genome.fa.s57.2.7.7.80.10.50.1000.17.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  17  of  27  ( 3137 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)
2227365--2227398	13	2.5	13	90	4	50	61	0	0	38	0.96
2233621--2233681	18	3.3	18	77	17	63	47	0	0	52	1.00
2233903--2233935	13	2.4	14	85	10	50	63	0	0	36	0.95
2235029--2235081	26	2.0	26	100	0	106	22	7	11	58	1.57
2235179--2235227	24	2.0	24	84	11	64	55	0	2	42	1.11
2236337--2236385	24	2.0	24	81	14	57	34	6	0	59	1.22
2241939--2242009	37	1.9	37	82	5	90	32	0	1	66	1.01
2245281--2245322	22	2.0	21	90	4	66	45	0	0	54	0.99
2245270--2245353	29	2.9	28	72	8	69	45	0	3	51	1.18
2245824--2245883	25	2.4	25	83	5	68	46	0	3	50	1.18
2257972--2257996	3	8.3	3	100	0	50	68	0	0	32	0.90
2258283--2258318	2	18.0	2	100	0	72	50	0	0	50	1.00
2259384--2259412	2	15.0	2	92	7	51	48	0	0	51	1.00
2259702--2259793	45	2.0	45	100	0	184	48	15	13	22	1.79
2259994--2260019	13	2.0	13	100	0	52	38	7	15	38	1.76
2267703--2267748	24	1.9	24	90	0	74	26	6	23	43	1.78
2270180--2270221	20	2.2	19	86	4	57	57	0	7	35	1.26
2270251--2270290	20	2.0	20	85	0	53	62	0	0	37	0.95
2270191--2270292	52	1.9	53	80	7	118	55	0	4	38	1.28
2272328--2272384	20	2.8	20	81	5	60	56	0	0	43	0.99
2272359--2272441	9	8.9	9	73	18	64	42	1	0	56	1.07
2272369--2272435	19	3.5	19	78	14	66	43	1	0	55	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2272360--2272444	36	2.3	38	80	15	106	42	2	0	55	1.12
2272348--2272453	36	3.1	34	75	12	94	46	2	0	50	1.16
2274327--2274369	13	3.1	14	83	10	52	60	2	0	37	1.10
2274327--2274371	14	3.3	13	84	6	54	60	2	0	37	1.09
2279240--2279296	26	2.3	25	78	6	62	59	0	0	40	0.97
2279247--2279305	26	2.2	26	82	8	66	61	1	0	37	1.07
2279468--2279553	46	1.9	44	84	13	113	39	2	6	51	1.42
2280321--2280356	3	12.0	3	100	0	72	66	0	0	33	0.92
2281461--2281499	21	1.9	21	84	5	53	30	2	0	66	1.05
2282347--2282389	17	2.6	16	82	17	52	65	2	2	30	1.18
2285567--2285619	20	2.6	21	78	6	54	39	1	0	58	1.09
2286500--2286529	15	2.0	15	93	0	51	46	6	3	43	1.46
2286993--2287038	12	3.9	12	80	11	51	36	0	2	60	1.09
2286996--2287041	24	1.9	24	83	16	60	36	0	2	60	1.09
2287459--2287527	36	1.9	35	83	13	88	36	2	0	60	1.11
2287691--2287733	18	2.3	19	84	11	54	30	0	4	65	1.13
2287746--2287799	8	6.5	8	78	21	58	38	0	0	61	0.96
2287734--2287787	16	3.2	18	75	20	71	42	0	0	57	0.98
2287705--2287803	8	12.1	8	72	18	55	38	0	0	61	0.96
2287720--2287806	32	2.6	33	84	14	124	40	0	0	59	0.97
2293529--2293579	15	3.5	15	76	10	52	45	1	1	50	1.24
2295602--2295674	24	2.9	24	82	10	76	61	9	1	27	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2297127--2297176	22	2.3	21	82	6	55	42	4	0	54	1.19
2298563--2298636	37	2.0	36	85	12	98	45	4	0	50	1.20
2302929--2302957	14	2.1	14	93	6	51	13	6	3	75	1.13
2303104--2303132	13	2.1	14	93	6	51	34	0	0	65	0.93
2303437--2303559	61	2.0	61	90	0	192	30	25	11	33	1.91
2304103--2304171	16	4.2	17	68	28	51	55	1	0	43	1.08
2304085--2304186	26	4.2	24	75	13	77	55	0	0	43	1.06
2304097--2304134	13	2.9	13	77	14	51	52	0	0	47	1.00
2304102--2304180	24	3.3	23	71	13	70	54	1	0	44	1.08
2304802--2304872	31	2.5	27	78	14	88	38	8	0	53	1.31
2312983--2313024	21	2.0	22	90	4	68	50	0	0	50	1.00
2313015--2313052	14	2.7	15	84	12	53	57	0	0	42	0.98
2319128--2319203	30	2.5	30	77	8	75	44	1	2	51	1.23
2319180--2319270	30	3.1	28	75	18	87	53	2	1	42	1.20
2319255--2319295	19	2.2	18	86	4	55	73	2	0	24	0.96
2320987--2321056	24	2.9	24	76	16	72	54	0	0	45	0.99
2322233--2322271	20	2.0	20	90	5	62	53	7	0	38	1.30
2322233--2322276	21	2.1	21	84	12	56	50	9	0	40	1.34
2322438--2322483	22	2.1	22	84	4	58	67	0	0	32	0.91
2322436--2322487	28	1.9	28	92	7	90	65	0	0	34	0.93
2322445--2322493	11	4.3	12	80	19	61	65	0	0	34	0.93
2322443--2322491	22	2.2	23	85	10	75	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2322956--2323004	17	2.9	18	75	24	54	40	0	0	59	0.98
2322979--2323043	24	3.0	22	75	14	64	40	0	1	58	1.07
2322959--2323062	31	3.3	31	74	15	88	37	0	0	61	1.03
2322979--2323044	22	3.0	21	75	20	64	39	0	1	59	1.07
2323843--2323898	13	4.3	13	80	11	53	44	0	0	55	0.99
2323848--2323900	11	4.5	11	80	13	61	47	0	0	52	1.00
2323852--2323900	25	2.0	25	92	8	82	51	0	0	48	1.00
2323848--2323916	36	1.9	36	81	0	84	52	0	1	46	1.09
2325561--2325611	20	2.5	22	75	9	54	49	0	0	50	1.00
2325600--2325657	21	2.8	20	82	7	55	67	1	0	31	1.01
2328448--2328607	85	1.9	85	93	0	275	28	15	20	35	1.93
2331533--2331583	18	2.8	18	77	19	52	43	1	0	54	1.11
2331543--2331601	27	2.2	26	80	14	66	42	0	0	57	0.98
2331550--2331602	27	1.9	28	85	11	74	45	0	0	54	0.99
2338608--2338679	18	4.3	18	65	24	59	44	0	0	55	0.99
2340537--2340685	65	2.5	59	76	18	169	41	20	4	33	1.73
2340613--2340658	22	2.1	22	91	0	74	47	17	8	26	1.76
2340570--2340702	66	2.0	66	89	1	205	45	19	6	29	1.74
2346733--2346825	27	3.4	27	78	14	86	51	0	1	47	1.07
2347266--2347302	19	1.9	19	89	10	58	35	0	0	64	0.94
2347315--2347353	20	1.9	21	89	5	62	41	0	0	58	0.98
2347312--2347370	22	2.7	21	81	5	64	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2348096--2348147	20	2.5	20	74	20	54	48	0	0	51	1.00
2353382--2353430	21	2.4	21	86	3	64	42	0	2	55	1.11
2353999--2354075	20	3.6	21	71	15	61	41	3	1	53	1.27
2354662--2354693	6	5.2	6	92	7	55	53	0	0	46	1.00
2354866--2354904	20	2.0	20	89	0	60	64	0	0	35	0.94
2355032--2355081	22	2.2	23	82	3	57	70	8	0	22	1.13
2355789--2355840	28	1.9	27	85	14	72	53	0	0	46	1.00
2355831--2355855	5	5.0	5	100	0	50	60	0	0	40	0.97
2356100--2356169	17	4.1	18	74	23	62	58	0	0	41	0.98
2356112--2356203	33	2.8	33	79	14	102	58	1	0	40	1.05
2357642--2357698	18	3.0	18	74	18	53	59	0	0	40	0.97
2357675--2357722	23	2.0	25	84	8	64	68	0	2	29	1.01
2357777--2357839	10	5.9	11	75	15	53	53	1	0	44	1.10
2361707--2361752	2	24.5	2	78	12	53	50	0	0	50	1.00
2362343--2362396	14	3.7	14	73	7	54	51	3	0	44	1.19
2363053--2363085	17	2.0	17	88	5	50	45	0	0	54	0.99
2364882--2364933	21	2.5	20	85	11	70	51	0	9	38	1.35
2364882--2364920	21	1.9	21	94	5	71	56	0	10	33	1.33
2366419--2366449	15	2.1	15	93	0	53	22	12	19	45	1.84
2368847--2368886	19	2.1	19	86	9	55	45	0	0	55	0.99
2372066--2372095	7	4.3	7	95	0	51	53	0	0	46	1.00
2375936--2375995	26	2.4	26	78	13	63	38	1	0	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2375971--2376005	18	1.9	18	88	11	54	37	5	0	57	1.23
2376164--2376212	11	4.1	11	78	17	53	38	4	0	57	1.18
2379281--2379334	21	2.8	19	83	8	65	55	0	3	40	1.17
2379348--2379400	18	2.9	18	81	10	56	64	0	1	33	1.05
2382263--2382312	25	2.0	25	84	0	64	56	2	2	40	1.22
2383377--2383416	14	2.8	15	81	11	57	60	0	0	40	0.97
2383387--2383416	15	1.9	16	93	6	53	60	0	0	40	0.97
2383458--2383542	19	4.5	19	70	22	63	60	0	1	38	1.05
2383441--2383543	48	2.2	46	81	10	120	59	0	0	39	1.04
2383459--2383550	36	2.5	37	78	15	102	59	0	1	39	1.04

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