131	75	2.6	76	86	2	271	44	14	7	32	1.74
2658239--2658298	28	2.2	27	82	14	70	20	5	21	53	1.64
2664436--2664518	37	2.3	36	83	6	98	6	16	19	57	1.59
2664461--2664534	37	2.0	37	100	0	148	2	21	16	59	1.49
2667433--2667485	21	2.5	22	75	6	56	26	33	1	37	1.68
2667436--2667490	24	2.3	24	84	12	69	25	32	1	40	1.66
2667561--2667626	21	3.1	21	75	0	69	25	53	0	21	1.46
2675014--2675062	24	2.1	23	84	3	62	32	18	16	32	1.93
2680968--2681020	3	17.7	3	79	14	56	37	0	0	62	0.96
2680965--2681018	28	2.0	27	86	10	76	38	0	0	61	0.96
2680971--2681018	10	4.9	10	82	12	64	37	0	0	62	0.95
2682307--2682336	3	10.0	3	92	0	51	33	3	0	63	1.11
2682425--2682659	120	2.0	117	80	5	267	38	7	8	46	1.61
2686501--2686532	15	2.1	15	94	0	55	25	18	9	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2693862--2693891	9	3.2	9	95	4	51	83	0	16	0	0.65
2694554--2694775	114	1.9	114	90	0	354	35	14	19	30	1.92
2695475--2696268	112	7.0	112	82	6	800	38	14	18	29	1.90
2695737--2695793	20	2.9	20	72	15	55	47	8	21	22	1.78
2695849--2695905	19	2.9	20	70	15	55	45	10	22	21	1.82
2696499--2696551	3	17.7	3	79	14	56	37	0	0	62	0.96
2696496--2696549	28	2.0	27	86	10	76	38	0	0	61	0.96
2696502--2696549	10	4.9	10	82	12	64	37	0	0	62	0.95
2697842--2697871	3	10.0	3	92	0	51	33	3	0	63	1.11
2698064--2698105	20	2.2	19	86	4	57	33	0	2	64	1.07
2697962--2698196	120	2.0	117	83	5	294	37	8	8	45	1.63
2698158--2698219	33	1.9	31	83	6	79	50	0	0	50	1.00
2698163--2698233	31	2.3	31	78	11	74	50	0	0	49	1.00
2701157--2701232	36	2.1	36	85	7	100	47	1	3	47	1.29
2701349--2701412	9	6.8	10	82	17	68	37	0	0	62	0.95
2701349--2701400	3	17.7	3	84	11	72	34	0	0	65	0.93
2701349--2701412	12	5.7	12	83	12	66	37	0	0	62	0.95
2704309--2704359	20	2.5	20	100	0	102	19	23	11	45	1.83
2706776--2706818	21	2.0	21	90	0	68	32	27	23	16	1.96
2706847--2706891	22	2.0	22	82	4	54	33	33	24	8	1.86
2708366--2708584	103	2.1	103	100	0	438	26	13	23	36	1.92
2708601--2708657	23	2.5	23	91	0	87	19	26	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2708591--2708668	23	3.3	23	80	1	66	23	20	20	35	1.96
2710022--2710095	35	2.1	36	89	2	114	32	22	20	24	1.98
2710849--2710924	38	2.1	37	95	5	136	25	30	2	42	1.69
2711719--2711750	15	2.1	15	100	0	64	15	0	43	40	1.47
2712112--2712199	34	2.6	34	98	1	167	55	0	0	44	0.99
2727242--2727441	60	3.3	61	82	8	219	27	22	12	38	1.89
2727282--2727480	20	9.8	20	80	6	163	26	23	11	39	1.88
2727281--2727480	60	3.3	60	78	10	199	27	23	11	39	1.88
2727607--2727645	16	2.5	15	84	8	51	28	5	0	66	1.12
2728379--2728432	24	2.2	24	86	0	72	22	14	16	46	1.84

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