genome.fa.s499.2.7.7.80.10.50.1000.3.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: Scaffold499
Parameters: 2 7 7 80 10 50 1000
Length:  498087

Tables:   1   2   3   4   

This is table  3  of  4  ( 448 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)
285958--285988	5	6.4	5	92	7	55	38	0	0	61	0.96
285958--285995	10	4.1	9	93	6	51	39	0	0	60	0.97
286235--286277	18	2.4	18	84	3	61	34	0	0	65	0.93
286330--286381	22	2.3	24	78	18	58	46	0	1	51	1.12
291959--291991	2	16.5	2	100	0	66	51	0	48	0	1.00
294044--294102	29	2.0	29	90	0	91	45	15	10	28	1.78
299015--299090	2	38.0	2	91	0	125	51	0	1	47	1.09
299750--299804	25	2.2	26	87	9	78	50	0	0	49	1.00
299830--299887	27	2.1	28	81	12	66	63	3	0	32	1.11
299886--300585	351	2.0	346	90	4	1088	36	8	5	50	1.56
301267--301297	2	15.5	2	100	0	62	0	48	0	51	1.00
303138--303180	11	3.7	12	78	15	54	55	0	2	41	1.12
313813--313842	15	2.0	15	93	0	51	56	0	0	43	0.99
316635--316675	18	2.2	20	86	8	59	41	2	0	56	1.13
317207--317248	16	2.7	15	85	10	50	40	2	2	54	1.26
317314--317366	21	2.5	20	77	19	63	49	0	13	37	1.42
317557--317618	17	3.5	17	72	12	54	58	0	0	41	0.98
317552--317622	36	2.0	36	86	5	99	57	0	0	42	0.98
318177--318214	19	2.0	19	89	0	58	26	2	2	68	1.16
318801--318829	8	3.6	8	100	0	58	62	0	0	37	0.96
318887--318918	17	1.9	17	93	6	57	65	0	0	34	0.93
319155--319196	14	3.1	14	79	6	50	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319703--319777	31	2.3	32	80	13	82	37	0	2	60	1.11
319749--319790	18	2.2	18	91	8	66	38	0	0	61	0.96
320855--320928	29	2.5	28	82	8	94	51	0	0	48	1.00
320918--320951	15	2.2	16	89	5	52	47	0	0	52	1.00
321276--321329	14	4.2	14	75	20	55	53	0	0	46	1.00
321386--321420	17	2.2	16	90	10	54	48	0	0	51	1.00
321688--321712	2	12.5	2	100	0	50	48	0	0	52	1.00
322547--322575	14	2.0	15	93	6	51	41	0	3	55	1.17
324444--324493	3	17.0	3	79	4	57	32	6	2	60	1.32
324444--324499	9	6.3	9	81	2	60	32	7	3	57	1.43
325572--325597	2	13.0	2	100	0	52	50	0	0	50	1.00
329494--329530	10	3.7	10	92	7	58	51	5	0	43	1.24
330321--330360	21	1.9	21	94	0	71	22	27	17	32	1.96
331045--331099	24	2.3	23	79	14	58	49	0	7	43	1.30
331657--331710	27	2.0	28	85	3	74	50	0	0	50	1.00
331676--331763	41	2.2	39	82	13	108	56	0	0	43	0.99
336750--336798	4	12.2	4	82	0	53	44	4	6	44	1.47
336750--336798	10	4.9	10	84	0	53	44	4	6	44	1.47
336750--336798	6	8.2	6	88	0	53	44	4	6	44	1.47
343993--344137	78	1.8	79	98	1	283	44	4	30	20	1.72
345195--345227	2	16.5	2	100	0	66	51	0	48	0	1.00
353942--353972	11	2.8	11	95	0	53	12	0	9	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353942--353984	21	2.0	22	86	4	61	13	0	16	69	1.19
354233--354271	15	2.6	16	88	8	55	35	0	7	56	1.28
355158--355183	6	4.3	6	100	0	52	61	0	0	38	0.96
355176--355235	21	3.0	21	74	13	63	43	0	0	56	0.99
355139--355225	21	4.3	21	77	12	85	54	0	0	45	1.00
355216--355249	18	1.9	18	94	5	61	38	0	0	61	0.96
355221--355282	25	2.7	23	75	18	58	45	0	0	54	0.99
355219--355290	20	3.5	20	71	20	58	47	0	0	52	1.00
355217--355302	44	2.0	43	81	6	102	47	1	0	51	1.08
356089--356154	16	4.4	14	75	16	53	63	0	0	36	0.95
356117--356159	8	5.0	8	81	13	50	67	0	0	32	0.91
357559--357632	15	5.3	15	68	23	54	39	0	0	60	0.97
358570--358622	16	3.2	17	75	17	58	66	0	3	30	1.10
358577--358617	15	2.7	15	85	10	57	63	0	4	31	1.15
358600--358646	23	2.0	23	83	8	58	61	2	2	34	1.20
358607--358663	23	2.7	20	77	15	60	63	3	3	29	1.28
358663--358704	17	2.5	17	92	7	68	0	16	0	83	0.65
358663--358704	6	7.3	6	82	17	54	0	16	0	83	0.65
358842--358879	3	12.7	3	100	0	76	68	0	0	31	0.90
359161--359192	12	2.6	13	85	14	50	59	0	0	40	0.97
359944--360007	23	2.7	23	81	13	78	51	0	0	48	1.00
359944--360007	24	2.7	23	86	9	85	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360063--360111	20	2.5	19	80	3	62	55	0	4	40	1.19
361446--361475	3	10.0	3	100	0	60	66	0	0	33	0.92
361801--361858	10	5.9	10	75	18	50	36	0	1	62	1.06
362568--362601	16	2.1	16	88	0	50	44	0	0	55	0.99
362574--362622	22	2.3	21	86	10	64	42	0	0	57	0.99
362634--362681	13	3.4	14	78	16	53	31	0	0	68	0.90
364027--364122	38	2.6	37	76	18	92	51	2	1	45	1.20
365445--365490	17	2.8	17	83	9	51	52	0	4	43	1.21
365295--365536	92	2.7	89	87	5	344	46	2	5	45	1.41
366759--366891	27	5.1	27	70	20	72	44	0	0	54	1.05
366805--366891	40	2.2	40	84	12	108	44	0	0	55	0.99
366818--366888	32	2.1	35	84	7	94	43	0	0	56	0.99
366867--366904	17	2.3	16	86	13	51	28	2	0	68	1.03
366831--366913	6	14.3	6	69	16	50	36	1	0	62	1.03
366856--366910	24	2.3	23	84	3	65	30	1	0	67	1.01
367900--367980	23	3.4	22	72	20	65	50	0	0	49	1.00
368511--368564	22	2.5	22	79	14	67	44	0	0	55	0.99
368511--368565	21	2.5	23	77	17	71	43	0	0	56	0.99
370495--370537	14	3.0	14	82	3	50	55	0	0	44	0.99
370495--370599	32	3.3	32	70	16	94	57	0	0	41	1.05
373360--373393	17	2.0	17	88	0	50	58	0	0	41	0.98
375705--375755	16	3.2	16	88	5	77	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375708--375755	15	3.1	15	90	3	69	39	0	0	60	0.97
376399--376440	3	13.0	3	85	14	57	33	2	0	64	1.07
382895--382943	2	25.0	2	91	4	82	48	2	0	48	1.12
389415--389449	17	2.1	17	100	0	70	31	5	22	40	1.78
394832--394893	30	2.1	30	100	0	124	43	8	12	35	1.73
396172--396218	23	2.0	23	95	0	85	23	10	12	53	1.70
397464--397497	12	2.8	12	90	0	50	0	26	38	35	1.57
397555--397842	72	4.0	72	97	0	540	22	24	23	29	1.99
401654--401695	19	2.2	19	95	0	75	66	2	0	30	1.04
401599--401690	47	2.0	46	82	2	112	65	4	0	30	1.12
401685--401761	22	3.4	23	73	10	61	54	1	0	44	1.08
401907--401957	3	17.7	3	80	15	54	62	0	0	37	0.95
402394--402448	27	2.0	28	89	3	85	43	1	1	52	1.22
403629--403680	19	2.9	18	77	16	54	71	0	1	26	0.97
403642--403691	16	3.1	16	80	11	57	70	2	2	26	1.09
403807--403888	15	6.1	14	71	18	59	43	1	0	54	1.07
405337--405404	35	1.9	35	100	0	136	39	13	20	26	1.89
405569--405603	17	2.1	17	94	0	61	31	8	20	40	1.82
408287--408414	63	2.0	63	96	0	238	34	20	18	26	1.96
410914--410966	20	2.5	20	84	6	70	52	0	3	43	1.19
411092--411128	18	2.1	17	95	5	65	64	0	0	35	0.94
411095--411131	17	2.1	17	90	5	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411401--411464	25	2.6	26	78	14	73	51	0	0	48	1.00
411392--411466	36	2.1	36	85	9	100	53	0	0	46	1.00
412454--412506	21	2.5	22	90	3	81	50	0	0	49	1.00
412456--412505	10	4.6	11	78	12	59	50	0	0	50	1.00
412583--412656	12	6.0	12	75	12	69	44	1	1	52	1.17
412594--412659	13	5.2	13	75	14	66	42	1	1	54	1.18
412587--412659	24	3.0	24	78	7	83	43	1	1	53	1.17
420374--420422	23	2.1	23	81	7	55	44	0	2	53	1.12
420556--420589	11	3.1	11	95	0	59	70	0	0	29	0.87
420820--420858	17	2.4	16	87	8	53	71	0	2	25	0.98

Tables:   1   2   3   4