genome.fa.s220.2.7.7.80.10.50.1000.11.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

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

This is table  11  of  19  ( 2201 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)
2335405--2335455	16	3.3	16	78	18	63	45	0	0	54	0.99
2335412--2335444	13	2.5	13	90	9	50	45	0	0	54	0.99
2335746--2335793	23	2.1	24	84	7	64	45	0	2	52	1.12
2335940--2335993	17	3.0	17	80	19	65	53	0	1	44	1.11
2336026--2336079	24	2.1	24	83	16	65	55	0	1	42	1.10
2336039--2336073	17	2.1	17	89	10	54	57	0	0	42	0.99
2336477--2336503	3	9.0	3	100	0	54	66	0	0	33	0.92
2337415--2337458	18	2.4	19	85	11	65	38	0	2	59	1.10
2340532--2340602	36	1.9	37	86	8	101	50	0	0	49	1.00
2342573--2342603	2	15.5	2	100	0	62	0	48	0	51	1.00
2343166--2343191	2	13.0	2	100	0	52	0	50	0	50	1.00
2347737--2347773	19	2.0	20	89	10	60	27	29	5	37	1.79
2351074--2351105	16	1.9	17	93	6	57	50	0	0	50	1.00
2351105--2351135	6	5.0	6	96	4	53	80	0	0	19	0.71
2352038--2352071	17	2.0	17	88	0	50	52	0	5	41	1.25
2367998--2368032	2	17.5	2	100	0	70	51	0	0	48	1.00
2368713--2368750	19	2.0	19	85	10	51	42	0	0	57	0.98
2369115--2369164	2	25.0	2	85	0	64	42	0	2	56	1.11
2369946--2369978	2	16.5	2	100	0	66	0	48	0	51	1.00
2373350--2373375	13	2.0	13	100	0	52	92	7	0	0	0.39
2373413--2373443	15	2.1	15	93	0	53	38	12	12	35	1.82
2374326--2374374	15	3.3	15	82	2	55	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)
2377539--2377588	23	2.3	20	81	18	57	54	0	0	46	1.00
2378024--2378052	2	14.5	2	100	0	58	51	0	0	48	1.00
2378905--2378937	2	16.5	2	100	0	66	48	0	0	51	1.00
2380006--2380078	20	3.7	20	73	12	51	38	4	1	56	1.27
2380745--2380769	12	2.1	12	100	0	50	28	0	0	72	0.86
2380781--2380819	19	2.1	19	85	9	53	38	0	2	58	1.12
2382987--2383023	2	18.5	2	100	0	74	51	0	48	0	1.00
2387441--2387489	22	2.2	22	92	0	80	18	12	20	48	1.79
2390028--2390059	16	2.0	16	100	0	64	31	25	18	25	1.98
2393456--2393528	27	2.6	28	78	10	78	58	4	0	36	1.17
2393520--2393570	14	3.6	14	75	15	59	50	5	0	43	1.26
2393509--2393568	29	2.0	31	90	6	97	51	5	0	43	1.23
2393549--2393590	20	2.2	19	86	4	57	52	4	2	40	1.35
2395683--2395751	18	3.7	19	81	9	72	34	0	0	65	0.93
2398835--2399113	141	2.0	141	91	0	450	34	18	12	34	1.88
2400705--2400873	50	3.4	50	77	8	173	36	16	14	31	1.89
2403259--2403322	34	2.0	33	84	9	87	43	0	1	54	1.09
2404423--2404452	2	15.0	2	100	0	60	50	0	0	50	1.00
2406318--2406424	51	2.1	50	91	8	173	51	0	0	48	1.00
2406341--2406415	13	5.8	13	67	30	54	56	0	0	44	0.99
2406765--2406804	6	6.7	6	94	0	71	17	32	17	32	1.93
2407328--2407380	21	2.5	21	82	11	56	64	0	1	33	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2407337--2407393	29	2.0	29	82	6	71	64	0	1	33	1.04
2407354--2407454	29	3.2	33	75	18	92	55	0	0	43	1.06
2407393--2407437	17	2.6	17	82	10	56	51	0	0	48	1.00
2411069--2411101	2	16.5	2	93	0	57	48	3	0	48	1.17
2411475--2411508	5	6.8	5	100	0	68	38	41	20	0	1.53
2414529--2414562	2	17.0	2	93	0	59	47	0	50	2	1.16
2416520--2416545	2	13.0	2	100	0	52	50	0	0	50	1.00
2423206--2423234	12	2.3	13	94	5	51	24	3	0	72	1.00
2430990--2431044	16	3.4	17	77	7	60	65	0	0	34	0.93
2431754--2431805	16	3.2	16	78	10	52	55	1	0	42	1.10
2433629--2433697	30	2.3	29	80	11	77	36	2	1	59	1.21
2440285--2440350	33	2.0	33	100	0	132	33	27	9	30	1.88
2444028--2444095	18	3.7	18	76	2	55	63	1	1	33	1.13
2444056--2444096	18	2.3	18	87	4	57	68	2	2	26	1.15
2446503--2446633	11	12.1	11	71	12	83	63	0	0	35	1.05
2446502--2446627	21	5.8	22	74	10	125	62	0	0	36	1.01
2446504--2446623	5	24.4	5	68	18	74	63	0	0	35	1.01
2446503--2446624	33	3.8	32	77	12	124	63	0	0	35	1.00
2446504--2446623	43	2.8	42	82	8	145	63	0	0	35	1.01
2446504--2446623	16	8.1	15	71	19	74	63	0	0	35	1.01
2449389--2449418	2	15.0	2	100	0	60	50	0	0	50	1.00
2456620--2456655	2	18.0	2	88	0	54	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2460451--2460485	2	17.5	2	100	0	70	51	0	0	48	1.00
2461104--2461130	3	9.0	3	100	0	54	66	0	0	33	0.92
2462976--2463007	3	10.7	3	100	0	64	34	0	0	65	0.93
2463039--2463091	17	3.0	17	78	10	61	39	0	0	60	0.97
2464322--2464355	2	17.0	2	100	0	68	50	0	0	50	1.00
2464911--2464955	24	1.9	23	82	13	56	44	4	2	48	1.35
2465687--2465722	16	2.1	17	90	10	56	30	0	0	69	0.89
2467624--2467686	3	21.7	3	76	23	64	69	0	0	30	0.88
2467623--2467698	19	4.4	17	78	18	77	69	0	0	30	0.88
2468405--2468438	4	8.5	4	100	0	68	50	23	0	26	1.50
2469654--2469724	27	2.6	27	84	6	90	46	23	5	23	1.74
2474227--2474297	27	2.6	28	84	2	81	47	16	2	32	1.61
2481132--2481182	2	25.5	2	100	0	102	50	0	49	0	1.00
2494690--2494715	2	13.0	2	100	0	52	50	0	0	50	1.00
2494761--2494796	17	2.2	16	90	5	54	52	0	0	47	1.00
2494996--2495044	22	2.4	19	81	18	62	63	0	0	36	0.95
2495191--2495215	2	12.5	2	100	0	50	48	0	0	52	1.00
2500704--2500737	16	2.1	17	88	5	52	41	0	0	58	0.98
2501088--2501139	25	2.2	23	86	10	70	32	3	0	63	1.12
2501982--2502037	21	2.7	21	82	15	71	60	0	3	35	1.14
2501989--2502039	23	2.2	23	82	6	59	58	0	3	37	1.16
2501985--2502053	26	2.6	27	76	15	65	60	0	4	34	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2502814--2502865	25	2.0	26	85	3	70	44	0	0	55	0.99
2502831--2502894	28	2.4	28	80	12	80	35	0	0	64	0.94
2502827--2502893	29	2.4	27	80	7	80	34	0	0	65	0.93
2508912--2508961	26	2.0	26	84	11	68	54	0	0	46	1.00
2510966--2511011	23	2.0	23	100	0	92	26	26	26	21	2.00
2514698--2514741	22	1.9	24	81	9	56	47	0	0	52	1.00
2516325--2516380	29	2.0	27	82	6	67	44	0	0	55	0.99
2526793--2526863	20	3.5	20	73	21	74	46	0	7	46	1.30
2526793--2526866	19	3.7	19	73	19	69	45	0	6	47	1.29
2526793--2526888	42	2.3	42	98	0	183	45	0	5	48	1.24
2526812--2526885	22	3.5	22	75	14	91	43	0	4	52	1.20
2527161--2527224	35	1.9	35	84	15	91	60	0	1	37	1.06
2527577--2527776	106	1.9	106	84	8	273	59	6	8	26	1.50
2533044--2533117	27	2.8	24	72	21	58	40	0	1	58	1.07
2533058--2533103	18	2.3	20	89	10	69	41	0	0	58	0.98
2533073--2533106	9	3.8	9	84	0	50	47	0	0	52	1.00
2533029--2533117	45	2.0	46	84	6	119	43	0	1	55	1.07
2537476--2537599	61	2.0	62	93	1	214	20	18	3	58	1.53
2538520--2538575	20	2.8	20	81	10	69	55	0	0	44	0.99
2539448--2539474	3	9.0	3	100	0	54	66	0	33	0	0.92
2540020--2540051	2	16.0	2	100	0	64	50	0	0	50	1.00
2541216--2541282	29	2.4	27	87	9	91	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2541313--2541362	18	3.0	17	77	13	59	38	2	0	60	1.09
2541889--2541955	29	2.3	30	79	7	75	41	0	1	56	1.08
2542143--2542186	18	2.4	19	81	11	56	22	2	0	75	0.92
2551839--2551897	23	2.6	23	86	10	93	49	3	6	40	1.46
2554888--2554917	14	2.1	14	93	0	51	26	13	26	33	1.93
2555836--2555871	2	18.0	2	100	0	72	50	0	0	50	1.00
2556517--2556563	21	2.2	21	81	11	60	36	0	6	57	1.24
2557956--2557988	3	11.0	3	100	0	66	66	0	0	33	0.92
2560333--2560415	35	2.5	33	81	15	91	55	0	1	43	1.07
2560346--2560414	33	2.1	33	84	15	90	55	0	0	44	0.99

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