genome.fa.s498.2.7.7.80.10.50.1000.1.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: Scaffold498
Parameters: 2 7 7 80 10 50 1000
Length:  1804022

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

This is table  1  of  17  ( 1953 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)
3269--3300	2	16.0	2	100	0	64	50	50	0	0	1.00
5080--5107	2	14.0	2	100	0	56	50	0	0	50	1.00
6486--6525	20	2.0	20	85	5	53	47	0	0	52	1.00
6566--6601	17	2.2	16	90	5	54	50	0	2	47	1.15
12124--12161	2	19.0	2	94	0	67	47	0	2	50	1.15
12384--12446	32	2.1	29	85	8	81	36	0	0	63	0.95
12851--12914	27	2.4	28	77	15	80	53	0	0	46	1.00
14568--14613	16	2.9	16	80	6	58	54	0	0	45	0.99
14512--14653	57	2.5	57	85	5	155	47	1	2	48	1.22
15225--15288	26	2.3	30	86	10	91	39	0	1	59	1.07
15260--15316	18	3.0	19	80	10	55	45	0	0	54	0.99
15279--15349	25	2.8	25	79	12	67	45	0	1	53	1.09
15305--15356	24	2.2	24	86	6	70	44	0	1	53	1.11
15316--15427	33	3.3	32	70	17	84	41	0	0	56	1.11
15378--15418	15	2.8	15	88	3	57	48	0	0	51	1.00
18194--18268	12	6.0	12	72	9	51	49	1	1	48	1.18
21940--21984	12	3.8	11	82	11	54	62	2	0	35	1.08
21946--22002	24	2.5	22	78	18	62	56	5	1	36	1.32
22047--22094	19	2.6	19	83	9	55	58	0	0	41	0.98
22395--22434	21	1.9	21	85	10	55	35	5	0	60	1.19
24618--24667	16	3.1	17	75	18	61	52	0	0	48	1.00
24636--24696	20	3.0	20	78	7	70	55	1	0	42	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30696--30751	28	1.9	30	85	7	80	46	0	0	53	1.00
30704--30779	27	2.6	30	74	19	81	50	0	1	48	1.09
31125--31171	19	2.4	19	83	16	60	51	0	0	48	1.00
31128--31177	21	2.4	21	87	12	68	50	0	0	50	1.00
32532--32566	4	8.8	4	93	0	61	51	0	2	45	1.16
33048--33131	32	2.9	27	79	17	105	45	1	0	53	1.08
33055--33131	33	2.3	32	87	12	111	45	1	0	53	1.08
33055--33181	19	6.4	19	66	23	66	40	1	0	56	1.14
33397--33436	19	2.2	19	90	4	64	50	2	0	47	1.14
34288--34373	4	21.5	4	90	0	109	50	8	0	41	1.32
34288--34373	20	4.2	20	95	3	145	50	8	0	41	1.32
34977--35007	6	5.2	6	96	0	53	64	0	0	35	0.94
35067--35108	7	6.0	7	84	15	52	40	16	0	42	1.48
44980--45028	18	2.8	18	78	3	55	69	0	0	30	0.89
45010--45067	25	2.4	24	73	15	57	58	3	3	34	1.32
45047--45096	20	2.5	19	78	9	55	56	0	2	42	1.11
45425--45503	22	3.5	22	75	15	72	37	0	0	62	0.96
45458--45503	13	3.6	13	75	16	51	41	0	0	58	0.98
45424--45486	16	4.3	15	74	11	60	34	0	0	65	0.93
45466--45520	25	2.1	27	90	6	87	47	0	0	52	1.00
46775--46807	12	2.6	13	85	9	50	33	0	0	66	0.92
47081--47110	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48279--48313	2	17.5	2	100	0	70	48	0	0	51	1.00
49631--49742	17	6.5	18	70	21	80	40	0	0	58	1.04
49600--49707	34	3.1	34	84	10	121	40	0	0	59	0.98
49635--49718	19	4.6	19	75	20	81	40	1	0	58	1.06
49694--49745	24	2.2	24	86	6	70	36	1	0	61	1.07
50001--50040	20	2.0	20	86	13	57	42	7	0	50	1.30
50130--50158	7	4.3	7	95	4	51	62	0	0	37	0.96
51444--51496	22	2.6	21	77	16	58	33	0	1	64	1.05
51608--51705	40	2.5	40	81	1	117	50	3	4	42	1.37
53794--53835	22	2.0	21	90	4	66	40	0	0	59	0.97
55025--55084	20	3.0	21	76	18	72	51	0	0	48	1.00
55263--55314	15	3.5	15	76	5	61	57	0	0	42	0.98
55252--55312	29	2.2	26	85	8	77	55	0	0	44	0.99
55231--55305	25	3.0	25	72	18	66	50	0	1	48	1.09
55267--55337	34	2.0	36	83	5	92	53	0	0	46	1.00
56096--56144	13	3.8	13	84	10	66	14	6	0	79	0.91
56096--56142	24	1.9	25	86	4	69	14	6	0	78	0.93
58339--58436	24	4.2	22	73	14	63	33	0	5	61	1.18
59345--59378	2	17.0	2	100	0	68	0	50	0	50	1.00
59378--59418	2	20.5	2	100	0	82	48	0	0	51	1.00
59857--59891	18	1.9	18	88	11	54	74	2	0	22	0.95
60504--60557	24	2.2	24	87	6	74	35	1	0	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60878--60911	2	17.0	2	100	0	68	50	0	0	50	1.00
61322--61375	21	2.6	20	78	16	56	46	0	0	53	1.00
61321--61383	22	3.0	21	75	13	58	47	0	0	52	1.00
61371--61415	23	2.0	23	86	0	63	57	0	0	42	0.98
61377--61419	16	2.7	17	79	13	56	55	0	0	44	0.99
61347--61466	21	6.2	20	68	23	62	53	0	0	46	1.00
63482--63545	14	4.3	15	77	13	69	48	0	0	51	1.00
65629--65707	25	3.0	25	81	9	70	46	1	1	50	1.17
67642--67694	19	2.8	18	77	8	52	33	3	0	62	1.13
67649--67705	29	1.9	30	86	10	82	36	3	0	59	1.14
67941--67968	1	28.0	1	100	0	56	0	0	0	100	0.00
68493--68527	18	1.9	18	88	0	52	37	2	8	51	1.47
68912--68959	11	4.7	11	78	21	52	37	0	0	62	0.95
68900--68946	18	2.6	18	90	9	78	34	0	0	65	0.93
68951--69017	17	4.2	16	81	14	84	44	0	0	55	0.99
68922--69042	47	2.6	45	78	16	131	42	0	0	56	1.05
69213--69325	20	5.5	21	72	16	85	57	1	0	40	1.09
69262--69330	11	6.6	11	75	15	67	60	0	0	39	0.97
69282--69333	22	2.4	22	93	0	86	65	0	0	34	0.93
70187--70228	20	2.1	20	86	0	57	47	4	0	47	1.23
72576--72632	20	3.0	20	75	14	66	36	0	0	63	0.95
72647--72684	15	2.5	15	79	12	51	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76151--76211	31	2.0	30	84	6	79	34	9	27	27	1.89
76423--76487	27	2.4	27	80	7	71	36	0	3	60	1.13
76575--76613	11	3.2	12	82	10	53	56	0	0	43	0.99
77104--77218	57	2.0	58	94	1	205	40	8	14	36	1.77
78025--78097	6	12.0	6	72	18	62	35	0	4	60	1.16
78057--78097	11	3.5	11	83	9	55	36	0	0	63	0.95
78023--78096	18	4.1	18	75	16	73	33	0	4	62	1.14
78102--78158	17	3.5	17	73	26	68	47	0	0	52	1.00
78058--78148	18	5.4	18	72	25	51	42	0	0	57	0.99
78099--78162	32	2.0	33	90	3	103	48	0	0	51	1.00
78112--78172	16	4.2	14	71	22	54	47	0	0	52	1.00
78100--78241	18	8.5	17	67	19	77	42	0	0	56	1.04
78119--78241	54	2.3	54	82	12	137	42	0	0	56	1.04
78160--78227	23	3.3	21	79	18	72	39	0	0	60	0.97
78482--78524	22	2.0	22	85	0	59	60	2	6	30	1.35
78643--78679	19	1.9	19	88	0	56	45	2	0	51	1.15
81004--81046	21	2.0	23	86	9	63	48	0	0	51	1.00
81822--81879	22	2.7	22	78	2	64	60	8	1	29	1.36
84475--84516	12	3.7	12	84	6	52	38	2	0	59	1.10
84948--84998	20	2.5	22	72	21	56	43	0	0	56	0.99
85487--85558	16	4.6	16	70	25	55	43	2	0	54	1.15
85599--85630	3	11.0	3	93	6	57	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87397--87438	22	1.9	23	85	9	61	42	0	0	57	0.99
87401--87446	23	2.0	23	83	8	58	45	0	0	54	0.99
89319--89363	19	2.4	19	82	13	58	42	0	0	57	0.98
89974--90069	24	4.0	24	69	17	65	50	0	2	47	1.12
89966--90064	49	2.0	49	96	0	180	53	0	2	44	1.12
91231--91290	19	3.1	18	77	13	57	55	0	0	45	0.99
91230--91279	20	2.6	19	76	17	59	58	0	0	42	0.98
92585--92742	5	32.4	5	64	20	59	58	0	0	41	1.03
92565--92667	51	2.0	51	80	14	115	55	0	0	43	1.06
92627--92678	16	3.2	17	76	17	65	50	0	0	50	1.00

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