genome.fa.s429.2.7.7.80.10.50.1000.1.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: Scaffold429
Parameters: 2 7 7 80 10 50 1000
Length:  134018

Tables:   1   2   

This is table  1  of  2  ( 127 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)
4426--4466	18	2.3	19	91	8	68	65	0	0	34	0.93
4426--4473	18	2.7	17	83	6	60	64	0	0	35	0.94
4503--4536	15	2.3	15	94	0	59	58	0	8	32	1.29
6080--6131	8	6.8	8	91	8	90	23	0	0	76	0.78
6081--6130	15	3.3	15	100	0	100	24	0	0	76	0.80
6081--6130	22	2.2	23	89	10	77	24	0	0	76	0.80
6267--6302	19	1.9	18	94	5	63	69	5	0	25	1.10
7339--7373	15	2.3	15	85	0	52	57	2	0	40	1.14
7425--7472	17	2.9	15	79	14	51	20	4	2	72	1.11
9124--9219	36	2.7	36	75	12	90	34	2	1	62	1.14
9180--9237	12	5.1	12	79	12	61	34	1	0	63	1.04
9193--9239	17	2.8	17	77	3	51	36	0	0	63	0.94
18387--18437	23	2.3	21	83	12	59	43	0	5	50	1.26
18399--18442	21	2.0	23	86	8	65	43	0	6	50	1.29
18662--18695	6	5.7	6	89	0	50	52	2	0	44	1.16
19300--19351	19	2.6	19	80	17	61	61	5	5	26	1.42
25180--25234	21	2.6	22	82	8	69	40	9	1	49	1.45
26041--26096	13	4.2	12	75	24	51	51	0	0	48	1.00
26267--26310	21	2.0	22	87	12	65	56	0	0	43	0.99
26423--26481	2	29.5	2	100	0	118	49	0	0	50	1.00
26842--26873	10	3.2	10	100	0	64	9	18	9	62	1.52
31507--31569	20	3.3	19	78	15	58	49	0	1	49	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35797--35847	25	2.1	24	85	3	66	37	0	1	60	1.08
35803--35838	16	2.3	15	90	4	54	36	0	2	61	1.11
36149--36199	25	2.1	25	85	3	68	41	0	3	54	1.19
36640--36669	2	15.0	2	92	0	51	46	0	3	50	1.18
39090--39140	25	2.1	24	85	3	66	37	0	1	60	1.08
39096--39131	16	2.3	15	90	4	54	36	0	2	61	1.11
39442--39492	25	2.1	25	85	3	68	41	0	3	54	1.19
39084--39732	353	1.8	351	90	0	1046	36	8	6	48	1.59
40527--40553	6	4.5	6	100	0	54	33	0	0	66	0.92
40551--40594	15	2.8	15	86	6	52	75	2	2	20	1.03
42407--42442	16	2.3	15	90	4	54	36	0	2	61	1.11
42758--42808	25	2.0	26	84	3	68	39	0	3	56	1.18
42399--43099	354	2.0	352	87	6	1022	36	8	7	47	1.61
46042--46092	25	2.0	26	84	3	68	39	0	3	56	1.18
45691--46385	349	2.0	347	88	3	1024	36	8	7	48	1.61
48990--49034	10	4.6	10	86	5	56	35	0	2	62	1.08
48990--49029	20	2.0	21	90	9	66	37	0	0	62	0.95
48992--49044	19	2.8	20	83	11	58	37	0	1	60	1.08
49354--49404	24	2.1	25	85	3	68	41	0	3	54	1.19
49016--49722	353	2.0	356	84	5	930	36	9	7	46	1.64
51614--51654	2	20.5	2	100	0	82	48	0	0	51	1.00
53489--53540	12	3.6	14	76	20	54	65	0	3	30	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53497--53528	17	1.9	16	93	6	55	68	0	6	25	1.12
53493--53537	17	2.7	16	80	10	54	66	0	4	28	1.11
53839--53885	15	3.3	15	76	5	53	59	4	0	36	1.17
54386--54419	14	2.5	14	90	4	52	52	0	0	47	1.00
55898--55953	21	2.7	21	82	0	67	42	3	19	33	1.69
56501--56538	20	2.0	20	89	5	60	71	0	0	28	0.87
57033--57080	7	6.4	7	81	13	60	50	0	0	50	1.00
57036--57080	16	2.9	15	87	6	63	53	0	0	46	1.00
57943--57992	2	25.5	2	76	11	50	52	2	2	44	1.24
57925--57973	24	2.1	23	84	3	62	48	0	6	44	1.27
57943--57992	25	2.0	24	84	3	64	52	2	2	44	1.24
65519--65559	20	2.0	20	95	0	73	41	7	14	36	1.74
69022--69067	22	2.0	23	84	12	60	39	4	0	56	1.19
69076--69114	19	2.0	21	85	10	55	43	0	2	53	1.14
69183--69252	13	5.5	13	73	18	58	27	1	0	71	0.94
69182--69267	26	3.2	26	80	6	82	27	1	2	68	1.09
69267--69324	20	3.0	20	78	16	61	46	0	0	53	1.00
69278--69342	20	3.5	17	76	19	51	41	0	0	58	0.98
69294--69364	25	2.9	25	83	6	74	30	2	0	66	1.06
69513--69572	22	2.7	22	75	14	61	55	0	1	43	1.10
69991--70039	17	2.8	18	76	17	50	55	0	0	44	0.99
69993--70040	18	2.7	18	75	12	55	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70255--70315	22	2.9	22	83	11	74	44	0	0	55	0.99
70266--70329	22	2.7	25	79	18	82	43	0	0	56	0.99
71121--71175	26	2.1	26	83	6	67	52	1	5	40	1.35
71298--71327	13	2.3	13	94	0	51	26	0	0	73	0.84
72043--72084	20	2.1	20	91	8	68	42	0	2	54	1.13
75068--75119	2	26.0	2	96	0	68	42	0	7	50	1.31
75690--75717	2	14.0	2	100	0	56	50	0	0	50	1.00
78647--78679	2	16.5	2	100	0	66	51	48	0	0	1.00
80773--80816	2	22.0	2	95	0	70	50	4	0	45	1.22
80842--80884	2	21.5	2	100	0	86	51	0	0	48	1.00
81490--81523	2	17.0	2	100	0	68	50	0	0	50	1.00
85526--85562	17	2.1	17	90	5	56	56	0	0	43	0.99
85952--85989	20	1.9	19	89	5	58	63	0	2	34	1.09
85952--86002	18	2.7	19	84	6	59	58	0	1	39	1.09
87381--87435	13	4.0	13	76	19	58	56	0	5	38	1.23
90321--90358	19	2.0	19	89	0	58	44	0	2	52	1.14
90328--90391	24	2.7	23	77	22	69	34	0	6	59	1.23
91386--91423	2	19.0	2	94	0	67	47	0	2	50	1.15
92317--92370	3	18.0	3	100	0	108	33	0	0	66	0.92
92643--92676	2	17.0	2	100	0	68	50	0	0	50	1.00
93790--93842	3	17.7	3	100	0	106	32	0	0	67	0.91
94422--94453	2	16.0	2	100	0	64	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)
95222--95250	3	9.7	3	100	0	58	31	0	0	68	0.89
97083--97108	2	13.0	2	100	0	52	50	0	0	50	1.00
97327--97371	18	2.6	18	82	13	58	51	8	0	40	1.33
97341--97383	17	2.5	17	80	0	50	53	9	0	37	1.33
97742--97780	19	2.1	19	85	9	53	43	0	2	53	1.14
99671--99719	20	2.5	20	87	6	66	40	0	0	59	0.98
100475--100534	20	2.7	22	78	19	63	55	0	1	43	1.10
100490--100527	17	2.2	18	85	4	51	57	0	2	39	1.12
104745--104840	24	3.9	24	70	15	63	51	1	0	47	1.07
105539--105584	21	2.1	22	84	4	58	19	30	19	30	1.97
109415--109455	11	3.5	11	81	12	55	2	19	0	78	0.87
109415--109469	24	2.3	22	77	17	56	9	20	0	70	1.13
109810--109856	23	2.0	23	83	4	58	17	17	14	51	1.77
109844--109869	1	26.0	1	100	0	52	0	0	0	100	0.00
110566--110671	45	2.2	48	81	6	128	29	21	30	18	1.97
110704--111687	32	31.8	32	88	3	1327	18	18	32	30	1.95
110793--111678	399	2.2	398	99	0	1729	17	18	32	30	1.95
111670--112516	27	31.0	27	93	1	1424	27	14	35	21	1.93
111670--112516	82	10.3	81	94	1	1424	27	14	35	21	1.93
111670--112516	109	7.8	108	94	1	1424	27	14	35	21	1.93
112480--112568	46	1.9	46	97	0	169	38	11	26	23	1.89
112536--112593	30	1.9	31	89	3	91	32	15	27	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
123356--123397	12	3.6	12	77	6	50	45	0	2	52	1.13
123350--123396	23	2.1	22	92	4	76	51	0	2	46	1.13
123329--123409	27	3.0	26	78	8	74	54	1	1	43	1.16
124790--124823	2	17.0	2	93	0	59	52	0	0	47	1.00
124830--124881	22	2.4	22	82	17	65	69	0	7	23	1.14
126538--126579	20	2.1	20	86	8	59	38	2	0	59	1.10
126546--126583	19	2.0	19	90	10	60	34	0	0	65	0.93
127507--127577	27	2.6	27	91	6	108	64	0	1	33	1.02
127509--127564	11	5.6	11	74	20	52	66	0	0	33	0.92
127487--127571	17	5.0	17	75	13	68	61	1	2	35	1.17

Tables:   1   2