genome.fa.s10.2.7.7.80.10.50.1000.2.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: Chr6
Parameters: 2 7 7 80 10 50 1000
Length:  47432654

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   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   

This is table  2  of  136  ( 16211 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)
267291--267327	13	2.6	15	79	12	51	48	0	0	51	1.00
268385--268468	40	2.1	40	93	0	141	32	5	17	44	1.73
279026--279075	24	2.1	24	84	0	64	22	26	6	46	1.74
279171--279221	22	2.3	23	80	12	63	19	9	3	66	1.36
285610--285642	15	2.2	15	100	0	66	36	18	6	39	1.75
287343--287383	22	1.9	21	90	5	64	43	4	0	51	1.23
287489--287518	14	2.1	14	93	0	51	46	10	0	43	1.37
291995--292051	9	6.4	9	82	11	64	84	8	0	7	0.79
291994--292051	26	2.2	26	90	3	82	82	8	0	8	0.84
291996--292046	9	5.7	9	86	6	68	88	5	0	5	0.64
292881--292934	16	3.6	14	83	14	63	72	0	14	12	1.13
294918--295150	43	5.3	43	68	15	138	27	21	25	25	1.99
294885--295198	88	3.6	88	85	3	418	27	23	24	24	2.00
295205--295699	44	11.3	43	66	14	197	27	23	22	26	2.00
295146--295255	57	1.9	57	84	0	148	29	29	19	22	1.98
295058--295343	145	2.0	145	88	1	430	27	24	22	24	2.00
295199--295705	88	5.8	88	88	2	644	27	23	23	26	2.00
294966--295431	233	2.0	233	89	1	720	27	23	24	25	2.00
294885--295513	321	2.0	320	90	1	1010	27	23	24	25	2.00
295689--296071	50	7.9	50	82	4	378	31	21	20	26	1.98
295869--295980	45	2.5	45	95	0	197	32	22	21	24	1.98
295689--296034	140	2.4	145	85	6	463	29	21	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
297490--297557	16	4.2	16	73	17	52	25	4	0	70	1.05
297587--297662	3	25.7	3	77	5	66	35	3	1	59	1.24
298648--298834	93	2.0	94	98	1	367	38	20	12	28	1.89
300841--300892	18	2.8	18	80	11	61	73	1	0	25	0.94
302514--302789	109	2.6	109	91	2	425	34	17	18	30	1.93
302528--302829	109	2.8	108	87	4	423	34	18	16	30	1.93
303100--303136	15	2.4	15	95	4	65	78	0	0	21	0.75
303071--303137	18	3.9	18	76	18	63	68	1	2	26	1.12
303094--303134	9	4.6	9	90	6	57	75	0	0	24	0.80
304521--304569	24	2.0	24	96	0	89	24	26	24	24	2.00
304759--305187	89	4.8	89	93	0	678	22	24	24	28	1.99
304734--305176	44	10.0	44	78	5	426	21	23	25	28	1.99
305766--305819	17	3.2	17	85	12	67	0	18	0	81	0.69
306455--306534	42	1.9	42	100	0	160	16	12	20	51	1.76
310175--310478	109	2.8	109	91	1	488	33	17	18	31	1.94
310627--310665	16	2.4	16	91	0	60	76	2	2	17	1.01
310845--310920	3	25.3	3	80	10	84	64	2	2	30	1.21
312725--312787	25	2.6	25	80	7	67	15	20	22	41	1.90
312911--312968	25	2.4	25	76	2	64	18	22	25	32	1.97
315226--315259	11	2.9	12	91	8	61	8	20	17	52	1.71
321895--321934	19	2.1	19	100	0	80	37	37	5	20	1.74
329498--329575	22	3.6	22	76	6	63	23	32	2	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329750--329788	18	2.0	20	90	9	64	46	12	0	41	1.42
329813--329859	20	2.5	19	82	6	60	68	2	4	25	1.19
337530--337604	31	2.4	31	84	4	89	45	10	12	32	1.75
340977--341118	72	2.0	72	90	0	221	34	16	19	29	1.94
341432--341517	35	2.4	35	86	7	111	52	0	6	40	1.28
341476--341539	27	2.3	27	86	2	83	48	1	9	40	1.45
341578--341638	31	2.0	29	84	12	79	54	1	9	34	1.44
343105--343406	138	2.2	135	86	2	408	29	19	20	30	1.97
343522--344139	44	13.8	44	66	14	198	27	22	19	31	1.98
343751--343850	51	2.0	51	85	0	137	26	24	19	31	1.98
343490--344409	404	2.3	404	86	3	1242	27	21	18	31	1.97
344283--344409	44	2.9	44	80	7	141	29	22	18	29	1.97
344435--344581	51	2.9	51	82	0	177	26	27	17	28	1.98
344663--345295	132	4.8	132	86	0	845	25	24	20	29	1.99
346677--346710	13	2.8	12	86	8	50	0	14	0	85	0.60
349621--349763	73	1.9	74	92	4	245	36	16	18	27	1.93
350068--350112	22	2.0	22	100	0	90	48	13	4	33	1.62
350199--350242	12	3.7	12	81	0	52	38	2	13	45	1.56
350314--350413	4	25.0	4	97	0	191	26	0	25	49	1.51
354105--354148	15	2.8	16	82	10	54	34	9	9	47	1.67
358047--358122	18	4.1	18	77	15	84	75	1	1	22	0.96
358047--358114	9	7.3	9	80	16	77	75	1	1	22	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358234--358283	26	1.9	26	95	0	91	56	4	20	20	1.58
358426--358467	19	2.3	18	88	8	59	59	7	14	19	1.57
360422--360479	16	3.6	16	72	9	55	60	3	3	32	1.30
364257--364318	26	2.4	26	86	0	88	37	17	9	35	1.83
368960--369033	25	3.0	25	95	0	130	31	20	27	21	1.98
370559--370608	2	26.0	2	84	15	70	48	2	0	50	1.12
371730--371810	40	2.0	40	100	0	162	27	19	12	40	1.87
398637--398671	18	2.0	18	88	5	54	14	31	42	11	1.81
399611--399664	18	3.0	18	75	5	56	40	3	18	37	1.69
401302--401338	17	2.2	17	85	4	58	56	0	0	43	0.99
401370--401505	72	1.9	72	100	0	272	31	20	8	38	1.83
414015--414067	18	2.9	18	88	0	88	16	22	22	37	1.94
418083--418123	19	2.2	19	100	0	82	41	19	24	14	1.89
418703--418763	16	3.8	16	91	0	104	11	22	31	34	1.90
418738--418838	38	2.7	38	86	6	141	12	22	28	35	1.91
419695--419790	50	1.9	51	82	2	122	35	14	12	37	1.84
427728--427802	22	3.4	22	85	7	98	12	18	29	40	1.87
427708--427868	38	4.1	38	73	15	148	14	20	26	38	1.91
434256--434289	2	17.0	2	100	0	68	50	0	0	50	1.00
435258--435300	14	3.1	14	80	12	54	41	2	4	51	1.35
435301--435348	18	2.6	18	81	12	53	50	0	8	41	1.33
437941--437986	21	2.2	21	84	7	58	39	6	2	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439695--439732	20	1.9	20	94	0	67	26	18	7	47	1.76
458135--458173	16	2.4	16	86	0	51	28	33	2	35	1.71
458148--458204	16	3.6	16	95	0	87	33	36	0	29	1.58
459375--459412	20	1.9	20	89	10	60	57	0	7	34	1.28
459957--460456	72	6.9	72	83	2	547	32	20	21	25	1.97
459977--460456	145	3.3	142	80	4	548	32	19	22	26	1.97
460898--461168	151	1.8	150	90	0	434	17	2	32	46	1.63
461128--461168	21	1.9	22	85	5	57	17	4	26	51	1.65
461437--461467	8	4.0	8	95	4	55	77	0	0	22	0.77
462365--462396	6	5.3	6	96	0	55	18	50	12	18	1.78
474712--474760	21	2.3	21	89	0	71	32	18	46	2	1.60
475163--475329	42	3.9	42	86	5	228	24	20	21	32	1.97
475162--475334	85	2.0	86	89	1	267	25	20	21	32	1.97
475425--475476	21	2.4	22	96	3	97	38	28	19	13	1.89
477072--477108	15	2.4	16	90	4	58	51	32	0	16	1.45
477168--477205	6	6.0	6	88	11	58	63	15	2	18	1.43
478428--478478	12	4.3	12	78	9	52	17	25	3	52	1.61
478718--478852	49	2.8	49	93	0	216	25	26	20	28	1.99
481094--481206	27	4.2	27	79	4	113	41	23	15	20	1.89
481094--481206	54	2.1	54	85	6	149	41	23	15	20	1.89
485861--485900	21	1.9	21	90	10	64	47	20	5	27	1.70
489793--489829	17	2.2	17	90	0	56	40	13	2	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490056--490107	26	2.0	26	100	0	104	38	11	15	34	1.83
490969--491054	27	3.2	27	81	0	91	33	20	26	18	1.96
500334--500435	22	4.5	23	75	14	86	34	15	18	31	1.93
500326--500435	23	4.9	23	74	14	95	34	15	20	30	1.93
503847--503919	38	1.9	38	91	0	119	30	0	36	32	1.58
505420--505487	34	2.0	34	91	0	109	35	16	22	26	1.94
507944--507969	2	13.0	2	100	0	52	50	0	0	50	1.00
512267--512307	21	2.0	21	85	9	57	60	0	2	36	1.10
512838--512868	16	1.9	16	93	0	53	54	3	0	41	1.16
518109--518162	20	2.7	20	85	2	63	66	0	1	31	1.02

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   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136