genome.fa.s2.2.7.7.80.10.50.1000.30.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   36   37   38   

This is table  30  of  38  ( 4457 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)
4588005--4588135	51	2.5	51	82	9	165	31	10	26	31	1.90
4590496--4590521	13	2.0	13	100	0	52	38	15	15	30	1.88
4590475--4590541	33	2.0	33	88	0	98	43	16	14	25	1.86
4590561--4590628	19	3.9	18	76	23	83	38	14	11	35	1.83
4590583--4590607	13	1.9	13	100	0	50	32	16	16	36	1.90
4590564--4590626	32	2.0	32	96	0	117	36	15	12	34	1.86
4590684--4590740	21	2.7	21	97	0	105	36	19	10	33	1.86
4592596--4592756	68	2.4	68	83	10	188	35	23	13	27	1.93
4595317--4595342	13	2.0	13	100	0	52	30	15	15	38	1.88
4595297--4595360	32	2.0	33	90	3	103	29	12	15	42	1.84
4599010--4599056	19	2.5	19	90	10	71	48	0	0	51	1.00
4604127--4604158	16	2.0	16	93	0	55	12	21	31	34	1.91
4604270--4604337	30	2.4	29	79	15	79	38	1	2	57	1.23
4604303--4604344	19	2.2	19	83	8	50	33	0	0	66	0.92
4606819--4606852	3	11.3	3	100	0	68	67	0	0	32	0.91
4607186--4607258	16	4.5	17	83	8	73	6	16	31	45	1.74
4607188--4607290	32	3.2	31	72	6	82	6	15	33	44	1.73
4607285--4607337	16	3.3	15	89	5	52	15	15	22	47	1.82
4607988--4608190	11	18.5	11	69	18	95	60	0	0	38	1.08
4608022--4608086	23	3.0	23	80	8	82	63	0	0	36	0.95
4607996--4608187	8	24.1	8	66	21	52	59	0	1	38	1.08
4607988--4608080	34	2.6	36	88	6	136	63	0	1	35	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4608055--4608102	17	2.8	17	83	3	51	58	0	0	41	0.98
4608064--4608141	32	2.4	32	87	8	106	58	0	0	41	0.98
4610146--4610181	15	2.4	14	86	13	54	36	0	0	63	0.94
4611914--4611947	13	2.6	13	90	0	59	52	0	0	47	1.00
4612099--4612127	2	14.5	2	100	0	58	51	0	0	48	1.00
4612813--4612865	20	2.6	21	85	11	74	37	11	20	30	1.88
4612901--4613016	52	2.3	51	81	4	135	29	12	13	43	1.82
4615165--4615373	97	2.2	97	78	7	210	26	21	14	37	1.91
4619874--4620014	52	2.7	52	91	2	230	31	17	17	33	1.94
4620003--4620027	13	1.9	13	100	0	50	36	16	16	32	1.90
4620092--4620116	13	1.9	13	100	0	50	32	16	16	36	1.90
4620070--4620136	33	2.0	33	88	0	98	40	13	11	34	1.81
4620174--4620215	21	2.0	21	90	0	66	35	14	14	35	1.86
4626151--4626573	159	2.6	165	80	10	492	29	9	8	53	1.62
4627200--4627227	14	2.0	14	100	0	56	28	7	35	28	1.84
4628332--4628620	150	1.9	151	82	3	368	33	12	13	40	1.82
4631885--4632013	52	2.5	52	98	0	249	28	17	17	35	1.93
4632022--4632046	13	1.9	13	100	0	50	36	16	16	32	1.90
4632089--4632218	19	7.8	18	68	29	92	36	17	11	33	1.86
4632108--4632196	13	5.9	13	70	27	61	33	19	13	33	1.90
4632087--4632216	32	4.0	32	93	1	215	36	17	11	34	1.86
4632254--4632295	21	2.0	21	90	0	66	35	14	14	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4634607--4634958	82	4.3	82	91	1	580	34	13	23	28	1.93
4634607--4634958	166	2.1	164	92	2	582	34	13	23	28	1.93
4635827--4635870	22	2.0	22	82	4	54	56	20	18	4	1.58
4637247--4637852	152	3.9	151	79	9	616	25	19	18	36	1.95
4640374--4640422	6	8.3	6	78	13	57	81	2	16	0	0.78
4640374--4640421	18	2.7	18	84	12	64	81	2	16	0	0.79
4642667--4642952	48	6.0	48	87	0	392	19	20	18	41	1.91
4643011--4643488	44	10.8	44	74	7	337	20	21	15	42	1.89
4643016--4643487	88	5.3	88	77	9	390	20	21	15	42	1.89
4643017--4643488	132	3.6	131	82	6	522	20	21	15	42	1.89
4643596--4643754	44	3.6	44	74	8	135	20	21	15	42	1.88
4644091--4644115	13	1.9	13	100	0	50	32	16	16	36	1.90
4644186--4644229	19	2.3	19	88	4	61	38	15	13	31	1.87
4650375--4650412	13	2.9	13	92	0	58	31	13	18	36	1.89
4650855--4650895	19	2.1	20	90	4	66	21	48	24	4	1.69
4652964--4653015	20	2.7	20	87	3	70	40	21	11	26	1.87
4653687--4653873	44	4.2	44	71	9	130	21	22	13	42	1.87
4653694--4653965	88	3.1	88	78	7	241	21	22	13	41	1.88
4653800--4653944	44	3.3	44	69	11	134	20	19	17	43	1.88
4653912--4654113	101	2.0	101	84	7	268	23	22	12	41	1.87
4654172--4655090	42	22.1	42	75	7	583	17	25	16	41	1.89
4656719--4656780	11	5.5	11	76	17	56	58	24	12	4	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4656717--4656780	23	2.9	22	88	4	92	57	25	12	4	1.54
4656682--4656780	45	2.1	45	81	7	108	57	21	15	6	1.59
4660347--4660373	13	2.1	13	100	0	54	29	14	14	40	1.86
4660541--4660596	22	2.5	22	75	13	53	48	19	7	25	1.74
4662273--4662302	15	2.0	15	93	0	51	36	0	20	43	1.52
4662994--4663173	72	2.5	72	90	0	279	35	13	15	36	1.86
4669204--4669229	13	2.0	13	100	0	52	30	15	15	38	1.88
4669419--4669457	19	2.1	19	85	0	51	23	23	15	38	1.92
4671018--4671044	13	2.1	13	100	0	54	29	14	14	40	1.86
4671028--4671086	19	3.1	19	90	2	91	35	15	15	33	1.89
4671114--4671178	33	2.0	33	87	6	96	33	12	18	35	1.88
4675407--4675480	31	2.4	31	81	0	85	20	24	28	27	1.99
4675535--4675573	20	2.0	20	94	0	69	17	10	28	43	1.82
4675521--4675646	56	2.4	51	82	12	134	22	15	28	33	1.95
4675559--4675943	28	13.7	28	82	7	397	26	16	28	28	1.97
4675557--4675941	56	6.8	56	83	5	447	26	16	28	29	1.97
4675960--4676024	25	2.5	26	75	20	73	33	18	12	35	1.88
4680657--4680838	51	3.6	50	80	7	179	29	23	13	34	1.93
4680773--4680999	79	2.9	79	91	1	348	26	25	16	31	1.96
4680853--4681125	130	2.1	130	84	4	363	28	23	13	34	1.93
4680983--4681206	79	2.8	79	82	4	272	26	24	15	34	1.94
4680762--4681207	209	2.1	209	83	2	567	26	24	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4680983--4681235	79	3.2	79	81	3	269	26	24	15	33	1.95
4693622--4693665	10	4.4	10	91	8	72	90	9	0	0	0.44
4693621--4693660	11	3.7	11	93	6	73	92	7	0	0	0.38
4693620--4693665	1	46.0	1	82	0	56	91	8	0	0	0.43
4693622--4693665	19	2.2	19	92	8	70	90	9	0	0	0.44
4694651--4695120	100	4.8	100	89	5	705	24	29	19	26	1.98
4694635--4695120	194	2.5	194	92	3	778	23	30	18	27	1.98
4695045--4695409	61	6.3	58	83	5	390	26	24	21	26	1.99
4695388--4695528	43	3.2	43	76	15	130	16	25	13	44	1.84
4695388--4695528	45	3.2	42	82	6	131	16	25	13	44	1.84
4695388--4695528	42	3.2	43	81	6	142	16	25	13	44	1.84
4696342--4696367	13	2.0	13	100	0	52	30	15	15	38	1.88
4696406--4696479	20	3.7	20	81	13	89	29	13	13	43	1.82
4698774--4698895	51	2.4	51	84	5	158	28	24	14	31	1.95
4698904--4699344	79	5.6	79	85	4	527	27	26	14	31	1.95
4698904--4699372	155	3.0	154	85	4	582	27	26	13	32	1.94
4698904--4699344	234	1.9	235	84	5	595	27	26	14	31	1.95
4701874--4701902	7	4.3	7	91	8	51	72	13	0	13	1.13
4701864--4701981	18	5.9	18	70	26	71	73	9	2	14	1.18
4701913--4701959	9	5.1	9	79	5	58	80	4	2	12	0.94
4701934--4701980	22	2.2	22	85	11	62	74	10	0	14	1.07
4701888--4701991	49	2.1	51	83	8	133	73	8	3	14	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4701866--4701990	21	5.9	21	69	22	68	73	8	3	14	1.20
4703481--4703763	58	4.9	58	78	6	245	28	30	16	24	1.96
4703481--4703911	28	14.9	28	71	11	235	28	29	17	25	1.97
4703483--4703726	87	2.8	86	74	5	233	28	31	16	23	1.96
4703769--4703897	58	2.2	58	79	5	145	28	27	17	25	1.98
4705965--4706026	32	2.0	32	90	3	99	33	12	16	37	1.87
4707134--4707159	13	2.0	13	100	0	52	30	15	15	38	1.88
4707878--4707916	20	2.0	20	100	0	78	25	35	5	33	1.78
4708069--4708115	21	2.2	20	82	14	51	57	14	10	17	1.65
4711800--4711837	15	2.5	15	91	0	58	13	21	15	50	1.78

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   36   37   38