genome.fa.s24.2.7.7.80.10.50.1000.1.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  1  of  19  ( 2215 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)
2834--2888	22	2.5	22	100	0	110	61	9	10	18	1.54
3796--3870	20	3.8	20	78	3	71	40	13	13	33	1.83
3793--3870	40	2.0	39	84	2	102	39	14	12	33	1.84
4366--5870	86	17.5	86	88	4	2109	22	17	31	28	1.96
4348--5870	29	53.2	29	87	4	2091	22	16	31	28	1.96
4348--5870	115	13.3	115	89	3	2113	22	16	31	28	1.96
7089--7160	19	3.7	19	80	15	58	2	4	9	83	0.88
7113--7161	13	3.7	13	86	5	71	0	0	12	87	0.54
7113--7161	14	3.4	15	84	15	68	0	0	12	87	0.54
7095--7162	27	2.5	27	85	7	84	1	2	11	83	0.82
20212--20267	22	2.5	22	100	0	112	62	8	10	17	1.52
21177--21251	20	3.8	20	80	3	80	40	12	13	34	1.81
21174--21251	40	2.0	39	87	2	111	39	12	12	34	1.82
23880--24003	58	2.2	57	81	8	144	40	2	6	50	1.41
23920--24090	84	2.0	84	88	2	254	36	3	7	52	1.47
23968--24030	30	2.2	29	83	11	76	36	1	7	53	1.40
24664--24700	18	2.1	18	89	0	56	16	18	32	32	1.93
29622--29678	17	3.1	19	75	17	57	36	3	0	59	1.14
29639--29728	17	5.6	16	69	28	50	36	1	0	62	1.03
29665--29724	16	4.1	15	72	22	56	36	0	0	63	0.95
29652--29696	20	2.2	20	80	0	54	35	0	0	64	0.94
29660--29715	27	2.0	28	90	10	89	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29652--29736	43	1.9	45	86	9	122	37	0	0	62	0.96
30172--30236	29	2.3	29	83	2	78	50	0	0	49	1.00
30203--30242	20	1.9	22	90	10	66	57	0	0	42	0.98
30208--30263	19	2.9	18	81	10	58	58	0	0	41	0.98
30222--30282	31	1.9	31	87	9	88	59	0	1	39	1.08
30782--30862	9	8.7	9	80	8	81	4	7	66	20	1.36
30782--30862	18	4.3	18	81	9	99	4	7	66	20	1.36
30789--30865	12	6.4	12	84	0	82	3	7	67	20	1.32
34363--34463	30	3.5	29	81	13	111	26	0	7	64	1.27
35012--35099	36	2.4	38	79	7	101	52	2	1	44	1.21
35031--35122	19	4.9	19	68	18	59	50	1	1	47	1.15
35537--35619	12	6.8	12	73	17	64	39	0	0	60	0.97
35565--35623	28	2.1	28	81	6	66	42	0	0	57	0.98
35715--35765	2	25.5	2	95	0	93	49	1	0	49	1.12
36040--36082	22	2.0	20	82	8	50	41	2	0	55	1.12
36223--36262	18	2.1	20	86	9	57	40	5	2	52	1.37
37493--37538	13	3.5	13	82	14	58	34	0	2	63	1.07
37492--37537	12	3.6	12	83	13	56	36	0	2	60	1.09
42083--42136	21	2.5	21	85	11	65	50	0	0	50	1.00
46879--46916	18	2.1	18	90	9	60	34	0	2	63	1.09
46935--46988	16	3.3	17	75	17	60	38	3	0	57	1.17
46932--47009	32	2.4	32	85	12	99	42	3	0	53	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47218--47257	21	1.9	21	89	0	62	62	0	0	37	0.95
47219--47263	14	3.3	13	84	6	54	66	0	0	33	0.92
47804--47871	16	4.2	16	70	24	54	63	0	0	36	0.95
48377--48420	11	3.6	12	82	11	54	45	0	0	54	0.99
48386--48436	27	1.9	26	84	11	68	49	0	0	50	1.00
48490--48534	7	6.0	8	77	12	51	60	0	0	40	0.97
48491--48537	22	2.1	23	84	7	62	61	0	0	38	0.96
48462--48606	64	2.2	62	80	11	141	55	0	0	44	1.04
48493--48602	34	2.9	38	72	16	95	58	0	0	40	1.04
48583--48624	15	2.6	16	88	7	59	54	2	0	42	1.13
49246--49308	31	2.1	29	88	5	90	41	0	1	57	1.08
49293--49349	16	3.6	16	71	4	53	35	1	0	63	1.05
49300--49366	31	2.1	32	83	8	84	35	4	0	59	1.18
50370--50431	28	2.3	25	80	20	72	25	1	11	61	1.39
50436--50488	19	2.9	19	88	5	74	56	0	3	39	1.17
50617--50778	31	4.7	37	72	17	107	39	3	6	50	1.45
50642--50740	31	3.2	30	81	11	119	42	4	6	47	1.47
51264--51320	27	2.1	27	83	6	71	45	1	0	52	1.11
53826--53886	22	2.7	22	74	20	63	60	1	3	34	1.23
53929--53979	17	2.8	17	77	13	57	56	1	0	41	1.10
54632--54687	11	4.9	12	80	12	73	33	3	0	62	1.12
55542--55578	18	2.0	18	89	5	56	29	2	0	67	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55818--55923	10	10.5	10	66	20	51	43	0	2	52	1.22
57502--57613	48	2.3	46	80	11	120	47	6	8	38	1.58
57580--57641	32	1.9	32	83	9	81	48	9	6	35	1.62
57533--57692	80	2.0	77	80	10	173	46	6	8	38	1.59
57420--57694	127	2.1	127	83	8	335	45	6	8	38	1.62
57420--57738	128	2.5	126	80	11	339	44	7	9	38	1.64
57766--57792	2	13.5	2	100	0	54	51	0	0	48	1.00
57980--58024	18	2.6	16	83	13	54	71	0	0	28	0.87
57979--58026	11	4.2	11	78	5	51	68	0	0	31	0.90
58038--58093	16	3.4	17	79	18	73	51	0	0	48	1.00
57989--58111	32	4.5	26	71	21	72	57	0	0	41	1.04
58506--58547	21	2.0	21	86	13	59	57	2	0	40	1.12
59820--59857	16	2.3	17	86	4	51	86	0	13	0	0.56
60901--60967	30	2.2	30	81	7	73	37	2	2	56	1.30
60992--61064	22	3.2	23	76	5	76	52	6	6	34	1.55
62944--62991	18	2.7	18	80	6	53	52	2	0	45	1.12
63012--63045	18	2.0	18	88	11	54	14	14	0	70	1.17
67952--68012	24	2.6	24	80	17	74	57	1	0	40	1.08
67952--67996	23	1.9	22	86	13	63	57	2	0	40	1.11
69316--69383	27	2.5	27	86	11	86	35	8	19	36	1.83
71201--71258	20	2.7	21	84	10	73	51	0	0	48	1.00
73211--73241	6	5.2	6	96	0	53	29	0	3	67	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
73424--73480	30	1.9	30	85	0	78	50	7	12	29	1.66
77788--77825	19	2.0	19	90	10	60	52	0	7	39	1.31
77908--77986	22	3.7	22	77	15	69	63	2	0	34	1.08
77922--78028	17	6.5	17	69	20	57	59	2	0	37	1.12
77908--77993	11	7.2	12	72	22	58	62	2	0	34	1.08
77911--78001	34	2.8	32	82	11	103	62	2	0	35	1.07
77928--78003	11	6.2	12	74	21	61	60	1	0	38	1.05
78370--78419	17	3.1	17	72	21	61	56	0	0	44	0.99
78349--78421	32	2.2	33	88	7	114	60	0	0	39	0.97
78361--78426	20	3.7	19	73	26	72	56	0	0	43	0.99
78659--78734	23	3.4	23	71	10	68	59	0	1	39	1.06
78663--78734	16	4.4	16	81	16	69	58	0	1	40	1.07
79693--79731	20	2.0	19	85	5	51	56	0	0	43	0.99
91883--91953	27	2.5	28	75	6	81	52	0	2	45	1.15
93200--93356	27	5.8	26	71	16	88	41	0	0	58	0.98
93232--93320	32	2.8	33	81	11	105	42	0	0	57	0.98
93232--93356	38	3.3	38	69	20	100	40	0	0	59	0.98
93232--93330	32	3.0	32	75	17	96	41	0	0	58	0.98
94047--94080	2	17.0	2	93	0	59	50	2	0	47	1.16
94708--94746	20	2.0	20	85	5	53	56	2	5	35	1.35
97100--97179	35	2.3	35	78	18	87	27	1	5	66	1.20
101472--101515	22	2.0	22	90	0	70	50	0	22	27	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
101937--102064	20	5.8	20	73	21	114	30	18	10	39	1.85
101975--102112	51	2.7	51	89	3	206	28	18	10	41	1.85
109274--109328	20	2.7	21	86	5	69	21	18	18	41	1.90
112352--112410	13	4.1	15	79	16	56	77	0	20	1	0.85
112349--112415	10	6.4	10	83	14	73	80	0	17	1	0.79
112348--112415	20	3.3	20	83	2	82	80	0	17	1	0.78
118821--118866	23	2.0	24	86	4	67	71	10	13	4	1.27
120174--121285	27	40.6	27	92	2	1801	23	34	14	27	1.94
120174--121285	55	20.3	54	92	2	1801	23	34	14	27	1.94
120174--121285	82	13.5	81	92	2	1801	23	34	14	27	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19