genome.fa.s43.2.7.7.80.10.50.1000.1.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  1  of  19  ( 2200 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)
8389--8437	14	3.6	14	88	2	73	91	6	2	0	0.47
8389--8437	1	49.0	1	83	0	62	91	6	2	0	0.47
9419--10154	55	13.3	55	90	4	1092	28	30	20	20	1.98
9935--10082	29	5.3	29	59	18	71	28	31	18	21	1.97
10750--10789	1	40.0	1	92	0	53	92	0	2	5	0.45
10747--10786	20	2.0	20	100	0	80	85	0	5	10	0.75
10793--10849	21	2.7	21	97	0	105	33	10	19	36	1.86
10905--10972	19	3.9	19	78	21	85	35	11	14	38	1.83
10926--10950	13	1.9	13	100	0	50	36	16	16	32	1.90
10907--10969	32	2.0	32	96	0	117	34	12	15	36	1.86
11012--11037	13	2.0	13	100	0	52	30	15	15	38	1.88
10992--11058	33	2.0	33	88	0	98	25	14	16	43	1.86
13508--13580	27	2.7	27	87	6	94	23	34	21	20	1.97
13563--13733	51	3.3	51	79	4	198	29	26	11	32	1.92
13394--13733	105	3.2	105	69	12	273	30	26	11	31	1.92
13716--13798	28	2.9	28	80	8	89	25	31	16	26	1.97
17973--17998	13	2.0	13	100	0	52	30	15	15	38	1.88
17953--18016	32	2.0	33	87	9	96	29	14	17	39	1.88
17986--18023	19	2.0	19	89	0	58	28	13	21	36	1.91
21327--21383	10	5.6	10	88	10	71	84	0	8	7	0.79
22150--22759	157	3.9	157	87	1	839	35	10	11	41	1.77
27853--27914	32	1.9	32	84	15	83	62	8	0	29	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28950--29002	19	2.7	19	82	2	61	32	16	11	39	1.85
32688--32818	68	1.9	68	85	0	181	22	12	25	40	1.88
37479--37512	16	2.1	16	100	0	68	55	0	0	44	0.99
38453--38491	15	2.6	15	91	0	60	25	7	43	23	1.80
41271--41315	21	2.1	21	91	0	72	33	13	11	42	1.79
45548--45609	24	2.7	22	74	13	63	54	1	0	43	1.09
46542--46855	164	1.9	162	87	3	452	43	3	9	43	1.53
47173--47344	74	2.3	74	94	1	301	23	27	15	33	1.94
47507--47637	68	1.9	68	89	3	201	22	10	23	42	1.85
50525--50584	30	2.0	30	96	0	111	35	3	31	30	1.74
51773--51816	16	2.8	16	86	3	63	61	0	0	38	0.96
52571--52598	2	14.0	2	100	0	56	50	0	0	50	1.00
53307--53383	31	2.6	28	87	8	100	64	0	0	35	0.93
55471--55508	19	2.0	19	100	0	76	36	15	15	31	1.90
56879--56920	2	21.5	2	95	4	77	50	0	0	50	1.00
57894--58220	165	2.0	165	97	0	618	35	21	12	29	1.91
61875--61950	12	6.9	11	75	15	52	39	2	48	9	1.49
61874--61959	24	3.8	24	72	17	85	41	2	45	10	1.51
61874--61983	42	2.6	42	94	0	193	40	2	47	9	1.49
62577--62609	11	2.8	12	90	4	50	45	0	51	3	1.16
69885--69913	13	2.3	13	94	5	51	82	0	17	0	0.66
70826--70859	11	3.2	11	87	8	52	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70835--70903	14	4.3	15	74	18	59	37	0	1	60	1.06
70837--70900	16	3.9	16	79	15	60	37	0	1	60	1.06
71001--71040	21	2.0	20	90	5	62	47	0	0	52	1.00
71019--71070	15	3.5	15	74	10	61	38	0	5	55	1.24
71020--71079	30	2.0	31	96	3	113	33	0	10	56	1.32
71263--71293	14	2.1	15	94	5	55	32	0	0	67	0.91
71483--71519	12	3.2	12	81	14	51	45	0	0	54	1.00
71486--71528	10	4.2	10	80	16	52	39	0	0	60	0.97
71487--71529	21	2.0	21	90	4	68	37	0	0	62	0.95
71487--71520	12	3.0	12	91	8	54	41	0	0	58	0.98
71949--71993	21	2.1	22	84	12	58	55	2	0	42	1.12
73682--73722	2	20.5	2	89	0	55	41	0	7	51	1.30
73681--73722	12	3.7	12	81	12	61	40	0	9	50	1.35
75084--75109	3	8.7	3	100	0	52	34	0	0	65	0.93
78044--78113	31	2.3	30	82	5	77	31	10	8	50	1.66
78367--78404	20	1.9	20	88	0	58	21	21	0	57	1.40
78984--79020	18	2.1	18	89	0	56	48	0	0	51	1.00
79279--79325	21	2.2	20	79	17	51	55	2	10	31	1.46
79706--79829	46	2.8	43	85	8	153	58	1	1	38	1.18
80638--80683	23	2.0	23	83	8	58	39	0	0	60	0.97
80750--80785	12	3.2	12	92	7	58	69	0	0	30	0.89
80740--80811	28	2.6	27	81	12	76	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80741--80798	8	7.5	8	73	19	52	65	0	0	34	0.93
86568--86606	19	2.1	19	85	9	53	33	0	2	64	1.08
97802--97961	54	3.0	53	86	5	223	33	31	18	16	1.93
99144--99270	60	2.1	60	94	0	218	46	29	9	14	1.76
103321--103398	38	2.1	38	95	0	138	20	21	17	39	1.92
106407--106476	30	2.7	24	73	23	77	28	15	27	28	1.96
111138--111171	15	2.3	15	89	0	50	64	2	0	32	1.08
111833--111909	29	2.6	29	83	12	93	36	2	1	59	1.19
112116--112161	23	2.0	22	88	12	67	65	0	2	32	1.05
112274--112319	24	1.9	24	82	8	58	50	2	6	41	1.40
112200--112422	114	2.0	113	81	8	265	52	4	3	39	1.41
115030--115081	16	3.2	16	75	24	56	51	1	0	46	1.12
115005--115081	32	2.4	33	84	6	95	51	1	1	45	1.17
115058--115095	17	2.2	18	86	9	53	50	2	2	44	1.30
117521--117599	39	2.0	40	82	7	99	46	1	0	51	1.08
118186--118210	2	12.5	2	100	0	50	52	0	0	48	1.00
118594--118664	34	2.1	35	84	5	92	49	1	0	49	1.09
118588--118650	19	3.6	19	72	20	57	52	0	0	47	1.00
118635--118685	24	2.2	23	85	3	66	45	5	1	47	1.38
118817--118858	17	2.6	16	88	7	59	14	4	0	80	0.86
119175--119227	21	2.5	22	81	6	65	47	0	0	52	1.00
121190--121231	20	2.0	22	86	9	61	40	2	2	54	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121620--121679	21	2.6	22	74	10	59	53	5	1	40	1.33
125214--125252	20	2.0	19	85	5	51	43	2	0	53	1.14
131650--131687	16	2.4	16	78	4	51	36	10	0	52	1.36
138787--138819	16	2.1	16	88	11	50	42	0	0	57	0.98
144443--144487	18	2.4	17	85	14	54	44	0	0	55	0.99
145533--145584	27	1.9	27	84	7	70	55	3	0	40	1.18
145532--145590	27	2.2	26	80	14	66	55	5	0	38	1.22
146367--146415	26	2.0	26	88	8	75	59	0	0	40	0.98
147240--147307	30	2.3	30	82	10	77	41	19	1	38	1.60
150302--150370	29	2.4	29	75	20	74	63	0	5	30	1.17
151871--151946	25	3.0	25	74	14	66	48	0	0	51	1.00
152279--152374	8	12.0	8	72	16	67	39	0	0	60	0.97
152281--152375	22	4.4	22	75	11	81	38	0	0	61	0.96
152279--152378	28	3.7	28	74	21	97	40	0	0	60	0.97
152279--152375	30	2.9	33	77	15	92	39	0	0	60	0.97
152318--152401	23	3.7	22	74	16	64	42	0	0	57	0.99
152699--152732	18	1.9	18	88	5	52	67	0	0	32	0.91
152812--152876	28	2.2	28	86	5	85	66	1	4	27	1.20
152693--152912	113	2.0	108	81	7	253	57	6	5	30	1.47
154778--154846	25	3.1	21	67	18	50	34	0	0	65	0.93
154767--154852	39	2.3	38	79	15	99	38	0	0	61	0.96
156811--156843	13	2.4	14	90	5	50	57	6	0	36	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
158482--158506	11	2.3	11	100	0	50	72	0	0	28	0.86
158827--158888	26	2.3	27	83	8	74	53	1	3	41	1.27
158856--158925	19	3.6	19	72	16	63	54	1	2	41	1.24
158856--158901	20	2.3	20	85	10	60	54	0	2	43	1.12
159162--159220	21	2.9	21	80	14	70	0	27	0	72	0.84
159176--159210	12	3.0	12	87	8	54	0	20	0	80	0.72
159176--159241	11	5.9	11	75	7	53	0	25	0	74	0.82
159168--159241	32	2.4	30	84	8	94	0	27	0	72	0.84
159207--159235	14	2.1	14	100	0	58	0	27	0	72	0.85
160429--160461	16	2.0	17	94	5	59	12	0	9	78	0.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19