genome.fa.s258.2.7.7.80.10.50.1000.1.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  1  of  25  ( 2900 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)
1700--1739	21	1.9	21	94	0	71	25	0	27	47	1.52
1675--1740	14	4.9	14	68	18	50	24	0	30	45	1.53
1793--1835	20	2.2	20	91	0	68	2	11	55	30	1.48
1800--1837	13	2.8	14	96	4	69	0	13	57	28	1.36
1793--2074	7	39.3	7	76	16	213	1	3	54	41	1.25
1849--2275	7	66.7	6	72	18	121	5	0	48	45	1.29
2104--2288	7	27.3	7	79	13	192	11	0	42	45	1.41
2103--2284	20	9.0	20	75	14	151	11	0	41	46	1.40
2104--2288	13	13.6	14	78	14	192	11	0	42	45	1.41
2110--2287	55	3.3	55	82	6	136	11	0	42	45	1.40
2837--12464	7	1366.0	7	80	14	9761	12	1	40	44	1.54
4107--4170	10	6.3	10	72	21	53	10	0	32	56	1.34
5784--5813	10	3.0	10	90	0	51	10	3	30	56	1.48
10341--10388	10	4.7	10	76	23	55	10	0	35	54	1.35
12179--12218	17	2.3	17	87	12	55	10	2	30	57	1.45
12459--12501	19	2.3	18	84	15	52	16	0	65	18	1.28
12489--12547	24	2.5	24	78	5	68	11	0	61	27	1.31
12509--12582	14	5.2	14	73	15	53	14	0	56	28	1.39
12558--12626	14	4.8	14	72	13	50	15	1	66	15	1.32
12509--12639	50	2.6	51	82	10	139	14	0	64	19	1.33
12607--12759	52	3.0	50	78	14	154	13	0	65	20	1.30
12661--12754	14	6.4	14	69	19	57	13	1	61	23	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12667--12761	31	3.3	27	79	16	93	13	1	58	26	1.42
12674--12821	22	6.6	22	70	16	92	13	1	61	23	1.40
12696--12825	22	5.9	22	74	13	108	13	0	62	23	1.36
13605--13673	19	3.5	20	73	13	70	65	2	4	27	1.26
13598--13674	40	2.1	37	81	13	88	66	2	3	27	1.22
17221--17478	87	3.0	87	84	6	319	25	15	5	53	1.62
18196--18288	30	3.1	30	92	0	159	32	27	12	26	1.93
20132--20168	18	2.1	18	89	0	56	24	18	29	27	1.98
21672--21707	10	3.5	10	85	7	54	11	22	27	38	1.88
22352--22441	30	3.0	30	90	0	144	33	24	12	30	1.92
23854--23905	21	2.5	20	81	6	68	40	19	5	34	1.75
24082--24121	21	1.9	21	84	0	53	45	35	0	20	1.51
24302--24342	16	2.7	16	81	7	50	43	21	2	31	1.66
24254--24354	52	2.0	50	86	3	139	38	33	1	25	1.67
24247--24342	14	6.6	14	67	11	50	39	31	2	27	1.68
24445--24638	7	28.0	7	67	12	96	39	28	2	29	1.70
24507--24666	41	3.9	41	75	6	110	41	28	1	28	1.64
24450--24592	34	4.1	34	72	7	85	41	28	2	27	1.67
24705--24800	31	3.2	30	72	19	101	36	26	0	37	1.57
24796--24827	7	4.6	7	100	0	64	46	0	0	53	1.00
24693--24813	59	2.1	59	95	0	215	38	24	0	37	1.56
24823--24848	7	3.7	7	100	0	52	46	23	0	30	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24802--24849	14	3.4	14	85	0	60	43	12	0	43	1.42
24796--24841	21	2.2	21	84	0	56	45	8	0	45	1.34
26417--26491	30	2.5	30	89	2	116	28	16	25	30	1.96
26417--26508	30	3.1	30	81	9	107	28	14	25	32	1.94
30262--30389	62	2.1	62	98	0	247	46	4	30	18	1.70
33818--35057	618	2.0	619	99	0	2455	23	20	16	39	1.92
37700--37772	33	2.2	34	85	2	94	43	10	15	30	1.80
40278--40334	16	3.6	15	70	11	51	1	19	35	43	1.61
40530--40569	18	2.2	18	86	8	55	50	2	2	45	1.28
43591--43630	16	2.5	16	91	0	62	17	15	27	40	1.89
51881--51910	5	5.8	5	92	7	51	83	0	0	16	0.65
54529--54569	16	2.6	16	80	0	55	51	12	14	21	1.75
55798--55822	5	5.0	5	100	0	50	60	0	0	40	0.97
59596--59636	2	20.5	2	100	0	82	51	0	48	0	1.00
60093--60117	5	5.0	5	100	0	50	0	20	40	40	1.52
61247--61286	16	2.5	16	88	8	55	62	0	2	35	1.09
61247--61286	21	1.9	21	85	10	55	62	0	2	35	1.09
61302--61339	12	3.2	12	77	7	51	18	5	7	68	1.34
64493--64565	2	37.0	2	86	2	94	43	0	2	53	1.15
67699--67743	23	2.0	22	87	8	65	80	2	17	0	0.82
68735--68781	24	2.0	24	83	8	60	31	4	2	61	1.27
68836--68878	16	2.6	17	89	10	72	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69116--69170	27	2.0	28	89	6	87	43	0	0	56	0.99
69117--69205	15	5.9	16	71	16	66	40	0	2	57	1.11
69193--69236	22	1.9	24	90	9	74	43	6	4	45	1.51
69167--69296	53	2.4	52	76	7	136	41	3	5	49	1.44
71918--72035	50	2.6	45	79	16	143	45	4	0	49	1.27
80530--80568	17	2.4	16	95	4	69	71	0	0	28	0.86
80503--80574	21	3.5	21	75	12	69	63	0	1	34	1.03
84172--84228	24	2.4	24	84	0	69	50	1	1	45	1.22
84203--84321	47	2.5	48	76	13	120	44	5	2	47	1.38
85989--86028	2	20.0	2	84	0	53	47	7	0	45	1.31
85990--86028	16	2.4	16	95	0	69	48	7	0	43	1.31
87761--87808	2	24.0	2	100	0	96	50	0	0	50	1.00
88195--88225	2	15.5	2	100	0	62	48	0	51	0	1.00
90547--90580	2	17.0	2	100	0	68	50	0	0	50	1.00
92573--92632	2	30.0	2	96	0	111	0	1	50	48	1.11
92632--92662	2	15.5	2	100	0	62	48	0	51	0	1.00
93603--93629	6	4.5	6	100	0	54	0	48	14	37	1.45
93646--93678	2	16.5	2	100	0	66	51	0	0	48	1.00
93678--93721	2	22.0	2	100	0	88	50	0	50	0	1.00
94586--94644	23	2.6	23	79	17	70	62	0	0	37	0.95
99670--99777	38	2.8	38	82	0	135	34	13	22	29	1.93
100253--100305	17	3.0	17	80	5	61	45	3	3	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
101955--102000	22	2.2	20	84	7	56	43	0	0	56	0.99
101967--102003	14	2.7	14	91	4	58	40	0	0	59	0.97
101969--102009	20	2.0	21	85	4	57	43	0	0	56	0.99
103959--103997	6	6.8	6	97	2	64	35	0	46	17	1.49
104488--104534	13	3.4	13	83	16	67	61	0	0	38	0.96
104699--104754	26	2.2	26	83	6	69	32	0	8	58	1.29
104881--104918	18	2.1	19	95	5	69	44	0	0	55	0.99
104992--105067	24	3.2	24	79	7	91	38	7	11	42	1.71
105023--105077	24	2.3	24	84	6	67	40	9	9	41	1.68
105072--105119	17	2.8	17	93	3	78	45	0	0	54	0.99
105327--105368	19	2.2	19	86	0	57	40	9	0	50	1.35
105462--105543	32	2.5	33	79	13	82	40	15	13	30	1.86
105640--105686	13	3.4	13	81	16	58	36	0	0	63	0.94
105630--105697	29	2.3	30	85	5	95	48	0	0	51	1.00
105634--105676	16	2.9	16	83	13	56	44	0	0	55	0.99
115411--115453	18	2.3	19	80	19	54	44	0	16	39	1.48
116035--116059	10	2.5	10	100	0	50	36	0	0	64	0.94
118480--118517	16	2.4	16	86	8	51	55	0	0	44	0.99
118990--119032	20	2.2	20	86	0	59	32	0	0	67	0.91
120161--120244	23	3.6	22	78	12	80	45	1	1	52	1.16
120171--120214	21	2.1	21	87	4	63	50	0	0	50	1.00
123683--123714	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)
125621--125655	18	1.9	18	88	11	54	20	8	5	65	1.40
129050--129075	2	13.0	2	100	0	52	50	0	50	0	1.00
134221--134272	2	25.5	2	96	3	95	50	48	1	0	1.12
134272--134301	2	15.0	2	92	0	51	46	0	3	50	1.18
136223--136279	24	2.4	23	78	18	64	49	1	8	40	1.44
137391--137427	5	7.4	5	93	0	65	0	59	0	40	0.97
137439--137464	4	6.5	4	100	0	52	76	0	0	23	0.78
137585--137617	11	3.1	11	91	8	59	0	24	0	75	0.80
138987--139021	18	1.9	18	94	0	61	22	25	20	31	1.98
143362--143399	2	19.0	2	100	0	76	50	0	50	0	1.00

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