genome.fa.s1877.2.7.7.80.10.50.1000.1.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: Scaffold1877
Parameters: 2 7 7 80 10 50 1000
Length:  187756

Tables:   1   2   

This is table  1  of  2  ( 140 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)
2093--2151	1	59.0	1	79	0	55	0	6	5	88	0.64
2094--2153	31	2.0	31	93	6	106	0	10	5	85	0.75
12556--12875	159	2.0	158	93	2	543	40	4	10	45	1.59
14476--14515	2	20.0	2	100	0	80	50	0	50	0	1.00
14974--15005	11	2.8	11	95	4	55	68	3	0	28	1.04
16592--16616	2	12.5	2	100	0	50	48	0	0	52	1.00
20478--20519	21	2.0	21	100	0	84	47	4	14	33	1.65
28060--28107	2	24.0	2	100	0	96	50	0	0	50	1.00
28464--28507	16	2.9	15	86	6	63	36	0	0	63	0.95
28464--28505	15	2.9	14	86	10	57	35	0	0	64	0.94
30307--30354	14	3.3	14	76	21	53	50	0	0	50	1.00
30306--30362	30	1.9	29	89	3	87	47	1	0	50	1.11
30706--30777	19	3.9	18	75	14	58	47	1	1	50	1.18
32576--32621	23	2.0	23	95	0	83	39	4	6	50	1.48
32798--32836	20	2.0	20	90	5	62	53	0	0	46	1.00
33295--33328	10	3.3	11	84	16	54	58	0	0	41	0.98
38472--38515	20	2.2	20	88	8	63	47	0	0	52	1.00
38509--38559	19	2.6	19	82	11	68	52	0	0	47	1.00
38711--38788	16	4.9	17	77	12	67	65	0	0	34	0.93
38708--38784	37	2.1	37	86	13	106	67	0	0	32	0.91
38708--38788	11	7.1	11	77	14	76	66	0	0	33	0.92
38911--38963	21	2.6	20	79	5	61	52	0	1	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39126--39158	16	2.0	17	88	5	50	69	3	0	27	1.03
40069--40109	10	4.2	10	79	17	50	21	0	0	78	0.76
40077--40108	9	3.4	9	91	8	55	18	0	0	81	0.70
40077--40108	5	6.8	5	86	13	50	18	0	0	81	0.70
40069--40109	15	2.8	15	79	17	50	21	0	0	78	0.76
42171--42206	6	6.0	6	90	0	54	19	36	16	27	1.93
45279--45335	27	2.1	27	90	0	87	42	21	14	22	1.88
47744--47798	24	2.2	25	77	3	58	49	23	7	20	1.74
48707--48740	5	7.2	5	87	12	54	17	0	0	82	0.67
48714--48740	13	2.1	13	100	0	54	14	0	0	85	0.61
51147--51207	22	2.6	24	71	10	63	49	1	0	49	1.10
51119--51230	18	6.8	17	69	18	69	42	0	0	56	1.05
51183--51230	8	5.6	8	79	20	53	37	2	0	60	1.09
51498--51539	21	2.0	20	86	13	59	30	2	0	66	1.04
56018--56069	24	2.2	24	96	0	95	46	28	17	7	1.75
59887--59912	6	4.3	6	100	0	52	0	15	15	69	1.20
63397--63542	31	4.8	31	82	9	142	50	2	3	43	1.30
63397--63542	61	2.4	59	81	10	145	50	2	3	43	1.30
63731--63757	2	13.5	2	100	0	54	51	0	0	48	1.00
64013--64073	2	31.0	2	91	3	61	39	0	3	57	1.15
64533--64584	14	3.6	14	75	14	52	36	1	0	61	1.07
64536--64580	15	2.9	15	81	15	56	35	2	0	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64610--64653	16	2.8	16	79	6	54	47	0	0	52	1.00
65400--65665	128	2.1	130	94	2	466	38	4	6	51	1.47
66710--66752	14	2.9	15	83	13	54	60	0	0	39	0.97
67177--67220	22	2.0	21	83	12	54	20	13	2	63	1.40
67576--67606	16	1.9	16	93	0	53	41	0	0	58	0.98
67964--68017	27	2.0	28	79	13	60	51	1	0	46	1.11
68656--68701	14	3.3	15	74	22	55	60	0	0	39	0.97
70354--70415	30	2.1	29	85	8	81	33	6	1	58	1.34
70459--70531	26	2.8	25	67	20	60	49	1	1	47	1.18
70727--70753	2	13.5	2	100	0	54	48	0	0	51	1.00
71757--71788	16	1.9	17	93	6	57	50	0	3	46	1.17
72138--72190	19	2.9	18	76	20	56	56	0	7	35	1.28
72401--72447	24	2.0	25	83	8	62	40	4	4	51	1.41
73083--73148	27	2.4	28	74	25	70	42	0	0	57	0.98
73098--73171	32	2.2	32	83	9	87	45	0	0	54	1.00
73356--73402	19	2.4	19	82	10	51	68	0	0	31	0.90
76449--76496	25	1.9	25	87	8	71	45	2	0	52	1.12
76566--76610	22	2.0	22	87	8	65	57	0	0	42	0.98
77834--77858	12	2.1	12	100	0	50	44	0	0	56	0.99
80868--80908	14	3.2	13	83	10	57	46	2	0	51	1.14
80931--80983	21	2.5	20	78	21	56	49	1	0	49	1.12
84848--84878	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87815--87851	13	2.8	13	91	4	56	64	0	0	35	0.94
88017--88077	27	2.4	26	76	15	65	50	3	1	44	1.28
88337--88474	38	3.9	34	69	21	95	47	0	0	52	1.00
88371--88434	11	5.3	12	74	12	60	46	0	0	53	1.00
89439--89470	2	16.0	2	93	0	55	0	53	0	46	1.00
93025--93089	5	13.2	5	72	15	55	63	0	1	35	1.04
93021--93086	20	3.6	19	75	18	61	62	0	1	36	1.05
93033--93087	14	4.2	14	73	17	55	63	0	1	34	1.05
93093--93136	20	2.1	21	87	4	63	65	0	0	34	0.93
93093--93142	21	2.4	21	86	0	64	66	0	0	34	0.92
93910--93975	25	2.6	25	73	4	62	34	0	1	63	1.04
94069--94116	2	24.0	2	100	0	96	50	0	0	50	1.00
94874--94930	22	2.5	22	74	20	55	38	0	0	61	0.96
94885--94928	23	2.0	21	87	12	63	40	0	0	59	0.98
94941--94970	13	2.3	13	94	0	51	60	3	0	36	1.14
96844--96898	28	2.0	28	82	7	67	58	3	0	38	1.16
96991--97046	19	3.0	20	74	12	55	50	3	1	44	1.29
103479--103512	2	17.0	2	93	0	59	47	0	0	52	1.00
105552--105587	2	18.0	2	100	0	72	50	0	0	50	1.00
107112--107160	15	3.4	14	80	11	55	67	2	0	30	1.02
108231--108271	21	2.0	21	90	9	66	41	0	0	58	0.98
109591--109619	12	2.3	13	94	5	51	89	0	10	0	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
110389--110422	17	2.0	17	88	0	50	0	8	8	82	0.85
119621--119673	23	2.3	24	80	6	65	71	1	3	22	1.12
120409--120489	41	2.0	41	83	11	105	50	2	3	43	1.33
120419--120504	41	2.1	41	80	8	95	51	3	3	41	1.36
120724--120760	18	2.1	18	90	10	58	32	0	0	67	0.91
121133--121207	21	3.8	21	70	20	54	48	0	0	52	1.00
121110--121235	29	4.4	29	73	17	97	40	0	1	57	1.14
121131--121268	32	4.2	32	72	10	93	42	0	0	55	1.10
121959--122111	11	13.5	11	66	22	50	35	1	0	62	1.12
121958--122093	21	6.5	21	65	22	54	35	2	0	61	1.13
122038--122115	19	4.4	17	73	18	54	33	0	1	65	1.01
122017--122086	32	2.2	33	85	12	92	32	1	1	64	1.11
122011--122093	29	2.7	31	78	10	91	34	1	1	62	1.11
121950--122115	39	4.5	37	71	15	107	34	1	0	62	1.10
125704--125736	2	17.0	2	93	6	59	48	0	0	51	1.00
129052--129118	28	2.4	28	85	9	93	32	1	1	64	1.12
129408--129442	16	2.1	17	89	5	54	45	2	5	45	1.41
129579--129608	2	15.0	2	100	0	60	50	0	0	50	1.00
130396--130450	18	3.0	18	78	5	56	49	0	7	43	1.30
131898--131965	16	4.2	17	76	23	67	57	0	0	42	0.98
131905--131956	18	2.7	19	77	14	54	55	0	0	44	0.99
135352--135380	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
139362--139401	20	2.0	20	85	4	55	67	5	0	27	1.11
140059--140123	33	1.9	34	96	3	123	47	4	6	41	1.49
141035--141076	21	1.9	23	85	9	61	52	0	0	47	1.00
149381--149412	2	16.0	2	100	0	64	50	0	0	50	1.00
149881--150017	60	2.2	60	78	7	161	45	5	5	43	1.50
149955--149987	7	5.0	7	85	14	52	54	0	0	45	0.99
150003--150036	12	2.8	12	90	4	50	55	0	0	44	0.99
166236--166271	18	1.9	19	94	5	65	58	16	2	22	1.51
172605--172639	3	12.0	3	87	6	54	65	2	0	31	1.07
172752--172817	12	5.8	12	71	18	52	63	1	1	33	1.13

Tables:   1   2