genome.fa.s1.2.7.7.80.10.50.1000.2.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: Chr13
Parameters: 2 7 7 80 10 50 1000
Length:  46006518

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   137   138   139   140   141   

This is table  2  of  141  ( 16825 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)
328733--328823	10	9.0	10	73	17	64	67	0	31	1	0.98
329543--329594	19	2.7	19	82	8	61	26	0	7	65	1.20
329630--329688	28	2.1	28	93	6	102	37	8	0	54	1.31
331074--331151	27	2.9	27	92	0	120	14	32	26	26	1.94
331181--331220	20	2.1	19	90	9	64	0	0	10	90	0.47
331183--331220	10	3.8	10	83	13	51	0	0	10	89	0.49
331182--331210	11	2.6	11	100	0	58	0	0	6	93	0.36
331220--331290	28	2.5	29	88	4	101	46	1	11	40	1.48
344433--344928	89	5.6	89	75	8	397	30	15	25	28	1.95
344407--344906	133	3.8	133	94	1	851	29	15	25	28	1.96
344407--344906	265	1.9	266	92	1	851	29	15	25	28	1.96
344400--344933	44	12.1	44	78	4	538	30	14	25	28	1.95
348399--348443	20	2.2	21	84	11	58	55	4	13	26	1.57
348674--348704	16	2.0	15	93	6	53	64	0	6	29	1.18
348639--348702	30	2.1	30	82	5	76	59	1	4	34	1.28
349302--349346	3	15.0	3	80	0	54	62	4	0	33	1.15
349306--349355	24	2.1	24	88	0	73	56	4	0	40	1.18
349303--349369	27	2.5	27	85	0	80	56	2	0	40	1.14
349804--349854	2	25.5	2	100	0	102	0	50	0	49	1.00
351081--351199	63	1.9	63	92	0	202	42	17	10	29	1.84
351514--351551	3	12.7	3	100	0	76	65	0	0	34	0.93
351552--351585	3	11.3	3	100	0	68	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352862--352908	21	2.2	22	85	11	62	25	2	25	46	1.64
354670--354699	14	2.1	14	100	0	60	23	23	40	13	1.90
359709--359748	13	2.9	14	81	11	55	70	0	0	30	0.88
362058--362083	9	2.9	9	100	0	52	65	0	11	23	1.25
362596--362621	2	13.0	2	100	0	52	50	0	0	50	1.00
364926--364963	13	2.9	13	88	7	51	2	15	0	81	0.80
365363--365468	30	3.5	30	84	0	140	43	1	16	37	1.60
365342--365488	60	2.4	60	80	3	170	41	4	18	35	1.72
368748--368883	50	2.7	50	85	6	177	23	16	30	29	1.97
369994--370087	49	1.9	49	84	0	125	27	13	27	30	1.94
370505--370819	157	2.0	157	94	0	558	34	12	21	31	1.91
375944--376051	46	2.4	46	90	4	177	26	25	14	32	1.95
376050--376270	37	6.1	37	94	2	376	25	19	16	38	1.92
378930--378961	7	4.6	7	96	0	55	18	31	9	40	1.83
378933--379114	51	3.4	51	79	10	211	27	23	14	34	1.94
378885--379114	58	4.1	58	82	6	276	27	24	14	33	1.95
378995--379019	7	3.6	7	100	0	50	16	44	12	28	1.83
385490--385613	30	4.2	30	77	8	128	34	21	4	39	1.72
386117--386171	15	3.7	16	74	13	55	70	0	29	0	0.87
386297--386328	16	1.9	17	93	6	57	78	6	15	0	0.95
386484--386560	10	7.8	10	75	16	63	79	0	20	0	0.74
386484--386559	28	2.6	29	83	4	100	80	0	19	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
386892--386958	17	3.8	16	76	19	62	25	16	13	44	1.84
386884--386960	16	4.4	17	72	19	68	29	16	11	41	1.84
387089--387270	18	10.3	18	78	4	138	27	13	9	49	1.73
387118--387270	36	4.3	36	83	4	177	26	13	10	50	1.73
387091--387270	54	3.4	54	81	6	172	27	13	8	49	1.72
387118--387275	18	9.0	17	80	6	156	28	12	10	48	1.73
392906--392949	13	3.1	14	87	9	63	84	11	2	2	0.81
392906--392966	13	4.6	13	83	8	61	83	8	4	3	0.89
392878--392971	23	4.1	22	75	13	75	81	7	5	5	0.97
392878--392960	35	2.4	34	80	4	78	81	8	3	6	0.95
393847--395498	75	21.8	75	91	3	1751	26	17	22	33	1.96
395740--395872	30	4.4	30	76	8	119	36	19	3	40	1.67
396379--396413	17	2.1	17	89	10	54	71	0	28	0	0.86
396386--396455	26	2.9	24	75	19	65	72	0	27	0	0.84
396384--396462	14	5.7	14	73	18	67	73	0	26	0	0.84
396385--396462	7	11.3	7	72	8	52	74	0	25	0	0.82
396560--396593	16	2.1	16	88	5	50	76	5	17	0	0.98
396749--396831	12	7.7	11	77	12	75	80	0	19	0	0.71
396751--396831	18	4.3	18	77	11	74	80	0	19	0	0.72
396749--396830	21	3.7	23	81	12	102	81	0	18	0	0.69
397161--397227	17	3.8	16	76	19	62	25	16	13	44	1.84
397150--397228	37	2.1	37	85	0	104	32	16	11	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397153--397229	16	4.4	17	72	19	68	29	16	11	41	1.84
397358--397533	36	5.0	35	78	9	171	27	14	9	48	1.75
397392--397532	18	7.9	19	80	12	103	28	14	10	46	1.77
397362--397532	17	9.7	18	76	12	135	28	14	8	47	1.74
398009--398059	24	2.0	24	88	7	75	58	0	0	41	0.98
407486--407546	9	6.4	9	73	17	52	26	9	0	63	1.25
407494--407543	18	2.5	20	81	15	68	28	12	0	60	1.32
407503--407554	18	2.9	18	83	8	70	26	9	1	61	1.38
407503--407545	19	2.3	18	92	4	68	27	11	0	60	1.31
410205--410243	18	2.2	18	90	9	62	43	17	0	38	1.50
410537--410845	106	2.9	108	80	2	338	30	16	19	33	1.94
411622--411760	69	2.0	68	86	5	192	38	8	12	39	1.75
411746--411815	29	2.3	29	78	11	79	30	14	12	42	1.83
418904--418946	23	1.9	22	90	4	68	53	2	9	34	1.46
419104--419151	24	2.0	25	88	12	73	39	8	12	39	1.73
419104--419157	26	2.1	26	83	13	67	42	9	11	37	1.73
420986--421010	13	1.9	13	100	0	50	84	16	0	0	0.63
422091--422132	15	3.1	14	90	10	61	14	0	14	71	1.15
422242--422348	22	5.0	22	77	22	77	18	1	13	66	1.34
422264--422342	25	3.3	25	85	7	101	17	1	12	68	1.27
422251--422351	37	2.6	37	81	10	107	18	0	12	67	1.28
422257--422348	22	4.0	24	81	13	104	18	1	11	68	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431342--431395	23	2.4	23	87	3	74	61	1	1	35	1.18
431369--431467	39	2.5	38	79	12	101	64	6	2	27	1.28
436073--436097	7	3.6	7	100	0	50	72	0	0	28	0.86
449461--449651	87	2.2	87	81	7	210	35	16	21	26	1.95
449746--449843	38	2.6	38	88	0	142	34	12	17	35	1.87
450029--450053	13	1.9	13	100	0	50	32	4	24	40	1.73
451146--451271	43	2.9	42	79	10	130	21	15	28	34	1.94
452043--452291	125	2.0	125	96	0	462	30	1	24	44	1.63
452361--452677	23	13.7	23	87	2	393	27	12	19	40	1.87
452361--452677	70	4.6	70	88	2	397	27	12	19	40	1.87
452370--452677	93	3.3	92	90	2	431	27	12	19	40	1.87
452361--452677	116	2.7	117	86	2	435	27	12	19	40	1.87
452359--452677	139	2.3	139	86	1	433	27	12	19	40	1.87
453001--453034	2	17.0	2	100	0	68	50	0	0	50	1.00
455294--455368	3	25.7	3	78	15	61	68	2	2	26	1.17
470982--471032	22	2.3	22	96	0	93	27	31	0	41	1.56
472980--473014	18	1.9	18	88	0	52	25	34	8	31	1.86
473294--473319	5	5.2	5	100	0	52	38	42	0	19	1.51
473304--473523	29	7.8	29	87	5	326	45	29	0	25	1.53
473304--473523	82	2.6	84	89	4	329	45	29	0	25	1.53
473521--473658	56	2.5	54	88	4	206	36	12	5	45	1.64
478752--478801	26	1.9	26	92	8	84	0	12	16	72	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484237--484473	118	2.0	119	99	0	467	36	10	12	40	1.79
485412--485502	46	2.0	46	97	0	173	27	13	15	43	1.83
485818--485949	67	1.9	68	95	3	230	28	29	4	37	1.77
486286--486498	106	2.0	106	89	0	327	38	15	18	27	1.91
487875--487980	50	2.1	51	77	13	112	12	13	4	69	1.33
487962--488034	22	3.5	22	83	5	71	12	5	6	75	1.17
487984--488034	20	2.5	21	83	6	68	11	7	7	72	1.28
492056--492122	12	5.7	12	79	10	66	59	2	4	32	1.32
492068--492122	3	18.3	3	84	0	74	61	3	3	30	1.30
493770--493809	16	2.5	16	100	0	80	20	20	32	27	1.97

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   137   138   139   140   141