genome.fa.s64.2.7.7.80.10.50.1000.36.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  36  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)
6338715--6338766	20	2.7	20	88	8	72	38	19	11	30	1.87
6343980--6344017	20	1.9	20	88	0	58	39	10	18	31	1.85
6344058--6344107	20	2.5	20	86	0	64	40	16	14	30	1.87
6343932--6344119	72	2.6	71	84	4	218	40	12	16	29	1.86
6345001--6346069	28	38.3	28	84	5	629	26	15	31	26	1.96
6345601--6347431	109	16.9	107	82	6	1840	29	13	32	24	1.94
6345601--6347431	27	67.4	27	83	4	2013	29	13	32	24	1.94
6345601--6347431	82	22.5	81	83	4	2013	29	13	32	24	1.94
6345601--6347431	191	9.6	190	83	5	2060	29	13	32	24	1.94
6346057--6346096	20	2.0	20	90	0	62	25	5	42	27	1.75
6345601--6347431	55	33.7	50	77	10	476	29	13	32	24	1.94
6355905--6355981	20	3.9	19	81	8	100	42	12	12	31	1.81
6355999--6356053	20	2.8	20	88	0	83	41	12	10	34	1.78
6355876--6356053	92	1.9	91	87	3	259	43	12	14	29	1.83
6355925--6356137	73	2.9	72	93	1	372	42	13	15	29	1.85
6358258--6358305	4	12.5	4	82	8	55	50	0	6	43	1.27
6358258--6358305	6	8.3	6	84	6	55	50	0	6	43	1.27
6358258--6358305	10	5.0	10	87	5	55	50	0	6	43	1.27
6358751--6358775	13	1.9	13	100	0	50	60	0	0	40	0.97
6359820--6359844	13	1.9	13	100	0	50	60	0	0	40	0.97
6364382--6364419	16	2.6	14	84	15	51	36	10	18	34	1.85
6368129--6368258	34	3.9	34	87	7	169	33	12	23	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6368129--6368258	65	1.9	69	86	11	191	33	12	23	30	1.92
6368910--6368958	20	2.5	19	80	6	53	42	4	2	51	1.32
6370689--6370729	21	2.0	20	85	4	55	39	9	7	43	1.65
6371088--6371129	17	2.5	17	80	7	50	57	0	2	40	1.12
6375285--6375323	18	2.1	19	85	9	53	48	0	17	33	1.48
6378531--6378604	28	2.8	27	82	10	82	66	13	5	14	1.42
6378551--6378605	28	2.0	28	92	0	92	63	14	5	16	1.48
6380363--6380412	20	2.4	21	81	18	61	6	28	0	66	1.15
6381119--6381171	27	2.0	27	88	7	81	39	9	5	45	1.60
6381170--6381201	12	2.7	12	95	0	55	18	25	37	18	1.94
6384731--6384761	16	1.9	16	100	0	62	35	6	0	58	1.24
6385439--6385476	2	19.0	2	100	0	76	0	0	50	50	1.00
6389928--6390003	37	2.0	39	89	5	120	21	22	5	51	1.67
6391647--6391718	24	2.8	25	75	8	74	47	1	0	51	1.09
6391653--6391702	19	2.6	19	84	9	66	46	0	0	54	1.00
6392638--6392707	27	2.7	26	82	10	88	50	2	2	44	1.31
6395620--6395658	2	18.0	2	85	15	51	46	5	2	46	1.38
6395604--6395653	13	3.8	13	84	15	59	46	2	8	44	1.44
6396404--6396474	34	2.1	33	84	2	88	56	2	7	33	1.41
6396753--6396823	21	3.4	21	71	7	65	30	5	12	50	1.63
6396794--6396850	21	2.7	20	84	10	69	33	3	8	54	1.48
6396971--6397010	21	1.9	21	94	0	71	32	5	7	55	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6397653--6397713	32	1.9	31	90	3	95	32	6	8	52	1.57
6397690--6397762	21	3.5	21	84	0	101	34	5	8	52	1.55
6397677--6397965	42	7.0	42	69	9	119	34	7	8	49	1.62
6397781--6397946	21	7.9	21	70	7	104	34	9	7	48	1.64
6397775--6397965	83	2.3	83	80	5	197	35	8	7	48	1.62
6397911--6398086	32	5.6	32	71	18	93	34	4	7	53	1.49
6397939--6398064	62	2.0	61	80	8	139	37	4	5	52	1.46
6397986--6398081	21	4.7	21	84	3	115	33	2	6	58	1.35
6397968--6398111	62	2.3	62	80	4	157	34	4	8	53	1.50
6398374--6398679	21	14.6	21	65	19	97	37	6	8	47	1.61
6398894--6398933	9	4.2	9	84	9	53	40	2	2	55	1.27
6398894--6398933	19	2.1	20	86	9	57	40	2	2	55	1.27
6400463--6400523	14	4.3	14	72	8	52	36	0	0	63	0.94
6400463--6400495	16	2.2	16	89	10	52	27	0	0	72	0.85
6400467--6400527	27	2.3	26	83	8	79	37	0	0	62	0.96
6406272--6406312	17	2.3	18	83	8	57	75	0	0	24	0.80
6406325--6406390	18	3.7	19	74	25	65	45	0	1	53	1.09
6406334--6406405	27	2.7	27	79	12	69	48	0	0	51	1.00
6406325--6406427	45	2.1	52	81	13	130	51	0	1	46	1.12
6406604--6406631	1	28.0	1	100	0	56	0	0	0	100	0.00
6408978--6410535	446	3.6	446	78	11	1336	41	6	8	43	1.60
6411399--6411438	19	2.3	17	87	12	55	55	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6411569--6411616	21	2.3	20	85	7	60	33	0	4	62	1.14
6412021--6412058	19	2.0	19	89	0	58	47	0	0	52	1.00
6412074--6412117	21	2.0	22	87	12	65	63	0	0	36	0.95
6413047--6413072	13	2.0	13	100	0	52	30	7	46	15	1.74
6414414--6414443	15	1.9	16	93	6	53	66	10	0	23	1.21
6417069--6417452	79	4.9	77	81	5	394	31	16	26	26	1.96
6417074--6417453	158	2.4	157	82	4	444	31	16	25	26	1.96
6419394--6419448	20	2.8	20	91	0	92	43	14	14	27	1.84
6420041--6420460	61	6.9	61	84	4	515	29	18	25	26	1.98
6420041--6420460	123	3.4	123	86	2	569	29	18	25	26	1.98
6420500--6420648	62	2.4	62	88	2	221	28	18	26	25	1.98
6421633--6421684	1	52.0	1	80	0	50	1	3	5	88	0.68
6421619--6421681	20	3.2	18	80	10	63	1	9	4	84	0.84
6421633--6421684	22	2.4	21	84	9	61	1	3	5	88	0.68
6433453--6433839	79	4.9	78	79	6	311	33	15	23	27	1.95
6433461--6433839	158	2.4	157	79	4	397	33	15	23	27	1.95
6433776--6433900	50	2.5	50	86	1	169	40	13	20	25	1.89
6437815--6437864	14	3.5	14	82	12	66	28	2	14	56	1.49
6437814--6437870	29	1.9	30	92	3	98	29	3	12	54	1.54
6438281--6438340	28	2.1	29	84	9	79	28	5	1	65	1.23
6439974--6440038	22	3.0	23	84	4	55	36	7	15	40	1.76
6440112--6440170	21	2.8	21	97	0	109	44	10	8	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6440235--6440279	20	2.2	20	84	7	56	46	13	11	28	1.77
6445270--6445295	13	2.0	13	100	0	52	30	15	15	38	1.88
6445334--6445409	21	3.7	21	80	3	100	28	17	11	42	1.84
6445355--6445427	20	3.6	20	81	3	101	31	19	13	35	1.91
6445334--6445427	41	2.3	41	98	0	179	29	18	12	39	1.88
6447868--6447906	13	3.0	13	96	0	69	35	15	17	30	1.91
6447892--6447970	20	3.7	20	75	18	70	45	15	13	25	1.83
6449985--6450015	15	2.1	15	93	0	53	12	22	16	48	1.80
6454073--6454098	13	2.0	13	100	0	52	30	15	15	38	1.88
6454137--6454212	21	3.7	21	80	3	100	28	17	11	42	1.84
6454158--6454230	20	3.6	20	81	3	101	31	19	13	35	1.91
6454137--6454230	41	2.3	41	98	0	179	29	18	12	39	1.88
6458645--6458959	153	2.0	153	89	7	442	52	4	9	33	1.55
6458891--6458946	14	4.3	13	73	13	53	64	0	0	35	0.94
6459913--6459966	21	2.6	21	80	13	67	46	0	0	53	1.00
6465035--6465073	20	2.0	20	85	10	53	64	7	20	7	1.45
6466940--6466973	2	17.0	2	100	0	68	50	0	0	50	1.00
6467246--6467314	35	1.9	35	88	2	102	53	1	1	43	1.18
6467279--6467360	16	5.1	17	71	8	55	57	6	1	35	1.31
6467490--6467533	19	2.3	19	84	7	54	54	2	0	43	1.12
6469468--6469500	7	4.7	7	100	0	66	45	0	24	30	1.53
6470169--6470227	29	2.0	29	93	0	100	52	15	15	16	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6471120--6471173	26	2.1	26	100	0	108	31	18	3	46	1.67
6472364--6472405	2	21.0	2	100	0	84	50	0	0	50	1.00
6475656--6475784	62	2.1	63	89	2	199	45	7	28	17	1.76
6476391--6476454	27	2.4	28	81	5	78	45	18	9	26	1.80
6483977--6484009	14	2.4	14	90	10	50	36	0	0	63	0.95
6484392--6484434	12	3.5	13	81	6	54	27	2	0	69	1.00
6484826--6484876	13	3.8	13	73	17	50	60	3	0	35	1.15
6488011--6488041	2	15.5	2	100	0	62	0	48	0	51	1.00
6496169--6496208	18	2.2	18	86	0	53	50	5	2	42	1.37
6496862--6496891	16	1.9	15	93	6	51	26	16	3	53	1.59

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