genome.fa.s11.2.7.7.80.10.50.1000.3.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   

This is table  3  of  29  ( 3461 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)
272294--272375	30	2.7	31	88	1	112	25	28	18	28	1.98
272411--273140	34	21.9	34	79	13	702	20	33	12	32	1.91
272324--273140	70	12.4	68	86	10	889	20	33	13	32	1.91
272640--273140	168	3.0	168	90	5	820	20	34	12	32	1.91
272539--273161	105	6.1	102	84	9	738	20	34	12	32	1.90
273143--273282	33	4.2	33	88	4	210	27	35	17	20	1.94
273142--273282	66	2.1	68	90	5	234	27	34	17	20	1.95
273282--273607	49	6.8	49	86	4	423	26	26	17	29	1.98
273624--273911	49	6.0	49	84	6	385	26	26	16	30	1.97
273508--273723	116	1.9	116	85	0	297	26	27	14	31	1.95
273731--273920	43	4.1	43	77	15	175	25	25	16	31	1.97
273731--273920	95	2.0	91	89	6	283	25	25	16	31	1.97
273821--273980	52	3.0	53	79	7	178	26	24	13	35	1.93
273821--274157	67	5.7	56	75	12	259	26	24	12	36	1.91
273870--274157	123	2.3	123	96	0	531	26	24	12	37	1.90
274964--275033	33	2.1	33	86	0	95	34	12	14	38	1.84
275073--275097	13	1.9	13	100	0	50	32	16	16	36	1.90
275106--275226	52	2.3	52	97	0	224	34	18	18	28	1.94
278461--278503	21	2.0	21	100	0	86	27	23	20	27	1.99
282482--282514	1	33.0	1	93	0	57	96	0	3	0	0.20
283451--283532	30	2.7	31	88	1	112	25	28	18	28	1.98
283448--284300	34	25.8	34	78	14	756	20	33	13	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
283667--283718	27	1.9	27	96	0	95	23	38	17	21	1.93
283481--284300	70	12.4	68	86	9	923	20	33	13	32	1.91
283697--284321	105	6.1	100	84	11	647	20	34	12	32	1.90
284303--284442	33	4.2	33	88	4	210	27	35	17	20	1.94
284302--284442	66	2.1	68	90	5	234	27	34	17	20	1.95
284442--284767	49	6.8	49	86	4	423	26	26	17	29	1.98
284784--285071	49	6.0	49	84	6	385	26	26	16	30	1.97
284668--284883	116	1.9	116	85	0	297	26	27	14	31	1.95
284891--285080	43	4.1	43	77	15	175	25	25	16	31	1.97
284891--285080	95	2.0	91	89	6	283	25	25	16	31	1.97
284981--285140	52	3.0	53	79	7	178	26	24	13	35	1.93
284981--285317	67	5.7	56	75	12	259	26	24	12	36	1.91
285030--285317	123	2.3	123	96	0	531	26	24	12	37	1.90
286123--286192	33	2.1	33	86	0	95	34	12	14	38	1.84
286232--286256	13	1.9	13	100	0	50	32	16	16	36	1.90
286265--286385	52	2.3	52	97	0	224	34	18	18	28	1.94
292516--292558	20	2.2	20	95	0	77	30	11	16	41	1.83
300917--301027	20	5.6	20	83	0	150	32	14	14	38	1.86
300917--301027	40	2.8	40	98	0	213	32	14	14	38	1.86
305172--305212	20	2.0	20	85	0	55	12	9	7	70	1.33
314836--314901	12	5.4	12	82	10	71	84	10	3	1	0.79
314836--314879	15	3.1	14	87	9	63	90	9	0	0	0.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314836--314879	1	44.0	1	86	0	52	90	9	0	0	0.44
316121--316458	29	11.7	29	86	5	461	28	30	16	23	1.96
316118--316960	28	29.6	28	78	9	592	29	30	16	23	1.96
316118--316960	57	14.8	57	83	6	998	29	30	16	23	1.96
316412--316504	47	2.0	46	87	6	134	34	30	13	21	1.92
316356--316791	115	4.0	104	79	9	340	30	29	16	23	1.96
316459--316928	172	2.7	170	89	3	683	29	30	15	24	1.96
317558--317628	20	3.5	20	82	0	97	32	12	14	40	1.83
320974--321005	2	16.0	2	100	0	64	50	0	0	50	1.00
322745--322785	21	2.0	20	85	4	55	53	0	2	43	1.13
322759--322789	15	2.1	15	93	0	53	58	0	0	41	0.98
324307--324380	33	2.1	36	82	14	91	45	1	1	51	1.18
332008--332055	15	3.2	14	80	19	53	54	2	2	41	1.24
332205--332306	51	2.0	51	90	0	159	41	17	5	35	1.74
337343--337597	50	5.1	50	77	7	241	31	16	17	34	1.93
337348--337597	99	2.5	100	82	4	308	32	17	17	33	1.93
341972--342231	50	5.2	50	90	0	362	28	17	20	33	1.95
342554--342615	30	2.0	31	84	3	81	43	3	9	43	1.53
342192--343051	436	2.0	436	94	0	1508	31	15	15	38	1.88
343011--343086	31	2.5	31	78	6	84	50	2	10	36	1.51
343651--343707	29	1.9	30	85	3	80	50	0	0	49	1.00
344220--344384	33	5.4	33	64	24	110	43	10	7	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344203--344415	59	3.6	59	87	5	322	43	11	8	36	1.73
344203--344415	118	1.8	118	92	2	365	43	11	8	36	1.73
357117--357155	19	2.1	19	85	9	53	38	2	10	48	1.51
359461--359549	41	2.2	40	85	2	115	26	3	5	64	1.32
359594--359646	19	2.6	22	80	14	60	64	3	0	32	1.12
361014--361173	50	3.2	50	83	3	153	31	15	17	35	1.91
361084--361200	50	2.3	50	81	5	130	34	15	16	34	1.90
361538--361620	34	2.4	34	93	0	139	22	0	34	42	1.54
361538--361635	34	2.9	33	86	8	101	24	0	34	40	1.55
362236--363003	383	2.0	383	99	0	1518	36	16	22	23	1.94
365217--366652	717	2.0	717	96	0	2647	33	15	22	29	1.94
367433--367517	34	2.5	34	94	0	152	21	0	36	42	1.53
371897--372102	50	4.1	50	89	2	315	28	18	20	32	1.96
373698--373798	49	2.1	49	94	0	175	29	17	20	31	1.96
375901--376000	40	2.6	37	80	14	121	10	13	1	76	1.08
376983--377062	41	2.0	41	84	0	106	36	15	21	27	1.93
381311--381361	23	2.2	24	82	3	59	49	0	3	47	1.20
381590--381675	29	2.9	29	81	8	102	54	3	1	40	1.25
384766--384840	21	3.6	21	73	10	73	34	17	24	24	1.96
390916--390941	13	2.0	13	100	0	52	38	23	0	38	1.55
395565--395642	32	2.5	33	77	10	92	37	0	2	60	1.11
395569--395634	31	2.2	31	86	8	91	34	0	3	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401900--401949	22	2.3	23	79	10	59	40	8	6	46	1.58
402228--402262	16	2.2	16	90	5	54	40	2	2	54	1.30
401983--402321	182	1.9	183	89	1	529	30	8	13	47	1.72
404198--404242	22	2.0	22	100	0	90	57	13	8	20	1.62
405767--405828	21	3.0	21	81	9	72	29	9	27	33	1.88
405749--405852	42	2.5	42	80	0	118	31	10	26	30	1.90
405757--405830	21	3.5	20	76	7	67	29	12	28	29	1.93
415497--415539	20	2.3	19	81	14	54	48	0	0	51	1.00
415540--415600	29	2.1	29	87	0	86	40	0	4	54	1.22
416454--416528	33	2.4	30	79	14	89	34	0	2	62	1.09
422380--422412	16	2.1	16	88	5	50	48	0	0	51	1.00
422597--422630	15	2.2	16	89	5	52	70	0	0	29	0.87
425246--425403	78	2.0	80	91	2	257	34	15	10	39	1.83
427274--427327	25	2.1	26	83	10	67	44	11	7	37	1.68
427937--428056	52	2.3	53	80	7	138	30	15	14	39	1.87
430222--430356	50	2.7	50	90	2	209	26	17	13	42	1.86
432441--432514	28	2.6	28	82	4	96	22	27	21	28	1.99
432497--432609	52	2.2	52	88	1	165	30	25	11	31	1.91
432548--432833	79	3.6	79	81	2	304	29	22	11	36	1.89
435846--435875	13	2.3	13	94	0	51	86	0	3	10	0.67
439669--439800	68	2.0	64	85	5	174	21	21	25	31	1.98
440101--440137	5	7.6	5	93	6	67	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441747--441782	16	2.2	16	90	0	54	36	2	8	52	1.46
441799--441828	15	2.0	15	100	0	60	46	6	6	40	1.56
441810--441851	22	1.9	22	85	0	57	40	4	7	47	1.52
441890--441929	16	2.5	16	88	8	55	32	2	5	60	1.32
443682--444192	257	2.0	257	99	0	1004	25	18	19	36	1.95
444837--445065	109	2.1	108	95	1	413	39	11	30	17	1.86
450429--450453	13	1.9	13	100	0	50	36	16	16	32	1.90
450440--450517	21	3.7	21	100	0	156	34	10	17	37	1.84
450540--450623	13	5.5	13	71	28	60	35	17	13	33	1.89
450548--450662	19	6.7	19	76	22	137	36	18	12	33	1.88

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