genome.fa.s9585.2.7.7.80.10.50.1000.11.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  11  of  35  ( 4106 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)
2172299--2172359	20	2.9	20	76	9	59	24	36	24	14	1.93
2174008--2174036	12	2.4	12	100	0	58	34	31	34	0	1.58
2176092--2176128	14	2.6	14	91	4	56	5	21	21	51	1.68
2177190--2177280	20	4.5	20	77	8	103	24	18	27	29	1.98
2177296--2177342	21	2.2	21	80	0	58	34	19	21	25	1.96
2179105--2179144	21	1.9	21	89	0	62	55	7	7	30	1.56
2193585--2193642	23	2.5	24	77	8	66	53	0	3	43	1.17
2193584--2193646	22	2.7	23	80	4	74	53	0	4	41	1.22
2203369--2203438	12	5.8	12	80	6	79	51	18	15	14	1.77
2203367--2203475	48	2.3	47	85	3	137	47	17	16	18	1.83
2203367--2203475	24	4.5	25	78	6	109	47	17	16	18	1.83
2204616--2204651	18	2.0	18	88	0	54	30	16	0	52	1.44
2205968--2206020	18	2.9	18	97	0	97	13	18	50	16	1.77
2208946--2208972	11	2.5	11	100	0	54	55	7	18	18	1.65
2209930--2210079	41	3.6	43	76	9	148	34	17	16	32	1.92
2218682--2218860	42	4.2	43	78	11	181	22	21	21	34	1.97
2218682--2218860	84	2.1	86	82	5	229	22	21	21	34	1.97
2219183--2219233	20	2.5	20	93	0	84	9	29	13	47	1.75
2220756--2220945	65	3.0	63	80	12	217	30	22	18	28	1.97
2223045--2223094	21	2.4	21	100	0	100	48	10	16	26	1.77
2226756--2226836	23	3.6	22	76	8	83	24	25	23	25	2.00
2226824--2226875	20	2.6	20	90	0	77	30	25	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2228402--2228445	21	2.1	21	82	0	52	9	38	15	36	1.80
2228791--2228845	28	1.9	28	82	10	67	18	3	23	54	1.59
2229753--2229822	21	3.3	21	93	0	122	22	21	27	28	1.99
2231703--2231858	43	3.6	42	81	5	177	25	23	5	45	1.73
2233486--2233519	17	2.1	16	88	5	50	76	0	8	14	1.01
2242645--2242677	7	4.9	7	88	7	50	15	0	0	84	0.61
2242653--2242677	13	1.9	13	100	0	50	12	0	0	88	0.53
2248755--2248796	7	5.9	7	86	13	59	16	0	28	54	1.42
2253169--2253230	29	2.1	30	87	3	90	22	25	33	17	1.96
2253349--2253418	11	6.2	11	70	6	59	20	21	17	41	1.90
2253355--2253420	23	2.9	23	93	0	105	21	19	16	42	1.89
2253626--2253731	36	2.8	38	82	12	105	37	0	16	44	1.55
2253650--2253731	36	2.2	38	91	6	132	40	1	17	41	1.57
2253719--2253758	21	1.9	21	100	0	80	27	0	15	57	1.38
2254012--2254073	29	2.2	28	78	15	74	41	0	6	51	1.27
2254101--2254140	21	1.9	21	100	0	80	27	0	15	57	1.38
2254192--2254267	36	2.0	39	85	7	104	40	0	13	46	1.43
2255573--2255616	23	1.9	23	85	0	61	38	4	2	54	1.33
2257639--2257703	26	2.5	24	79	13	67	41	3	4	50	1.38
2257970--2258008	20	1.9	21	89	5	62	51	12	0	35	1.40
2257966--2258024	17	3.4	17	73	15	57	47	11	0	40	1.40
2258524--2258572	21	2.3	21	85	3	71	53	16	0	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2259668--2259845	49	3.6	50	77	12	136	42	2	10	45	1.50
2259738--2259816	26	3.0	26	89	7	124	46	2	8	41	1.48
2259824--2259865	17	2.5	17	80	0	57	40	0	2	57	1.12
2260946--2260989	23	1.9	23	85	0	61	54	2	4	38	1.33
2262167--2262197	4	7.8	4	92	0	53	48	22	0	29	1.51
2262313--2262383	37	1.9	38	85	5	101	45	14	1	39	1.53
2262435--2262474	21	1.9	21	100	0	80	57	15	0	27	1.38
2262681--2262745	27	2.3	29	80	15	75	46	13	1	38	1.53
2262799--2262838	21	1.9	21	100	0	80	57	15	0	27	1.38
2262826--2262909	38	2.2	39	93	2	143	41	16	1	40	1.56
2262837--2262933	39	2.5	37	82	11	115	44	15	1	39	1.53
2262826--2262933	38	2.8	38	86	6	103	44	16	0	37	1.54
2263139--2263196	23	2.5	23	91	0	89	43	13	18	24	1.87
2263324--2263407	29	2.9	29	87	1	123	17	32	27	22	1.97
2264716--2264809	37	2.5	37	98	0	179	13	14	20	51	1.77
2274197--2274249	25	2.2	25	82	3	63	28	7	22	41	1.81
2278840--2278888	25	2.0	25	95	0	89	24	6	26	42	1.78
2278842--2278894	25	2.2	25	86	3	72	28	7	22	41	1.81
2279104--2279171	34	2.0	34	83	13	86	25	13	16	45	1.83
2279761--2279805	23	2.0	23	86	0	63	24	15	17	42	1.88
2279977--2280033	24	2.4	24	82	5	71	47	14	14	24	1.80
2282271--2282331	23	2.7	23	97	0	113	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2286786--2286813	2	14.0	2	100	0	56	50	0	0	50	1.00
2286914--2286959	22	2.1	22	83	0	56	43	34	13	8	1.74
2295545--2295615	35	2.0	35	100	0	142	19	23	28	28	1.99
2301473--2301507	2	17.0	2	94	5	61	48	0	2	48	1.16
2302321--2302374	21	2.5	22	79	11	67	31	12	29	25	1.93
2306842--2306876	18	1.9	18	94	0	61	31	34	14	20	1.92
2309410--2309462	18	2.9	18	85	0	79	18	22	33	24	1.97
2316204--2316236	15	2.3	15	89	5	50	12	18	3	66	1.36
2318876--2318917	18	2.3	18	95	0	75	47	0	21	30	1.51
2324101--2324171	24	3.0	24	87	0	79	25	19	18	36	1.94
2324112--2324178	24	2.8	24	88	0	89	28	19	17	34	1.95
2324366--2324390	13	1.9	13	100	0	50	48	0	4	48	1.20
2328692--2328738	24	2.0	24	91	0	76	29	19	14	36	1.92
2331392--2331438	25	2.0	24	83	8	60	59	29	4	6	1.41
2332973--2333135	81	2.0	82	92	1	274	31	19	14	34	1.92
2340316--2340460	76	1.9	76	97	0	272	37	12	17	33	1.87
2348004--2348034	2	15.5	2	100	0	62	51	0	0	48	1.00
2349239--2349307	2	34.5	2	100	0	138	49	0	0	50	1.00
2354267--2354305	20	2.0	20	89	0	60	15	12	10	61	1.56
2354268--2354363	10	8.9	10	67	18	50	16	13	12	57	1.66
2354288--2354409	34	3.5	34	78	9	97	17	13	12	57	1.65
2354348--2354444	37	2.7	35	78	15	101	16	9	13	60	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2354268--2354410	57	2.5	57	89	0	214	16	13	12	58	1.64
2354348--2354433	23	3.7	23	81	3	91	16	9	12	61	1.55
2354414--2354461	14	3.4	14	82	0	60	16	8	14	60	1.57
2354339--2354441	47	2.2	47	82	3	118	17	9	12	60	1.58
2362594--2362647	19	2.8	19	77	8	65	55	0	1	42	1.10
2363123--2363188	30	2.2	30	97	2	125	27	18	22	31	1.97
2364264--2364449	64	2.9	64	85	9	240	30	0	12	56	1.40
2364352--2364414	19	3.2	19	75	4	54	31	0	12	55	1.37
2364425--2364470	21	2.2	21	77	14	51	26	2	15	56	1.50
2365087--2365123	5	7.0	5	88	11	56	24	0	0	75	0.80
2370684--2370729	11	4.3	11	78	15	51	10	4	6	78	1.08
2372602--2372795	65	2.9	67	85	5	257	29	0	11	58	1.37
2373388--2373426	20	1.9	21	94	5	71	23	2	0	74	0.94
2378814--2378846	18	1.9	18	88	11	52	42	0	30	27	1.56
2380557--2380598	22	1.9	22	90	0	66	23	23	23	28	2.00
2385650--2385720	32	2.2	32	87	5	99	14	0	28	57	1.37
2385664--2385724	15	3.9	15	81	12	70	9	0	29	60	1.29
2386114--2386151	18	2.1	18	95	0	67	34	5	5	55	1.45
2389146--2389573	20	21.2	20	81	12	445	41	22	19	15	1.89
2389669--2389747	6	13.2	6	100	0	158	34	49	16	0	1.46
2390234--2390332	6	16.5	6	100	0	198	0	16	50	33	1.45
2390435--2390698	20	12.8	20	74	16	202	17	20	24	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2390456--2390758	42	7.4	42	77	10	288	17	20	22	40	1.91
2390620--2390698	22	3.7	21	75	14	90	20	20	24	35	1.96
2390481--2390758	124	2.2	124	99	0	547	16	20	21	41	1.91
2390441--2390702	82	3.2	82	77	10	275	16	20	23	39	1.92
2390428--2390779	20	17.2	20	73	11	182	16	19	22	41	1.90
2399687--2399725	15	2.6	15	95	0	69	20	7	35	35	1.81
2405768--2405802	15	2.3	15	95	0	61	28	11	11	48	1.74
2409223--2409257	11	3.1	11	84	8	52	80	0	2	17	0.84
2409223--2409257	12	3.0	12	87	4	54	80	0	2	17	0.84
2409269--2409296	13	2.2	13	100	0	56	64	14	0	21	1.29

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