genome.fa.s16.2.7.7.80.10.50.1000.35.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  35  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)
5201544--5201586	22	1.9	23	85	4	61	46	0	6	46	1.30
5210441--5210501	26	2.3	26	83	5	70	55	0	3	40	1.16
5211178--5211204	3	9.0	3	100	0	54	33	0	0	66	0.92
5211713--5211752	15	2.9	15	85	10	50	85	0	15	0	0.61
5214526--5214603	21	3.6	21	66	16	59	25	3	14	56	1.55
5214519--5214612	45	2.1	45	97	0	179	25	6	13	54	1.63
5214545--5214615	21	3.2	21	63	18	54	23	7	14	54	1.64
5214610--5214677	16	4.2	16	78	0	73	27	11	14	45	1.80
5215471--5215538	16	4.2	16	76	10	68	30	5	13	50	1.65
5215471--5215538	32	2.1	32	84	10	86	30	5	13	50	1.65
5216191--5216328	69	2.0	69	87	2	197	23	22	27	26	1.99
5216376--5216432	16	3.6	16	83	4	80	47	0	0	52	1.00
5216368--5216432	31	2.0	33	88	5	98	47	0	0	52	1.00
5216381--5216455	31	2.4	31	77	6	80	42	5	1	50	1.33
5216643--5216673	12	2.5	13	94	5	55	48	0	0	51	1.00
5218310--5218361	22	2.4	22	84	9	63	21	3	3	71	1.18
5220932--5220978	16	2.9	16	77	0	58	63	2	0	34	1.06
5220923--5220996	32	2.3	33	79	9	89	59	1	1	37	1.14
5221939--5221971	2	16.5	2	100	0	66	51	0	0	48	1.00
5222109--5222160	21	2.5	21	84	6	61	69	0	5	25	1.10
5224086--5224138	24	2.2	25	86	3	72	58	1	0	39	1.09
5224241--5224282	22	1.9	22	90	9	68	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5229789--5229864	31	2.5	31	93	4	127	39	13	19	27	1.89
5229850--5229904	20	2.8	20	85	0	74	41	14	10	32	1.81
5230797--5231268	28	16.5	28	83	8	540	21	16	32	29	1.96
5232517--5232571	9	6.4	9	80	4	53	1	0	10	87	0.63
5232518--5232573	17	3.4	16	83	14	69	1	0	12	85	0.67
5232517--5232573	21	2.7	22	84	10	75	1	0	12	85	0.66
5237296--5237369	20	3.7	20	81	3	87	31	14	10	43	1.80
5239726--5239910	78	2.4	76	89	3	282	28	24	12	35	1.91
5239877--5240094	51	4.3	51	85	3	280	29	26	11	32	1.91
5240075--5240151	28	2.8	28	84	5	86	24	27	19	28	1.99
5240134--5240408	51	5.3	50	65	11	115	29	26	12	31	1.92
5240236--5240308	28	2.6	28	88	0	110	21	32	20	24	1.97
5240390--5240466	28	2.8	28	88	4	111	20	31	22	25	1.98
5239978--5240596	158	3.9	157	88	1	832	27	26	13	31	1.94
5240449--5240567	51	2.3	51	89	2	177	27	27	15	29	1.96
5240579--5240822	130	1.9	130	82	8	309	29	24	11	34	1.91
5240500--5240726	79	2.9	79	80	10	268	27	25	13	33	1.93
5240661--5240776	51	2.3	51	85	5	155	30	26	10	32	1.90
5240763--5240929	79	2.1	79	83	4	203	30	23	11	34	1.90
5240422--5240896	209	2.3	209	90	1	754	28	24	13	34	1.93
5240422--5240953	209	2.5	209	87	1	627	28	24	13	33	1.93
5252210--5252278	9	7.7	9	79	12	79	85	11	1	1	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5252213--5252270	5	12.6	5	79	17	56	84	13	0	1	0.70
5252210--5252278	35	1.9	36	88	8	106	85	11	1	1	0.73
5252209--5252278	18	3.9	17	87	7	95	84	12	1	1	0.76
5252210--5252293	9	9.1	9	76	13	55	83	9	5	1	0.86
5253254--5253438	94	1.9	97	86	10	263	24	29	18	27	1.98
5253367--5253550	55	3.2	55	84	9	237	27	27	21	24	1.99
5253422--5253706	156	1.8	156	90	0	455	25	26	20	28	1.99
5253266--5253765	210	2.4	212	86	7	678	25	27	20	26	1.99
5253597--5253963	61	6.1	61	82	8	430	24	25	19	30	1.98
5253929--5254069	37	3.5	38	75	14	131	20	26	14	37	1.92
5253933--5254248	42	7.9	38	68	22	150	19	26	14	40	1.89
5253928--5254157	82	2.7	83	86	7	304	20	27	13	38	1.90
5253954--5254212	45	6.1	42	72	16	180	18	26	13	42	1.87
5253954--5254217	42	6.2	43	74	14	219	18	26	12	42	1.86
5254172--5254237	35	1.9	34	84	9	89	22	21	16	39	1.92
5254206--5254306	41	2.5	40	83	3	121	16	24	10	47	1.79
5254901--5254971	20	3.5	20	92	0	115	28	16	12	42	1.85
5254960--5254984	13	1.9	13	100	0	50	40	8	8	44	1.63
5257327--5257546	79	2.8	79	84	3	286	27	26	14	31	1.94
5257482--5257598	51	2.3	51	86	7	166	30	23	11	33	1.91
5257403--5257756	129	2.7	128	87	3	505	29	25	11	32	1.92
5257615--5258043	51	8.2	51	69	9	265	29	27	11	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5257713--5257786	28	2.6	29	87	6	107	22	31	20	25	1.98
5257868--5257944	28	2.8	28	87	0	109	22	31	20	25	1.98
5258026--5258099	28	2.7	28	85	6	89	27	29	16	27	1.97
5258031--5258099	27	2.5	27	86	6	86	27	30	14	27	1.95
5258087--5258202	51	2.3	51	87	0	169	28	26	12	32	1.92
5257586--5258201	158	3.9	158	90	1	862	29	27	12	31	1.93
5258138--5258352	79	2.7	79	82	5	290	29	23	12	34	1.91
5258059--5258570	209	2.5	209	88	1	760	29	24	12	33	1.92
5258218--5258457	130	1.8	130	83	3	313	30	22	10	35	1.89
5258296--5258411	51	2.3	51	84	3	162	29	26	11	32	1.91
5258397--5258569	79	2.2	79	79	4	188	28	24	13	32	1.93
5267298--5267337	11	3.8	10	87	9	53	50	0	12	37	1.41
5269006--5269081	20	3.8	20	77	8	73	38	15	15	30	1.89
5269100--5269154	20	2.8	19	83	8	65	36	12	9	41	1.75
5273843--5274023	52	3.5	52	96	0	317	29	17	18	35	1.93
5274032--5274056	13	1.9	13	100	0	50	36	16	16	32	1.90
5274012--5274230	87	2.5	87	94	2	379	35	13	16	34	1.88
5274119--5274143	13	1.9	13	100	0	50	36	16	16	32	1.90
5274184--5274250	33	2.0	33	88	0	98	40	14	11	32	1.83
5274206--5274230	13	1.9	13	100	0	50	32	16	16	36	1.90
5275061--5275272	52	4.2	52	75	12	199	33	16	25	24	1.96
5275168--5275257	43	2.1	43	91	0	144	30	17	25	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5275295--5275672	30	12.8	30	76	10	289	25	16	28	29	1.97
5275266--5275677	58	7.1	57	76	11	327	24	16	29	29	1.97
5275496--5275668	29	5.9	29	81	6	170	26	17	28	27	1.98
5275381--5275663	121	2.4	116	79	5	300	26	16	28	27	1.97
5277111--5277201	1	91.0	1	80	0	56	2	5	7	84	0.84
5277125--5277194	27	2.4	30	83	13	101	2	7	8	81	0.96
5286887--5286913	10	2.7	10	100	0	54	77	22	0	0	0.76

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

The End!