genome.fa.s225.2.7.7.80.10.50.1000.3.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: Scaffold225
Parameters: 2 7 7 80 10 50 1000
Length:  857989

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 485 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)
381915--381957	20	2.2	20	87	4	61	55	18	18	6	1.64
382427--382481	12	4.6	12	95	0	83	67	21	1	9	1.28
387514--387560	26	1.9	25	87	12	71	27	14	29	27	1.96
387940--388098	80	2.0	80	81	4	187	34	11	24	28	1.91
387803--388092	160	1.8	159	80	8	356	35	9	24	30	1.88
403413--403472	21	2.8	22	84	2	77	43	13	13	30	1.82
407431--407496	10	6.6	10	81	8	64	84	12	3	0	0.72
407431--407487	18	3.2	19	83	14	68	85	12	1	0	0.66
407431--407475	17	2.5	17	92	7	72	86	13	0	0	0.57
408001--408079	38	2.1	38	100	0	158	22	39	12	25	1.89
408756--409644	28	31.1	28	83	6	905	29	30	16	23	1.96
408756--409643	85	10.4	83	82	6	879	29	30	16	23	1.96
410516--410590	20	3.8	20	85	0	105	30	14	14	40	1.86
415961--416014	23	2.5	21	80	13	65	25	20	14	38	1.91
422285--422338	28	2.0	26	82	7	63	29	42	11	16	1.83
429120--429194	20	3.8	20	77	15	84	40	12	14	33	1.83
430888--430940	19	2.7	20	85	8	72	28	13	18	39	1.88
430888--430946	19	3.0	18	80	14	64	25	11	22	40	1.88
433493--433518	13	2.0	13	100	0	52	38	15	15	30	1.88
439697--439722	13	2.0	13	100	0	52	30	15	15	38	1.88
440771--440826	19	2.9	19	89	2	76	37	17	14	30	1.90
441423--441462	21	2.0	21	90	5	64	37	20	2	40	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442927--442976	21	2.4	21	83	9	59	48	0	20	32	1.50
442934--442976	21	2.0	22	86	4	61	51	0	20	27	1.48
443085--443110	13	2.0	13	100	0	52	38	15	15	30	1.88
443615--443649	18	1.9	18	100	0	70	22	37	5	34	1.78
449155--449217	33	1.9	33	83	6	83	34	15	12	36	1.86
449270--449296	13	2.1	13	100	0	54	40	14	14	29	1.86
450117--450181	14	4.5	14	76	16	53	47	4	3	44	1.39
454922--455124	103	2.0	102	87	0	289	25	24	16	33	1.95
454935--455174	103	2.3	102	81	5	279	27	25	14	32	1.95
456327--456399	20	3.6	20	81	3	101	35	13	19	31	1.91
456327--456421	41	2.3	42	96	1	174	40	12	17	29	1.87
456460--456485	13	2.0	13	100	0	52	38	15	15	30	1.88
462649--462713	13	5.0	13	94	0	112	30	18	15	35	1.92
462650--462713	26	2.5	26	100	0	128	31	18	15	34	1.93
464496--464567	36	2.0	36	97	0	135	33	2	23	40	1.69
465188--465260	20	3.6	20	81	3	101	35	13	19	31	1.91
465188--465282	41	2.3	42	96	1	174	40	12	17	29	1.87
465321--465346	13	2.0	13	100	0	52	38	15	15	30	1.88
466614--466701	27	3.2	27	85	3	122	35	17	27	20	1.94
468785--468935	53	2.9	52	87	2	212	47	11	11	29	1.76
468992--469033	20	2.1	20	86	0	57	30	16	9	42	1.80
472707--472772	34	1.9	34	84	6	89	43	16	10	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473611--473636	13	2.0	13	100	0	52	30	15	15	38	1.88
476169--476194	13	2.0	13	100	0	52	30	23	15	30	1.95
478204--478234	15	2.1	15	93	0	53	12	22	16	48	1.80
480035--480079	22	2.1	21	84	8	56	22	15	6	55	1.63
480024--480079	21	2.7	21	75	13	62	23	14	7	55	1.63
482296--482321	13	2.0	13	100	0	52	30	15	15	38	1.88
482276--482339	32	2.0	33	87	3	94	28	14	17	40	1.88
485359--485389	15	2.1	15	93	0	53	12	22	16	48	1.80
489456--489481	13	2.0	13	100	0	52	30	15	15	38	1.88
489436--489499	32	2.0	33	90	3	103	28	14	15	42	1.86
489530--489586	21	2.7	21	100	0	114	26	19	10	43	1.83
489896--493111	476	6.8	475	83	3	3669	30	18	14	36	1.90
489896--493111	951	3.4	948	83	4	3775	30	18	14	36	1.90
492771--493617	316	2.7	315	90	2	1281	30	19	13	36	1.90
492953--493432	157	3.0	156	69	13	458	30	20	14	34	1.93
499376--499414	13	3.0	13	96	0	69	33	15	15	35	1.89
501962--502013	19	2.7	20	87	6	79	42	15	13	28	1.85
502761--504283	454	3.3	460	82	6	1687	30	18	14	36	1.91
503421--504307	475	1.9	477	86	1	1296	30	18	14	36	1.90
503947--504609	317	2.1	317	86	5	926	30	18	14	37	1.90
503423--504424	475	2.1	476	84	2	1273	30	18	14	36	1.90
504085--504584	160	3.1	159	70	10	428	30	18	13	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504727--505396	318	2.1	319	88	1	970	30	18	15	36	1.92
505655--508192	478	5.4	477	84	4	3144	29	19	14	36	1.91
505655--508203	932	2.7	937	85	4	3261	29	19	14	36	1.91
507865--508528	320	2.1	319	85	1	904	29	18	15	37	1.91
508162--511475	478	7.0	477	83	3	3871	30	19	13	36	1.90
511392--511922	278	1.9	278	97	0	1012	29	17	15	38	1.90
511787--513253	476	3.1	475	88	1	2114	29	19	14	36	1.92
512838--514155	434	2.9	441	85	6	1714	29	19	14	35	1.92
513271--514387	473	2.3	475	89	2	1679	30	19	13	35	1.91
514439--515104	158	4.2	155	66	15	399	30	19	13	36	1.90
514406--517300	477	6.1	478	87	1	3777	30	19	13	35	1.91
514406--517300	955	3.0	953	85	2	3858	30	19	13	35	1.91
517126--517478	182	1.9	182	81	1	429	29	22	15	33	1.94
516649--517959	659	2.0	659	87	1	1876	29	20	14	35	1.92
517308--518664	477	2.8	475	85	2	1738	29	19	14	36	1.92
519601--519626	13	2.0	13	100	0	52	30	15	15	38	1.88
520009--522072	478	4.3	477	83	3	2560	29	19	14	36	1.92
520029--522069	955	2.1	953	86	2	2760	29	19	14	36	1.92
522825--522850	13	2.0	13	100	0	52	30	15	15	38	1.88
522889--522964	21	3.7	21	82	3	109	28	18	11	40	1.86
522909--522982	20	3.7	20	81	3	103	31	20	13	35	1.91
522889--522982	41	2.3	41	100	0	188	29	19	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525432--525469	13	2.9	13	96	0	67	31	15	18	34	1.92
527546--527576	15	2.1	15	93	0	53	12	22	16	48	1.80
529378--529418	22	1.9	22	85	5	57	24	24	4	46	1.72
531635--531660	13	2.0	13	100	0	52	30	15	15	38	1.88
531699--531792	20	4.6	21	82	4	111	29	20	12	37	1.90
531719--531792	20	3.7	20	85	3	112	31	21	13	33	1.92
531699--531792	41	2.3	41	98	0	179	29	20	12	37	1.90
534241--534278	13	2.9	13	96	0	67	31	15	18	34	1.92
536355--536385	15	2.1	15	93	0	53	12	22	16	48	1.80
538182--538226	21	2.1	21	84	8	56	22	20	4	53	1.63
540445--540470	13	2.0	13	100	0	52	30	15	15	38	1.88
540509--540584	21	3.7	21	82	3	109	28	18	11	40	1.86
540529--540602	20	3.7	20	81	3	103	31	20	13	35	1.91
540509--540602	41	2.3	41	100	0	188	29	19	12	38	1.89
540990--542097	477	2.3	475	85	2	1425	29	19	15	36	1.92
542134--556864	476	30.7	474	75	10	8103	30	18	14	36	1.91
542100--556864	951	15.4	949	80	8	9297	30	18	14	36	1.91
548033--556864	475	18.6	473	85	4	11372	30	18	14	36	1.90
548026--556870	950	9.3	950	94	1	14696	30	18	14	36	1.90
556580--557190	326	1.9	318	85	4	841	31	17	14	36	1.90
557416--560096	908	3.0	893	77	9	2672	30	18	14	36	1.90
559229--560463	478	2.6	472	82	5	1416	31	18	13	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560716--577223	476	34.8	475	84	3	19227	30	18	14	36	1.91
578847--578881	12	2.9	12	84	16	54	40	0	48	11	1.39
578850--578895	12	3.9	12	81	13	51	43	0	43	13	1.43
583162--588397	475	11.0	476	85	2	6604	30	18	14	35	1.91
583310--588364	158	31.8	159	65	12	788	30	18	14	35	1.91
588401--588431	16	1.9	16	100	0	62	32	12	38	16	1.86
591754--591861	21	5.3	18	66	30	58	10	48	1	39	1.48
591757--591864	42	2.6	42	95	0	198	10	47	1	40	1.48
591790--591860	12	6.5	11	76	15	51	9	47	2	39	1.51
593363--593528	83	2.0	83	90	0	260	15	29	15	39	1.89

Tables:   1   2   3   4   5