genome.fa.s8685.2.7.7.80.10.50.1000.13.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: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  13  of  19  ( 2244 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)
2366406--2366464	22	2.7	22	91	0	91	38	13	15	32	1.86
2366967--2367021	17	3.3	17	75	14	69	49	9	21	20	1.76
2366953--2367528	122	4.7	122	92	3	914	40	16	19	24	1.91
2366841--2367528	244	2.9	245	87	7	936	40	15	18	24	1.90
2367441--2367784	140	2.5	140	79	5	360	41	13	18	26	1.87
2367868--2367911	16	2.8	16	86	3	63	47	15	15	20	1.82
2368812--2368841	2	15.0	2	100	0	60	50	0	0	50	1.00
2369343--2369375	9	3.8	9	84	8	50	45	0	0	54	0.99
2369662--2369691	16	1.9	15	93	6	51	70	3	6	20	1.25
2384090--2384148	29	2.0	29	100	0	118	49	13	13	23	1.78
2388589--2388635	22	2.1	22	100	0	94	38	12	10	38	1.78
2388779--2388837	29	2.0	29	96	0	109	50	13	11	23	1.74
2391235--2391266	15	2.1	16	94	5	57	50	12	25	12	1.75
2399505--2399534	15	2.0	15	100	0	60	40	13	20	26	1.89
2416194--2416240	5	9.6	5	84	13	62	53	0	0	46	1.00
2416192--2416236	12	3.9	12	75	21	51	53	0	0	46	1.00
2416555--2416587	16	2.1	16	100	0	66	42	6	6	45	1.53
2424679--2424711	13	2.5	13	85	14	50	33	0	0	66	0.92
2424680--2424711	16	2.0	16	93	0	55	34	0	0	65	0.93
2426362--2426403	20	2.2	19	86	4	57	33	0	2	64	1.07
2426459--2426512	27	2.0	27	89	3	83	48	0	0	51	1.00
2433790--2433925	68	2.0	68	100	0	272	32	23	14	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2434365--2434836	115	4.1	115	93	0	784	33	15	20	30	1.93
2436906--2437059	54	2.9	53	78	9	172	36	14	22	26	1.93
2436906--2437055	50	2.9	50	82	5	149	36	14	22	27	1.92
2437415--2437492	22	3.5	22	87	3	120	34	14	14	37	1.86
2437921--2438567	113	5.7	113	93	2	1111	38	13	18	29	1.90
2437921--2438567	340	1.9	338	93	1	1109	38	13	18	29	1.90
2437921--2438630	227	3.1	222	85	8	882	38	14	18	28	1.90
2438783--2438835	3	17.0	3	80	7	61	30	0	0	69	0.88
2438783--2438835	28	2.0	27	85	10	74	30	0	0	69	0.88
2442186--2442211	13	2.0	13	100	0	52	38	7	7	46	1.61
2443955--2444090	65	2.1	64	84	4	175	31	19	22	27	1.97
2446181--2446218	14	2.9	13	84	7	51	50	5	10	34	1.59
2449980--2451789	902	2.0	902	98	0	3476	27	19	13	40	1.88
2468369--2468437	20	3.5	20	88	7	104	28	23	14	33	1.94
2470221--2470339	60	2.0	60	88	0	175	18	42	13	26	1.87
2470266--2470842	30	19.0	30	75	6	464	23	40	7	28	1.82
2477448--2477490	22	2.0	21	81	4	50	34	13	41	9	1.77
2490053--2490287	126	1.9	126	81	5	287	29	28	15	26	1.96
2501871--2501900	15	1.9	16	93	6	53	43	0	3	53	1.17
2507511--2507560	9	5.6	9	87	0	73	10	36	22	32	1.87
2509440--2509656	106	2.0	110	91	4	361	44	12	8	35	1.72
2509937--2510044	50	2.2	50	88	3	164	22	29	31	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2509937--2510062	50	2.5	50	83	10	159	22	28	31	17	1.96
2515380--2515842	259	1.8	252	85	8	659	39	20	13	26	1.90
2516590--2516619	13	2.3	13	94	0	51	26	16	16	40	1.90
2517120--2517180	30	2.0	29	84	12	79	27	21	13	37	1.90
2519510--2519565	21	2.6	21	82	5	58	14	19	32	33	1.92
2522291--2522331	21	1.9	22	95	5	75	39	9	14	36	1.79
2522861--2522923	33	1.9	33	86	0	90	17	33	17	31	1.93
2523549--2523719	30	5.8	29	88	2	144	18	25	20	36	1.95
2523633--2523714	30	2.7	30	98	0	155	20	26	19	32	1.97
2526068--2526110	13	3.2	13	83	3	50	0	18	6	74	1.04
2529250--2529293	20	2.2	19	84	15	54	25	4	6	63	1.38
2536636--2536660	13	1.9	13	100	0	50	16	24	0	60	1.36
2540921--2540976	29	1.9	29	81	0	67	39	8	12	39	1.75
2543872--2543917	23	2.0	23	95	0	83	45	17	21	15	1.85
2551847--2551892	24	1.9	24	86	8	67	43	17	23	15	1.87
2553279--2553332	15	4.1	14	71	20	53	50	0	1	48	1.11
2553293--2553355	24	2.5	25	82	15	76	47	0	3	49	1.17
2553269--2553346	39	2.0	40	87	10	115	50	0	3	46	1.20
2553294--2553345	23	2.2	25	86	6	72	48	0	3	48	1.20
2553294--2553356	23	2.5	25	77	15	67	47	0	3	49	1.17
2553594--2553669	31	2.5	31	80	4	91	51	13	6	28	1.65
2554104--2554168	30	2.2	30	83	5	78	33	15	12	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2555900--2556029	30	4.3	30	85	0	170	40	13	11	34	1.81
2555900--2556029	60	2.2	60	88	0	188	40	13	11	34	1.81
2558045--2558300	44	5.8	44	78	8	254	19	28	12	39	1.88
2558045--2558287	90	2.8	88	78	6	226	19	27	12	39	1.88
2563316--2563416	37	2.8	37	81	4	116	42	14	10	31	1.81
2563963--2564116	3	55.3	3	68	25	65	25	4	0	69	1.12
2563975--2564109	37	3.6	37	70	18	102	23	4	0	71	1.09
2564001--2564124	7	17.9	7	72	20	59	25	2	0	70	1.04
2564015--2564124	21	5.4	21	70	20	81	26	1	0	70	1.03
2563978--2564124	75	2.0	75	81	11	178	25	4	0	70	1.10
2563959--2564114	29	5.0	29	76	17	88	25	4	0	69	1.11
2564047--2564146	19	5.6	19	72	21	58	26	3	3	68	1.19
2564169--2564226	24	2.4	24	85	5	73	32	1	0	65	1.03
2564250--2564323	24	2.8	25	75	19	71	14	2	4	78	1.01
2564244--2564337	26	3.6	25	70	21	68	18	4	3	74	1.12
2565456--2565492	19	1.9	19	89	10	58	8	24	0	67	1.17
2568768--2568827	26	2.2	28	82	11	72	80	6	11	1	0.98
2568752--2568837	24	3.7	23	70	13	68	75	9	13	1	1.10
2569427--2569481	22	2.5	22	96	0	101	38	27	10	23	1.88
2570302--2571886	106	15.0	106	89	2	2217	33	24	17	23	1.96
2572615--2572718	37	2.8	37	85	1	138	40	14	15	29	1.87
2573287--2573393	21	5.3	20	72	17	87	27	5	0	66	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2573580--2573634	26	2.1	27	86	6	78	36	1	0	61	1.06
2573644--2573711	25	2.7	25	77	13	77	17	2	1	77	0.96
2573658--2573712	12	4.4	12	72	20	51	18	3	0	78	0.90
2574540--2574621	29	2.8	29	96	0	146	31	15	9	42	1.80
2577564--2577623	21	2.9	21	90	5	86	23	38	28	10	1.87
2579819--2579890	22	3.3	21	79	12	74	48	6	2	41	1.44
2590778--2590830	22	2.2	24	77	12	56	32	5	22	39	1.78
2595752--2595789	20	1.9	20	88	0	58	21	26	10	42	1.85
2596636--2596736	42	2.5	42	78	12	111	16	16	6	59	1.58
2599977--2600013	2	18.5	2	100	0	74	51	0	0	48	1.00
2600007--2600094	40	2.2	40	97	0	167	45	9	12	32	1.73
2601921--2601977	16	3.6	16	78	0	60	66	15	1	15	1.33
2602882--2602977	13	7.4	13	71	9	79	50	12	11	26	1.74
2602875--2602977	26	4.0	26	83	8	138	48	12	12	26	1.77
2602818--2602908	33	2.7	33	84	1	119	48	13	12	26	1.77
2602870--2602976	52	2.1	52	89	7	164	47	13	13	26	1.78
2605537--2605578	15	2.6	17	77	14	52	40	16	7	35	1.76
2605643--2605676	15	2.3	15	89	0	50	58	17	5	17	1.57
2605788--2605994	93	2.1	100	85	7	266	40	13	11	35	1.79
2605788--2605976	94	2.0	94	91	1	308	40	12	11	35	1.78
2606045--2606101	13	4.7	13	70	16	59	52	17	0	29	1.45
2607470--2607514	22	2.0	22	83	8	56	37	6	11	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2613168--2613246	29	2.7	29	82	0	86	17	39	29	13	1.89
2613469--2613552	29	2.9	29	83	0	96	13	29	39	17	1.88
2619127--2619275	77	1.9	77	86	0	208	27	14	14	42	1.85
2626250--2626324	20	3.7	20	83	1	96	34	21	20	24	1.96
2627114--2627459	175	2.0	170	97	2	647	30	14	20	34	1.93
2635126--2635169	20	2.2	20	95	0	79	40	11	15	31	1.83
2635246--2635295	21	2.4	21	93	0	82	20	16	28	36	1.93
2639437--2639538	51	2.0	51	100	0	204	50	13	5	29	1.65
2642516--2642589	37	2.0	37	100	0	148	32	21	18	27	1.97
2643186--2644011	409	2.0	409	97	0	1573	28	13	16	41	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19