genome.fa.s16.2.7.7.80.10.50.1000.15.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   28   29   30   31   32   
          33   34   35   

This is table  15  of  35  ( 4175 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)
2256012--2256049	19	2.0	19	100	0	76	10	5	0	84	0.77
2256573--2257525	165	5.8	164	94	2	1531	20	20	29	29	1.98
2257004--2257093	26	3.3	26	68	14	74	20	17	33	28	1.95
2257169--2257258	26	3.3	26	67	19	76	20	17	33	28	1.95
2256573--2257525	55	17.3	54	91	4	1391	20	20	29	29	1.98
2258507--2258555	1	49.0	1	79	0	53	0	4	6	89	0.57
2258507--2258554	14	3.3	15	88	8	73	0	4	6	89	0.58
2270962--2271165	76	2.6	78	81	5	227	27	16	30	25	1.96
2271030--2271083	28	1.9	28	88	7	83	31	16	27	24	1.96
2271117--2271188	28	2.6	28	88	0	99	23	19	34	22	1.96
2271177--2271346	52	3.3	50	79	11	182	32	12	24	29	1.93
2271320--2271401	27	3.0	28	82	10	98	26	21	29	21	1.99
2273828--2273853	13	2.0	13	100	0	52	38	15	15	30	1.88
2273807--2273873	33	2.0	33	88	0	98	43	16	14	25	1.86
2273893--2273960	19	3.9	18	76	23	83	38	14	11	35	1.83
2273915--2273939	13	1.9	13	100	0	50	32	16	16	36	1.90
2273896--2273958	32	2.0	32	96	0	117	36	15	12	34	1.86
2274016--2274072	21	2.7	21	97	0	105	36	19	10	33	1.86
2274077--2274113	19	1.9	19	100	0	74	10	2	0	86	0.67
2274079--2274117	20	2.0	20	100	0	78	10	5	0	84	0.76
2274246--2274302	21	2.8	21	78	2	71	31	21	12	35	1.90
2275832--2275873	21	2.0	21	86	9	59	42	0	21	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2277429--2277465	16	2.3	16	90	9	58	35	10	0	54	1.36
2278050--2278116	37	1.9	35	88	11	102	29	25	11	32	1.92
2278575--2278600	13	2.0	13	100	0	52	30	15	15	38	1.88
2278639--2278714	21	3.7	21	82	3	109	28	18	11	40	1.86
2278659--2278732	20	3.7	20	81	3	103	31	20	13	35	1.91
2278639--2278732	41	2.3	41	100	0	188	29	19	12	38	1.89
2279352--2279395	21	2.1	21	83	8	54	25	31	4	38	1.76
2280389--2280413	13	1.9	13	100	0	50	32	16	16	36	1.90
2283539--2283605	37	1.9	35	88	11	102	29	25	11	32	1.92
2284064--2284089	13	2.0	13	100	0	52	30	15	15	38	1.88
2284128--2284203	21	3.7	21	82	3	109	28	18	11	40	1.86
2284148--2284221	20	3.7	20	81	3	103	31	20	13	35	1.91
2284128--2284221	41	2.3	41	100	0	188	29	19	12	38	1.89
2284841--2284884	21	2.1	21	83	8	54	25	31	4	38	1.76
2285878--2285902	13	1.9	13	100	0	50	32	16	16	36	1.90
2289028--2289094	37	1.9	35	88	11	102	29	25	11	32	1.92
2289553--2289578	13	2.0	13	100	0	52	30	15	15	38	1.88
2289617--2289692	21	3.7	21	82	3	109	28	18	11	40	1.86
2289637--2289710	20	3.7	20	81	3	103	31	20	13	35	1.91
2289617--2289710	41	2.3	41	100	0	188	29	19	12	38	1.89
2293282--2293308	13	2.1	13	100	0	54	40	14	14	29	1.86
2295656--2295711	19	2.9	19	97	2	103	39	16	16	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2295696--2295722	13	2.1	13	100	0	54	40	14	14	29	1.86
2298715--2298791	20	3.8	20	85	0	118	31	14	12	41	1.83
2298664--2298839	91	1.9	90	91	1	289	30	16	11	41	1.84
2299691--2299738	21	2.4	22	80	16	59	22	22	10	43	1.84
2302388--2302440	20	2.7	20	91	5	81	32	20	13	33	1.91
2304742--2304772	16	1.9	16	93	0	53	9	19	29	41	1.83
2308239--2308286	11	3.9	12	78	10	53	70	0	20	8	1.12
2308239--2308287	23	2.1	23	85	11	64	71	0	20	8	1.11
2308821--2309024	110	1.8	113	82	7	265	32	16	15	36	1.90
2317139--2317181	18	2.4	17	82	17	52	41	4	20	32	1.73
2317602--2317646	23	1.9	24	90	4	74	37	6	11	44	1.66
2318368--2318433	35	1.9	34	87	3	96	34	15	22	27	1.94
2318764--2318969	77	2.6	77	78	6	218	22	17	13	46	1.83
2320093--2320396	81	3.8	80	78	4	299	22	21	13	43	1.87
2320512--2320550	21	1.9	20	89	5	60	28	5	10	56	1.54
2321503--2321534	16	2.0	16	93	0	55	78	0	21	0	0.76
2322726--2322775	19	2.5	20	90	3	75	32	16	16	36	1.90
2322825--2322849	13	1.9	13	100	0	50	32	16	16	36	1.90
2322835--2322890	21	2.7	21	88	2	78	32	12	16	39	1.85
2331003--2331079	20	3.6	20	74	16	82	38	2	28	29	1.70
2331660--2331710	19	2.6	19	87	3	75	33	15	11	39	1.84
2331660--2331730	20	3.6	20	83	7	83	33	15	12	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2331758--2331782	13	1.9	13	100	0	50	32	16	16	36	1.90
2331967--2332011	23	1.9	24	81	4	56	46	13	4	35	1.63
2333819--2334490	79	8.5	79	76	8	508	33	8	26	31	1.87
2333821--2334488	159	4.2	157	78	8	570	33	8	26	30	1.87
2333768--2334488	237	3.0	234	78	8	708	33	9	25	31	1.88
2336930--2336996	20	3.2	20	83	8	64	32	19	8	38	1.83
2336949--2337000	20	2.5	20	87	9	70	32	17	9	40	1.82
2338399--2338423	13	1.9	13	100	0	50	36	16	16	32	1.90
2341467--2341497	3	10.3	3	92	0	53	70	0	29	0	0.87
2346620--2347323	49	14.8	49	75	10	559	32	18	25	24	1.97
2346719--2347323	92	6.4	92	79	10	498	32	18	24	24	1.97
2346861--2347323	135	3.3	135	85	4	525	32	18	24	23	1.97
2347095--2347162	21	3.2	21	64	25	52	29	17	29	23	1.97
2346651--2347323	227	2.8	230	84	7	746	33	17	24	23	1.97
2347384--2347746	34	10.8	32	77	9	305	35	12	30	21	1.90
2347420--2347746	136	2.4	135	82	6	403	36	12	30	21	1.90
2349020--2349058	14	2.7	15	84	11	55	0	0	17	82	0.68
2365543--2365723	52	3.5	52	97	0	335	29	17	17	35	1.93
2365732--2365756	13	1.9	13	100	0	50	36	16	16	32	1.90
2365820--2365844	13	1.9	13	100	0	50	32	16	16	36	1.90
2365833--2365885	20	2.7	20	100	0	106	35	18	11	33	1.87
2366480--2367093	49	12.6	54	77	12	279	31	17	24	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2366642--2367104	92	5.0	92	92	1	710	30	17	25	26	1.97
2366531--2367104	184	3.0	184	87	4	788	31	17	25	25	1.97
2367092--2367225	32	4.2	32	92	3	211	17	18	35	28	1.93
2367238--2367438	36	5.9	35	74	13	105	36	12	30	20	1.90
2367271--2367563	67	4.4	67	83	7	389	33	13	32	20	1.91
2367228--2367563	135	2.5	132	86	5	462	34	13	32	19	1.90
2367237--2367565	31	9.8	34	78	13	310	34	13	31	20	1.91
2367543--2367587	23	2.0	23	95	0	81	15	22	33	28	1.95
2367564--2367686	30	3.9	30	76	15	124	28	16	31	23	1.96
2368999--2369024	13	2.0	13	100	0	52	38	15	15	30	1.88
2368978--2369044	33	2.0	33	88	0	98	43	16	14	25	1.86
2369064--2369131	19	3.9	18	73	23	74	38	13	11	36	1.81
2369067--2369129	32	2.0	32	93	0	108	36	14	12	36	1.84
2369928--2370844	55	16.0	55	84	9	970	23	20	29	25	1.99
2369974--2370063	26	3.3	26	66	14	74	21	18	32	27	1.97
2369928--2370844	116	8.0	115	86	6	1204	23	20	29	25	1.99
2369928--2370838	468	2.0	453	90	4	1450	23	21	29	25	1.99
2370760--2370844	29	3.0	29	63	22	72	20	20	34	25	1.96
2371861--2371899	11	3.5	11	89	3	60	0	2	10	87	0.65
2371851--2371898	16	3.1	16	85	8	64	0	4	8	87	0.66
2384751--2384805	20	2.8	20	82	0	74	45	16	14	23	1.84
2384825--2384892	19	3.9	18	75	23	74	38	13	11	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2384847--2384871	13	1.9	13	100	0	50	32	16	16	36	1.90
2384828--2384890	32	2.0	32	93	0	108	36	14	12	36	1.84
2385873--2385917	21	2.2	20	84	4	54	0	17	2	80	0.82
2385884--2385918	18	1.9	18	94	0	61	0	14	2	82	0.77
2386195--2386263	9	7.9	9	87	9	99	0	0	10	89	0.47
2386204--2386277	34	2.2	34	82	4	87	2	4	8	85	0.82
2386194--2386277	43	2.0	43	85	4	116	2	3	8	85	0.79
2386194--2386264	1	71.0	1	80	0	79	0	0	9	90	0.46
2393176--2393304	52	2.5	52	94	0	222	31	17	17	34	1.92
2393176--2393324	52	2.9	52	88	4	194	32	16	16	33	1.92

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   28   29   30   31   32   
          33   34   35