genome.fa.s8.2.7.7.80.10.50.1000.33.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  33  of  33  ( 3942 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)
6261875--6261939	14	4.6	14	76	14	53	80	0	12	7	0.91
6261849--6261931	33	2.5	31	80	9	85	78	0	10	10	0.97
6261907--6261937	16	1.9	16	93	0	53	77	0	12	9	0.99
6262757--6262802	23	2.0	23	91	0	74	32	21	26	19	1.97
6265356--6265401	3	15.3	3	95	0	74	67	4	0	28	1.10
6265356--6265411	21	2.7	21	86	5	69	67	5	1	25	1.21
6265742--6265789	3	16.0	3	91	0	60	25	0	8	66	1.19
6266753--6266792	21	1.9	21	84	0	53	47	2	7	42	1.45
6270521--6270554	2	17.0	2	93	0	59	47	0	0	52	1.00
6271652--6271684	6	5.5	6	100	0	66	84	0	0	15	0.61
6272107--6272230	12	10.3	12	83	3	160	9	33	0	56	1.38
6273588--6273634	14	3.5	13	83	16	60	44	0	2	53	1.12
6274766--6274799	17	2.1	17	88	5	52	50	2	14	32	1.58
6275275--6275316	21	2.0	20	86	13	57	0	28	0	71	0.86
6275256--6275312	24	2.3	25	82	17	66	0	26	0	73	0.83
6277721--6277761	2	20.5	2	100	0	82	48	0	0	51	1.00
6278783--6278824	20	2.1	20	82	8	50	45	0	0	54	0.99
6279346--6279392	18	2.6	19	83	12	64	25	0	0	74	0.82
6279450--6279533	37	2.2	39	81	8	102	52	0	3	44	1.18
6285543--6285579	2	18.5	2	100	0	74	48	0	0	51	1.00
6286576--6286605	16	1.9	15	93	6	51	53	0	0	46	1.00
6290443--6290542	16	6.2	16	78	9	89	16	16	27	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6291594--6291686	16	5.9	16	76	6	82	13	18	27	39	1.89
6291593--6291698	16	6.7	15	75	9	70	14	17	30	37	1.90
6296687--6296747	26	2.3	26	85	2	77	16	16	18	49	1.80
6297974--6298023	17	2.9	17	96	0	91	38	16	22	24	1.93
6298058--6298109	20	2.5	21	87	3	70	34	13	19	32	1.90
6303302--6303331	15	2.0	15	93	0	51	63	3	0	33	1.11
6303117--6303376	147	1.8	139	80	9	296	56	5	6	31	1.47
6303785--6303827	20	2.2	20	87	4	61	46	0	2	51	1.13
6304404--6304459	19	2.8	20	78	8	69	51	1	1	44	1.22
6304600--6304630	3	10.7	3	93	6	55	64	0	0	35	0.94
6305732--6305924	72	2.6	72	80	8	210	30	1	12	55	1.46
6305985--6306042	9	6.6	9	82	9	75	84	0	15	0	0.62
6311860--6312017	86	1.8	86	87	2	237	31	17	8	41	1.80
6312160--6312469	166	1.9	166	82	4	401	36	13	6	43	1.70
6312429--6312566	38	3.6	38	76	8	109	42	8	1	47	1.43
6312837--6312891	14	3.7	14	78	9	56	54	3	0	41	1.18
6312849--6312882	14	2.4	14	95	0	59	61	0	0	38	0.96
6313096--6313160	25	2.8	24	84	9	82	52	0	0	47	1.00
6317286--6317318	2	16.5	2	93	0	57	48	3	0	48	1.17
6319305--6319334	2	15.0	2	100	0	60	50	0	0	50	1.00
6320558--6320582	2	12.5	2	100	0	50	48	0	52	0	1.00
6324133--6324231	35	2.8	32	78	18	108	34	18	9	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6328610--6328638	2	14.5	2	100	0	58	51	0	0	48	1.00
6328856--6328905	22	2.3	21	86	10	66	64	0	0	36	0.94
6328856--6328916	23	2.7	23	85	7	72	62	0	0	37	0.96
6331053--6331078	3	8.7	3	100	0	52	69	0	30	0	0.89
6335335--6335376	18	2.3	18	91	0	66	73	4	2	19	1.12
6340563--6340607	23	2.0	23	100	0	90	46	8	13	31	1.74
6340597--6340674	28	2.9	28	88	7	119	60	6	10	23	1.52
6343009--6343065	24	2.4	24	96	0	105	61	12	14	12	1.57
6365252--6365304	20	2.5	20	90	6	79	13	1	39	45	1.54
6365300--6365366	21	3.2	21	82	0	80	25	1	34	38	1.65
6365323--6365353	14	2.2	14	94	0	53	29	0	35	35	1.58
6365426--6365475	21	2.4	21	82	0	55	16	0	44	40	1.47
6365440--6365490	21	2.5	20	81	9	57	13	3	41	41	1.63
6365531--6365595	28	2.3	28	78	5	69	30	0	33	35	1.58
6365550--6365592	14	3.1	14	78	15	54	25	0	39	34	1.56
6365549--6365600	21	2.5	21	77	0	59	23	0	40	36	1.55
6367689--6367749	29	2.1	30	84	9	81	73	8	9	8	1.24
6367697--6367799	46	2.3	46	83	14	142	76	6	10	5	1.14
6367750--6367816	36	1.9	35	85	8	93	76	4	13	5	1.13
6368730--6368770	2	20.5	2	100	0	82	0	48	0	51	1.00
6369525--6369604	40	2.0	40	100	0	160	50	7	12	30	1.68
6371888--6371938	24	2.1	24	85	10	68	47	7	7	37	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6372915--6372946	16	2.0	16	100	0	64	37	6	31	25	1.81
6373042--6377282	15	276.2	14	71	21	1940	39	38	15	6	1.72
6373045--6377169	29	133.8	31	69	22	465	39	38	15	6	1.72
6373042--6377282	7	552.4	7	71	21	1940	39	38	15	6	1.72
6373046--6374648	22	70.1	24	70	21	177	41	38	15	4	1.66
6373125--6373314	32	6.3	33	81	13	88	41	42	14	1	1.53
6373530--6374663	43	25.3	44	69	21	216	42	38	14	4	1.66
6375147--6375241	25	3.9	24	79	10	104	42	37	13	6	1.70
6375144--6375223	32	2.5	33	80	13	96	41	38	13	6	1.70
6375904--6375939	19	1.9	19	88	5	56	38	36	16	8	1.79
6376070--6377136	73	14.6	71	69	21	223	38	40	14	5	1.71
6377186--6377432	13	17.6	13	78	16	192	42	42	2	13	1.55
6377225--6377282	23	2.6	23	76	15	68	44	39	5	10	1.61
6377112--6377445	7	47.4	7	76	14	244	41	42	3	11	1.59
6377288--6377438	6	22.8	6	74	16	88	42	43	0	13	1.48
6377436--6378193	7	105.6	7	78	16	505	30	55	11	2	1.48
6377436--6378193	22	35.2	21	76	16	505	30	55	11	2	1.48
6377436--6378193	15	52.8	14	77	16	505	30	55	11	2	1.48
6377933--6377961	9	3.3	9	95	4	51	27	62	10	0	1.28
6378178--6378299	14	8.8	13	72	15	66	35	53	4	6	1.49
6377381--6378258	7	122.4	7	76	14	259	32	54	10	3	1.50
6378278--6378362	7	12.3	7	77	20	81	28	55	15	1	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6378278--6378362	15	6.1	14	78	17	81	28	55	15	1	1.48
6378278--6378361	13	6.2	13	76	19	66	28	54	15	1	1.48
6378317--6378355	20	1.9	21	94	5	71	23	61	12	2	1.43
6378310--6378368	28	2.1	28	84	6	75	22	64	11	1	1.35
6378317--6378389	28	2.6	28	80	6	69	24	65	6	2	1.30
6378403--6378436	16	2.1	16	94	0	59	41	32	5	20	1.76
6378452--6378642	7	28.4	7	79	13	138	32	51	13	2	1.53
6378438--6378642	14	15.3	13	81	12	168	32	51	13	2	1.54
6378461--6378502	15	2.9	15	93	6	70	40	42	16	0	1.48
6378451--6378635	21	9.1	20	82	9	198	32	51	13	2	1.53
6378631--6378701	7	10.3	7	75	22	53	40	40	2	15	1.62
6378637--6378697	21	3.0	20	81	18	65	39	42	1	16	1.58
6378754--6378807	7	7.6	7	77	4	54	48	18	0	33	1.49
6378754--6378807	14	3.8	14	90	4	81	48	18	0	33	1.49

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

The End!