genome.fa.s112.2.7.7.80.10.50.1000.1.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: Scaffold112
Parameters: 2 7 7 80 10 50 1000
Length:  1714866

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  1  of  11  ( 1240 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)
5664--5699	18	2.1	17	89	5	54	33	0	0	66	0.92
6152--6242	16	5.7	16	72	20	57	52	1	2	43	1.20
6219--6272	29	1.9	27	85	14	74	61	0	1	37	1.07
8159--8183	13	1.9	13	100	0	50	64	16	12	8	1.49
9658--9701	10	4.8	10	78	16	51	72	0	0	27	0.85
9670--9702	15	2.1	16	88	11	50	75	0	0	24	0.80
10845--11205	194	1.9	195	88	2	548	33	14	8	42	1.76
14086--14129	23	1.9	23	86	9	63	43	0	2	54	1.12
14399--14436	2	19.0	2	100	0	76	50	0	0	50	1.00
14476--14541	20	3.2	20	78	10	62	33	3	1	62	1.20
14490--14566	25	3.1	27	76	19	94	36	3	0	59	1.16
15002--15042	2	20.5	2	100	0	82	51	0	0	48	1.00
15682--15736	2	27.5	2	100	0	110	49	0	0	50	1.00
15871--15927	14	3.8	14	76	17	60	54	0	0	45	0.99
15877--15946	28	2.4	27	83	13	77	54	0	0	45	0.99
16944--16978	18	2.0	18	88	5	54	40	11	2	45	1.55
17287--17346	28	2.1	29	81	9	70	38	3	5	53	1.39
17605--17642	18	2.1	18	85	14	51	57	0	0	42	0.98
17996--18039	22	1.9	23	81	9	54	40	2	2	54	1.25
21462--21511	23	2.2	21	83	13	64	60	0	2	38	1.09
21659--21689	15	2.1	15	100	0	62	70	0	0	29	0.87
21870--21900	9	3.4	9	95	0	53	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26575--26640	22	3.0	23	82	10	75	68	1	3	27	1.13
26577--26733	18	9.1	17	71	12	72	62	1	3	33	1.19
26603--26659	22	2.5	23	82	5	71	63	3	3	29	1.28
26646--26776	8	16.2	8	67	19	58	60	0	1	37	1.12
26650--26694	18	2.5	18	96	0	81	55	0	4	40	1.20
26646--26745	42	2.4	44	78	9	111	59	0	2	39	1.09
26745--26781	16	2.2	17	86	13	51	67	2	2	27	1.17
27115--27177	30	2.1	28	83	13	74	34	1	3	60	1.22
28254--28301	2	24.0	2	95	0	60	41	0	8	50	1.33
28247--28292	22	2.1	22	95	0	83	34	0	15	50	1.44
28248--28294	24	2.0	24	100	0	94	34	0	14	51	1.43
28863--28929	28	2.5	26	81	11	75	44	0	2	52	1.16
28911--28956	21	2.2	21	75	20	51	56	0	0	43	0.99
29097--29136	2	20.0	2	89	0	62	2	45	0	52	1.14
30611--30647	3	12.3	3	100	0	74	32	0	0	67	0.91
30904--30933	13	2.3	13	94	0	51	53	0	0	46	1.00
31998--32042	17	2.7	17	86	3	65	42	2	0	55	1.12
31998--32050	17	3.2	16	81	7	61	43	1	0	54	1.11
33474--33502	5	5.8	5	100	0	58	82	0	0	17	0.66
34262--34291	11	2.7	11	94	0	51	90	3	0	6	0.56
34738--34780	22	1.9	24	86	13	65	41	2	0	55	1.12
35234--35289	15	3.6	16	80	9	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35214--35328	8	14.1	8	66	23	62	41	0	0	56	1.11
35248--35297	15	3.3	15	76	17	50	44	0	0	56	0.99
35621--35681	21	2.8	22	76	16	72	42	0	0	57	0.98
35621--35674	22	2.5	22	79	14	67	44	0	0	55	0.99
36425--36499	28	2.6	28	83	10	82	49	0	0	50	1.00
36933--36961	2	15.0	2	92	7	51	48	0	0	51	1.00
36884--36943	31	1.9	31	83	10	77	43	1	8	46	1.43
37123--37173	3	16.7	3	87	4	75	62	33	3	0	1.13
42357--42436	23	3.5	23	72	16	67	42	0	0	57	0.98
42378--42423	13	3.2	15	79	17	53	45	0	0	54	0.99
42362--42424	14	4.4	14	77	16	58	46	0	0	53	1.00
42721--42756	18	1.9	19	88	5	56	55	0	0	44	0.99
42842--42883	2	20.5	2	85	4	57	54	0	2	42	1.13
42997--43042	16	2.9	16	73	0	56	56	4	0	39	1.19
43332--43386	22	2.5	22	82	8	58	43	1	0	54	1.10
45538--45605	30	2.2	30	85	12	86	48	2	2	45	1.32
45941--45974	15	2.2	16	89	5	52	47	5	0	47	1.26
46766--46809	14	3.2	14	81	12	56	2	18	0	79	0.83
47449--47504	20	2.8	20	88	0	85	32	12	10	44	1.77
51601--51673	24	2.9	24	68	13	58	36	4	1	57	1.26
53114--53199	37	2.3	39	74	9	90	46	12	4	36	1.63
56955--57003	20	2.3	22	82	10	66	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56954--57010	19	2.9	18	78	14	60	29	0	0	70	0.88
56954--57011	17	2.9	19	75	19	57	29	0	0	70	0.87
57019--57066	21	2.3	20	86	6	69	56	4	2	37	1.30
57059--57135	16	4.7	16	75	19	61	49	0	0	50	1.00
57060--57100	21	2.0	21	90	0	64	51	0	0	48	1.00
57058--57134	10	7.6	10	79	13	77	49	0	0	50	1.00
57058--57135	5	15.4	5	74	12	52	48	0	0	51	1.00
59395--59435	20	2.2	20	86	8	59	31	12	7	48	1.68
59406--59439	10	3.4	10	83	0	50	32	8	11	47	1.71
61076--61112	17	2.3	17	86	9	51	70	5	8	16	1.30
62750--62802	23	2.3	23	96	0	97	47	1	5	45	1.37
62973--63001	1	29.0	1	100	0	58	100	0	0	0	0.00
66038--66087	21	2.4	22	80	9	61	60	0	0	40	0.97
66628--66666	15	2.6	15	84	8	53	33	0	2	64	1.08
66628--66678	23	2.3	23	86	10	70	37	0	1	60	1.08
66715--66759	22	2.1	22	88	8	67	60	0	4	35	1.17
66931--66956	13	2.0	13	100	0	52	38	0	0	61	0.96
67663--67691	2	14.5	2	100	0	58	51	0	0	48	1.00
68229--68261	2	16.5	2	100	0	66	0	48	0	51	1.00
69244--69285	21	2.0	22	86	13	61	59	2	0	38	1.10
71746--71785	20	2.0	20	85	9	55	47	0	2	50	1.14
71746--71788	21	2.1	20	83	12	52	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71906--71972	32	2.2	30	83	5	80	41	10	4	43	1.59
71915--71974	30	1.9	31	90	6	95	40	11	3	45	1.57
72849--72949	53	1.9	52	93	2	175	37	10	10	40	1.76
80768--80809	16	2.5	17	81	18	52	57	0	0	42	0.99
80999--81061	19	3.4	19	68	14	51	57	3	6	33	1.40
85751--85946	97	2.0	99	93	4	335	27	16	20	35	1.94
85848--86851	136	7.4	136	99	0	1972	29	15	20	33	1.94
88894--89014	30	4.2	28	74	17	88	52	0	3	42	1.23
88931--88987	27	2.1	27	83	9	71	59	1	0	38	1.08
92333--92375	5	8.6	5	82	10	52	65	0	0	34	0.93
92405--92446	18	2.2	19	80	20	52	47	0	0	52	1.00
92695--92739	22	2.0	22	91	8	74	60	0	0	40	0.97
93532--93558	11	2.5	11	100	0	54	18	11	14	55	1.68
96193--96239	2	23.5	2	100	0	94	48	0	0	51	1.00
96339--96404	29	2.3	30	82	12	84	54	3	9	33	1.47
97472--97552	42	1.9	43	89	2	128	49	12	22	16	1.78
101492--101549	30	1.9	30	92	0	98	48	17	10	24	1.78
103790--103825	18	2.0	18	94	0	63	30	16	25	27	1.97
108311--108353	2	21.5	2	95	0	77	46	0	0	53	1.00
111886--111957	21	3.2	20	73	21	63	47	1	1	50	1.18
111931--111993	29	2.0	34	82	17	82	47	1	0	50	1.10
111935--111994	27	2.2	27	79	5	68	46	1	0	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111886--111974	46	1.9	45	82	13	110	48	1	1	49	1.16
116412--116447	5	7.2	5	87	0	54	36	0	5	58	1.22
116431--116495	35	1.9	34	90	6	105	50	0	1	47	1.10
116984--117050	32	2.0	33	83	16	86	38	0	2	58	1.14
117258--117295	20	1.9	20	88	0	58	39	2	2	55	1.28
118108--118132	9	2.8	9	100	0	50	36	0	0	64	0.94
118571--118600	3	10.0	3	100	0	60	33	0	0	66	0.92
121493--121530	2	19.0	2	100	0	76	50	0	0	50	1.00
121769--121800	2	16.0	2	100	0	64	50	0	0	50	1.00
130519--130625	35	2.9	36	76	6	108	53	3	2	40	1.33

Tables:   1   2   3   4   5   6   7   8   9   10   11