genome.fa.s196.2.7.7.80.10.50.1000.3.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   46   47   

This is table  3  of  47  ( 5587 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)
345301--345482	92	2.0	90	91	2	292	37	13	19	29	1.90
346781--347155	192	2.0	191	86	2	520	35	22	10	30	1.88
353091--353172	39	2.1	39	81	4	94	21	10	20	46	1.81
353178--353215	20	1.9	20	100	0	76	31	21	13	34	1.91
355870--355960	48	2.0	45	82	6	110	48	2	2	47	1.26
358156--358189	17	2.0	17	88	0	50	64	2	0	32	1.08
360215--360290	25	3.2	25	62	24	65	26	10	9	53	1.65
360204--360293	45	2.0	45	100	0	180	24	11	11	53	1.68
360302--360393	11	8.5	11	65	20	52	44	0	0	55	0.99
360287--360340	22	2.5	22	85	5	76	42	0	1	55	1.10
360287--360343	20	2.8	21	82	10	73	42	0	1	56	1.10
360337--360417	32	2.8	27	72	27	76	44	0	0	55	0.99
360321--360387	13	4.7	14	68	21	50	46	0	0	53	1.00
360345--360406	32	1.9	32	87	6	90	48	0	0	51	1.00
360337--360429	27	3.3	26	71	21	71	45	0	0	54	0.99
363861--363937	13	6.2	12	76	13	50	46	0	0	53	1.00
363877--363917	19	2.1	20	86	4	57	51	0	0	48	1.00
363878--363924	13	3.8	12	83	10	58	53	0	0	46	1.00
363957--363993	18	2.0	19	85	15	51	54	0	0	45	1.00
364264--364482	51	4.3	51	86	4	282	31	16	18	32	1.94
368902--369131	50	4.6	50	92	0	361	27	19	20	31	1.97
369292--369345	11	4.9	10	79	18	54	14	3	1	79	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369820--369920	37	3.1	32	80	18	95	59	0	0	39	1.04
369830--369907	20	4.0	20	74	12	63	58	0	0	41	0.98
369865--369920	22	2.5	22	82	0	67	66	0	0	33	0.92
370192--370221	13	2.4	12	94	5	51	80	0	3	16	0.85
371680--371712	17	1.9	17	88	11	50	51	3	3	42	1.32
374440--374481	19	2.2	20	87	8	61	57	0	0	42	0.99
374757--374865	34	3.2	34	82	2	139	59	1	1	36	1.19
374734--374884	69	2.2	67	77	8	173	60	1	1	37	1.14
375209--375243	16	2.2	16	94	0	61	42	25	20	11	1.85
377069--377107	18	2.1	19	95	4	71	30	0	0	69	0.89
377067--377138	29	2.6	29	84	8	87	37	0	0	62	0.95
377122--377203	32	2.5	33	84	13	109	48	0	0	51	1.00
377188--377245	11	5.1	11	79	6	53	31	1	0	67	1.01
377188--377250	16	3.8	17	73	19	62	30	1	0	68	0.99
377387--377435	23	2.1	23	84	0	62	46	2	4	46	1.33
377497--377555	24	2.4	23	80	8	64	42	5	0	52	1.23
380904--380937	16	2.1	16	88	0	50	29	5	8	55	1.54
382529--382553	7	3.6	7	100	0	50	88	0	0	12	0.53
382980--383009	2	15.0	2	100	0	60	50	0	50	0	1.00
386561--386592	6	4.9	7	92	7	50	46	0	0	53	1.00
386565--386594	6	4.8	6	95	4	51	46	0	0	53	1.00
388016--388058	19	2.3	19	84	8	52	53	0	4	41	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388703--388797	30	3.1	30	79	11	86	37	3	2	56	1.27
388703--388775	32	2.3	31	84	9	87	35	4	2	57	1.32
388716--388797	30	2.7	31	80	16	91	41	1	1	56	1.15
388763--388806	21	2.0	21	86	8	61	47	0	0	52	1.00
389127--389155	14	2.1	14	100	0	58	37	0	27	34	1.57
389378--389414	18	2.1	17	90	5	56	29	0	2	67	1.04
389399--389567	5	36.0	5	65	19	71	40	0	1	57	1.14
389379--389426	18	2.4	19	80	16	53	33	0	2	64	1.05
389372--389427	29	1.9	29	85	0	76	32	0	1	66	1.03
389378--389505	8	14.9	8	69	23	57	42	0	1	56	1.09
389423--389505	27	2.9	26	72	26	78	46	0	1	51	1.08
389430--389508	32	2.4	32	84	14	99	45	0	1	53	1.08
389491--389567	23	3.3	24	83	5	95	33	1	2	62	1.17
389491--389567	11	6.6	12	75	14	72	33	1	2	62	1.17
389496--389567	34	2.1	34	84	5	92	33	1	2	62	1.18
389725--389793	32	2.2	32	82	10	88	55	0	0	44	0.99
389748--389841	14	6.8	14	66	15	52	45	0	0	54	0.99
389788--389837	20	2.5	20	81	12	57	36	0	0	64	0.94
393346--393420	31	2.4	31	93	0	123	25	13	17	44	1.85
393346--393439	31	3.0	30	84	7	109	27	11	17	43	1.83
393597--393639	20	2.2	20	95	0	77	41	16	9	32	1.80
393829--393878	24	2.1	23	85	3	64	46	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394228--394293	30	2.2	30	86	13	91	53	0	1	45	1.09
394251--394295	15	3.0	15	76	0	54	53	0	0	46	1.00
394515--394557	16	2.7	16	81	0	50	44	25	16	13	1.85
395324--395353	14	2.2	14	94	5	53	63	20	0	16	1.31
395568--395611	12	4.1	11	77	16	56	40	0	0	59	0.98
395569--395610	20	2.0	22	86	13	61	42	0	0	57	0.99
395568--395611	11	4.2	10	81	18	54	40	0	0	59	0.98
395747--395789	18	2.6	16	79	13	50	53	2	0	44	1.13
395977--396046	32	2.2	32	82	10	90	41	18	17	22	1.90
397794--397852	24	2.4	25	83	8	68	42	0	1	55	1.09
398865--399180	122	2.6	120	80	12	317	42	9	5	43	1.58
399665--399727	27	2.3	28	78	8	67	31	3	4	60	1.33
400712--400756	21	2.1	21	88	8	65	60	0	0	40	0.97
401490--401540	11	4.5	11	77	22	61	70	0	0	29	0.87
405761--405789	2	14.5	2	100	0	58	51	0	0	48	1.00
408088--408160	20	3.7	20	100	0	146	38	10	19	31	1.86
414871--414899	12	2.3	13	94	5	51	68	3	0	27	1.05
414906--415075	35	4.9	35	92	0	295	44	5	30	20	1.74
414966--415066	21	5.5	20	63	29	64	44	5	29	19	1.74
416476--417011	79	6.8	79	91	0	829	27	25	14	32	1.95
416966--417044	28	2.8	28	94	0	131	24	30	18	26	1.98
418830--418862	16	2.0	17	94	5	59	42	27	6	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419305--419361	29	1.9	30	85	3	80	35	3	3	57	1.33
420330--420374	16	2.8	16	79	3	54	40	13	4	42	1.64
420330--420400	16	4.4	16	74	1	52	35	14	8	42	1.75
421300--421339	15	2.6	16	92	4	64	27	15	12	45	1.82
421380--421427	5	9.6	5	82	13	55	54	2	0	43	1.12
421748--421794	22	2.0	23	84	12	60	59	2	0	38	1.09
421919--421952	12	2.7	13	86	9	52	88	0	11	0	0.52
422598--422640	22	2.0	22	86	4	61	6	4	23	65	1.37
423269--423325	19	3.0	19	73	14	55	45	1	0	52	1.11
423557--423594	14	2.7	14	88	8	51	50	0	0	50	1.00
423575--423669	26	3.6	25	77	11	75	56	3	0	40	1.15
427350--427414	32	2.0	32	96	0	121	47	13	18	20	1.82
428867--428908	22	1.9	22	90	0	66	45	9	16	28	1.79
431015--431082	6	10.8	6	79	16	50	58	0	0	41	0.98
431016--431078	19	3.3	18	77	16	65	58	0	0	41	0.98
431021--431160	25	5.5	25	70	13	88	55	0	0	43	1.04
431035--431154	27	4.7	27	70	15	94	53	0	0	45	1.06
431061--431150	18	4.7	20	65	19	57	51	0	1	47	1.08
431204--431232	15	2.0	15	93	6	51	24	0	0	75	0.80
431275--431322	17	2.8	17	81	6	62	25	0	25	50	1.50
432125--432175	19	2.5	20	81	6	59	66	3	0	29	1.09
433234--433292	22	2.7	24	75	17	65	38	0	1	59	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435509--435577	30	2.3	30	97	2	131	42	10	7	40	1.66
435514--435577	10	6.4	10	79	0	74	42	9	6	42	1.62
438201--438272	28	2.6	29	84	8	87	23	13	34	27	1.93
438298--438528	80	2.9	80	84	1	277	35	10	24	29	1.89
441280--441321	20	2.0	21	86	4	59	40	4	0	54	1.21
444744--444809	33	2.0	32	88	8	98	54	0	3	42	1.15
444862--444905	17	2.6	17	85	7	54	75	2	2	20	1.03
451110--451164	27	2.0	27	100	0	110	40	10	7	41	1.68
454226--454374	68	2.2	68	86	2	201	29	14	24	30	1.95
454226--454395	68	2.5	67	84	3	198	28	13	26	31	1.94

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   46   47