genome.fa.s348.2.7.7.80.10.50.1000.1.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: Scaffold348
Parameters: 2 7 7 80 10 50 1000
Length:  425534

Tables:   1   2   3   

This is table  1  of  3  ( 355 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)
2347--2376	2	15.0	2	100	0	60	50	50	0	0	1.00
2943--2968	2	13.0	2	100	0	52	50	0	0	50	1.00
2961--3004	21	2.1	21	91	0	70	43	15	0	40	1.47
4558--4762	91	2.2	89	80	12	223	39	1	2	56	1.24
5358--5423	29	2.3	29	79	10	73	48	0	3	48	1.17
5477--5512	3	12.0	3	100	0	72	66	0	0	33	0.92
10308--10340	2	16.5	2	93	0	57	51	3	0	45	1.16
33848--33886	14	2.8	14	81	11	53	43	0	0	56	0.99
33808--33887	31	2.5	31	82	11	92	46	0	0	53	1.00
33808--33890	32	2.6	32	78	16	93	46	0	0	53	1.00
33920--33958	20	1.9	20	84	5	51	46	10	2	41	1.51
34527--34583	2	29.0	2	80	3	53	45	0	1	52	1.11
35695--35737	22	2.0	22	85	0	59	58	0	0	41	0.98
36099--36148	24	2.1	24	100	0	100	48	12	24	16	1.79
36194--36293	31	3.2	33	80	15	92	43	0	0	57	0.99
36216--36287	16	4.4	17	68	19	62	45	0	0	54	0.99
36189--36287	49	2.1	49	84	7	132	44	0	0	55	0.99
36202--36297	36	2.7	36	72	21	94	42	0	0	57	0.98
36188--36283	17	6.1	16	67	22	51	43	0	0	56	0.99
38957--39013	30	1.9	30	96	0	105	15	19	14	50	1.77
39197--39225	12	2.3	13	94	5	51	37	17	24	20	1.93
39520--39554	11	3.2	11	87	0	52	22	0	0	77	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39504--39555	17	2.9	17	80	8	59	25	0	0	75	0.81
41705--41756	21	2.5	21	83	0	59	63	1	0	34	1.06
42622--42701	16	4.9	16	77	7	72	46	28	11	13	1.78
42925--42985	22	2.8	22	83	11	74	50	0	0	49	1.00
44992--45030	3	13.0	3	94	0	69	30	0	2	66	1.05
45151--45191	3	13.7	3	100	0	82	68	0	0	31	0.90
48248--48319	34	2.1	35	94	2	128	44	15	25	15	1.85
49104--49172	27	2.6	27	79	9	79	37	0	2	59	1.12
49115--49190	33	2.3	32	82	11	82	40	0	1	57	1.07
49120--49253	47	2.8	47	80	13	132	41	0	1	56	1.13
49222--49246	9	2.8	9	100	0	50	44	0	0	56	0.99
49213--49277	18	3.6	19	75	21	77	41	3	0	55	1.15
49794--49818	13	1.9	13	100	0	50	36	16	16	32	1.90
49807--49858	20	2.7	19	78	3	59	32	15	11	40	1.83
49883--49920	20	1.9	20	88	0	58	39	10	15	34	1.82
56233--56258	9	2.9	9	100	0	52	34	19	0	46	1.50
58656--58680	13	1.9	13	100	0	50	36	8	16	40	1.77
60839--60883	3	15.0	3	80	0	54	33	4	28	33	1.77
61198--61233	17	2.1	18	89	5	56	52	0	0	47	1.00
63229--63268	21	1.9	21	85	10	55	70	5	7	17	1.30
68174--68198	2	12.5	2	100	0	50	48	0	0	52	1.00
70799--70845	3	15.7	3	95	0	85	34	2	0	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74801--74825	12	2.1	12	100	0	50	24	8	8	60	1.52
85378--85419	17	2.4	18	80	8	50	54	0	4	40	1.21
85711--85751	17	2.4	17	87	0	55	51	0	0	48	1.00
85927--86007	18	4.9	18	68	23	52	50	0	1	48	1.08
85969--86007	18	2.1	19	85	4	53	46	0	2	51	1.14
85924--86012	21	4.4	21	68	19	64	50	0	1	48	1.08
85954--86082	37	3.4	36	78	9	107	53	0	0	45	1.05
86797--86871	35	2.1	37	85	9	102	60	0	0	40	0.97
86817--86888	36	2.1	34	84	5	90	65	1	0	33	1.02
86818--86916	51	2.0	48	86	9	137	64	1	0	34	1.00
86912--86974	23	2.8	22	77	15	74	47	1	0	50	1.10
86913--86980	34	2.0	35	83	13	88	48	1	0	50	1.10
86912--86974	12	5.5	11	73	19	58	47	1	0	50	1.10
86898--87023	29	4.1	29	72	15	85	53	0	0	45	1.05
86896--86985	22	4.0	21	72	11	63	51	1	0	47	1.08
88194--88323	68	1.9	66	87	6	190	35	3	21	39	1.72
89975--90011	2	18.5	2	94	0	65	0	51	0	48	1.00
92484--92537	14	4.2	13	76	21	51	46	1	1	50	1.23
92551--92618	13	5.2	13	72	10	50	38	0	0	61	0.96
92567--92608	14	3.1	14	83	10	52	38	0	0	61	0.96
92540--92618	27	3.0	27	74	10	65	35	0	2	62	1.09
92550--92615	32	2.0	33	82	11	82	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92807--92845	16	2.4	16	86	0	51	30	0	0	69	0.89
95091--95127	18	2.1	18	89	0	56	48	0	2	48	1.15
95868--95912	15	3.0	15	86	0	54	35	0	0	64	0.94
96064--96128	28	2.2	29	83	8	78	55	1	0	43	1.09
96112--96162	16	3.2	16	88	2	68	68	1	0	29	1.00
100843--100959	58	2.0	59	91	1	191	23	7	25	42	1.81
104425--104456	10	3.2	10	90	0	55	0	0	12	87	0.54
105154--105213	31	1.9	31	83	12	79	46	1	5	46	1.34
105261--105303	22	1.9	23	85	4	61	46	2	0	51	1.13
106763--106799	17	2.2	17	90	0	56	67	0	2	29	1.04
112193--112240	24	2.0	24	91	0	78	47	22	6	22	1.73
112975--113078	24	4.3	24	92	0	154	16	21	30	31	1.95
114928--114959	15	2.2	15	94	5	57	46	0	3	50	1.17
115021--115114	32	2.8	32	85	4	107	44	3	0	52	1.17
115172--115233	23	2.7	23	82	7	72	46	1	1	50	1.20
115247--115296	22	2.3	23	79	10	59	56	2	0	42	1.11
115538--115609	17	4.4	16	76	13	67	50	0	1	48	1.09
115550--115616	16	4.2	16	71	17	50	50	0	0	49	1.00
115522--115619	32	2.9	33	75	18	94	50	1	1	47	1.14
115588--115639	18	2.8	19	81	16	56	51	0	3	44	1.19
115641--115681	18	2.3	18	95	0	73	58	0	0	41	0.98
115672--115729	22	2.6	23	76	20	61	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)
115790--115844	19	3.0	18	82	17	69	36	0	0	63	0.95
115883--115918	10	3.5	10	96	3	63	52	0	0	47	1.00
115953--115991	20	2.0	20	90	10	62	64	0	0	35	0.94
116682--116786	30	3.4	29	73	15	102	39	0	0	60	1.04
116689--116753	27	2.3	27	84	10	78	40	0	1	58	1.07
116769--116802	15	2.3	15	85	5	52	38	0	0	61	0.96
116711--116797	37	2.4	37	76	16	92	39	0	1	59	1.05
117071--117107	16	2.3	16	95	0	65	37	0	0	62	0.96
119965--120080	60	1.9	59	84	1	151	56	1	2	39	1.23
121035--121084	17	2.9	17	74	8	57	42	0	0	58	0.98
121731--121795	23	3.2	19	76	18	67	49	1	0	49	1.10
121705--121795	40	2.2	41	84	7	114	45	1	0	53	1.07
121976--122015	3	13.7	3	84	5	55	72	2	0	25	0.97
128684--128713	2	15.0	2	100	0	60	50	0	0	50	1.00
128721--128759	20	2.0	20	100	0	78	17	0	30	51	1.46
129849--129907	18	3.3	18	85	4	75	30	3	40	25	1.72
129867--129920	18	3.0	18	81	5	56	31	1	44	22	1.63
131164--131227	32	2.0	32	82	11	78	48	4	1	45	1.32
143700--143763	30	2.1	30	88	0	92	23	1	46	28	1.61
149875--149927	27	2.0	27	85	7	72	45	1	3	49	1.31
150151--150193	19	2.3	19	95	0	77	37	4	4	53	1.43
152420--152479	20	2.9	21	80	16	63	48	0	1	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
153451--153550	49	2.0	49	94	3	175	39	8	14	39	1.75
156853--157046	100	1.9	100	94	0	343	34	10	11	43	1.75
156873--157082	100	2.1	100	84	3	273	38	7	9	44	1.66
158921--158957	16	2.3	17	90	9	60	45	0	0	54	1.00
160144--160171	3	9.3	3	100	0	56	0	64	0	35	0.94
160470--160513	3	14.7	3	100	0	88	34	0	0	65	0.93
161167--161191	2	12.5	2	100	0	50	52	0	48	0	1.00
167315--167387	41	1.9	39	81	15	91	39	1	2	56	1.22
167589--167643	16	3.3	15	80	14	56	65	3	0	30	1.10
167596--167643	18	2.8	17	87	9	71	68	2	0	29	1.01

Tables:   1   2   3