genome.fa.s1838.2.7.7.80.10.50.1000.13.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  13  of  18  ( 2134 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)
2571815--2571931	42	2.8	43	78	6	116	33	19	22	24	1.97
2572147--2572370	74	3.0	74	87	1	308	39	14	12	33	1.83
2572147--2572370	73	3.0	74	85	4	301	39	14	12	33	1.83
2574889--2574948	21	2.6	24	82	10	81	35	20	18	26	1.95
2578535--2578571	18	2.1	18	100	0	74	27	21	29	21	1.99
2584525--2584589	14	4.6	14	84	3	76	24	30	21	23	1.99
2584523--2584591	29	2.4	29	85	2	86	23	33	20	23	1.97
2584539--2584593	28	1.9	29	92	3	94	21	32	23	21	1.98
2588187--2588269	29	2.9	28	87	1	112	22	28	24	24	1.99
2588200--2588269	14	5.0	13	81	8	77	22	28	22	25	1.99
2591371--2591423	24	2.2	25	80	12	58	28	5	3	62	1.35
2597343--2597383	21	1.9	22	90	5	66	36	17	19	26	1.94
2612285--2612330	2	23.0	2	100	0	92	50	0	0	50	1.00
2613114--2613203	45	2.0	45	100	0	180	31	24	6	37	1.81
2615960--2616034	2	37.5	2	100	0	150	0	49	0	50	1.00
2616034--2616060	2	13.5	2	100	0	54	48	0	0	51	1.00
2617663--2617731	15	4.3	15	70	22	50	66	8	0	24	1.19
2621507--2621540	10	3.4	10	87	0	50	0	38	2	58	1.13
2622179--2622221	16	2.5	17	88	7	61	67	4	0	27	1.10
2622254--2622292	16	2.3	17	86	8	53	64	5	0	30	1.15
2623357--2623424	8	8.4	8	72	15	59	29	0	1	69	0.98
2623347--2623424	24	3.2	25	77	12	81	29	0	1	69	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2623330--2623418	33	2.8	32	81	6	103	33	0	2	64	1.06
2625687--2625774	34	2.6	33	84	10	99	19	2	15	62	1.43
2629795--2629831	3	12.3	3	100	0	74	67	0	32	0	0.91
2640197--2640247	25	2.1	24	81	3	57	70	17	1	9	1.24
2640241--2640279	16	2.6	16	88	8	55	71	0	20	7	1.10
2643614--2643658	22	2.0	22	82	0	54	75	2	0	22	0.91
2644708--2644788	3	27.0	3	73	14	69	67	1	1	29	1.06
2644798--2644931	39	3.4	38	84	5	153	43	8	3	44	1.52
2644949--2645029	37	2.2	37	84	2	110	53	9	1	35	1.42
2646922--2646968	22	2.2	22	84	3	60	21	27	17	34	1.95
2646955--2647013	27	2.3	25	88	8	84	10	35	16	37	1.83
2650683--2650757	23	3.5	20	77	13	53	24	30	20	25	1.98
2650687--2650741	23	2.4	22	85	8	74	21	30	18	29	1.97
2657486--2657553	30	2.3	30	97	0	127	32	4	25	38	1.76
2657775--2657818	2	22.0	2	100	0	88	50	0	0	50	1.00
2657818--2657858	2	20.5	2	94	0	73	2	0	46	51	1.14
2659634--2659674	20	2.0	20	95	0	73	26	12	17	43	1.84
2659690--2659736	20	2.3	20	92	0	76	29	17	23	29	1.97
2659731--2659770	20	2.0	20	100	0	80	25	15	20	40	1.90
2659627--2659917	97	3.0	100	86	3	378	30	15	17	36	1.91
2659808--2659868	20	3.0	20	85	0	77	26	16	16	40	1.89
2659949--2660019	21	3.4	21	92	1	108	33	11	19	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2662328--2662369	10	4.1	10	85	14	59	26	0	2	71	0.98
2662343--2662394	16	3.2	17	86	5	63	28	0	3	67	1.08
2662359--2662410	17	3.2	17	84	10	56	28	1	1	67	1.12
2662365--2662410	16	2.9	16	87	6	58	30	2	2	65	1.16
2664053--2664116	27	2.4	27	86	0	92	17	51	14	17	1.76
2664105--2664172	33	2.1	33	83	5	84	19	45	17	17	1.86
2668130--2668242	51	2.2	50	80	7	113	18	29	32	19	1.96
2668443--2668488	24	1.9	24	82	8	58	36	6	0	56	1.25
2669556--2669640	44	2.0	42	84	9	109	54	2	2	41	1.26
2669575--2669635	23	2.9	20	72	25	54	54	1	1	42	1.20
2669608--2669664	28	2.1	27	83	9	71	54	0	0	45	0.99
2669643--2669699	23	2.5	23	75	11	55	45	1	1	50	1.22
2669666--2669731	33	2.0	32	88	8	98	42	1	3	53	1.25
2669812--2669883	23	3.0	23	83	4	81	54	1	4	40	1.28
2675409--2675460	26	2.0	27	84	3	70	51	0	1	46	1.12
2687392--2687431	21	1.9	21	90	10	64	52	0	10	37	1.35
2691228--2691290	21	2.9	21	85	4	81	20	38	25	15	1.92
2697452--2697573	40	3.0	40	93	0	208	24	14	26	34	1.94
2697678--2698070	45	8.8	45	93	1	630	40	7	20	31	1.80
2698436--2698472	2	18.5	2	100	0	74	48	0	0	51	1.00
2701932--2702031	15	6.5	15	66	21	55	37	2	1	60	1.15
2701933--2702038	8	12.0	9	68	21	57	35	1	0	61	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2705736--2707472	665	2.6	667	87	3	2459	38	9	15	36	1.79
2708122--2708222	52	1.9	52	97	0	193	19	27	11	40	1.87
2712565--2712695	32	4.2	31	72	5	93	19	22	29	29	1.98
2714856--2714952	47	2.0	48	94	6	169	35	10	17	37	1.84
2715349--2715395	18	2.7	17	86	3	67	34	4	31	29	1.77
2715746--2716271	259	2.0	256	90	4	817	38	20	13	27	1.90
2717548--2717621	32	2.3	32	83	4	87	16	20	32	31	1.94
2718572--2718613	20	2.1	20	90	0	66	42	16	14	26	1.86
2719787--2719887	50	2.0	49	92	1	166	32	10	18	37	1.86
2727581--2727914	166	2.0	165	98	1	643	32	18	22	26	1.97
2731356--2731404	24	2.1	23	82	17	57	73	0	6	20	1.04
2731390--2731421	16	2.0	16	93	0	55	65	0	0	34	0.93
2731391--2731454	28	2.3	29	79	17	73	60	0	1	37	1.06
2744613--2744675	29	2.2	29	82	5	74	68	1	12	17	1.29
2744787--2744818	15	2.1	15	94	0	55	78	0	9	12	0.97
2745129--2745198	30	2.3	30	87	0	95	22	28	18	30	1.98
2745204--2745241	17	2.2	17	90	0	58	57	10	15	15	1.64
2751508--2751565	27	2.1	28	84	9	75	29	24	20	25	1.99
2754894--2754946	20	2.7	20	80	8	72	35	15	30	18	1.92
2754969--2755021	22	2.5	20	85	11	79	28	15	26	30	1.96
2755344--2755535	54	3.6	54	87	1	278	27	16	21	34	1.95
2761716--2761770	22	2.6	21	82	5	58	27	12	23	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2762090--2762218	53	2.4	53	87	2	170	28	17	20	34	1.95
2762338--2762637	54	5.6	54	89	0	438	29	16	19	34	1.94
2763351--2763387	2	18.5	2	100	0	74	48	0	0	51	1.00
2764181--2764214	12	2.8	12	86	0	50	14	5	0	79	0.91
2768089--2768211	34	3.4	34	71	18	120	47	7	7	37	1.59
2768123--2768177	22	2.6	20	70	30	51	49	5	5	40	1.49
2768060--2768213	77	2.0	77	100	0	308	49	6	6	37	1.55
2768200--2768244	22	2.0	22	100	0	90	24	4	31	40	1.75
2770336--2770394	24	2.4	25	76	21	63	52	3	1	42	1.28
2772450--2772522	35	2.1	35	84	5	94	35	27	26	10	1.90
2772599--2772659	24	2.6	24	86	2	88	36	19	16	27	1.93
2777577--2777627	12	4.3	12	76	18	54	31	0	1	66	1.03
2777669--2777725	19	3.2	18	77	22	59	40	1	0	57	1.09
2777675--2777736	19	3.3	19	78	15	58	37	1	0	61	1.06
2777967--2778014	25	2.0	24	84	12	62	58	2	2	37	1.22
2778191--2778251	31	1.9	32	93	3	106	42	8	6	42	1.60
2778490--2778566	2	40.0	2	89	7	124	49	0	1	49	1.09
2778629--2778661	14	2.3	15	89	5	50	27	3	0	69	1.03
2779819--2779896	20	3.7	21	74	16	72	24	20	30	24	1.98
2779822--2779909	21	4.2	21	76	15	92	22	20	34	22	1.97
2779988--2780047	29	2.0	31	87	12	90	43	13	8	35	1.74
2783266--2783339	20	3.7	20	75	7	69	32	21	25	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2783359--2783403	22	2.0	23	91	4	74	22	20	33	24	1.97
2783504--2783565	31	2.0	31	84	6	81	45	12	6	35	1.68
2784257--2784287	16	1.9	16	93	0	53	6	32	6	54	1.51
2785074--2785115	21	2.0	21	100	0	84	28	0	38	33	1.58
2787443--2787480	19	2.1	19	85	5	51	15	28	0	55	1.41
2787485--2787515	16	1.9	16	93	0	53	6	32	6	54	1.51
2789383--2789408	3	8.7	3	100	0	52	34	30	34	0	1.58
2795229--2795268	20	2.0	20	90	0	62	20	15	20	45	1.86
2796009--2796165	78	2.0	79	94	1	280	22	17	23	35	1.95
2797795--2797820	13	2.0	13	100	0	52	23	7	30	38	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18