genome.fa.s106.2.7.7.80.10.50.1000.1.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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  1  of  27  ( 3135 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)
6646--6818	86	2.0	86	96	0	319	26	15	31	27	1.95
14135--14169	2	17.0	2	94	5	61	48	2	0	48	1.16
14581--14617	2	18.5	2	100	0	74	51	0	0	48	1.00
14902--14953	13	3.8	13	72	7	50	50	1	1	46	1.23
15357--15388	15	2.1	15	94	0	55	59	0	18	21	1.38
15652--15685	14	2.4	14	90	9	52	32	0	2	64	1.08
16060--16093	7	4.9	7	100	0	68	44	0	0	55	0.99
16053--16093	21	2.0	21	85	0	55	51	0	0	48	1.00
16175--16231	19	3.0	18	77	10	60	52	0	1	45	1.11
16218--16252	14	2.6	13	90	4	52	65	2	0	31	1.07
16607--16654	19	2.6	18	74	9	51	58	2	2	37	1.22
18031--18092	8	6.7	10	80	14	55	64	1	0	33	1.03
18039--18087	10	4.8	11	82	12	52	65	2	0	32	1.04
18009--18084	38	2.0	39	82	12	95	65	1	1	31	1.09
18031--18087	20	2.8	20	84	7	62	64	1	0	33	1.04
18767--18796	15	1.9	15	93	6	51	80	6	13	0	0.91
18767--18797	16	1.9	16	93	0	53	80	6	12	0	0.89
21166--21244	41	2.0	40	87	2	113	39	16	22	21	1.92
21474--21517	18	2.5	18	85	3	54	61	0	0	38	0.96
21474--21533	18	3.2	18	77	13	50	58	0	0	41	0.98
21549--21574	2	13.0	2	100	0	52	50	0	0	50	1.00
21624--21648	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21911--21945	3	11.7	3	93	0	61	28	0	2	68	1.04
23017--23056	18	2.3	18	86	4	55	2	20	2	75	1.04
23546--23591	19	2.3	20	85	7	58	28	17	10	43	1.82
24185--24233	16	2.9	17	79	14	57	32	6	0	61	1.21
26083--26125	16	2.8	15	85	3	59	53	11	4	30	1.57
26087--26125	15	2.5	16	83	4	53	53	10	5	30	1.56
26474--26504	16	1.9	16	93	0	53	54	0	0	45	0.99
26847--26904	23	2.5	23	77	8	55	29	5	1	63	1.25
26866--26921	24	2.4	24	85	8	71	26	0	0	73	0.84
26877--26932	29	2.0	28	82	3	67	37	0	0	62	0.95
28011--28079	21	3.4	21	70	25	58	47	0	2	49	1.16
28000--28084	38	2.1	41	82	6	113	49	0	3	47	1.18
28031--28155	63	2.0	61	89	6	189	51	0	3	45	1.17
28033--28178	31	4.9	30	74	17	110	51	0	2	45	1.15
28033--28178	27	5.0	28	75	19	129	51	0	2	45	1.15
32764--32800	2	18.5	2	100	0	74	48	0	51	0	1.00
33542--33575	18	1.9	18	88	5	52	47	2	0	50	1.16
33977--34053	33	2.4	34	81	14	83	33	1	1	63	1.11
34438--34464	2	13.5	2	100	0	54	48	0	0	51	1.00
38481--38517	19	1.9	19	88	0	56	43	2	0	54	1.14
40565--40593	13	2.2	13	100	0	58	58	0	0	41	0.98
42648--42680	13	2.6	13	95	4	59	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48410--48448	21	1.9	20	94	5	69	0	30	0	69	0.89
48504--48532	4	7.2	4	100	0	58	51	24	0	24	1.48
48643--48685	21	2.0	21	90	0	68	39	0	0	60	0.97
48798--48842	23	2.0	23	86	8	65	42	0	0	57	0.98
48910--48958	14	3.5	13	76	13	53	61	0	2	36	1.08
48908--48979	28	2.6	27	82	6	81	55	0	1	43	1.08
49698--49787	26	3.4	27	77	9	87	47	2	2	47	1.26
55111--55145	17	2.1	17	88	0	52	71	0	0	28	0.86
55715--55843	25	5.1	26	74	16	103	62	0	0	35	1.06
55792--55843	27	1.9	27	92	7	88	63	0	0	36	0.95
55816--55872	17	3.5	17	76	13	57	56	0	1	42	1.10
55731--55878	51	2.9	52	73	16	132	59	0	1	38	1.11
56340--56379	3	13.3	3	100	0	80	32	0	0	67	0.91
57088--57116	2	14.5	2	100	0	58	51	0	0	48	1.00
59458--59488	14	2.1	15	94	5	55	29	0	0	70	0.87
65538--65569	17	1.9	16	93	6	55	37	6	12	43	1.68
71536--71577	18	2.3	18	80	11	50	45	0	0	54	0.99
71701--71779	29	2.7	29	76	18	83	65	2	1	30	1.13
73358--73402	16	2.8	16	93	0	81	48	4	2	44	1.35
73340--73412	16	4.7	15	81	9	67	56	4	1	38	1.27
73781--73813	14	2.3	15	89	5	50	51	0	6	42	1.26
74336--74468	2	72.0	2	75	20	130	50	1	2	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74336--74479	17	8.2	18	77	15	124	50	2	2	45	1.25
74336--74453	19	6.2	20	81	15	126	50	0	1	46	1.17
74336--74479	27	5.4	27	79	20	151	50	2	2	45	1.25
74529--74596	36	1.9	36	82	8	86	17	4	4	73	1.17
74547--74595	17	2.8	18	75	6	55	12	2	6	79	0.99
76276--76321	20	2.2	20	84	7	56	2	21	0	76	0.90
77761--77814	26	2.0	27	85	3	74	31	9	12	46	1.74
77889--77934	12	3.9	12	78	13	51	32	2	0	65	1.05
77893--77939	23	2.0	23	88	8	69	34	2	0	63	1.06
78423--78482	22	2.7	22	77	12	61	61	0	1	36	1.06
85018--85078	30	2.0	30	87	0	86	39	14	9	36	1.80
88869--88893	2	12.5	2	100	0	50	52	0	0	48	1.00
93332--93376	22	2.0	22	83	8	56	24	4	4	66	1.29
96860--96904	23	2.0	23	100	0	90	62	15	4	17	1.49
96373--100073	372	10.0	372	98	1	6979	28	16	17	36	1.92
97232--97276	23	2.0	23	100	0	90	62	15	4	17	1.49
97604--97648	23	2.0	23	100	0	90	62	15	4	17	1.49
97976--98020	23	2.0	23	100	0	90	62	15	4	17	1.49
98348--98392	23	2.0	23	100	0	90	62	15	4	17	1.49
98720--98764	23	2.0	23	100	0	90	62	15	4	17	1.49
99092--99136	23	2.0	23	100	0	90	62	15	4	17	1.49
99462--99506	23	2.0	23	100	0	90	62	15	4	17	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
102608--102637	2	15.0	2	100	0	60	0	50	0	50	1.00
104884--104909	9	2.9	9	100	0	52	23	0	0	76	0.78
104903--104987	38	2.2	38	83	10	102	40	1	1	57	1.14
104964--105020	25	2.3	24	85	8	71	45	1	1	50	1.22
106423--106469	21	2.3	21	88	3	69	14	2	6	76	1.08
106425--106489	9	7.0	9	74	11	51	18	1	4	75	1.05
109895--109924	12	2.5	12	94	0	51	63	6	13	16	1.50
110064--110432	89	4.1	89	88	2	483	31	16	14	36	1.89
110013--110443	89	4.9	88	84	6	471	33	16	14	36	1.88
110774--110810	15	2.5	15	90	0	56	2	18	29	48	1.62
113400--113448	16	3.3	16	71	28	54	57	0	0	42	0.99
113400--113487	28	3.1	28	81	15	110	54	0	0	45	0.99
113460--113541	27	3.2	23	70	25	58	50	0	3	46	1.19
116608--116658	2	25.0	2	88	4	75	45	1	3	49	1.32
116686--116733	22	2.1	23	85	14	64	25	0	2	72	0.95
116794--116841	23	2.1	23	84	7	62	25	0	4	70	1.04
117931--117988	27	2.1	29	83	6	75	34	0	0	65	0.93
118232--118264	17	2.0	16	94	5	57	27	0	0	72	0.85
118965--119014	24	2.1	24	85	7	66	38	0	0	62	0.96
118983--119015	8	4.1	8	92	0	57	39	0	0	60	0.97
119407--119441	16	2.1	17	89	5	54	42	5	0	51	1.25
119618--119706	19	4.6	19	68	25	60	30	1	2	66	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
120875--120919	20	2.1	22	88	8	67	44	6	0	48	1.29
121546--121613	22	3.4	19	79	16	75	32	0	2	64	1.08
122827--122876	21	2.4	22	80	16	61	42	0	2	56	1.11
122856--122929	32	2.2	36	85	9	102	43	0	1	55	1.08
122883--122938	11	5.4	11	81	10	64	41	0	0	58	0.98
122883--122938	5	10.8	5	74	14	51	41	0	0	58	0.98
126670--126722	20	2.7	20	96	0	97	39	13	11	35	1.80
126837--126870	10	3.4	10	87	0	50	44	5	26	23	1.76
127377--127414	17	2.1	19	85	9	53	23	0	7	68	1.16
127842--127890	8	6.4	8	80	17	59	77	2	0	20	0.87

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