genome.fa.s64.2.7.7.80.10.50.1000.1.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  1  of  45  ( 5312 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)
10--2834	7	401.6	7	76	12	1433	41	42	8	8	1.64
15--2145	57	37.9	54	72	15	814	41	41	9	7	1.65
721--788	6	10.7	6	76	17	57	39	45	13	1	1.52
2686--2834	27	5.4	28	95	2	259	30	56	12	0	1.37
2816--2914	7	14.3	7	74	6	67	43	38	1	17	1.56
2822--2914	21	4.5	21	76	2	80	44	36	1	18	1.57
2963--3084	14	8.8	14	67	8	70	31	45	2	19	1.63
3066--3113	21	2.3	21	74	0	51	37	39	0	22	1.55
3097--3220	7	18.1	7	71	17	55	42	37	0	20	1.52
3101--3202	42	2.5	42	82	4	118	43	34	0	22	1.54
3101--3221	14	8.9	14	73	11	74	43	35	0	20	1.52
3149--3368	7	31.7	7	67	16	57	39	33	2	24	1.70
3224--3263	20	2.0	21	85	14	57	35	40	5	20	1.74
3281--3328	15	3.2	15	71	11	53	39	25	4	31	1.74
4971--5004	14	2.4	14	85	0	50	50	0	0	50	1.00
7632--7705	24	3.0	24	98	2	139	37	8	4	50	1.51
10742--10806	2	32.5	2	96	0	121	49	0	50	0	1.00
12994--13036	20	2.1	21	91	4	70	53	34	0	11	1.37
12980--13066	27	3.2	26	76	9	77	43	39	1	16	1.55
13121--13190	20	3.5	20	69	11	52	42	28	0	28	1.56
13134--13225	21	4.5	21	74	8	73	45	26	0	28	1.54
13161--13218	14	4.2	14	73	18	50	48	22	0	29	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13231--13289	14	4.2	14	78	4	57	37	35	10	16	1.83
13231--13296	21	3.1	21	76	4	62	39	34	9	16	1.80
13529--13572	20	2.2	20	84	8	54	45	34	0	20	1.51
13592--13661	22	3.3	22	80	6	81	37	41	4	17	1.69
13677--13726	21	2.4	21	86	6	66	40	32	2	26	1.67
13759--13807	14	3.6	14	72	22	50	44	30	0	24	1.54
14397--14434	18	2.1	18	100	0	76	39	21	10	28	1.86
21603--21640	19	2.0	19	89	0	58	26	15	26	31	1.96
24384--24455	33	2.1	34	79	2	83	41	12	15	30	1.84
25949--26090	76	1.9	75	83	8	184	52	2	1	43	1.21
26077--26121	23	2.0	23	100	0	90	68	0	0	31	0.89
26511--26539	15	2.0	15	93	6	51	27	0	3	68	1.05
34280--34316	11	2.9	13	80	19	51	29	8	0	62	1.24
34280--34342	25	2.6	24	80	5	74	28	11	0	60	1.31
34407--34452	7	6.4	7	80	5	56	56	36	0	6	1.25
34407--34472	22	3.0	22	86	2	80	54	36	1	7	1.38
34512--34686	7	25.1	7	69	15	87	40	30	0	29	1.57
34514--34552	20	1.9	20	94	5	69	43	23	0	33	1.54
34549--34612	22	2.9	22	80	0	83	40	28	0	31	1.57
34635--34687	20	2.6	20	81	3	52	43	26	0	30	1.55
34641--34678	13	2.8	14	84	8	51	47	23	0	28	1.52
34729--34774	21	2.2	21	88	0	65	32	43	2	21	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35613--35681	37	1.9	34	85	8	93	71	2	23	2	1.14
35660--35710	19	2.5	20	81	15	61	72	3	17	5	1.20
35654--35718	19	3.4	18	76	12	60	73	4	16	4	1.17
43532--43560	2	14.5	2	100	0	58	0	0	48	51	1.00
44460--44486	1	27.0	1	100	0	54	0	0	100	0	0.00
46998--47039	21	2.0	22	86	9	61	52	0	0	47	1.00
49123--49305	91	2.0	91	92	0	303	39	16	19	25	1.91
52437--52482	21	2.1	22	84	4	58	21	32	17	28	1.96
54934--54958	13	1.9	13	100	0	50	52	8	32	8	1.60
56526--56632	19	6.1	19	68	18	61	52	0	3	43	1.19
56534--56630	6	15.7	6	68	14	54	50	0	3	46	1.17
56532--56619	27	3.4	26	74	11	83	48	0	4	46	1.22
56600--56630	16	1.9	16	100	0	62	58	0	0	41	0.98
56753--56816	14	4.4	14	76	7	56	56	1	0	42	1.09
56763--56816	15	3.7	15	80	2	65	55	1	0	42	1.10
56762--56824	15	4.3	14	76	13	56	57	3	0	39	1.15
56984--57040	20	3.0	20	77	7	66	40	0	1	57	1.09
57513--57589	14	5.1	15	72	14	61	51	1	1	45	1.17
57654--57698	15	3.1	14	81	9	54	62	0	0	37	0.96
57910--57946	19	1.9	19	88	0	56	29	13	5	51	1.63
58852--58889	14	2.7	14	100	0	76	65	5	7	21	1.38
59511--59554	15	3.1	15	77	12	56	43	2	2	52	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59724--60054	74	4.6	73	81	5	338	31	3	13	52	1.55
59728--60055	147	2.3	140	80	10	344	30	3	13	53	1.55
61291--61623	147	2.3	140	80	10	368	54	13	3	28	1.54
61291--61624	73	4.6	72	80	8	333	54	13	2	28	1.54
66220--66267	23	2.1	22	84	3	60	45	6	12	35	1.67
66243--66302	31	1.9	30	83	10	75	41	11	6	40	1.68
66454--66506	19	2.9	19	91	5	83	37	5	0	56	1.23
66785--66831	13	3.4	13	78	16	58	34	0	4	61	1.15
66773--66842	29	2.4	30	85	7	90	42	0	4	52	1.20
66785--66842	29	2.0	29	93	3	98	41	0	3	55	1.17
66788--66852	30	2.2	29	86	2	85	38	3	6	52	1.42
70193--70236	18	2.5	18	77	3	54	0	40	2	56	1.11
71846--71883	2	19.0	2	100	0	76	50	0	0	50	1.00
72780--72813	2	16.5	2	93	6	59	47	0	2	50	1.16
75142--75172	2	15.5	2	100	0	62	48	0	0	51	1.00
80121--80167	19	2.5	19	82	10	60	17	0	6	76	0.98
80119--80167	10	5.1	10	72	18	50	16	0	6	77	0.96
84998--85029	5	6.2	5	96	3	55	3	0	18	78	0.89
85478--85513	3	12.0	3	93	0	63	36	0	0	63	0.94
87586--87619	4	8.5	4	100	0	68	26	23	0	50	1.50
91544--91575	2	16.0	2	100	0	64	50	0	0	50	1.00
97390--97414	13	1.9	13	100	0	50	20	0	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97402--97438	19	2.1	19	85	10	51	40	0	0	59	0.97
103088--103253	84	2.0	84	91	0	269	24	16	31	27	1.97
105444--105470	2	13.5	2	100	0	54	48	0	0	51	1.00
105490--105518	3	9.7	3	100	0	58	31	0	0	68	0.89
107575--107617	2	21.5	2	90	0	68	0	4	48	46	1.22
107880--107906	5	5.4	5	100	0	54	22	37	0	40	1.54
108117--108196	40	2.0	40	97	0	151	37	10	13	38	1.79
108306--108336	4	7.8	4	100	0	62	25	48	25	0	1.52
108376--108419	3	14.7	3	100	0	88	65	0	0	34	0.93
110459--110485	3	9.0	3	100	0	54	66	0	0	33	0.92
110693--110735	2	21.5	2	95	0	77	0	46	0	53	1.00
111209--111251	3	14.3	3	95	0	77	62	2	0	34	1.08
111452--111487	2	18.0	2	100	0	72	50	0	0	50	1.00
111584--111610	2	13.5	2	100	0	54	48	0	0	51	1.00
118049--118078	6	5.0	6	100	0	60	16	50	16	16	1.79
124054--124078	11	2.3	11	100	0	50	0	8	0	92	0.40
124694--124770	38	2.0	38	94	0	136	41	14	16	27	1.87
129381--129442	30	2.1	30	81	3	72	24	9	12	53	1.69
129393--129450	30	1.9	30	89	0	89	25	6	13	53	1.65
143246--143270	13	1.9	13	100	0	50	48	0	0	52	1.00
143820--143858	2	19.5	2	89	0	60	53	2	0	43	1.14
145552--145585	6	5.7	6	100	0	68	0	67	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149213--149246	16	2.1	16	94	0	59	50	8	23	17	1.74
155826--155850	5	5.0	5	100	0	50	0	80	0	20	0.72
157824--157874	5	10.2	5	83	12	61	0	39	0	60	0.97
157824--157878	3	20.3	3	72	20	50	0	38	0	61	0.96
157824--157878	13	4.1	15	71	21	50	0	38	0	61	0.96
163127--163238	16	7.2	14	75	18	73	33	0	5	60	1.19
163127--163235	31	3.5	32	76	10	109	34	0	5	59	1.21
175082--175113	2	16.0	2	100	0	64	50	0	0	50	1.00
178906--178936	5	6.0	5	92	7	53	0	22	38	38	1.54
179273--179317	23	2.0	23	95	0	81	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45