genome.fa.s8105.2.7.7.80.10.50.1000.12.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  12  of  30  ( 3521 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)
2254426--2254484	2	30.0	2	96	3	111	50	0	0	49	1.00
2263925--2263973	25	2.0	25	91	0	80	40	14	20	24	1.89
2264426--2264551	46	2.7	46	90	2	191	20	17	29	32	1.96
2264479--2264514	18	2.0	18	100	0	72	22	22	33	22	1.97
2264451--2264507	28	2.0	28	86	6	80	19	22	29	28	1.98
2264497--2264553	28	2.0	28	83	6	71	17	15	31	35	1.92
2269657--2269690	16	2.1	17	88	5	52	41	17	2	38	1.65
2270353--2270406	21	2.6	21	87	0	81	33	29	18	18	1.95
2275872--2275923	16	3.2	16	78	10	61	23	11	15	50	1.76
2276078--2276133	28	2.0	28	82	0	67	28	19	14	37	1.91
2287086--2287187	23	4.4	23	81	0	105	34	25	22	17	1.96
2287089--2287187	46	2.2	46	83	3	119	34	24	23	18	1.96
2294549--2294684	60	2.3	59	81	6	157	39	11	8	41	1.70
2294907--2295034	60	2.1	60	81	2	150	35	14	17	32	1.90
2295593--2295658	15	4.3	16	70	18	52	37	1	1	59	1.16
2297716--2297750	18	1.9	18	88	11	54	48	8	14	28	1.73
2301516--2301576	7	8.7	7	100	0	122	40	0	44	14	1.46
2302616--2302668	20	2.6	21	85	8	65	32	15	24	28	1.95
2302588--2302666	41	1.9	39	85	14	106	32	12	27	26	1.93
2302595--2302672	21	3.8	21	75	21	76	32	14	25	28	1.94
2304461--2304512	22	2.4	22	90	0	77	34	19	25	21	1.96
2306033--2306076	21	2.0	23	82	8	56	47	2	13	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2312450--2312517	14	4.9	14	72	17	52	58	5	13	22	1.56
2312473--2312523	26	2.0	26	88	0	75	64	3	9	21	1.40
2312588--2312625	7	5.4	7	81	12	51	60	7	15	15	1.57
2312588--2312629	13	3.1	14	87	12	61	57	7	16	19	1.62
2312704--2312790	43	2.0	44	86	2	122	34	24	10	31	1.89
2314627--2314666	2	21.5	2	85	14	59	50	0	0	50	1.00
2316483--2316525	3	14.0	3	90	4	68	67	0	2	30	1.03
2316943--2317004	3	20.7	3	79	12	65	37	0	1	61	1.06
2316937--2316994	18	3.2	18	90	2	80	39	0	0	60	0.97
2316943--2317019	24	3.0	25	90	7	111	37	0	2	59	1.11
2316947--2317019	12	5.6	13	79	11	87	38	0	2	58	1.12
2317383--2317409	12	2.2	12	100	0	54	85	7	7	0	0.75
2318289--2318335	20	2.3	21	75	10	53	25	4	8	61	1.43
2323793--2323819	11	2.5	11	100	0	54	81	0	18	0	0.69
2326053--2326281	114	2.0	114	92	0	377	32	15	20	31	1.94
2327273--2327362	45	2.0	45	97	0	171	30	11	21	37	1.88
2328432--2328586	54	2.9	54	92	0	247	38	15	23	23	1.93
2328937--2328991	22	2.5	22	90	0	92	32	10	16	40	1.83
2329653--2330826	76	15.5	76	98	0	2260	21	22	21	34	1.97
2330951--2331008	18	3.2	18	90	2	80	39	0	0	60	0.97
2330957--2331033	24	3.1	24	87	9	102	38	0	1	59	1.06
2330962--2331033	12	5.5	14	73	20	66	40	0	1	58	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2330957--2331018	3	20.7	3	79	12	65	37	0	1	61	1.06
2331397--2331431	13	2.6	13	95	4	61	80	8	11	0	0.92
2331397--2331431	14	2.6	14	90	4	54	80	8	11	0	0.92
2332303--2332349	20	2.3	21	75	10	53	25	4	8	61	1.43
2335502--2335532	15	2.1	15	100	0	62	19	35	32	12	1.90
2338570--2338681	43	2.7	43	75	9	124	47	5	0	46	1.31
2343355--2343399	23	2.0	23	86	0	63	26	26	26	20	1.99
2344019--2344056	20	1.9	20	88	0	58	10	31	34	23	1.89
2344083--2344125	21	2.0	21	86	0	59	16	25	27	30	1.97
2350161--2350205	23	2.0	23	86	8	65	28	26	24	20	1.99
2350828--2350865	20	1.9	20	88	0	58	10	31	34	23	1.89
2353021--2353402	179	2.1	182	88	4	569	42	3	8	45	1.52
2354961--2355030	35	2.0	35	100	0	140	25	31	17	25	1.97
2357048--2357245	20	9.6	21	68	13	74	28	21	18	31	1.96
2357112--2357163	21	2.5	21	87	3	70	38	17	23	21	1.93
2357097--2357306	41	5.1	40	67	13	124	33	19	18	28	1.95
2357235--2357346	20	5.6	20	82	4	127	38	19	19	22	1.94
2357235--2357328	41	2.3	41	87	1	127	40	18	20	21	1.92
2357872--2357925	19	2.8	20	75	13	58	50	20	14	14	1.78
2357952--2358015	33	1.9	34	93	3	112	14	23	23	39	1.91
2357997--2358043	20	2.3	20	79	13	60	14	23	12	48	1.78
2359855--2359887	15	2.2	15	89	10	50	21	0	0	78	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2361207--2361264	3	19.3	3	80	19	68	34	0	0	65	0.93
2361207--2361272	15	4.4	15	92	3	107	36	0	0	63	0.95
2361712--2361789	28	3.0	25	75	21	72	12	12	2	71	1.24
2362708--2362738	15	2.0	16	93	6	55	12	0	0	87	0.55
2372177--2372242	1	66.0	1	75	0	60	87	12	0	0	0.53
2372179--2372242	5	13.8	5	90	8	84	87	12	0	0	0.54
2373058--2374151	105	10.4	105	95	0	1864	33	25	18	22	1.96
2374657--2374689	15	2.2	15	89	10	50	21	0	0	78	0.75
2376010--2376067	3	19.3	3	80	19	68	34	0	0	65	0.93
2376010--2376075	15	4.4	15	92	3	107	36	0	0	63	0.95
2376515--2376592	28	3.0	25	75	21	72	12	12	2	71	1.24
2377333--2377399	21	3.2	21	66	6	55	23	35	20	19	1.95
2377281--2377399	42	2.8	42	76	12	102	23	36	17	22	1.95
2378751--2378786	14	2.6	14	95	0	63	30	0	25	44	1.54
2378902--2378987	14	5.2	17	67	25	58	47	17	22	12	1.81
2378893--2378987	33	2.9	33	90	0	154	46	17	22	13	1.83
2379011--2379108	19	5.7	19	71	22	99	13	22	19	44	1.85
2379015--2379108	33	2.8	33	98	0	179	13	22	19	44	1.85
2379365--2379419	20	2.8	20	85	0	65	41	23	18	16	1.89
2379668--2379711	22	2.0	22	95	0	79	18	15	45	20	1.85
2379898--2380004	20	5.3	20	80	6	117	22	17	26	33	1.96
2379898--2380004	40	2.6	41	88	1	144	22	17	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2379878--2380004	41	3.1	41	81	2	166	22	17	25	34	1.96
2380010--2380094	21	4.1	21	87	1	118	24	21	14	40	1.90
2380010--2380094	42	2.0	41	90	2	134	24	21	14	40	1.90
2380010--2380109	42	2.4	42	85	5	105	27	20	15	38	1.92
2380084--2380136	21	2.5	22	81	6	74	33	18	24	22	1.97
2381233--2381272	14	2.9	14	88	7	55	57	0	0	42	0.98
2381686--2381771	37	2.6	31	73	21	84	47	4	0	47	1.22
2385726--2385826	3	33.7	3	87	0	148	35	1	0	61	1.14
2385725--2385845	15	8.6	14	82	13	110	38	1	0	59	1.13
2387424--2387476	17	3.1	18	72	10	56	54	0	5	39	1.24
2399751--2400151	52	7.7	52	99	0	793	23	15	24	37	1.93
2400063--2400360	130	2.3	130	98	0	569	26	13	22	37	1.92
2400193--2400288	52	1.9	48	89	10	149	22	14	25	37	1.92
2400918--2401689	112	6.8	113	93	1	1219	37	13	19	29	1.90
2400918--2401689	337	2.3	339	93	1	1280	37	13	19	29	1.90
2400920--2401689	225	3.4	226	92	2	1226	37	13	19	29	1.90
2401939--2402030	3	30.7	3	88	0	139	34	2	1	61	1.15
2403628--2403680	17	3.1	18	72	10	56	54	0	5	39	1.24
2405695--2405719	2	12.5	2	100	0	50	52	0	0	48	1.00
2409174--2409229	20	2.9	19	75	19	62	66	1	8	23	1.30
2409583--2409634	25	2.1	25	82	13	63	61	1	7	28	1.34
2409886--2409970	37	2.3	37	83	0	98	32	10	14	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2410731--2411901	106	11.0	106	93	0	1842	22	18	24	34	1.96
2412882--2412934	21	2.5	21	75	6	63	20	24	18	35	1.95
2412941--2412996	21	2.7	21	97	0	103	41	21	21	16	1.90
2413007--2413059	20	2.7	20	96	0	97	28	28	20	22	1.99
2412984--2413079	20	4.7	21	82	7	83	36	25	17	20	1.94
2413246--2413289	22	2.0	22	95	0	79	20	45	15	18	1.85
2413552--2413610	20	3.0	20	87	0	73	15	18	22	44	1.87
2413747--2413801	25	2.2	24	78	15	58	20	9	18	52	1.71
2414928--2414975	18	2.7	18	93	0	87	27	45	12	14	1.81
2415486--2415531	20	2.3	20	84	0	56	36	23	21	17	1.94

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