genome.fa.s43.2.7.7.80.10.50.1000.18.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

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

This is table  18  of  19  ( 2200 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)
2178655--2178692	18	2.1	19	90	5	60	44	2	0	52	1.14
2181194--2181256	24	2.6	25	75	12	67	57	0	0	42	0.99
2182422--2182459	2	19.0	2	100	0	76	50	0	0	50	1.00
2186923--2186969	21	2.1	21	84	7	58	57	0	0	42	0.98
2188139--2188179	22	1.9	22	85	5	57	43	0	0	56	0.99
2188265--2188304	20	2.1	18	86	9	53	42	0	0	57	0.98
2188276--2188323	24	2.0	23	84	4	60	50	0	0	50	1.00
2188491--2188569	25	3.0	24	77	17	68	37	0	1	60	1.05
2188491--2188534	17	2.6	18	78	10	56	31	0	2	65	1.05
2188532--2188674	58	2.5	58	81	14	163	46	0	0	53	1.00
2189843--2189901	8	7.4	8	72	14	50	42	0	0	57	0.98
2190621--2190657	3	12.3	3	100	0	74	0	32	0	67	0.91
2190656--2190680	3	8.3	3	100	0	50	0	36	32	32	1.58
2190954--2190985	3	11.0	3	93	6	57	0	31	0	68	0.90
2195399--2195434	2	18.0	2	100	0	72	50	0	0	50	1.00
2199022--2199087	3	22.0	3	93	0	69	31	9	0	59	1.29
2199358--2199395	2	19.0	2	100	0	76	50	0	50	0	1.00
2199668--2199702	18	1.9	18	88	11	54	37	0	2	60	1.12
2200437--2200463	2	13.5	2	100	0	54	0	48	0	51	1.00
2204938--2204999	24	2.6	23	82	10	72	59	0	3	37	1.13
2204947--2205091	5	30.4	5	68	21	71	53	0	1	44	1.14
2204938--2205011	27	3.0	26	72	23	70	58	0	2	39	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2204965--2205048	38	2.3	38	80	15	88	52	1	1	45	1.16
2205044--2205093	14	4.0	13	82	17	54	56	0	4	40	1.18
2206213--2206264	16	3.1	15	76	17	50	57	1	0	40	1.10
2208117--2208148	2	16.0	2	100	0	64	50	0	0	50	1.00
2212619--2212657	2	19.5	2	100	0	78	0	51	0	48	1.00
2218423--2218744	160	2.0	160	100	0	644	37	22	15	24	1.93
2221298--2221340	21	2.0	22	90	4	70	30	6	4	58	1.45
2221445--2221482	3	12.7	3	100	0	76	68	0	0	31	0.90
2224082--2224119	12	3.0	13	76	7	51	23	0	5	71	1.07
2224225--2224294	19	3.4	19	70	18	52	35	1	0	62	1.04
2224213--2224375	6	26.8	6	68	17	61	39	1	0	58	1.11
2224250--2224305	28	2.1	28	83	6	71	37	1	0	60	1.07
2224301--2224361	22	2.8	21	75	20	54	45	1	0	52	1.10
2224804--2224842	12	3.2	12	88	3	51	51	0	0	48	1.00
2226239--2226305	12	5.7	12	75	16	68	61	1	0	37	1.05
2226255--2226375	29	4.2	28	74	12	95	61	0	0	38	1.02
2226261--2226369	20	5.2	20	67	25	66	60	0	0	38	1.03
2226291--2226370	18	4.3	18	72	24	67	58	0	1	40	1.06
2226821--2226876	28	2.0	29	86	6	80	46	0	0	53	1.00
2226840--2226875	18	2.1	18	89	5	56	44	0	0	55	0.99
2226814--2226901	45	1.9	47	82	13	112	46	1	0	52	1.08
2226847--2226889	18	2.3	18	80	4	50	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2229161--2229198	17	2.2	17	86	9	51	31	2	0	65	1.06
2230332--2230378	22	2.1	23	84	11	62	42	0	2	55	1.12
2231321--2231365	16	2.8	16	77	12	56	33	0	0	66	0.92
2231381--2231426	14	3.5	13	77	16	51	32	0	0	67	0.91
2240138--2240197	23	2.7	23	69	20	56	46	3	0	50	1.18
2240344--2240422	39	2.0	39	97	0	149	46	1	17	34	1.56
2242309--2242345	17	2.1	19	85	10	51	67	0	5	27	1.12
2252033--2252061	2	14.5	2	100	0	58	51	0	0	48	1.00
2255244--2255309	11	5.7	12	72	21	52	36	0	0	63	0.95
2255242--2255309	7	9.4	7	70	17	50	35	0	0	64	0.94
2256240--2256280	22	2.0	22	85	9	59	31	2	0	65	1.05
2257198--2257245	21	2.4	21	89	6	73	6	37	0	56	1.25
2257324--2257352	2	14.5	2	100	0	58	51	0	0	48	1.00
2258735--2258873	75	1.9	75	80	6	165	40	16	7	35	1.76
2260561--2260587	2	13.5	2	100	0	54	51	0	0	48	1.00
2261821--2261888	19	3.6	19	74	20	54	32	4	2	60	1.32
2261914--2261972	24	2.5	24	78	13	59	47	1	1	49	1.21
2267347--2267406	19	3.0	20	84	13	72	61	1	0	36	1.06
2275314--2275358	23	2.0	23	86	0	63	37	2	13	46	1.55
2279088--2279117	15	2.0	15	93	0	51	13	3	56	26	1.52
2280295--2280327	17	2.0	17	94	5	59	63	6	0	30	1.18
2280531--2280555	3	8.3	3	100	0	50	0	36	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2282714--2282773	30	2.0	30	87	6	86	35	31	8	25	1.85
2282752--2282860	54	2.0	54	94	0	191	31	26	13	28	1.94
2290346--2290379	9	3.8	9	100	0	68	35	8	44	11	1.72
2292028--2292077	20	2.5	20	81	18	68	50	4	22	24	1.66
2292038--2292075	20	1.9	20	100	0	76	50	5	18	26	1.68
2293834--2293894	31	2.1	28	84	9	77	65	1	0	32	1.02
2293821--2293893	25	2.8	26	77	18	71	61	2	0	35	1.10
2295016--2295111	26	3.4	27	75	19	90	52	1	0	46	1.07
2295854--2295936	28	3.0	27	76	15	82	40	0	1	57	1.06
2295875--2295936	28	2.2	28	94	2	108	43	0	0	56	0.99
2297250--2297283	16	2.3	14	90	10	50	8	11	0	79	0.94
2307402--2307426	2	12.5	2	100	0	50	0	52	0	48	1.00
2308331--2308466	17	8.1	18	68	21	64	37	0	0	61	1.01
2309196--2309221	2	13.0	2	100	0	52	50	0	0	50	1.00
2316724--2316755	2	16.0	2	100	0	64	50	0	0	50	1.00
2318853--2318878	13	2.0	13	100	0	52	46	15	7	30	1.74
2319002--2319030	10	3.0	10	95	5	51	72	6	10	10	1.28
2325463--2325537	36	2.1	36	90	4	118	28	12	8	52	1.66
2330530--2330574	11	4.4	11	81	13	51	77	4	0	17	0.92
2332196--2332259	24	2.5	26	80	7	78	14	7	0	78	0.96
2333241--2333355	41	2.8	41	86	5	178	36	13	22	26	1.92
2341079--2341123	22	2.0	22	83	8	56	40	2	0	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2343857--2343899	17	2.5	17	85	14	61	25	0	0	74	0.82
2343850--2343899	13	3.6	13	82	17	57	26	0	0	74	0.83
2344111--2344178	31	2.3	31	82	10	79	47	2	1	48	1.26
2344544--2344603	26	2.3	26	83	8	70	38	0	0	61	0.96
2344565--2344601	18	2.1	18	94	0	65	35	0	0	64	0.94
2345297--2345358	19	3.2	19	75	13	54	40	0	0	59	0.97
2346667--2346697	4	7.8	4	100	0	62	22	0	0	77	0.77
2346804--2346828	4	6.2	4	100	0	50	0	76	0	24	0.80
2347008--2347076	22	3.1	22	80	12	70	42	1	0	56	1.08
2347038--2347086	25	2.0	24	85	14	66	36	0	0	63	0.95
2347218--2347265	2	23.5	2	91	4	78	47	4	0	47	1.21
2350156--2350208	2	26.5	2	88	0	79	49	1	1	47	1.23
2361573--2361604	8	3.9	8	92	8	55	75	0	0	25	0.81
2361575--2361604	9	3.4	9	90	9	53	80	0	0	20	0.72
2362376--2362405	7	4.1	7	91	8	51	86	0	0	13	0.57
2362723--2362765	2	21.5	2	100	0	86	48	0	0	51	1.00
2365217--2365246	14	2.1	15	93	6	53	83	0	16	0	0.65
2375466--2375506	2	20.5	2	100	0	82	51	0	48	0	1.00
2376063--2376104	2	21.0	2	100	0	84	50	0	0	50	1.00
2376219--2376290	24	2.8	24	72	8	63	47	5	1	45	1.34
2376749--2376773	13	1.9	13	100	0	50	96	4	0	0	0.24
2376748--2376775	14	2.0	14	100	0	56	92	7	0	0	0.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2385760--2385873	58	2.0	57	91	1	183	48	10	15	25	1.77
2387075--2387107	16	2.0	17	88	5	50	81	9	6	3	0.95
2387646--2387694	22	2.2	22	85	7	64	48	2	0	48	1.12
2398372--2398412	2	20.5	2	100	0	82	48	0	0	51	1.00
2398642--2398696	20	2.5	22	82	8	69	56	0	0	43	0.99
2398642--2398712	22	3.2	24	73	15	64	54	0	1	43	1.08
2402618--2402664	23	2.0	23	100	0	94	25	17	23	34	1.96
2407261--2407345	40	2.1	40	87	8	120	44	12	18	23	1.85
2423167--2423194	2	14.0	2	100	0	56	50	0	50	0	1.00
2443360--2443399	1	40.0	1	84	0	53	0	5	2	92	0.45

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