genome.fa.s282.2.7.7.80.10.50.1000.4.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: Scaffold282
Parameters: 2 7 7 80 10 50 1000
Length:  1446459

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  4  of  10  ( 1099 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)
477463--477986	104	5.1	104	90	3	850	33	18	16	32	1.93
477684--477986	103	2.9	103	96	0	552	33	18	16	32	1.93
477940--478004	32	2.0	32	85	8	87	30	13	15	40	1.86
477970--478022	19	2.8	20	80	8	65	33	13	16	35	1.88
478404--478428	13	1.9	13	100	0	50	36	16	16	32	1.90
478384--478453	33	2.1	33	89	0	104	34	11	14	40	1.82
478495--478519	13	1.9	13	100	0	50	32	16	16	36	1.90
478528--478648	52	2.3	52	97	0	224	34	18	18	28	1.94
484169--484307	51	2.7	52	86	1	190	40	12	17	29	1.86
486612--486680	9	7.6	9	74	16	54	2	10	4	82	0.91
486612--486679	31	2.3	28	80	12	73	2	10	4	82	0.92
487957--488087	50	2.6	50	85	2	174	25	18	13	41	1.87
490044--490488	79	5.6	79	83	3	484	28	28	12	30	1.93
490419--490539	51	2.4	51	88	1	170	27	29	14	28	1.95
494549--494692	73	2.0	73	97	0	270	38	18	23	19	1.93
499496--499562	33	2.0	33	88	0	98	34	11	13	40	1.81
499516--499540	13	1.9	13	100	0	50	36	16	16	32	1.90
499614--499638	13	1.9	13	100	0	50	32	16	16	36	1.90
499647--499774	52	2.5	52	94	3	224	33	17	17	30	1.94
507021--507053	12	2.8	12	90	9	50	90	6	3	0	0.52
507022--507053	14	2.3	14	94	0	55	93	3	3	0	0.40
507995--508076	30	2.7	31	88	1	112	25	28	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508025--508512	33	14.9	33	79	14	498	20	32	12	33	1.91
508053--508500	61	6.9	62	92	4	503	21	33	12	32	1.91
508208--508260	27	2.0	26	92	3	88	22	39	16	20	1.92
508026--508512	70	7.5	66	90	6	546	20	32	12	33	1.91
508579--509495	49	18.7	49	85	3	1251	24	27	17	30	1.97
508579--509495	295	3.1	295	91	2	1474	24	27	17	30	1.97
509361--509429	22	3.2	22	63	19	54	26	26	17	30	1.97
509405--509543	52	2.6	52	82	4	161	25	25	15	33	1.95
510392--510416	13	1.9	13	100	0	50	36	16	16	32	1.90
510372--510437	32	2.0	33	88	2	98	34	12	13	39	1.82
510484--510508	13	1.9	13	100	0	50	32	16	16	36	1.90
510517--510644	52	2.5	52	94	3	224	33	17	17	30	1.94
514902--514972	28	2.5	28	86	6	99	22	23	23	29	1.99
514825--515050	106	2.1	105	80	4	267	27	24	15	32	1.95
514932--515346	78	5.3	79	82	2	460	27	25	13	33	1.94
514932--515360	157	2.7	157	83	2	486	27	25	14	32	1.94
516758--516790	12	2.8	12	90	0	57	45	0	27	27	1.54
517352--517553	55	3.5	55	85	6	244	26	26	21	25	1.99
517569--517755	55	3.3	55	85	7	234	27	28	18	24	1.98
517621--517710	26	3.3	26	66	14	74	27	27	18	25	1.98
517357--518200	211	3.9	211	86	4	1079	27	29	18	25	1.98
517621--517904	156	1.9	149	84	6	381	28	29	16	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517806--518257	55	7.8	60	82	8	464	27	29	18	25	1.98
517805--518257	171	2.6	172	81	9	501	27	29	18	24	1.98
517957--518575	326	1.9	324	85	6	847	26	28	19	26	1.99
518283--518534	55	4.5	55	79	8	263	26	28	20	24	1.99
518302--518595	116	2.5	118	83	3	371	25	27	19	27	1.99
519377--519432	21	2.7	21	100	0	112	32	21	14	32	1.93
519487--519516	13	2.3	13	100	0	60	30	16	13	40	1.87
519534--519585	20	2.6	20	87	6	70	30	17	9	42	1.81
521884--522103	51	4.3	51	85	2	273	30	23	10	35	1.88
522087--522142	28	2.0	28	92	0	94	21	30	19	28	1.98
522164--522417	51	5.0	51	82	4	255	28	26	11	33	1.91
522428--522547	51	2.4	51	88	2	170	29	23	13	34	1.93
530422--530485	32	2.0	33	87	3	94	37	14	15	32	1.87
533165--533205	20	2.0	20	95	0	73	41	17	4	36	1.71
535008--535036	15	1.9	15	100	0	58	79	6	6	6	1.06
535796--535871	12	6.9	11	75	15	52	39	2	48	9	1.49
535795--535880	24	3.8	24	72	17	85	41	2	45	10	1.51
535786--535904	42	2.8	42	92	0	193	42	2	46	8	1.47
541565--541635	20	3.6	20	88	1	99	30	15	16	36	1.90
541624--541648	13	1.9	13	100	0	50	36	16	16	32	1.90
541605--541669	32	2.0	33	90	3	105	38	15	15	30	1.88
541968--542049	29	2.9	29	87	1	121	19	7	14	58	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547053--547133	29	2.8	29	84	0	108	18	9	12	59	1.60
550292--550327	11	3.4	11	88	3	56	44	8	0	47	1.33
550292--550347	24	2.5	23	81	16	57	44	7	0	48	1.30
552717--552771	15	3.5	15	75	20	51	40	0	1	58	1.09
553378--553421	17	2.7	17	82	6	56	56	13	2	27	1.49
554177--554212	18	1.9	19	88	5	56	38	2	0	58	1.13
554488--554519	16	2.0	16	100	0	64	62	6	12	18	1.50
554665--554726	31	2.0	31	100	0	124	29	9	16	45	1.79
554785--554813	13	2.2	13	100	0	58	37	17	17	27	1.92
556050--556118	36	1.9	36	96	0	129	46	18	10	24	1.80
566607--567108	89	5.7	89	78	8	501	38	14	14	32	1.87
566607--567116	178	2.9	176	82	6	565	38	14	15	31	1.87
569863--570331	233	2.0	233	94	0	814	39	10	13	37	1.78
578082--578437	115	3.1	113	82	9	396	26	27	19	25	1.99
578055--578485	61	7.2	60	82	8	436	26	26	19	26	1.99
578592--578662	35	2.1	33	85	12	92	22	23	12	40	1.88
579042--579098	13	3.9	13	76	24	60	35	14	17	33	1.90
579022--579119	32	3.0	32	95	1	169	34	13	17	34	1.88
579020--579117	19	5.8	18	70	28	81	33	13	17	35	1.88
579160--579184	13	1.9	13	100	0	50	32	16	16	36	1.90
579193--579321	52	2.5	52	94	0	222	34	16	19	29	1.93
581383--581407	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581363--581432	33	2.1	33	89	0	104	34	11	14	40	1.82
581473--581500	13	2.2	13	100	0	56	28	14	17	39	1.89
581486--581626	52	2.7	50	85	6	192	33	17	17	31	1.93
581506--581626	52	2.3	52	95	0	215	34	17	18	29	1.94
585772--585798	10	2.7	10	100	0	54	0	0	22	77	0.76
595488--595673	1	186.0	1	74	0	66	81	9	5	3	0.95
595488--595625	34	4.3	34	86	11	209	81	9	5	2	0.94
595556--595622	28	2.4	28	92	0	116	80	10	5	2	0.99
595489--595662	95	1.8	95	85	6	244	81	9	5	3	0.98
597114--597563	30	15.3	29	76	10	335	29	29	17	24	1.97
597173--597225	27	2.0	27	92	0	88	33	33	16	15	1.90
597323--597579	88	2.9	86	89	5	372	32	29	18	19	1.96
597110--597579	58	8.0	59	75	10	340	29	29	17	23	1.97
597580--597697	49	2.4	48	82	4	146	23	27	16	32	1.96
598416--598440	13	1.9	13	100	0	50	36	16	16	32	1.90
598396--598465	33	2.1	33	89	0	104	34	11	14	40	1.82
598506--598533	13	2.2	13	100	0	56	28	14	17	39	1.89
598519--598659	52	2.7	50	85	6	192	33	17	17	31	1.93
598539--598659	52	2.3	52	95	0	215	34	17	18	29	1.94
601223--602225	501	2.0	502	94	0	1749	30	24	19	25	1.98
602891--602944	20	2.7	20	88	5	74	27	18	12	40	1.87
602960--603016	20	2.8	20	91	0	96	31	14	12	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602888--603019	71	1.9	71	85	6	187	31	15	14	37	1.88
605391--605511	51	2.4	51	81	0	143	28	23	14	33	1.95
605443--605749	79	3.9	79	77	5	316	27	25	13	33	1.93
605458--605749	157	1.9	158	81	3	365	28	25	13	33	1.93
609959--610036	30	2.6	30	84	11	90	20	1	21	56	1.49
622188--622405	29	7.5	29	82	4	224	31	29	16	22	1.95
622192--622364	59	2.9	59	88	0	274	30	29	16	23	1.96
622192--622405	118	1.8	117	84	6	281	31	29	16	21	1.95
622414--622698	43	6.0	47	82	11	327	25	24	18	31	1.97
622427--622707	92	3.0	92	93	2	472	25	24	18	31	1.97

Tables:   1   2   3   4   5   6   7   8   9   10