genome.fa.s39.2.7.7.80.10.50.1000.26.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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   

This is table  26  of  27  ( 3195 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)
4405152--4405201	20	2.3	21	83	10	57	84	12	2	2	0.80
4405154--4405203	26	1.9	26	84	8	66	84	12	2	2	0.80
4405151--4405203	12	4.5	12	80	4	54	84	11	1	1	0.77
4407000--4407053	20	2.7	18	78	16	54	81	11	5	1	0.93
4404925--4408629	923	4.0	928	90	2	5406	37	18	17	27	1.93
4407928--4407977	13	3.7	14	78	7	50	82	16	2	0	0.77
4408967--4409006	14	2.9	14	80	0	53	32	22	10	35	1.87
4409671--4409930	34	8.0	32	77	7	206	26	26	18	28	1.98
4409717--4409895	67	2.7	65	84	7	234	26	26	18	29	1.98
4409953--4410287	104	3.2	104	84	0	420	24	24	16	34	1.96
4409952--4410297	52	6.7	52	80	3	322	24	24	16	34	1.95
4416721--4417384	329	2.0	326	80	6	734	29	11	9	50	1.69
4416721--4417385	163	4.1	163	82	6	659	29	11	9	49	1.69
4419009--4419375	142	2.6	141	84	5	463	32	10	13	42	1.79
4419009--4419381	141	2.6	138	82	5	442	33	10	13	42	1.79
4419389--4419413	2	12.5	2	100	0	50	48	0	0	52	1.00
4419978--4420268	149	2.0	149	81	3	345	24	16	20	38	1.92
4423131--4423175	24	1.9	23	81	4	54	53	4	0	42	1.21
4423682--4423771	45	2.0	45	93	0	153	33	12	8	45	1.73
4424717--4424764	16	2.9	17	78	6	62	39	14	12	33	1.84
4428615--4428644	2	15.0	2	100	0	60	50	0	0	50	1.00
4432870--4432895	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4432883--4432964	19	4.6	19	82	17	122	28	15	15	40	1.89
4432850--4432914	32	2.0	33	90	3	105	27	13	15	43	1.85
4432850--4432964	51	2.2	51	95	1	203	27	14	15	41	1.87
4432902--4432964	32	2.0	32	100	0	126	28	15	15	39	1.89
4432921--4432946	13	2.0	13	100	0	52	30	15	15	38	1.88
4435018--4435060	20	2.1	20	82	4	50	9	27	44	18	1.80
4435492--4435529	13	2.9	13	92	0	58	36	15	13	34	1.87
4439410--4439461	21	2.5	20	78	9	59	23	9	3	63	1.41
4441674--4441699	13	2.0	13	100	0	52	30	15	15	38	1.88
4442433--4442556	65	1.9	65	81	3	151	19	25	13	41	1.88
4445214--4445292	33	2.4	33	87	8	124	37	21	7	32	1.82
4447397--4447438	17	2.5	17	80	11	50	42	16	7	33	1.75
4447691--4447717	12	2.2	12	100	0	54	7	14	0	77	0.97
4458540--4458577	20	1.9	20	88	0	58	15	50	2	31	1.58
4459026--4459065	19	2.2	18	95	4	71	35	10	0	55	1.34
4462761--4462815	16	3.4	15	75	18	56	56	0	0	43	0.99
4463075--4463118	16	2.5	18	78	17	56	36	2	4	56	1.32
4463091--4463187	16	6.1	16	68	6	72	29	5	9	55	1.53
4463094--4463185	47	1.9	48	82	2	114	28	5	7	58	1.48
4463907--4463968	13	5.0	12	76	9	63	53	1	3	41	1.27
4465248--4465321	20	3.8	19	87	8	96	36	17	14	31	1.90
4467814--4467870	20	2.8	20	97	0	105	29	17	10	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4473964--4474016	13	4.5	13	73	26	64	37	16	13	32	1.88
4473964--4474032	33	2.1	33	91	5	113	37	18	13	30	1.89
4474060--4474117	19	3.1	18	88	11	89	32	17	15	34	1.91
4474101--4474127	13	2.1	13	100	0	54	40	14	14	29	1.86
4474082--4474146	32	2.0	33	87	3	96	40	15	13	30	1.86
4476234--4476950	166	4.4	168	83	7	768	28	10	8	52	1.66
4477340--4477381	11	3.7	11	90	3	66	83	0	16	0	0.65
4478635--4478981	151	2.3	150	82	7	389	26	19	17	36	1.94
4478878--4479442	155	3.6	155	72	12	471	24	16	19	39	1.92
4482636--4482677	22	1.9	22	100	0	84	40	4	21	33	1.74
4482960--4483128	84	2.0	84	97	0	320	37	18	16	27	1.92
4483096--4483134	20	1.9	21	94	5	71	35	23	15	25	1.94
4483226--4483255	14	2.1	14	100	0	60	23	20	13	43	1.86
4483277--4483301	13	1.9	13	100	0	50	32	16	20	32	1.94
4483729--4483796	36	1.9	35	87	3	100	33	13	26	26	1.93
4485035--4485171	50	2.7	51	88	4	206	40	11	15	32	1.83
4485239--4485280	20	2.1	20	100	0	84	35	19	9	35	1.84
4485919--4486076	52	3.0	53	79	7	169	36	15	24	24	1.94
4485919--4486076	54	3.0	52	79	9	167	36	15	24	24	1.94
4486193--4486675	28	17.0	28	77	5	416	23	17	29	29	1.97
4486209--4486675	84	5.5	86	81	2	496	23	16	30	29	1.96
4488153--4488197	13	3.4	14	82	14	51	13	0	8	77	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4488153--4488214	20	3.2	20	80	11	74	12	1	8	77	1.06
4488154--4488196	14	3.3	13	87	9	61	13	0	9	76	1.01
4497296--4497329	16	2.2	16	89	5	52	64	0	8	26	1.22
4499148--4499178	15	2.1	15	93	0	53	48	16	22	12	1.80
4501249--4501286	12	3.0	13	84	7	51	34	10	15	39	1.82
4501407--4501452	21	2.2	20	81	11	58	32	19	4	43	1.71
4512087--4512139	20	2.6	20	87	3	70	35	16	7	39	1.78
4513103--4513153	23	2.2	22	80	10	57	74	0	11	13	1.07
4515476--4515817	171	2.0	171	95	0	621	32	16	16	34	1.91
4519560--4519682	61	2.0	61	98	0	237	29	21	12	37	1.89
4523540--4523589	21	2.4	21	86	0	73	44	18	10	28	1.81
4529809--4529866	20	2.8	20	80	12	73	1	24	5	68	1.19
4533889--4533923	18	2.1	18	89	10	56	57	0	0	42	0.99
4538374--4538439	33	2.0	33	93	0	114	21	24	18	36	1.95
4553909--4553962	28	1.9	28	96	0	99	20	25	14	38	1.91
4555446--4555486	3	14.0	3	84	5	57	36	2	31	29	1.71
4556532--4556570	13	3.0	13	88	0	60	61	0	0	38	0.96
4556522--4556564	13	3.2	13	86	6	59	60	0	2	37	1.10
4556534--4556582	18	2.5	19	87	9	64	67	0	0	32	0.91
4556522--4556580	26	2.2	28	82	8	70	66	0	1	32	1.02
4556664--4556741	20	4.0	20	81	6	88	50	3	0	46	1.20
4556671--4556754	41	2.1	40	82	8	100	53	3	0	42	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4556718--4556749	16	2.1	16	94	5	57	50	0	0	50	1.00
4556671--4556754	20	4.2	20	77	10	75	53	3	0	42	1.18
4557120--4557162	22	1.9	23	86	13	63	51	0	0	48	1.00
4557339--4557369	2	15.5	2	100	0	62	48	0	0	51	1.00
4559487--4559540	3	18.0	3	92	7	92	31	1	0	66	1.02
4560753--4560803	2	25.5	2	100	0	102	49	0	0	50	1.00
4561729--4561780	16	3.2	16	72	0	50	19	9	23	48	1.78
4561730--4561791	32	1.9	32	86	0	88	19	11	19	50	1.77
4561928--4561986	28	2.0	30	81	12	70	47	1	0	50	1.11
4561990--4562045	20	2.9	19	87	10	71	42	1	1	53	1.21
4561993--4562051	18	3.2	18	88	9	68	42	1	1	54	1.20
4562705--4562768	25	2.6	22	73	20	56	26	1	3	68	1.13
4562971--4563014	22	2.0	22	95	0	79	36	2	9	52	1.46
4565329--4565369	10	3.5	12	77	16	50	53	0	0	46	1.00
4566403--4566445	16	2.8	15	86	6	59	53	2	0	44	1.13
4567103--4567127	2	12.5	2	100	0	50	48	0	0	52	1.00
4567333--4567423	20	4.7	19	71	14	71	65	4	1	28	1.18
4568836--4568897	33	1.9	32	87	9	90	43	16	12	27	1.84
4573750--4574150	157	2.6	154	81	6	436	33	12	25	28	1.92
4573750--4574151	79	5.2	78	83	6	451	33	12	25	28	1.92
4578556--4578609	24	2.2	24	90	6	83	44	12	0	42	1.43
4582411--4582453	19	2.4	17	85	11	59	65	0	32	2	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4586336--4586387	20	2.6	20	96	0	95	44	15	13	26	1.84
4590881--4590914	9	3.8	9	88	0	50	29	26	0	44	1.55
4590881--4590918	18	2.1	18	95	0	67	28	28	0	42	1.56
4593365--4593404	16	2.5	15	84	11	53	40	0	32	27	1.57
4593497--4593528	17	1.9	17	93	6	57	65	0	0	34	0.93
4597999--4598090	39	2.3	40	77	1	96	36	16	9	36	1.82
4601250--4601294	18	2.5	18	85	0	63	31	15	17	35	1.92
4605375--4605483	51	2.1	51	86	0	146	32	9	25	33	1.87
4605469--4605545	28	2.8	28	80	7	86	27	19	29	23	1.98
4605422--4605623	109	1.9	107	82	4	253	32	15	24	27	1.95

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