genome.fa.s512.2.7.7.80.10.50.1000.1.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: Scaffold512
Parameters: 2 7 7 80 10 50 1000
Length:  165704

Tables:   1   

This is table  1  of  1  ( 89 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)
384--427	22	2.0	22	100	0	88	50	0	36	13	1.42
5039--5089	26	2.0	26	100	0	102	39	9	3	47	1.55
10745--10776	2	16.0	2	100	0	64	50	0	50	0	1.00
11289--11374	29	3.0	30	85	6	99	56	1	2	39	1.19
11481--11537	29	2.0	29	86	6	80	56	5	3	35	1.39
13051--13096	18	2.5	18	85	3	56	69	2	0	28	1.00
17891--18363	243	2.0	232	85	5	624	40	22	12	24	1.89
32010--32052	2	21.5	2	100	0	86	51	0	48	0	1.00
32235--32293	23	2.4	25	77	11	77	54	0	0	45	0.99
32253--32301	23	2.1	23	88	0	71	63	0	2	34	1.06
32693--32765	27	2.9	25	76	13	78	34	5	1	58	1.29
33505--33530	2	13.0	2	100	0	52	50	50	0	0	1.00
36028--36128	45	2.2	45	98	0	193	44	28	18	7	1.78
36336--36369	14	2.3	15	90	5	52	0	20	0	79	0.73
36567--36616	26	1.9	26	100	0	100	40	12	4	44	1.60
42221--42252	2	16.0	2	100	0	64	50	0	50	0	1.00
42992--43034	20	2.2	20	95	0	77	48	11	0	39	1.40
43372--43419	24	2.0	25	87	4	71	39	2	4	54	1.32
44450--44513	30	2.1	30	94	0	110	48	10	25	15	1.77
45150--45337	102	1.8	102	86	2	270	43	17	12	26	1.85
47080--47116	2	18.5	2	100	0	74	0	0	48	51	1.00
49347--50545	600	2.0	594	88	2	1803	42	19	14	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52584--52643	20	3.0	20	72	2	57	58	1	11	28	1.43
56081--56138	30	2.0	29	86	10	82	53	0	0	46	1.00
56348--56402	23	2.4	23	84	6	67	63	5	1	29	1.27
56875--56935	23	2.7	21	76	18	61	39	1	0	59	1.08
56698--57062	124	3.0	123	84	8	418	44	2	1	51	1.24
57636--57935	88	3.4	88	79	6	308	41	7	14	36	1.74
57676--57943	91	3.0	91	79	5	289	42	8	14	34	1.76
57874--58141	68	3.9	68	81	7	283	44	8	15	31	1.76
62216--62559	122	2.8	120	84	9	394	52	2	2	43	1.25
62866--62920	22	2.4	23	85	8	69	27	1	7	63	1.31
62893--63174	111	2.4	115	84	11	332	42	1	3	52	1.27
63510--63556	18	2.7	17	83	3	58	57	0	0	42	0.98
64294--64341	22	2.2	22	81	7	53	41	2	4	52	1.32
65552--65655	17	6.1	18	68	18	53	37	0	1	60	1.08
65603--65650	19	2.6	18	86	6	60	31	0	2	66	1.03
73561--73593	2	17.0	2	87	6	50	48	0	3	48	1.17
75183--75235	27	2.0	27	100	0	106	47	22	7	22	1.76
75263--75315	26	2.0	26	100	0	106	41	11	15	32	1.82
77255--77492	119	2.0	119	90	0	379	42	21	15	20	1.89
80708--80741	18	1.9	17	88	5	50	52	0	0	47	1.00
81208--81247	14	2.8	14	84	3	53	42	0	0	57	0.98
81211--81256	15	3.1	15	81	9	51	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
81199--81271	25	3.0	25	72	9	60	45	1	0	53	1.09
81257--81302	24	2.0	23	87	12	67	45	2	0	52	1.13
81947--81990	16	2.9	16	87	12	58	45	0	0	54	0.99
82355--82379	12	2.1	12	100	0	50	36	24	16	24	1.94
84210--84251	16	2.5	17	88	3	59	26	0	0	73	0.83
84296--84362	24	2.8	23	75	4	62	64	0	0	35	0.94
84682--84730	22	2.2	23	85	7	66	16	20	0	63	1.31
84696--84737	21	2.0	22	85	4	59	16	21	0	61	1.34
95413--95450	12	3.2	12	77	7	51	36	0	0	63	0.95
95412--95471	30	2.0	29	87	9	86	41	0	0	58	0.98
105665--105716	27	2.0	27	84	3	70	40	1	1	55	1.22
106220--106289	24	2.8	24	82	10	79	47	21	10	21	1.80
106229--106318	27	3.4	27	83	4	96	46	20	10	23	1.80
106306--106363	26	2.3	25	91	5	91	25	12	25	36	1.91
109324--109391	27	2.5	27	87	0	100	48	20	7	23	1.74
110830--110863	4	8.5	4	87	12	52	50	20	2	26	1.63
116543--116574	7	4.6	7	100	0	64	15	28	0	56	1.40
118347--118383	2	18.5	2	100	0	74	48	0	0	51	1.00
119721--119777	16	3.4	16	73	9	51	42	0	0	57	0.98
119725--119803	28	2.8	28	75	9	79	44	0	1	54	1.08
120929--121005	41	1.9	40	84	10	104	48	2	1	48	1.23
121933--121992	24	2.5	25	75	8	70	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)
122506--122533	2	14.0	2	100	0	56	50	0	0	50	1.00
123169--123196	2	14.0	2	100	0	56	50	0	0	50	1.00
124935--124959	2	12.5	2	100	0	50	52	0	0	48	1.00
125214--125270	27	2.1	28	86	3	80	49	1	0	49	1.11
127841--127912	24	2.9	24	75	8	65	34	2	1	61	1.19
134429--134466	18	2.1	19	85	14	53	47	0	0	52	1.00
134410--134470	31	2.0	31	81	12	72	50	0	0	49	1.00
135447--135472	2	13.0	2	100	0	52	50	0	0	50	1.00
135532--135565	2	17.5	2	87	6	52	44	0	0	55	0.99
141830--141934	51	2.0	52	96	3	194	32	9	7	50	1.63
146903--146955	25	2.1	25	100	0	106	50	3	13	32	1.59
149568--149592	2	12.5	2	100	0	50	48	0	0	52	1.00
150291--150350	31	2.0	30	84	9	79	48	0	0	51	1.00
157148--157219	3	24.3	3	71	2	56	55	1	40	2	1.23
158030--158065	2	18.0	2	100	0	72	50	0	0	50	1.00
159621--159678	3	19.3	3	92	7	100	34	0	0	65	0.93
159983--160060	28	2.8	28	77	11	79	58	3	6	30	1.41
160057--160111	15	3.4	16	72	20	51	58	3	0	38	1.16
160069--160170	48	2.1	49	78	12	113	59	4	0	34	1.25
161914--161982	21	3.2	21	82	15	79	31	0	1	66	1.00
161861--161984	11	11.6	11	64	24	52	37	0	0	61	1.02
163719--163748	15	2.0	15	93	0	51	63	0	13	23	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
165400--165429	9	3.2	9	95	4	51	0	13	0	86	0.57

Tables:   1

The End!