genome.fa.s8.2.7.7.80.10.50.1000.116.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   

This is table  116  of  135  ( 16172 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)
42444153--42444186	17	2.0	17	88	0	50	5	0	5	88	0.64
42444194--42444243	24	2.0	26	88	11	77	50	0	14	36	1.43
42444762--42444816	22	2.4	23	82	14	69	58	1	0	40	1.09
42444835--42444874	19	2.0	20	90	4	64	60	0	0	40	0.97
42447302--42447340	15	2.7	15	96	4	71	58	30	10	0	1.31
42448006--42448138	20	6.9	20	69	20	79	40	11	9	38	1.74
42448006--42448049	21	2.2	19	84	8	52	38	6	6	47	1.57
42448010--42448105	36	2.6	36	82	12	124	42	10	9	37	1.71
42448052--42448172	58	2.1	58	83	6	147	42	12	9	35	1.76
42448083--42448138	21	2.7	20	89	8	85	33	12	12	41	1.81
42448010--42448122	36	3.1	34	79	12	118	42	10	9	37	1.73
42448205--42448431	31	7.3	31	100	0	454	48	6	9	35	1.61
42448401--42448497	36	2.6	37	83	9	117	43	8	14	34	1.75
42448399--42448697	35	8.2	36	74	11	211	44	10	13	32	1.77
42448604--42448697	17	5.4	17	80	2	98	42	10	13	32	1.79
42448533--42448697	18	9.3	17	74	13	111	42	9	13	33	1.78
42451683--42451776	17	5.4	17	83	2	107	32	13	10	42	1.79
42451683--42451939	18	14.3	18	71	15	149	31	13	10	43	1.78
42451949--42452175	31	7.3	31	100	0	454	35	9	6	48	1.61
42452200--42452239	21	1.9	21	84	0	53	42	7	7	42	1.61
42452242--42452297	21	2.7	20	89	8	85	41	12	12	33	1.81
42452275--42452370	36	2.6	35	82	12	122	37	9	10	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42452276--42452370	37	2.6	35	84	11	120	36	9	10	43	1.72
42452242--42452374	20	6.9	20	68	20	79	38	9	11	40	1.74
42453040--42453078	15	2.7	15	96	4	71	0	10	30	58	1.31
42455049--42455091	23	2.0	22	86	9	61	65	0	0	34	0.93
42455506--42455545	19	2.0	20	90	4	64	40	0	0	60	0.97
42455565--42455624	22	2.6	23	82	12	70	45	0	1	53	1.10
42456137--42456186	24	2.0	26	88	11	77	36	14	0	50	1.43
42456283--42456353	27	2.6	27	88	0	97	29	23	29	16	1.97
42456456--42456527	19	3.7	19	72	18	58	51	0	11	37	1.38
42456464--42456527	19	3.3	19	75	12	76	50	0	10	39	1.38
42456710--42456750	19	2.1	19	86	4	55	53	0	9	36	1.34
42456817--42456887	27	2.6	27	88	0	97	16	29	23	29	1.97
42456944--42456977	17	2.0	17	88	0	50	5	0	5	88	0.64
42456985--42457034	24	2.0	26	88	11	77	50	0	14	36	1.43
42457553--42457607	22	2.4	23	82	14	69	58	1	0	40	1.09
42457626--42457665	19	2.0	20	90	4	64	60	0	0	40	0.97
42460093--42460131	15	2.7	15	96	4	71	58	30	10	0	1.31
42460797--42460929	20	6.9	20	69	20	79	40	11	9	38	1.74
42460797--42460840	21	2.2	19	84	8	52	38	6	6	47	1.57
42460801--42460896	36	2.6	36	82	12	124	42	10	9	37	1.71
42460843--42460963	58	2.1	58	83	6	147	42	12	9	35	1.76
42460874--42460929	21	2.7	20	89	8	85	33	12	12	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42460801--42460913	36	3.1	34	79	12	118	42	10	9	37	1.73
42461001--42461360	18	20.1	18	69	14	199	45	9	13	31	1.76
42460996--42461067	31	2.3	31	100	0	144	50	5	9	34	1.59
42461084--42461146	17	3.6	17	79	8	81	46	11	17	25	1.81
42461037--42461160	19	6.6	19	73	13	114	41	8	15	33	1.78
42461035--42461369	36	9.2	36	77	10	224	43	9	14	32	1.77
42461276--42461369	17	5.4	17	80	2	98	42	10	13	32	1.79
42461266--42461370	35	3.0	35	80	4	122	44	10	13	31	1.77
42461707--42461744	16	2.4	16	90	0	58	68	0	0	31	0.90
42461707--42461758	5	9.0	6	87	12	58	69	0	0	30	0.89
42461736--42461765	7	4.1	7	95	4	51	73	0	0	26	0.84
42461889--42461931	16	2.6	16	92	3	68	0	16	2	81	0.79
42461889--42461931	8	5.2	8	83	5	59	0	16	2	81	0.79
42461921--42461954	13	2.6	13	95	0	59	0	23	0	76	0.79
42462233--42462312	6	12.8	6	80	11	65	0	25	0	75	0.81
42462230--42462325	19	5.0	19	78	12	81	0	27	0	72	0.84
42462229--42462320	22	4.3	22	80	13	102	0	26	0	73	0.83
42462258--42462324	16	4.4	16	73	22	63	0	26	0	73	0.84
42462810--42462958	30	5.0	30	82	7	162	39	2	22	36	1.66
42465741--42465770	10	3.0	10	95	0	51	70	16	10	3	1.29
42468650--42469224	98	5.9	97	74	7	414	34	16	22	26	1.95
42468650--42469144	49	10.2	48	66	8	173	35	16	22	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42468705--42469303	290	2.1	290	91	2	970	34	17	22	25	1.96
42470807--42470833	3	9.0	3	100	0	54	66	0	0	33	0.92
42476317--42476357	13	3.1	14	82	10	59	48	14	17	19	1.81
42477941--42477965	13	1.9	13	100	0	50	16	12	48	24	1.79
42479459--42479605	27	5.4	28	75	8	99	20	25	18	36	1.95
42482866--42482899	15	2.3	15	90	10	52	47	0	2	50	1.16
42482892--42482925	18	1.9	18	88	5	52	32	8	11	47	1.71
42485696--42485752	27	2.1	27	83	6	71	24	14	10	50	1.73
42492514--42492589	4	18.5	4	72	10	55	19	3	5	71	1.22
42492514--42492585	24	3.3	22	74	12	67	19	4	5	70	1.23
42492720--42493041	106	3.0	107	87	1	430	30	16	17	34	1.93
42493852--42493886	18	2.0	18	94	5	63	34	25	0	40	1.56
42498204--42498241	19	1.9	20	89	10	60	39	7	5	47	1.55
42501884--42501939	25	2.2	25	81	6	69	17	25	19	37	1.94
42501917--42501971	24	2.2	25	78	9	60	25	18	20	36	1.94
42503540--42503583	17	2.6	17	88	0	70	34	29	11	25	1.91
42503540--42503610	17	4.2	17	85	0	61	39	28	9	22	1.86
42503582--42503620	17	2.3	17	95	0	69	43	28	7	20	1.79
42514965--42514994	11	2.6	11	94	5	51	36	3	0	60	1.14
42517497--42517569	35	2.1	35	100	0	146	39	19	13	27	1.89
42522370--42522448	30	2.6	30	86	11	90	29	12	5	53	1.60
42522392--42522442	15	3.3	15	76	13	59	29	9	1	58	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42522655--42522696	14	3.0	14	76	13	50	50	0	0	50	1.00
42529323--42529358	19	2.0	19	89	10	58	22	8	5	63	1.43
42530060--42530097	3	12.7	3	100	0	76	34	0	0	65	0.93
42534369--42534408	21	1.9	21	84	0	53	75	5	10	10	1.19
42535291--42535336	13	3.5	13	83	16	60	69	0	15	15	1.19
42535277--42535336	7	9.0	7	85	10	65	71	0	11	16	1.14
42535284--42535336	26	2.0	27	85	10	74	69	0	13	16	1.18
42536570--42536639	38	1.9	37	88	8	108	34	22	25	17	1.96
42536772--42537383	46	13.3	46	96	1	1104	30	21	21	26	1.98
42538973--42538999	3	9.0	3	100	0	54	33	0	0	66	0.92
42542287--42542322	17	2.2	16	90	5	54	50	8	5	36	1.56
42542448--42542482	18	1.9	17	88	11	52	57	0	0	42	0.99
42544649--42544711	29	2.1	29	82	11	74	46	0	6	47	1.28
42546455--42546570	33	3.5	33	74	8	112	37	6	4	51	1.46
42546598--42547341	370	2.0	371	99	0	1481	35	11	13	39	1.81
42549477--42549526	17	2.7	20	78	15	70	60	0	2	38	1.09
42551808--42551849	14	3.1	14	86	3	59	23	21	0	54	1.44
42568214--42568244	14	2.2	14	100	0	62	38	6	19	35	1.77
42568240--42568299	31	1.9	31	83	6	77	38	11	10	40	1.75
42568289--42568361	31	2.4	29	80	10	76	42	15	9	32	1.79
42568308--42568368	31	2.0	31	87	3	88	47	11	8	32	1.69
42570830--42570878	13	3.8	13	80	0	53	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42578013--42578102	46	2.0	46	95	0	162	32	23	16	27	1.96
42580708--42580741	8	4.4	8	88	7	52	14	0	0	85	0.60
42580708--42580741	7	4.6	7	92	7	50	14	0	0	85	0.60
42580708--42580741	15	2.3	15	94	0	59	14	0	0	85	0.60
42581219--42581290	35	2.0	36	94	2	128	43	5	8	43	1.58
42583087--42583934	158	5.4	157	87	3	1118	54	8	8	28	1.60
42585568--42585743	44	4.0	44	95	0	307	41	19	17	21	1.90
42586104--42586206	30	3.4	30	75	2	109	28	29	26	16	1.97
42586073--42586206	60	2.2	60	80	5	146	30	27	25	16	1.97
42586760--42586907	30	4.9	30	77	0	125	13	27	28	31	1.94

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