genome.fa.s95.2.7.7.80.10.50.1000.1.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: Scaffold95
Parameters: 2 7 7 80 10 50 1000
Length:  582947

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 646 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)
160--222	26	2.3	27	83	5	74	46	1	3	49	1.27
1008--1059	25	2.1	25	82	7	61	57	3	0	38	1.17
2338--2400	24	2.6	25	75	12	69	36	3	0	60	1.13
2338--2403	7	8.1	8	73	23	50	34	3	0	62	1.11
2364--2409	19	2.4	19	85	7	67	34	2	0	63	1.07
3360--3403	19	2.2	20	80	4	54	36	4	2	56	1.32
3593--3618	8	3.2	8	100	0	52	65	0	0	34	0.93
3991--4041	20	2.4	21	81	15	61	45	0	0	54	0.99
5547--5588	9	4.7	9	82	8	50	42	2	0	54	1.13
6143--6185	22	2.0	22	81	9	52	62	0	0	37	0.95
10568--10678	55	2.0	55	98	0	213	43	5	11	39	1.64
11987--12037	12	3.9	12	78	16	57	39	11	5	43	1.66
16737--16787	12	3.9	12	78	16	57	39	11	5	43	1.66
18477--18862	140	2.7	140	84	9	476	21	15	5	57	1.59
18572--18910	152	2.2	151	87	6	472	24	15	6	54	1.64
21034--21077	23	1.9	23	81	9	54	29	0	9	61	1.27
21074--21136	27	2.3	28	76	13	69	28	0	11	60	1.31
21086--21151	33	2.1	31	83	11	80	27	0	10	62	1.28
21091--21273	75	2.5	70	78	12	192	33	1	9	55	1.41
21339--21386	16	2.9	16	84	12	62	68	2	27	2	1.11
21387--21436	23	2.2	24	80	16	63	74	0	26	0	0.83
21386--21434	12	4.2	12	79	10	57	73	0	26	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23314--23361	2	24.0	2	100	0	96	50	0	0	50	1.00
30054--30086	17	2.1	16	88	11	50	42	6	3	48	1.43
33791--33928	42	3.2	42	65	17	111	36	18	10	33	1.86
33768--33936	87	1.9	87	95	2	304	36	17	9	36	1.83
34396--34433	17	2.2	17	90	0	58	68	2	0	28	1.03
34499--34528	13	2.2	14	94	5	53	56	0	0	43	0.99
34521--34575	27	2.0	27	100	0	110	29	7	21	41	1.80
35058--35123	15	4.4	15	70	14	55	37	0	3	59	1.13
35052--35116	30	2.2	28	81	18	78	38	0	3	58	1.14
35453--35520	23	2.8	23	76	17	66	54	1	0	44	1.09
36407--36451	22	2.0	22	83	8	56	37	0	0	62	0.96
36441--36484	14	3.0	14	83	9	52	43	0	2	54	1.12
38192--38252	25	2.4	26	78	8	63	59	1	1	37	1.17
39602--39642	2	20.5	2	94	0	73	48	2	0	48	1.14
40842--40882	4	10.2	4	100	0	82	24	0	24	51	1.49
41453--41491	3	13.0	3	100	0	78	66	0	0	33	0.92
42311--42381	31	2.4	27	78	21	72	57	1	2	38	1.22
42674--42736	19	3.6	18	70	12	58	44	0	3	52	1.17
42677--42723	20	2.3	21	82	10	62	44	0	4	51	1.21
42707--42754	16	3.1	15	75	21	53	47	0	0	52	1.00
42674--42739	18	3.7	17	74	22	55	43	0	3	53	1.16
42697--42763	32	2.0	34	88	5	102	44	0	1	53	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42691--42760	20	4.0	18	74	25	62	47	0	1	51	1.09
42685--42763	17	4.8	16	70	22	56	44	0	1	54	1.08
42711--42779	19	3.5	19	75	13	50	40	1	1	56	1.17
44052--44102	24	2.1	25	81	3	59	54	3	1	39	1.30
44097--44130	17	2.0	17	100	0	68	58	0	0	41	0.98
44259--44299	15	2.5	17	80	11	50	24	2	2	70	1.11
45780--45885	28	3.7	29	71	17	87	43	2	0	53	1.15
45785--45857	28	2.6	27	85	8	92	42	1	0	56	1.08
45785--45877	29	3.2	28	78	15	84	43	2	0	54	1.12
46135--46165	13	2.4	13	100	0	62	22	0	38	38	1.54
46863--46929	33	2.0	33	100	0	134	34	11	23	29	1.91
47179--47215	17	2.4	16	86	13	51	32	0	0	67	0.91
47187--47221	17	2.0	18	94	5	63	28	0	2	68	1.04
47435--47491	27	2.1	27	83	6	71	40	1	0	57	1.09
47809--47842	14	2.4	14	90	9	52	58	0	0	41	0.98
51314--51347	17	2.0	17	88	0	50	38	20	5	35	1.77
53227--53268	21	2.0	20	86	9	57	52	0	0	47	1.00
53210--53283	23	3.1	25	71	15	75	48	0	0	51	1.00
54518--54546	3	9.7	3	100	0	58	65	0	0	34	0.93
55008--55066	17	3.6	16	73	13	57	37	0	0	62	0.95
55037--55080	16	2.8	16	86	10	56	34	0	0	65	0.93
55397--55443	17	2.6	19	80	16	64	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55381--55440	31	1.9	31	83	12	79	58	0	1	40	1.08
55743--55803	19	3.4	18	69	13	54	45	0	3	50	1.17
55797--55848	20	2.5	21	84	12	63	42	1	0	55	1.10
55797--55851	21	2.7	21	83	10	62	41	1	0	56	1.10
56351--56397	18	2.7	18	80	12	62	17	2	6	74	1.12
56360--56394	17	2.1	16	89	5	52	17	2	2	77	1.02
57905--57942	13	2.8	13	88	4	58	47	0	0	52	1.00
58700--58782	23	3.5	25	75	9	75	45	6	3	44	1.45
59361--59410	19	2.6	20	78	9	59	42	0	0	58	0.98
59352--59406	6	9.3	6	73	11	51	40	0	0	60	0.97
59706--59751	24	1.9	24	90	0	74	65	0	2	32	1.05
60124--60185	21	3.0	21	80	7	72	46	0	0	53	1.00
61168--61266	5	19.8	5	67	19	55	40	1	2	56	1.17
61209--61262	24	2.3	24	93	3	92	46	0	0	53	1.00
61798--61838	15	2.8	14	85	10	55	58	0	0	41	0.98
64845--64892	2	24.0	2	86	0	69	47	2	2	47	1.25
66658--66686	2	14.5	2	100	0	58	48	0	0	51	1.00
67421--67460	14	2.8	14	84	3	53	47	0	5	47	1.24
67483--67523	20	2.0	21	90	4	66	43	0	0	56	0.99
67492--67559	21	3.0	23	74	18	61	51	0	0	48	1.00
68734--68760	3	9.0	3	100	0	54	66	0	0	33	0.92
69597--69626	14	2.1	14	93	0	51	60	3	0	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69606--69647	21	2.0	21	86	9	59	61	0	2	35	1.09
69632--69667	13	2.8	13	82	0	54	55	0	5	38	1.23
69999--70130	5	27.4	5	67	18	75	40	0	0	59	0.98
70003--70092	14	5.6	17	75	19	70	42	0	0	57	0.98
70028--70147	30	4.0	31	77	13	108	41	0	0	57	1.04
70005--70143	18	7.2	20	71	21	84	40	0	0	58	1.03
70098--70138	12	3.4	12	84	15	50	39	0	0	60	0.96
70619--70697	13	6.1	13	70	15	65	58	0	35	6	1.24
70619--70697	39	2.0	39	82	4	97	58	0	35	6	1.24
70805--70852	12	4.1	12	84	10	64	25	0	2	72	0.95
70799--70848	23	2.1	24	89	10	77	30	0	2	68	1.01
71343--71393	24	2.1	25	81	3	59	56	3	0	39	1.18
72262--72295	13	2.5	13	85	4	50	47	0	0	52	1.00
74743--74800	25	2.3	25	79	5	64	46	0	0	53	1.00
74961--74994	9	3.7	9	88	7	50	29	0	0	70	0.87
75242--75347	22	4.7	23	74	16	80	66	1	0	32	1.03
75242--75330	12	7.8	11	78	20	78	68	1	0	30	0.97
75262--75347	33	2.6	33	81	15	106	66	2	0	31	1.04
77118--77153	18	2.1	17	89	5	54	38	0	0	61	0.96
78975--79017	21	2.1	21	83	12	54	44	0	2	53	1.13
79217--79262	22	2.0	25	87	12	71	50	0	0	50	1.00
79740--79778	20	2.0	20	90	5	62	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79742--79786	20	2.3	19	81	7	54	40	0	0	60	0.97
79725--79799	30	2.6	29	73	21	68	38	2	0	58	1.12
79794--79843	16	3.1	17	72	18	52	54	2	0	44	1.11
80440--80480	2	20.5	2	100	0	82	51	0	0	48	1.00
80598--80644	24	2.0	24	86	0	67	59	0	2	38	1.09
83436--83472	2	19.0	2	88	5	58	48	2	0	48	1.15
83439--83472	17	2.0	17	94	0	59	47	2	0	50	1.16
85045--85074	2	15.0	2	100	0	60	50	0	0	50	1.00
89172--89231	30	2.0	30	86	0	84	33	13	5	48	1.64
89959--90011	22	2.4	23	78	12	67	45	0	0	54	0.99

Tables:   1   2   3   4   5   6