genome.fa.s125.2.7.7.80.10.50.1000.13.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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

This is table  13  of  18  ( 2131 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)
2184653--2184715	19	3.3	19	90	0	90	28	17	19	34	1.94
2188781--2188965	34	5.5	34	89	0	273	25	7	27	40	1.82
2188781--2188965	102	1.8	101	94	1	325	25	7	27	40	1.82
2189390--2189415	2	13.0	2	100	0	52	50	0	0	50	1.00
2190214--2190398	34	5.5	34	87	3	257	40	26	7	25	1.82
2194464--2194507	19	2.3	19	92	0	70	34	20	18	27	1.96
2197421--2197484	30	2.1	29	81	13	76	46	10	0	42	1.39
2197976--2198043	12	5.9	12	72	8	61	33	1	0	64	1.02
2197994--2198045	22	2.3	22	83	3	59	36	1	0	61	1.07
2201787--2201818	2	16.0	2	93	0	55	50	0	3	46	1.17
2202897--2202929	2	16.5	2	100	0	66	51	0	48	0	1.00
2203302--2203336	2	17.5	2	93	0	61	48	2	0	48	1.16
2210294--2210332	2	19.5	2	94	0	69	0	46	2	51	1.14
2210725--2210767	22	2.0	21	90	4	68	37	0	0	62	0.95
2210874--2210913	18	2.3	17	86	4	53	47	0	0	52	1.00
2210850--2210916	10	7.5	10	67	24	51	41	0	1	56	1.08
2210975--2211005	3	10.7	3	93	6	55	64	0	0	35	0.94
2211250--2211279	2	15.0	2	100	0	60	50	0	50	0	1.00
2213969--2214035	2	33.5	2	86	5	91	46	2	2	47	1.33
2213971--2214042	25	3.0	25	78	21	100	44	4	5	45	1.46
2213968--2214035	27	2.6	25	90	9	102	45	4	2	47	1.38
2214740--2214772	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2215702--2215760	24	2.5	24	80	5	66	54	0	0	45	0.99
2215720--2215778	24	2.3	25	82	8	66	49	0	0	50	1.00
2216388--2216424	2	18.5	2	100	0	74	51	0	0	48	1.00
2218689--2218794	56	1.9	56	86	3	151	49	8	9	33	1.66
2229279--2229310	2	16.0	2	93	0	55	46	0	53	0	1.00
2230159--2230201	17	2.6	17	77	3	52	69	0	0	30	0.88
2230849--2230917	13	5.7	11	75	22	59	59	0	2	37	1.12
2230929--2231007	29	2.8	29	79	11	76	46	1	1	50	1.17
2230930--2231011	27	2.9	27	73	21	71	47	1	1	50	1.16
2232319--2232353	18	1.9	18	94	0	61	45	0	0	54	0.99
2233033--2233072	2	20.0	2	100	0	80	50	0	0	50	1.00
2234986--2235018	13	2.7	13	90	9	52	36	0	3	60	1.12
2236787--2236826	16	2.5	16	84	11	55	32	2	0	65	1.06
2237046--2237084	19	2.1	19	100	0	78	43	5	15	35	1.69
2237306--2237356	23	2.3	23	86	3	68	47	3	1	47	1.32
2237721--2237760	2	20.0	2	100	0	80	50	0	0	50	1.00
2238241--2238294	23	2.3	24	78	9	58	40	0	3	55	1.17
2239323--2239355	2	16.5	2	100	0	66	48	0	51	0	1.00
2242188--2242234	2	23.5	2	100	0	94	51	0	0	48	1.00
2242632--2242675	23	1.9	23	85	0	61	25	0	2	72	0.96
2243205--2243234	1	30.0	1	93	0	51	0	0	96	3	0.21
2247086--2247152	33	2.0	33	97	0	125	55	4	2	37	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2247268--2247359	31	3.0	31	92	6	145	58	5	1	34	1.28
2247300--2247355	19	3.3	19	63	31	54	55	7	0	37	1.27
2247353--2247384	13	2.4	14	89	10	57	65	0	0	34	0.93
2249075--2249134	23	2.7	22	80	12	61	55	0	0	45	0.99
2252832--2252884	16	3.2	16	75	21	56	54	0	0	45	0.99
2252790--2252911	60	2.0	60	79	6	131	54	2	0	42	1.19
2252816--2252889	32	2.2	33	83	7	96	52	1	0	45	1.09
2264227--2264264	3	12.7	3	100	0	76	68	0	0	31	0.90
2267033--2267066	6	5.7	6	92	0	50	38	0	11	50	1.39
2267642--2267761	61	2.0	61	88	0	177	47	10	12	30	1.74
2268993--2269022	2	15.0	2	100	0	60	50	0	0	50	1.00
2277256--2277292	2	18.5	2	100	0	74	0	51	0	48	1.00
2284262--2284295	6	5.7	6	100	0	68	52	14	17	14	1.74
2284071--2284284	110	1.9	112	87	2	315	40	13	21	23	1.89
2288786--2288835	20	2.6	19	81	12	57	54	2	2	42	1.23
2288843--2288897	28	1.9	28	85	10	76	50	0	0	49	1.00
2291420--2291669	120	2.1	119	86	3	351	27	12	22	37	1.91
2294970--2295023	5	11.4	5	74	18	53	55	0	1	42	1.10
2294970--2295020	19	2.7	20	84	6	70	56	0	1	41	1.10
2297313--2297693	206	1.8	206	84	2	514	36	9	10	43	1.72
2301294--2301324	2	15.5	2	100	0	62	51	0	0	48	1.00
2305899--2305927	2	14.5	2	100	0	58	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2306074--2306119	2	23.0	2	100	0	92	50	0	0	50	1.00
2306149--2306180	2	16.0	2	100	0	64	50	0	0	50	1.00
2307327--2307383	3	19.3	3	96	3	107	66	0	0	33	0.92
2312464--2312492	4	7.2	4	100	0	58	0	24	0	75	0.80
2317734--2317772	15	2.7	15	84	4	53	38	0	0	61	0.96
2317735--2317778	21	2.1	21	84	16	56	36	0	0	63	0.95
2318008--2318064	29	2.0	29	89	0	87	57	0	5	36	1.21
2319443--2319499	27	2.1	27	87	6	80	54	3	12	29	1.54
2324862--2324906	23	2.0	23	86	0	63	42	0	13	44	1.43
2325699--2325762	27	2.5	26	73	16	71	42	0	1	56	1.09
2325779--2325821	17	2.6	16	82	10	50	46	0	0	53	1.00
2325777--2325847	22	3.2	22	74	20	67	42	0	0	57	0.98
2326715--2326771	14	4.0	14	80	11	62	35	0	1	63	1.05
2326727--2326802	28	2.7	28	76	6	73	40	0	2	56	1.13
2334222--2334329	29	3.6	29	71	12	83	65	0	0	32	1.05
2334290--2334323	16	2.1	16	88	5	50	73	0	0	26	0.83
2339479--2339510	16	2.0	16	100	0	64	37	12	6	43	1.68
2343044--2343068	7	3.6	7	100	0	50	84	0	0	16	0.63
2343305--2343331	14	1.9	14	100	0	54	18	7	0	74	1.05
2343354--2343386	2	16.5	2	100	0	66	48	0	0	51	1.00
2343859--2343895	19	2.0	20	89	10	60	62	5	0	32	1.18
2344606--2344639	5	7.0	5	86	6	52	79	0	2	17	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2345876--2345975	26	3.9	26	68	21	68	50	1	3	46	1.23
2345922--2345964	16	3.0	14	83	10	52	58	0	0	41	0.98
2346588--2346620	2	16.5	2	100	0	66	48	0	0	51	1.00
2346986--2347015	15	1.9	16	93	6	53	86	0	13	0	0.57
2349392--2349442	21	2.4	21	83	9	59	64	1	3	29	1.22
2352163--2352202	14	3.1	13	82	10	55	45	0	2	52	1.14
2352166--2352215	19	2.7	19	72	27	54	42	0	2	56	1.11
2352692--2352716	2	12.5	2	100	0	50	52	0	0	48	1.00
2352875--2352907	13	2.5	14	85	14	52	57	0	0	42	0.98
2353362--2353401	21	2.0	21	85	5	55	42	2	0	55	1.13
2357650--2357703	27	2.0	28	82	10	67	51	0	0	48	1.00
2357704--2357745	21	2.0	21	81	9	50	61	0	0	38	0.96
2357765--2357803	18	2.1	19	85	4	53	46	2	0	51	1.14
2358028--2358055	14	2.0	14	100	0	56	42	0	0	57	0.99
2358325--2358384	18	3.4	17	77	11	66	16	6	0	76	0.99
2360310--2360334	6	4.2	6	100	0	50	84	0	0	16	0.63
2367437--2367464	13	2.2	13	100	0	56	67	0	21	10	1.20
2371518--2371602	14	6.1	14	70	23	56	52	0	1	45	1.08
2371536--2371702	17	9.7	17	71	13	83	50	0	1	47	1.08
2371540--2371601	23	2.6	24	80	12	65	53	0	1	45	1.10
2371527--2371601	25	3.1	23	81	12	71	54	0	1	44	1.08
2371636--2371701	28	2.3	30	80	14	70	57	0	1	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2371962--2372016	24	2.3	23	81	3	65	45	0	3	50	1.19
2372005--2372048	22	2.0	22	86	8	63	61	2	0	36	1.09
2372119--2372163	18	2.3	20	85	11	58	35	8	0	55	1.31
2372133--2372174	21	2.0	21	90	0	66	38	4	0	57	1.20
2372136--2372187	21	2.5	21	83	0	59	40	7	0	51	1.30
2376098--2376141	23	2.0	23	86	4	63	25	2	4	68	1.20
2376681--2376705	3	8.3	3	100	0	50	68	0	0	32	0.90
2377221--2377281	29	2.1	31	82	11	76	45	0	4	49	1.23
2379725--2379750	2	13.0	2	100	0	52	50	0	0	50	1.00
2387826--2387873	25	1.9	25	83	8	62	56	2	4	37	1.30

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