genome.fa.s16.2.7.7.80.10.50.1000.31.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  31  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)
4499426--4499858	126	3.5	123	83	8	488	46	9	5	39	1.59
4504434--4504485	11	4.9	10	76	19	52	1	17	0	80	0.80
4504436--4504481	20	2.3	20	88	7	67	2	17	0	80	0.81
4504581--4504614	16	2.1	17	88	5	52	14	14	0	70	1.17
4507103--4507154	19	2.7	18	85	8	59	71	3	1	23	1.13
4507280--4507805	166	3.2	167	80	8	505	50	9	9	29	1.67
4507442--4507805	166	2.2	166	88	2	543	51	9	9	29	1.65
4507661--4507930	149	1.8	149	80	6	323	50	10	8	30	1.66
4510997--4511062	34	1.9	34	81	6	80	36	22	12	28	1.90
4511590--4511641	20	2.6	20	84	0	68	36	11	15	36	1.84
4512208--4512246	20	2.0	20	94	0	69	33	15	20	30	1.94
4514662--4514708	16	2.8	17	83	6	60	78	4	17	0	0.90
4515342--4515382	21	2.0	21	85	9	57	39	12	9	39	1.76
4515418--4515491	20	3.8	20	73	8	64	43	14	13	28	1.84
4515461--4515597	53	2.6	53	95	1	238	37	17	17	27	1.92
4515621--4515651	10	3.1	10	90	0	53	22	29	6	41	1.78
4515647--4515687	21	2.0	21	100	0	82	29	26	9	34	1.88
4516793--4516878	30	2.9	29	72	16	86	27	5	15	51	1.66
4516852--4517063	116	1.8	116	84	2	291	28	15	16	40	1.88
4516789--4517108	58	5.5	59	78	5	260	27	12	15	43	1.83
4518346--4518552	79	2.6	79	84	1	254	29	16	28	24	1.97
4518571--4518678	51	2.1	51	82	0	126	30	12	25	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4518691--4519036	51	6.6	51	74	13	267	32	13	26	28	1.93
4518615--4518790	80	2.2	79	89	1	262	29	15	27	27	1.96
4518415--4518918	237	2.1	238	84	5	653	31	14	26	27	1.95
4518799--4519034	51	4.6	51	86	3	312	32	11	25	30	1.92
4521394--4521419	13	2.0	13	100	0	52	38	15	15	30	1.88
4521451--4521513	19	3.7	18	76	24	73	36	17	12	33	1.88
4521446--4521515	32	2.2	32	97	0	131	35	17	11	35	1.85
4521470--4521494	13	1.9	13	100	0	50	32	16	16	36	1.90
4521482--4521543	19	3.2	19	71	13	54	27	14	14	43	1.84
4526821--4530064	273	12.0	273	75	9	2257	35	19	9	35	1.85
4528136--4528179	22	2.0	22	95	0	79	43	25	9	22	1.82
4526891--4530065	542	5.9	526	75	11	1903	35	19	9	34	1.85
4528169--4529903	529	3.3	515	78	8	1506	35	20	9	34	1.84
4532875--4532917	14	2.9	15	82	10	61	44	0	4	51	1.22
4533478--4533614	71	2.0	70	84	5	179	30	1	10	56	1.42
4533706--4533774	11	6.1	11	79	5	75	78	0	20	1	0.83
4533706--4533774	23	3.0	22	89	6	102	78	0	20	1	0.83
4537850--4537902	20	2.5	20	87	6	70	39	11	16	32	1.85
4537971--4538025	20	2.7	20	83	8	67	30	12	10	45	1.77
4539812--4539882	20	3.5	20	75	12	65	42	15	14	28	1.86
4539911--4539964	21	2.6	21	88	5	74	33	16	14	35	1.90
4541527--4541579	13	4.5	13	69	26	55	33	13	15	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4541514--4541578	33	2.0	33	90	6	105	33	13	15	36	1.87
4549617--4549677	30	2.0	30	90	0	95	27	9	21	40	1.85
4550306--4550359	20	2.7	20	88	5	74	33	11	18	37	1.86
4551547--4551968	163	2.7	157	81	7	500	40	13	12	33	1.82
4552762--4552822	24	2.7	23	82	12	65	4	21	1	72	1.13
4553124--4553692	164	3.5	164	81	7	602	50	8	11	30	1.68
4556278--4556323	14	3.3	14	82	11	58	54	4	0	41	1.20
4556556--4556852	150	2.0	151	84	6	388	47	7	3	41	1.48
4556803--4556850	17	2.7	17	87	6	60	56	6	2	35	1.36
4560248--4560275	9	3.1	9	100	0	56	10	67	10	10	1.42
4563770--4563825	20	2.8	19	77	17	60	39	0	0	60	0.97
4563850--4563874	13	1.9	13	100	0	50	52	0	0	48	1.00
4566098--4566163	35	1.9	34	93	3	114	30	19	13	36	1.91
4567288--4567391	49	2.1	49	96	0	190	27	22	5	44	1.75
4571900--4571936	3	12.3	3	88	0	56	29	29	0	40	1.57
4576889--4577226	79	4.3	79	77	7	303	33	13	24	28	1.93
4576889--4577228	158	2.2	158	79	6	377	33	14	24	27	1.94
4577161--4577278	51	2.3	51	85	0	146	33	12	23	29	1.92
4577212--4577685	79	6.0	79	84	3	546	35	11	22	30	1.90
4577082--4577355	130	2.1	130	82	2	327	35	10	23	30	1.89
4577006--4577438	209	2.1	209	85	1	573	33	11	24	30	1.91
4576960--4577517	288	1.9	288	84	3	739	34	12	23	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4580046--4580162	51	2.3	51	89	4	175	41	14	17	26	1.88
4580744--4580903	43	3.8	42	84	9	202	36	14	26	21	1.92
4580887--4581392	240	2.1	238	84	5	651	29	17	26	26	1.98
4580887--4581392	61	8.4	60	82	5	517	29	17	26	26	1.98
4594786--4595742	79	12.1	79	81	6	988	34	14	24	27	1.94
4600084--4600136	19	2.8	19	97	0	97	43	15	11	30	1.81
4600195--4600374	75	2.5	75	76	4	190	32	17	13	36	1.89
4600362--4600413	20	2.5	20	90	3	77	34	17	9	38	1.82
4602409--4602470	31	2.0	31	87	0	88	41	17	12	27	1.86
4606678--4606717	20	2.0	20	95	0	71	35	15	12	37	1.85
4606676--4606728	13	4.5	13	71	26	55	35	15	13	35	1.86
4606676--4606744	33	2.1	33	91	5	113	36	17	13	33	1.88
4606773--4606828	19	2.9	19	91	2	85	35	17	16	30	1.92
4607381--4607463	21	3.9	21	91	1	112	28	30	3	37	1.74
4615453--4615506	20	2.7	21	80	8	67	37	18	11	33	1.86
4615535--4615590	19	2.9	19	89	2	76	35	19	16	28	1.93
4616029--4616087	31	1.9	31	82	6	75	45	23	6	23	1.76
4617109--4617206	50	2.0	50	91	0	160	34	9	14	41	1.77
4617030--4617176	79	1.9	79	91	2	242	36	9	18	36	1.83
4621407--4621460	20	2.6	21	91	8	85	37	11	20	31	1.88
4621424--4621474	20	2.5	20	87	3	66	35	13	19	31	1.91
4621528--4621574	21	2.3	21	85	3	60	25	14	12	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4626969--4626994	13	2.0	13	100	0	52	30	15	15	38	1.88
4627033--4627108	21	3.7	21	80	3	100	28	17	11	42	1.84
4627053--4627126	20	3.7	20	78	3	94	31	18	13	36	1.90
4627033--4627126	41	2.3	41	98	0	179	29	18	12	39	1.88
4629577--4629615	13	3.0	13	96	0	69	35	15	17	30	1.91
4633528--4633572	21	2.1	21	84	8	56	22	20	4	53	1.63
4635777--4635802	13	2.0	13	100	0	52	30	15	15	38	1.88
4635841--4635916	21	3.7	21	80	3	100	30	18	10	40	1.84
4635861--4635934	20	3.7	20	81	3	103	31	20	13	35	1.91
4635841--4635934	41	2.3	41	98	0	179	30	19	11	38	1.87
4642666--4642921	54	4.8	54	74	8	168	32	25	10	31	1.90
4642684--4643014	158	2.1	161	82	4	393	32	27	11	29	1.92
4642771--4643010	54	4.5	54	77	2	218	32	27	12	27	1.93
4643003--4643189	85	2.2	85	98	0	356	35	22	12	28	1.91
4649655--4649700	21	2.2	20	81	11	58	32	19	4	43	1.71
4651351--4651497	60	2.4	61	95	4	271	35	4	34	25	1.77
4652160--4652222	34	1.9	32	87	6	90	44	17	11	26	1.82
4654733--4654970	119	2.0	119	100	0	476	50	11	14	23	1.75
4655242--4655277	19	1.9	18	88	5	54	33	13	13	38	1.85
4655245--4655306	33	1.9	33	86	3	90	33	17	14	33	1.90
4655336--4655385	19	2.6	19	83	0	64	38	16	14	32	1.88
4655357--4655418	32	1.9	33	83	9	83	40	9	14	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4655960--4656044	31	2.9	27	71	21	73	51	3	3	41	1.36
4656016--4656102	44	1.9	46	81	9	108	49	1	1	48	1.16
4656798--4656832	11	3.1	11	92	8	61	28	0	0	71	0.86
4656795--4656831	12	3.2	12	92	7	67	29	0	0	70	0.88
4658197--4658526	160	2.0	162	91	2	529	40	9	7	42	1.67
4659610--4659686	40	1.9	40	91	0	127	24	10	14	50	1.74
4660475--4660502	3	9.3	3	100	0	56	0	35	0	64	0.94
4663087--4663164	39	2.0	39	94	0	138	41	7	38	12	1.72
4667284--4667340	13	3.9	13	72	24	51	36	14	15	33	1.88
4667262--4667363	19	6.1	17	69	28	76	36	11	15	36	1.84

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