genome.fa.s8245.2.7.7.80.10.50.1000.13.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  13  of  33  ( 3922 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)
2436501--2436673	41	4.3	40	86	4	231	17	19	24	38	1.93
2436503--2436694	101	1.9	101	91	4	316	18	18	25	37	1.94
2436702--2436749	21	2.3	21	100	0	96	29	20	18	31	1.97
2436765--2436816	20	2.6	19	73	8	59	17	19	32	30	1.95
2437391--2437479	29	3.1	29	82	11	103	50	7	1	40	1.39
2439976--2440022	24	2.0	24	82	0	58	6	12	0	80	0.88
2446979--2447048	31	2.3	30	82	7	79	57	2	8	31	1.44
2449854--2450019	23	7.2	23	74	6	122	33	21	24	20	1.97
2449879--2450019	46	3.1	45	83	6	167	34	20	24	20	1.97
2450099--2450163	14	4.4	14	71	17	60	40	21	3	35	1.69
2450103--2450240	45	3.1	45	87	2	179	39	16	5	38	1.73
2460111--2460143	14	2.4	14	95	5	59	33	0	0	66	0.92
2460110--2460140	3	10.7	3	93	6	55	32	0	0	67	0.91
2463840--2464283	220	2.0	220	97	0	843	38	10	25	26	1.88
2466825--2466919	7	14.0	7	76	11	83	82	0	12	5	0.83
2466827--2466896	6	10.8	6	80	17	70	82	0	14	2	0.77
2466837--2466901	27	2.4	26	82	10	85	83	0	13	3	0.77
2469617--2470682	55	19.3	55	79	5	862	31	19	21	27	1.97
2469624--2470682	166	6.4	165	81	3	972	31	19	21	27	1.97
2470892--2470955	29	2.2	29	91	0	101	37	1	0	60	1.06
2470904--2470956	3	18.0	3	92	3	90	33	1	0	64	1.05
2475019--2475070	27	1.9	27	92	0	86	23	30	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2483487--2483541	10	5.6	10	79	12	60	72	0	3	23	1.00
2485698--2486846	576	2.0	576	90	0	1807	29	17	17	34	1.94
2488079--2488207	59	2.2	59	87	0	177	28	25	17	28	1.97
2494453--2494526	3	24.7	3	100	0	148	66	0	0	33	0.92
2494974--2495080	42	2.6	42	84	1	135	33	20	21	24	1.97
2494867--2495434	249	2.3	249	93	0	956	35	17	14	32	1.91
2495248--2495327	42	1.9	42	89	0	124	36	22	20	21	1.95
2501436--2501481	23	2.0	22	83	4	56	34	10	4	50	1.57
2501806--2501874	23	3.0	23	82	0	93	33	24	24	17	1.96
2502198--2502223	6	4.3	6	100	0	52	50	19	0	30	1.48
2503496--2503533	14	2.6	14	87	4	58	42	23	0	34	1.55
2507853--2507916	3	21.7	3	83	3	85	64	4	0	31	1.14
2516389--2516441	19	2.7	19	82	2	61	37	13	18	30	1.89
2520462--2520508	23	2.0	24	84	12	62	34	12	0	53	1.39
2520488--2520719	116	2.0	116	98	1	448	35	13	12	37	1.84
2521244--2521515	136	2.0	136	100	0	544	33	19	27	20	1.96
2533428--2533485	22	2.7	22	79	10	68	18	36	25	18	1.95
2533426--2533485	20	2.9	20	80	9	68	20	35	26	18	1.95
2533608--2533677	35	2.0	35	100	0	140	28	20	11	40	1.87
2534227--2534266	21	1.9	21	89	0	62	37	35	0	27	1.57
2543401--2543431	16	2.0	15	93	6	53	77	0	0	22	0.77
2548849--2548884	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2549971--2550006	16	2.2	16	90	0	54	2	2	30	63	1.22
2550567--2550631	3	22.0	3	90	3	105	64	0	1	33	1.03
2551037--2551137	42	2.4	42	73	1	96	32	17	20	28	1.96
2551217--2551287	35	2.0	35	100	0	142	46	19	8	25	1.78
2551315--2551356	21	2.0	21	81	9	50	21	28	19	30	1.97
2551336--2551417	42	2.0	42	85	4	112	34	20	19	25	1.96
2551563--2551682	42	2.9	42	87	0	177	35	20	20	23	1.96
2551725--2551821	52	1.9	51	81	12	119	37	16	12	34	1.86
2553348--2553432	40	2.1	40	82	2	107	31	24	10	32	1.89
2553367--2553463	36	2.5	39	83	6	110	30	25	10	32	1.89
2554168--2554204	17	2.2	17	90	0	56	8	5	0	86	0.70
2560297--2560336	8	5.1	8	84	3	55	2	0	32	65	1.06
2560297--2560337	16	2.4	18	92	8	68	2	0	31	65	1.05
2560214--2560451	118	2.0	118	100	0	476	8	15	18	58	1.61
2560415--2560493	8	9.4	8	75	17	56	3	2	32	60	1.28
2560415--2560477	16	3.4	18	78	21	69	4	1	33	60	1.27
2560429--2560489	22	2.9	21	90	9	97	4	3	32	59	1.35
2560437--2560489	12	4.8	12	74	21	53	5	3	32	58	1.39
2560726--2560774	16	3.1	16	90	0	80	22	28	18	30	1.97
2560868--2560935	30	2.3	30	84	0	82	10	16	44	29	1.80
2561046--2561081	3	12.0	3	90	0	54	61	0	2	36	1.11
2563176--2563206	15	2.1	15	100	0	62	25	12	32	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2564701--2564781	42	1.9	42	82	0	99	40	11	32	16	1.83
2582220--2582245	3	8.7	3	100	0	52	0	30	0	69	0.89
2588127--2588191	26	2.5	26	100	0	130	29	12	27	30	1.93
2592108--2592213	30	3.5	30	96	3	196	32	2	24	40	1.70
2592838--2592934	28	3.4	28	71	13	81	24	15	16	43	1.87
2592808--2592955	58	2.5	58	83	5	163	24	14	18	42	1.87
2603253--2603297	22	2.0	22	86	0	63	51	2	0	46	1.13
2603253--2603285	17	1.9	17	88	11	50	48	3	0	48	1.17
2603367--2603404	19	2.1	19	90	5	60	34	0	0	65	0.93
2603367--2603404	18	2.2	18	86	9	53	34	0	0	65	0.93
2605092--2605465	146	2.6	146	91	0	588	32	21	25	20	1.97
2610361--2610401	18	2.3	18	82	0	55	29	2	34	34	1.71
2611073--2611117	20	2.3	20	80	3	56	46	4	2	46	1.35
2611118--2611153	14	2.7	13	83	8	54	52	0	5	41	1.24
2612935--2613021	44	2.0	44	97	0	165	17	33	8	41	1.78
2614736--2614816	14	5.4	14	76	16	72	23	35	29	11	1.89
2614732--2614836	48	2.2	47	87	1	147	22	33	31	12	1.91
2614750--2614834	34	2.4	37	88	5	122	23	35	30	10	1.89
2614765--2614797	10	3.3	10	84	16	50	24	36	30	9	1.86
2614798--2614882	33	2.6	33	88	3	118	25	27	38	8	1.84
2621308--2621347	21	1.9	21	89	0	62	35	15	10	40	1.80
2622883--2622933	2	25.5	2	100	0	102	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2627295--2627353	29	2.0	29	93	0	100	50	10	13	25	1.72
2635041--2635144	52	2.0	52	100	0	208	38	17	17	26	1.92
2636801--2636845	20	2.2	20	84	7	56	13	22	0	64	1.28
2640114--2640162	23	2.1	23	88	7	73	24	2	16	57	1.50
2643524--2643582	29	2.0	29	93	0	100	52	13	10	23	1.71
2644773--2644850	27	3.0	25	73	17	68	57	2	1	38	1.20
2645425--2645492	23	2.8	24	80	17	70	51	1	0	47	1.09
2645604--2645645	18	2.5	17	85	14	52	52	0	2	45	1.13
2645811--2645865	14	3.9	14	83	4	65	30	20	3	45	1.68
2645817--2645854	15	2.6	15	91	4	60	26	23	5	44	1.74
2645812--2645864	15	3.7	15	78	16	58	32	18	3	45	1.68
2648453--2648522	9	7.5	10	83	12	62	35	0	0	64	0.94
2648465--2648523	3	19.0	3	86	10	75	38	0	0	61	0.96
2648525--2648562	3	13.0	3	94	5	69	65	0	0	34	0.93
2651904--2651985	42	1.9	43	90	2	130	34	8	23	34	1.85
2652063--2652104	7	6.0	7	81	8	50	14	16	14	54	1.71
2652063--2652104	15	3.0	14	83	10	50	14	16	14	54	1.71
2652163--2652216	12	4.3	12	79	9	63	22	12	7	57	1.60
2652164--2652222	26	2.3	26	87	0	91	22	13	6	57	1.59
2652140--2652222	14	6.2	14	70	16	50	25	14	4	55	1.59
2656990--2657330	114	3.0	114	94	0	574	32	15	20	31	1.94
2658481--2658650	73	2.3	73	97	1	322	30	18	21	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2660039--2660096	22	2.6	22	88	0	89	32	15	13	37	1.87
2660514--2661807	219	5.9	219	96	0	2255	38	14	18	28	1.90
2661869--2661927	17	3.4	17	68	25	50	47	11	25	15	1.79
2662171--2662239	3	23.0	3	85	11	88	39	0	0	60	0.97
2662244--2662278	3	12.0	3	93	6	63	65	0	0	34	0.93
2665212--2665252	17	2.4	17	100	0	82	29	29	0	41	1.56
2665840--2665906	33	2.1	33	91	2	109	49	17	4	28	1.66
2667025--2667113	44	2.0	45	88	4	135	30	25	17	25	1.98
2667021--2667095	23	3.4	23	68	15	59	32	22	17	28	1.96
2668810--2668860	2	25.5	2	100	0	102	50	0	0	49	1.00

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