genome.fa.s7832.2.7.7.80.10.50.1000.12.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: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  12  of  21  ( 2482 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)
2268743--2268827	26	3.3	26	66	21	70	38	11	9	40	1.74
2268758--2268838	26	3.2	26	63	16	60	35	14	8	40	1.77
2268772--2268851	25	3.2	25	66	16	65	33	13	8	43	1.75
2272996--2273076	26	3.2	25	67	22	69	34	16	7	41	1.76
2273010--2273090	25	3.2	24	68	22	67	33	14	8	43	1.76
2272986--2273127	51	2.8	51	89	1	203	35	13	7	43	1.71
2282412--2282478	30	2.2	30	86	5	91	23	0	28	47	1.52
2282395--2282478	30	2.8	30	82	10	75	22	0	29	47	1.52
2284149--2284209	29	2.1	29	87	0	86	31	18	14	36	1.91
2288771--2288822	23	2.3	23	80	6	72	17	21	40	21	1.91
2292636--2292675	21	1.9	21	85	10	55	35	10	2	52	1.48
2295270--2295354	8	10.6	8	74	13	77	31	2	29	36	1.70
2295274--2295341	24	2.8	24	86	4	93	33	1	29	35	1.67
2296225--2296274	26	1.9	26	91	0	82	34	2	22	42	1.65
2296561--2296607	14	3.4	14	79	5	51	51	0	8	40	1.33
2297511--2297544	16	2.1	16	88	0	50	47	8	20	23	1.78
2298967--2299004	16	2.2	18	86	9	53	68	2	0	28	1.03
2298966--2299005	17	2.3	19	79	16	50	70	2	0	27	1.01
2298954--2299019	27	2.5	27	80	9	73	63	4	0	31	1.14
2304491--2304540	21	2.4	21	96	0	91	30	28	26	16	1.96
2318987--2319060	32	2.3	32	90	0	112	18	10	27	43	1.83
2319002--2319076	32	2.3	32	93	0	123	24	13	25	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2318954--2319076	64	1.9	64	81	3	149	22	10	25	41	1.86
2322355--2322385	12	2.6	12	100	0	62	51	16	16	16	1.77
2329166--2329220	28	2.0	28	89	7	85	52	7	3	36	1.47
2330166--2330214	22	2.2	22	96	0	89	6	53	18	22	1.66
2330656--2330761	30	3.5	30	87	5	142	37	1	14	46	1.55
2330814--2330847	15	2.2	16	94	5	61	38	0	5	55	1.24
2333160--2333278	59	2.1	58	84	9	165	52	5	2	39	1.39
2333344--2333692	26	13.7	26	81	9	353	44	8	2	44	1.48
2333438--2333476	20	2.0	20	84	0	51	41	7	2	48	1.45
2333423--2333706	150	1.9	152	94	3	502	43	9	2	44	1.50
2333357--2333692	14	26.1	13	71	18	226	44	8	2	44	1.48
2333447--2333743	150	2.0	150	88	4	438	43	10	3	42	1.55
2333981--2334039	12	5.1	12	86	13	88	42	6	0	50	1.28
2333981--2334043	23	2.7	23	90	9	94	41	6	0	52	1.27
2334183--2334417	49	4.8	49	96	1	436	46	11	0	42	1.39
2334195--2334271	22	3.3	22	65	28	59	45	10	0	44	1.38
2338061--2338100	21	1.9	21	89	0	62	10	25	40	25	1.86
2338082--2338141	23	2.7	23	75	10	63	16	23	38	21	1.93
2346613--2346654	10	4.2	10	96	0	75	7	33	0	59	1.25
2346616--2346654	5	7.8	5	88	0	60	5	33	0	61	1.18
2347000--2347053	28	1.9	28	96	0	99	57	12	0	29	1.36
2346996--2347060	28	2.3	28	84	10	96	55	10	0	33	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2347030--2347078	21	2.3	21	85	3	71	53	16	0	30	1.43
2347759--2347865	29	3.7	29	85	7	128	14	29	34	20	1.93
2348484--2348522	14	2.5	16	84	15	55	33	0	2	64	1.08
2348725--2348763	18	2.2	17	86	4	51	58	2	0	38	1.12
2352418--2352450	2	16.5	2	93	0	57	48	0	51	0	1.00
2357782--2357832	20	2.5	20	78	6	59	31	15	25	27	1.96
2363383--2363423	21	1.9	21	85	5	55	58	14	0	26	1.37
2363839--2363904	21	3.1	21	77	12	80	31	21	16	30	1.95
2363839--2363942	43	2.4	44	85	3	140	29	21	19	29	1.97
2371810--2371854	19	2.6	18	80	16	51	46	0	2	51	1.13
2371922--2371986	30	2.1	32	83	11	82	36	1	0	61	1.05
2371923--2371988	22	3.0	22	82	8	64	37	1	0	60	1.06
2371941--2371990	13	3.8	13	80	17	50	38	0	0	62	0.96
2371933--2372001	36	1.9	36	82	5	86	37	2	0	59	1.12
2372709--2372771	23	2.6	24	78	19	60	50	1	0	47	1.10
2372743--2372789	22	2.1	23	88	4	69	44	2	0	53	1.12
2372737--2372816	32	2.5	32	80	14	92	47	2	0	50	1.14
2372777--2372849	23	3.3	22	76	16	62	54	1	1	42	1.17
2372757--2372851	26	3.5	26	69	17	77	53	1	1	44	1.14
2372950--2373003	28	1.9	28	88	7	83	55	0	0	44	0.99
2376984--2377400	209	2.0	208	97	0	780	37	22	14	25	1.92
2385636--2385668	16	2.1	16	100	0	66	57	24	12	6	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2385737--2385797	16	3.8	16	88	0	95	54	22	13	9	1.68
2386776--2386850	24	3.1	24	84	7	98	56	20	12	12	1.67
2386796--2386851	14	4.3	14	80	17	75	51	23	14	10	1.73
2386789--2386836	10	4.4	10	78	19	51	54	22	12	10	1.68
2386789--2386850	24	2.6	24	94	0	106	53	22	12	11	1.71
2387456--2387615	60	2.6	59	79	10	162	33	20	5	41	1.73
2389987--2390034	19	2.5	20	86	3	62	31	14	6	47	1.69
2391727--2391821	48	2.0	48	89	4	147	46	27	7	18	1.76
2393818--2393907	21	4.3	21	71	4	56	31	15	12	41	1.84
2393861--2393914	21	2.6	21	87	0	72	29	12	14	42	1.83
2404643--2404686	5	9.2	5	95	5	74	0	0	40	59	0.98
2404762--2404857	21	4.6	21	77	2	86	33	13	13	39	1.84
2404785--2404822	20	1.9	20	88	0	58	28	10	15	44	1.80
2405187--2405314	12	10.3	12	72	19	70	35	3	1	58	1.26
2405255--2405296	2	21.0	2	100	0	84	50	0	0	50	1.00
2405292--2405330	15	2.7	15	88	4	53	25	0	0	74	0.82
2405288--2405344	19	3.0	19	82	5	53	26	1	0	71	0.95
2408603--2408638	8	4.6	8	89	6	56	13	16	13	55	1.69
2408603--2408638	15	2.3	16	90	4	56	13	16	13	55	1.69
2409757--2409829	14	5.3	14	74	11	53	83	5	9	1	0.86
2409747--2409830	21	4.0	20	73	22	64	82	5	9	2	0.93
2409762--2409830	16	4.2	16	80	7	57	84	5	8	1	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2409747--2409801	27	2.1	26	82	3	65	81	7	9	1	0.93
2409757--2409828	36	2.0	36	86	13	103	83	5	9	1	0.86
2409744--2409829	22	4.1	20	77	18	79	81	5	10	2	0.95
2411384--2412429	106	10.0	106	89	3	1517	33	24	18	22	1.97
2413120--2413216	37	2.6	37	90	0	140	41	14	14	29	1.85
2413686--2413776	19	4.5	19	69	22	60	34	5	1	59	1.28
2413981--2414031	18	2.6	19	79	11	59	29	3	3	62	1.31
2414067--2414104	4	9.2	4	94	5	67	23	2	0	73	0.95
2414094--2414134	15	2.6	16	81	14	50	14	7	0	78	0.96
2417411--2417446	8	4.6	8	89	6	56	13	16	13	55	1.69
2417411--2417446	15	2.3	16	90	4	56	13	16	13	55	1.69
2418606--2418655	18	2.9	17	82	8	66	80	6	14	0	0.90
2418593--2418664	31	2.4	31	79	9	85	80	6	12	0	0.89
2418600--2418678	13	6.0	12	72	16	50	79	6	12	1	0.97
2418593--2418658	8	8.1	8	74	15	55	80	6	13	0	0.89
2418601--2418677	20	3.9	20	78	11	79	80	6	11	1	0.95
2418623--2418677	26	2.0	26	86	6	74	81	5	10	1	0.92
2420206--2420723	106	4.9	106	91	1	808	35	24	16	22	1.95
2420206--2420723	210	2.5	211	91	1	815	35	24	16	22	1.95
2420662--2420758	43	2.3	43	94	0	167	37	25	16	20	1.93
2420556--2420872	149	2.1	149	91	0	499	34	26	17	20	1.95
2420705--2421045	106	3.3	103	77	7	359	33	24	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2421734--2421837	37	2.8	37	83	1	129	40	15	13	30	1.86
2422274--2422320	22	2.1	23	88	4	69	36	4	0	59	1.17
2422272--2422321	19	2.5	20	80	3	57	34	4	0	62	1.14
2422621--2422676	2	29.5	2	89	10	91	46	0	0	53	1.00
2428693--2428827	39	3.4	39	84	2	153	23	25	20	29	1.99
2433424--2433471	23	2.1	23	84	0	60	37	12	16	33	1.86
2434197--2434233	18	2.1	18	89	0	56	51	10	5	32	1.60
2434437--2434500	22	2.8	23	90	2	94	37	18	7	35	1.80
2434851--2434903	23	2.5	20	75	18	54	45	18	1	33	1.61
2434856--2434902	22	2.1	22	88	7	69	44	19	2	34	1.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21