genome.fa.s132.2.7.7.80.10.50.1000.14.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

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

This is table  14  of  15  ( 1722 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)
2256959--2257017	27	2.2	26	84	3	73	30	3	3	62	1.28
2259332--2259410	9	9.0	9	75	8	65	41	0	0	58	0.98
2259324--2259396	27	2.7	27	81	10	87	43	0	0	56	0.99
2259356--2259415	16	3.7	16	71	20	52	46	0	0	53	1.00
2259345--2259436	27	3.1	30	77	13	102	47	0	0	52	1.00
2259365--2259470	18	6.5	17	66	18	64	43	0	0	56	0.99
2261175--2261212	4	9.5	4	94	0	67	26	2	21	50	1.62
2262932--2262969	2	19.0	2	100	0	76	50	0	0	50	1.00
2262969--2263011	2	21.5	2	100	0	86	0	0	48	51	1.00
2265123--2265163	21	2.0	21	86	9	59	58	0	0	41	0.98
2265135--2265164	14	2.1	15	93	6	53	56	0	0	43	0.99
2267261--2267293	2	16.5	2	100	0	66	48	0	0	51	1.00
2268071--2268106	2	18.0	2	88	0	54	50	0	2	47	1.15
2268800--2268845	24	2.0	23	86	4	65	58	0	2	39	1.10
2268850--2268892	20	2.2	20	82	0	50	41	0	2	55	1.12
2280128--2280177	2	25.0	2	95	0	91	48	0	2	50	1.12
2280766--2280798	14	2.3	15	94	5	59	54	0	0	45	0.99
2281069--2281173	44	2.4	45	74	13	112	54	0	0	45	0.99
2281819--2281846	2	14.0	2	100	0	56	50	0	0	50	1.00
2282884--2282941	19	3.0	19	89	2	89	67	0	0	32	0.91
2283168--2283202	2	17.5	2	100	0	70	0	51	0	48	1.00
2283706--2283744	15	2.6	15	83	0	51	0	12	15	71	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2288317--2288341	2	12.5	2	100	0	50	48	0	52	0	1.00
2289349--2289380	2	16.0	2	93	0	55	46	0	0	53	1.00
2290912--2291010	12	8.1	12	73	11	58	45	2	3	49	1.29
2290969--2291010	2	21.0	2	100	0	84	50	0	0	50	1.00
2292769--2292900	66	2.0	66	86	0	183	20	28	30	21	1.98
2295623--2295661	15	2.8	13	82	17	51	51	0	0	48	1.00
2301387--2301426	3	13.3	3	100	0	80	32	0	0	67	0.91
2301733--2301801	29	2.4	29	78	7	77	56	0	4	39	1.19
2302090--2302136	25	1.9	25	82	4	60	4	17	4	74	1.14
2304842--2304898	16	3.5	17	83	11	59	50	5	10	33	1.59
2304826--2304920	32	2.9	31	78	10	84	47	4	11	36	1.59
2304964--2304995	15	2.1	15	94	0	55	40	6	12	40	1.68
2305884--2305911	2	14.0	2	100	0	56	50	0	0	50	1.00
2308486--2308555	28	2.5	28	95	0	122	34	11	4	50	1.58
2308506--2308551	14	3.3	14	72	22	51	36	10	4	47	1.58
2310705--2310749	14	3.1	14	80	3	54	57	2	0	40	1.11
2312389--2312484	25	3.6	25	78	13	88	47	1	0	51	1.07
2313783--2313815	2	16.5	2	100	0	66	51	0	48	0	1.00
2314743--2314787	20	2.3	21	77	14	51	44	0	0	55	0.99
2315033--2315074	14	3.2	13	86	10	50	47	0	0	52	1.00
2315781--2315824	22	2.0	22	91	8	72	36	0	0	63	0.95
2315802--2315861	29	2.0	30	87	6	86	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2315794--2315862	29	2.5	28	75	13	79	44	0	0	55	0.99
2315857--2315915	5	12.2	5	74	13	52	54	1	0	44	1.10
2315853--2315911	20	3.0	20	78	11	68	52	1	0	45	1.10
2315866--2315906	15	2.9	14	89	7	64	51	0	0	48	1.00
2316556--2316601	22	2.1	22	84	8	58	45	0	0	54	0.99
2317253--2317295	23	1.9	22	85	4	59	48	4	4	41	1.44
2317674--2317734	32	1.9	32	83	6	79	42	3	3	50	1.34
2318245--2318281	18	2.1	18	89	0	56	27	2	0	70	1.01
2318704--2318962	50	5.2	50	90	0	356	32	20	17	29	1.96
2321217--2321252	15	2.4	15	95	0	63	19	11	27	41	1.85
2323373--2323617	50	4.9	50	89	2	357	29	19	19	32	1.96
2326767--2326856	25	3.6	24	71	11	74	52	0	1	46	1.07
2326815--2326878	28	2.3	27	77	15	69	57	0	0	42	0.98
2327217--2327250	17	2.0	17	94	0	59	50	2	0	47	1.16
2327633--2327698	30	2.2	29	82	10	80	34	1	0	63	1.04
2327644--2327714	29	2.5	30	81	6	76	38	1	1	59	1.15
2327688--2327721	16	2.1	16	88	5	50	44	0	2	52	1.16
2327876--2327931	21	2.6	21	78	10	60	57	0	0	42	0.99
2328603--2328640	6	6.3	6	96	0	58	39	0	10	50	1.37
2329196--2329235	2	20.0	2	100	0	80	50	0	0	50	1.00
2329235--2329273	2	19.5	2	100	0	78	51	0	48	0	1.00
2330172--2330258	19	4.6	19	70	13	63	45	1	0	52	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2330215--2330256	20	2.1	20	86	8	59	50	0	0	50	1.00
2330428--2330488	29	2.0	31	84	9	81	49	0	0	50	1.00
2330472--2330515	22	2.0	22	91	8	72	36	0	0	63	0.95
2330502--2330601	39	2.6	38	77	16	100	53	1	1	45	1.14
2332864--2332892	6	4.8	6	100	0	58	86	0	0	13	0.58
2336298--2336355	32	1.9	30	83	13	75	50	1	1	46	1.22
2336620--2336649	2	15.0	2	100	0	60	50	0	0	50	1.00
2338465--2338511	2	23.5	2	100	0	94	0	48	0	51	1.00
2340049--2340088	19	2.0	20	90	4	64	25	17	5	52	1.64
2341342--2341379	18	2.0	20	85	10	53	34	10	7	47	1.67
2342146--2342179	3	11.3	3	100	0	68	32	0	0	67	0.91
2342349--2342501	71	2.1	70	94	4	270	52	10	5	31	1.59
2342920--2342974	16	3.4	16	72	18	51	41	1	0	56	1.10
2343805--2343838	6	5.8	6	89	6	52	50	14	0	35	1.44
2343851--2343901	9	5.4	9	86	11	50	68	1	0	29	1.00
2343851--2343890	9	4.4	9	87	9	55	72	0	0	27	0.85
2350443--2350470	13	2.2	13	100	0	56	57	0	0	42	0.99
2350691--2350753	29	2.2	29	88	8	101	52	3	0	44	1.17
2352283--2352310	2	14.0	2	100	0	56	50	0	0	50	1.00
2355191--2355230	15	2.6	16	88	8	64	60	0	0	40	0.97
2355459--2355582	52	2.4	53	76	14	123	48	0	0	50	1.06
2355502--2355537	14	2.7	13	87	8	54	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2356158--2356189	2	16.0	2	100	0	64	50	0	0	50	1.00
2356517--2356563	15	3.1	15	81	0	58	55	0	0	44	0.99
2356506--2356563	30	2.0	29	83	10	73	55	0	0	44	0.99
2356549--2356596	11	4.0	11	77	17	51	68	2	2	27	1.11
2363909--2363937	14	2.1	14	100	0	58	51	13	6	27	1.66
2368256--2368288	15	2.1	16	88	5	50	0	0	12	87	0.53
2368549--2368573	11	2.3	11	100	0	50	64	0	0	36	0.94
2368604--2368658	17	3.4	17	73	16	53	41	0	0	58	0.98
2369179--2369211	2	16.5	2	100	0	66	51	0	0	48	1.00
2369341--2369385	17	2.8	17	86	6	58	46	0	0	53	1.00
2369469--2369531	11	5.2	12	76	10	58	38	1	1	58	1.17
2369469--2369525	18	3.1	18	81	16	64	36	1	1	59	1.18
2372256--2372289	9	3.4	10	88	12	52	88	0	11	0	0.52
2375122--2375162	10	4.3	10	78	12	50	46	0	2	51	1.14
2377462--2377516	16	3.4	17	69	16	53	41	3	0	54	1.18
2378094--2379984	289	6.6	289	78	6	1576	29	19	16	35	1.93
2378077--2379943	570	3.3	567	77	6	1783	29	19	16	35	1.93
2382896--2382953	18	3.2	18	80	2	71	32	0	0	67	0.91
2383047--2383083	18	2.0	19	89	5	58	62	0	5	32	1.18
2383747--2383779	2	16.5	2	100	0	66	51	0	0	48	1.00
2384477--2384539	29	2.2	28	81	15	76	46	0	0	53	1.00
2385119--2385203	33	2.6	35	80	15	101	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2385151--2385195	21	2.2	21	85	14	60	37	0	0	62	0.96
2385172--2385217	14	3.2	15	72	12	51	41	0	0	58	0.98
2385175--2385217	13	3.2	13	78	12	50	41	0	0	58	0.98
2385125--2385206	21	3.8	22	71	14	55	46	0	0	53	1.00
2389039--2389135	48	2.0	48	91	0	158	40	22	11	25	1.87
2397624--2397658	18	2.0	18	94	5	63	34	0	0	65	0.93
2397660--2397694	18	1.9	18	88	11	54	54	0	0	45	0.99
2401145--2401182	19	2.1	19	85	5	51	55	10	10	23	1.65
2401413--2401472	27	2.2	27	96	3	111	31	28	6	33	1.83
2403764--2403817	27	2.0	27	85	0	72	33	37	9	20	1.84

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