genome.fa.s168.2.7.7.80.10.50.1000.1.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

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

This is table  1  of  16  ( 1854 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)
110--148	16	2.3	18	86	8	55	5	12	0	82	0.83
105--155	22	2.3	23	82	3	59	3	11	1	82	0.89
248--313	15	4.7	14	79	11	73	9	10	0	80	0.91
258--305	9	5.4	9	82	5	62	6	10	0	83	0.81
238--313	26	2.8	26	80	7	82	9	13	0	77	0.99
472--508	19	1.9	19	89	10	58	16	27	5	51	1.66
774--844	27	2.6	27	84	6	90	46	22	7	23	1.76
2727--2772	21	2.1	22	84	4	58	21	30	17	30	1.96
5351--5416	27	2.4	28	92	2	107	48	22	6	22	1.72
6071--6124	17	3.2	17	71	5	56	42	0	3	53	1.18
6070--6139	33	2.1	33	89	0	104	47	0	2	50	1.16
10467--10554	44	2.0	44	82	14	110	46	1	0	52	1.08
13362--13450	38	2.4	38	85	9	112	44	1	4	49	1.29
13397--13450	19	2.9	18	84	10	81	50	0	1	48	1.11
13437--13503	27	2.4	27	82	7	82	41	1	1	55	1.18
13730--13764	15	2.2	17	90	10	56	45	0	0	54	0.99
13979--14009	7	4.6	7	96	4	55	90	0	9	0	0.46
13971--14017	13	3.5	13	83	13	60	85	0	8	6	0.75
13979--14016	14	2.6	14	87	4	58	89	0	7	2	0.57
14435--14478	16	2.6	17	82	10	54	54	0	6	38	1.27
20142--20207	11	5.7	11	72	10	51	46	0	0	53	1.00
20645--20707	22	2.7	24	85	11	78	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21831--21873	21	2.0	21	86	8	61	51	0	0	48	1.00
21831--21878	21	2.2	21	85	7	60	52	0	2	45	1.12
22544--22590	15	3.0	16	84	12	62	53	0	0	46	1.00
23666--23704	2	20.0	2	94	5	71	48	0	0	51	1.00
26034--26075	22	1.9	22	90	9	68	61	0	0	38	0.96
30164--30201	2	19.0	2	100	0	76	50	50	0	0	1.00
31041--31158	27	4.4	26	75	10	96	58	5	0	35	1.26
31039--31151	55	2.1	55	91	0	181	60	5	0	33	1.25
31192--31225	16	2.1	16	88	5	50	58	2	0	38	1.13
34479--34537	16	3.6	16	75	11	57	57	1	0	40	1.09
36024--36068	19	2.4	18	77	3	54	57	0	0	42	0.98
37256--37290	2	17.5	2	100	0	70	0	48	0	51	1.00
38246--38288	3	14.3	3	100	0	86	32	0	0	67	0.91
38813--38863	19	2.4	22	78	15	54	52	0	0	47	1.00
41158--41190	16	2.0	17	88	5	50	54	0	0	45	0.99
41240--41273	2	17.5	2	93	6	61	50	0	0	50	1.00
42782--42806	5	5.0	5	100	0	50	20	0	0	80	0.72
47726--47790	2	32.5	2	93	0	112	50	3	0	46	1.17
49720--49753	11	3.2	11	91	4	52	0	11	0	88	0.52
54910--54972	31	2.0	31	87	0	90	39	23	12	23	1.89
56936--57263	163	2.0	163	82	4	401	38	10	10	40	1.73
60914--60970	28	2.0	30	86	6	82	50	0	5	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61416--61453	2	19.0	2	100	0	76	50	0	0	50	1.00
63977--64010	3	11.3	3	93	0	59	61	0	38	0	0.96
65132--65169	18	2.1	18	85	9	51	42	0	0	57	0.98
65653--65678	13	2.0	13	100	0	52	69	0	0	30	0.89
65646--65706	29	2.1	29	82	11	72	63	1	3	31	1.20
67950--67995	21	2.3	21	88	7	69	47	0	0	52	1.00
68912--68957	23	2.0	22	84	12	58	43	0	6	50	1.28
69309--69341	17	2.0	17	88	5	50	36	0	3	60	1.12
70681--70724	16	2.7	16	85	3	52	36	0	0	63	0.95
70772--70855	38	2.1	41	86	6	120	33	2	1	63	1.15
71507--71540	16	2.1	16	88	0	50	32	17	2	47	1.63
74796--74837	18	2.3	19	87	4	59	66	0	0	33	0.92
77850--77896	14	3.5	13	85	8	67	34	2	0	63	1.06
78370--78414	14	3.4	14	76	17	60	55	0	0	44	0.99
78365--78476	25	4.2	26	73	19	88	52	0	1	45	1.11
78384--78478	6	14.7	7	69	20	57	52	0	1	46	1.07
78390--78515	20	6.3	20	71	13	73	46	0	1	50	1.16
78357--78479	8	16.6	8	70	24	60	52	0	1	45	1.10
78705--78770	28	2.4	27	78	19	73	57	1	1	39	1.17
82324--82349	2	13.0	2	100	0	52	50	0	0	50	1.00
83719--83788	35	2.0	35	97	0	131	25	21	17	35	1.95
87411--87438	2	14.0	2	100	0	56	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)
87842--87882	16	2.6	17	85	14	61	56	0	0	43	0.99
87872--87904	11	3.0	11	87	12	50	72	0	0	27	0.85
88000--88037	14	2.7	14	80	15	51	31	0	0	68	0.90
88000--88056	28	2.0	29	86	3	80	35	0	0	64	0.93
89980--90058	27	3.0	26	67	9	61	48	1	7	43	1.39
90308--90352	23	2.0	23	87	8	67	44	2	0	53	1.13
90980--91020	18	2.3	18	86	0	55	60	2	0	36	1.10
91194--91243	14	3.6	14	83	8	66	40	0	0	60	0.97
91196--91372	15	12.6	14	66	18	59	42	1	1	54	1.18
92385--92445	21	2.8	21	73	9	52	39	0	0	60	0.97
92379--92433	28	2.0	27	82	3	65	38	0	0	61	0.96
92538--92567	14	2.1	14	93	0	51	53	3	0	43	1.17
98716--98755	7	5.7	7	93	0	71	67	0	0	32	0.91
98732--98820	32	2.9	31	79	20	98	58	5	1	34	1.29
101975--102069	20	4.9	19	75	20	90	55	0	1	43	1.06
102002--102061	17	3.3	18	84	11	77	56	0	0	43	0.99
102822--102861	21	1.9	21	85	10	55	60	2	2	35	1.24
104151--104197	19	2.5	19	92	0	76	53	0	0	46	1.00
105174--105288	27	3.9	29	67	23	78	41	1	0	55	1.16
105544--105594	25	2.1	25	88	3	77	49	0	1	49	1.12
105636--105690	24	2.3	24	79	20	62	67	1	0	30	1.01
108494--108528	14	2.5	14	90	9	54	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)
108680--108745	27	2.3	29	77	12	75	33	1	4	60	1.26
109838--109877	21	1.9	21	90	10	64	37	0	0	62	0.95
110062--110135	38	1.9	40	86	10	109	47	0	1	51	1.09
110064--110129	20	3.4	19	70	25	50	48	0	1	50	1.10
110571--110603	16	2.0	17	88	5	50	39	0	3	57	1.14
110710--110763	22	2.4	23	81	3	65	44	3	1	50	1.30
111227--111261	12	3.0	12	87	4	54	74	0	0	25	0.82
115777--115830	20	2.6	21	79	2	65	33	9	12	44	1.75
115916--115946	16	1.9	16	93	0	53	48	3	0	48	1.17
116057--116260	111	1.8	111	89	0	318	46	11	4	37	1.61
116732--116779	20	2.4	20	92	0	78	54	6	8	31	1.55
116741--116785	20	2.4	18	79	13	54	51	6	6	35	1.55
117384--117418	2	17.5	2	100	0	70	51	0	0	48	1.00
117852--117876	2	12.5	2	100	0	50	52	0	0	48	1.00
118690--118734	20	2.2	21	88	11	67	62	0	0	37	0.96
118710--118801	10	10.0	9	73	21	59	55	2	0	42	1.12
118732--118785	19	2.9	19	75	20	60	53	1	0	44	1.11
119057--119110	11	4.7	12	80	13	60	42	1	0	55	1.10
119451--119511	19	3.2	19	77	13	72	60	0	0	39	0.97
119425--119511	37	2.4	37	82	16	103	62	0	0	37	0.96
119671--119741	35	2.0	35	84	10	92	59	0	0	40	0.98
119692--119760	35	2.0	34	83	8	86	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
120024--120052	2	14.5	2	100	0	58	48	0	0	51	1.00
121914--121956	19	2.3	18	80	8	50	34	0	2	62	1.08
123402--123462	32	1.9	32	96	0	113	45	13	3	37	1.59
124011--124051	16	2.5	17	80	7	50	31	0	4	63	1.15
125736--125784	24	2.1	23	88	3	71	36	0	4	59	1.17
127795--127836	19	2.2	18	84	16	50	59	2	2	35	1.23
128746--128783	14	2.8	14	84	4	51	47	0	2	50	1.15
129715--129757	13	3.2	13	83	3	50	62	0	2	34	1.08
130180--130222	20	2.0	21	82	8	52	51	0	0	48	1.00
130608--130655	25	1.9	25	83	8	62	47	2	0	50	1.12

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