genome.fa.s389.2.7.7.80.10.50.1000.13.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: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2672246

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

This is table  13  of  15  ( 1688 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)
2173339--2173375	19	1.9	19	94	0	65	21	16	29	32	1.95
2190285--2190310	2	13.0	2	100	0	52	50	0	0	50	1.00
2190598--2190624	2	13.5	2	100	0	54	51	0	0	48	1.00
2208481--2208551	29	2.4	30	78	17	78	56	12	0	30	1.37
2208630--2208877	74	3.2	74	77	11	255	30	7	15	46	1.72
2209926--2209983	30	1.9	30	85	0	80	15	29	20	34	1.94
2209965--2210011	20	2.3	21	78	7	62	6	25	25	42	1.78
2211301--2211415	48	2.4	48	88	4	171	54	9	5	30	1.54
2211377--2211422	21	2.2	21	84	7	58	54	10	6	28	1.60
2226809--2226872	21	3.0	21	81	4	83	26	20	26	26	1.99
2230481--2230517	2	18.5	2	100	0	74	51	0	0	48	1.00
2231998--2232024	2	13.5	2	100	0	54	48	0	0	51	1.00
2242260--2242285	2	13.0	2	100	0	52	50	0	0	50	1.00
2244216--2244275	16	3.6	16	72	16	50	60	0	3	36	1.14
2244617--2244656	12	3.1	14	79	17	50	57	5	0	37	1.21
2244813--2244899	7	12.7	7	69	4	52	39	34	4	21	1.74
2244816--2244878	13	4.7	13	71	7	54	41	33	3	22	1.70
2244815--2244895	14	5.9	14	70	11	69	40	32	4	22	1.75
2244970--2245055	7	12.3	7	81	4	84	45	36	2	16	1.60
2244970--2245055	28	3.1	27	85	6	102	45	36	2	16	1.60
2246490--2246516	11	2.5	11	100	0	54	25	7	29	37	1.83
2255907--2255995	24	3.7	24	90	0	133	30	10	16	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2258879--2258921	21	2.0	21	86	0	59	30	27	25	16	1.97
2258901--2259051	67	2.2	68	85	2	207	27	26	26	19	1.99
2259357--2259428	29	2.5	29	90	0	108	40	9	11	38	1.74
2259734--2259796	13	5.5	13	65	27	52	19	26	26	26	1.99
2259730--2259810	22	3.6	22	96	1	144	18	27	29	24	1.98
2265857--2265899	21	2.0	21	86	0	59	30	27	25	16	1.97
2265879--2266028	65	2.2	68	88	3	216	27	28	26	18	1.98
2265989--2266029	21	2.0	21	90	0	64	21	31	36	9	1.86
2266334--2266405	29	2.5	29	88	0	99	40	9	9	40	1.71
2266711--2266773	13	5.5	13	65	27	52	19	26	26	26	1.99
2266707--2266787	22	3.6	22	96	1	144	18	27	29	24	1.98
2271136--2271169	15	2.1	16	89	10	52	8	2	11	76	1.12
2276141--2276265	60	2.1	61	84	4	164	31	20	5	42	1.75
2276454--2276557	31	3.6	29	73	6	84	42	2	18	36	1.65
2276398--2276546	59	2.5	60	79	5	149	42	2	20	34	1.66
2292756--2292795	20	2.0	20	85	9	55	57	0	0	42	0.98
2294087--2294149	28	2.4	27	78	14	62	57	3	3	36	1.31
2295171--2295222	21	2.5	21	81	3	61	38	19	25	17	1.93
2295208--2295285	41	1.9	41	89	0	120	38	23	15	23	1.92
2295211--2295304	20	4.7	20	80	7	91	32	25	17	24	1.96
2297035--2297079	18	2.5	18	85	0	63	26	46	15	11	1.79
2297603--2297660	14	3.9	14	79	16	71	48	25	17	8	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2297587--2297677	32	2.8	33	94	3	166	47	23	18	10	1.80
2297549--2297682	19	7.6	19	72	18	92	42	23	20	12	1.87
2297694--2297751	14	3.9	14	79	16	71	8	17	25	48	1.75
2297689--2297767	32	2.4	33	95	2	142	10	18	24	46	1.80
2297708--2297825	20	6.4	19	77	11	95	13	20	24	41	1.88
2299799--2299900	19	5.6	19	86	9	142	46	18	21	13	1.84
2301476--2301534	19	3.4	19	73	22	74	45	18	22	13	1.84
2301678--2301714	14	2.6	15	87	12	60	48	21	0	29	1.50
2303071--2303137	21	3.2	21	68	4	55	19	20	35	23	1.95
2303071--2303193	42	2.9	41	80	7	113	22	17	36	22	1.95
2305195--2305345	39	4.1	37	75	10	130	47	21	19	11	1.81
2305195--2305336	19	7.6	19	80	10	150	47	21	19	11	1.81
2305341--2305407	19	3.5	19	80	8	73	8	16	26	47	1.76
2305926--2306019	20	4.7	20	80	7	91	24	17	25	32	1.96
2306008--2306100	20	4.5	21	78	4	100	17	24	18	39	1.91
2305947--2306081	41	3.3	41	84	4	148	20	20	21	37	1.94
2306008--2306100	41	2.3	41	100	0	186	17	24	18	39	1.91
2309911--2309955	22	2.0	22	95	0	81	51	6	13	28	1.66
2311912--2311992	27	3.2	27	60	22	66	38	17	11	33	1.85
2311905--2312004	49	2.0	49	100	0	200	36	19	11	34	1.87
2316450--2316566	30	3.9	29	74	6	92	54	5	13	25	1.62
2318181--2318209	3	9.7	3	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2318364--2318486	40	3.0	40	72	13	108	26	17	30	25	1.97
2318512--2318712	43	4.5	43	69	17	126	23	19	32	23	1.97
2318542--2318617	40	1.9	39	83	2	98	22	19	38	19	1.94
2318409--2318762	134	2.6	134	90	0	530	25	19	31	23	1.98
2319049--2319237	29	6.4	29	72	22	101	44	13	12	29	1.80
2319049--2319106	30	2.0	30	93	3	100	44	10	13	31	1.78
2318976--2319195	90	2.4	90	82	9	261	44	13	13	28	1.81
2319141--2319250	29	3.8	28	84	8	132	48	15	10	26	1.76
2319296--2319478	64	2.8	65	83	7	210	44	14	9	31	1.77
2319721--2320034	107	3.0	105	81	6	409	42	10	15	31	1.81
2320429--2320468	16	2.5	16	83	0	53	22	5	27	45	1.73
2325209--2325263	16	3.4	16	69	16	51	56	10	5	27	1.56
2325217--2325265	16	3.0	17	73	11	57	48	10	6	34	1.62
2327794--2327825	3	10.7	3	100	0	64	68	0	0	31	0.90
2329704--2329738	18	1.9	18	88	0	52	25	37	5	31	1.80
2338199--2338441	65	3.8	61	85	11	337	32	16	5	44	1.72
2338291--2338425	68	2.0	68	98	1	263	33	17	5	42	1.74
2338199--2338441	128	1.9	122	86	10	346	32	16	5	44	1.72
2342658--2342697	9	4.4	9	83	0	53	40	0	2	57	1.12
2344325--2344395	29	2.5	29	78	15	76	35	2	14	47	1.58
2344381--2344619	58	4.1	58	77	7	211	33	5	14	46	1.66
2344349--2344545	87	2.3	86	80	10	204	32	5	13	49	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2344381--2344619	29	8.3	29	77	7	184	33	5	14	46	1.66
2345679--2345750	30	2.4	30	80	13	85	30	19	9	40	1.84
2351640--2351699	24	2.5	24	91	0	102	30	25	21	23	1.99
2351632--2351742	24	4.8	23	80	5	73	33	24	21	20	1.97
2351651--2351741	24	4.0	22	81	2	74	32	24	20	21	1.98
2352295--2352334	19	2.1	19	90	0	62	17	32	15	35	1.91
2352957--2353014	28	2.1	28	93	0	98	58	10	20	10	1.60
2358041--2358092	20	2.6	20	78	6	61	25	30	13	30	1.94
2360881--2360921	20	2.0	20	100	0	82	29	19	29	21	1.98
2363532--2363601	23	3.0	23	80	2	95	32	25	24	17	1.96
2366984--2367077	27	3.0	33	62	19	83	46	26	8	18	1.77
2366953--2367077	61	2.0	61	100	0	250	47	24	10	17	1.79
2381167--2381226	31	2.0	30	83	9	77	46	11	8	33	1.70
2382399--2382459	7	8.7	7	79	0	68	19	0	31	49	1.49
2382406--2382463	21	2.8	21	91	0	89	20	0	29	50	1.49
2383742--2383775	2	17.0	2	100	0	68	50	0	0	50	1.00
2384987--2385047	31	2.0	31	86	0	86	21	14	21	42	1.88
2391695--2391732	20	1.9	20	88	0	58	34	23	21	21	1.97
2392645--2392687	18	2.4	18	96	0	77	16	23	30	30	1.96
2394021--2394067	20	2.3	20	92	0	76	36	25	17	21	1.94
2394061--2394147	20	4.3	20	82	5	113	44	22	13	18	1.85
2394263--2394313	22	2.3	22	86	0	75	19	41	15	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2396367--2396409	21	2.0	21	86	0	59	20	11	32	34	1.89
2396808--2396912	21	5.0	21	73	11	72	25	33	18	22	1.97
2396815--2396912	42	2.3	42	80	3	117	25	32	18	23	1.97
2396815--2396933	42	2.8	42	81	5	107	23	34	19	22	1.96
2398138--2398189	24	2.2	24	96	0	95	21	1	32	44	1.63
2398366--2398397	14	2.3	14	94	0	55	37	0	21	40	1.54
2398366--2398405	14	2.8	13	85	14	53	37	0	22	40	1.54
2399020--2399102	36	2.3	36	85	2	105	24	15	27	32	1.95
2399577--2399613	12	3.1	12	84	0	56	48	10	2	37	1.52
2399574--2399630	24	2.4	25	82	8	73	49	12	1	36	1.51

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