genome.fa.s25.2.7.7.80.10.50.1000.179.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   

This is table  179  of  196  ( 23409 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)
52268739--52268827	25	3.6	25	75	11	83	16	30	20	32	1.95
52268746--52268854	50	2.2	50	79	0	119	19	29	20	31	1.97
52271971--52272079	56	1.9	57	83	10	143	37	4	10	47	1.58
52282818--52282853	13	2.6	14	86	8	56	30	16	41	11	1.83
52294678--52294725	15	3.1	15	87	6	60	0	29	0	70	0.87
52298230--52298288	20	2.7	22	74	15	59	11	8	23	55	1.63
52314570--52314609	20	2.0	21	90	9	66	35	10	12	42	1.76
52316533--52316575	19	2.3	19	92	4	70	30	2	0	67	1.03
52317036--52317124	29	3.2	29	61	9	76	38	3	20	38	1.69
52317014--52317133	55	2.2	55	98	1	231	40	4	20	35	1.71
52317409--52317541	40	3.4	40	77	7	137	33	24	16	25	1.96
52317701--52317747	24	2.0	24	84	16	62	51	17	0	31	1.46
52334991--52335052	21	3.0	21	92	0	97	37	4	46	11	1.61
52336450--52336510	30	2.0	30	84	6	79	47	0	3	49	1.18
52336491--52336543	19	2.7	21	75	19	60	35	1	5	56	1.34
52338178--52338238	17	3.4	17	70	12	59	31	3	14	50	1.59
52338172--52338247	37	2.1	37	94	0	134	34	5	14	46	1.67
52338421--52338460	3	13.3	3	100	0	80	32	0	0	67	0.91
52339539--52339594	21	2.7	21	88	0	85	25	7	37	30	1.82
52339808--52339863	15	4.0	15	73	17	57	55	0	0	44	0.99
52339818--52339876	26	2.3	25	85	8	82	57	1	0	40	1.09
52339813--52340011	59	3.3	59	70	14	192	53	4	1	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52339791--52340030	120	2.0	120	96	0	444	51	4	2	42	1.34
52344928--52344954	5	5.4	5	100	0	54	18	0	0	81	0.69
52347043--52347076	15	2.2	16	94	5	61	17	26	17	38	1.92
52353065--52353097	15	2.2	15	89	10	50	27	0	0	72	0.85
52354588--52354693	40	2.7	40	87	0	158	7	63	4	24	1.40
52358673--52358751	39	2.0	40	83	14	101	31	0	6	62	1.20
52358660--52358757	41	2.3	43	77	19	109	35	0	5	59	1.20
52358660--52358758	40	2.4	42	77	17	109	36	0	5	58	1.20
52364779--52364820	20	2.1	20	86	0	57	47	0	7	45	1.30
52365256--52365293	18	2.2	18	86	9	53	68	2	7	21	1.28
52366524--52366563	21	1.9	21	84	0	53	37	32	2	27	1.70
52366674--52366728	21	2.6	21	85	0	74	27	7	34	30	1.84
52366891--52367024	18	7.9	18	67	17	72	55	2	1	40	1.21
52366942--52366997	15	4.0	15	73	17	57	55	0	0	44	0.99
52366952--52367134	26	7.5	25	65	22	86	54	3	1	40	1.27
52366947--52367145	59	3.3	59	70	15	185	54	3	1	41	1.25
52366925--52367164	120	2.0	120	95	1	428	51	4	2	42	1.33
52366990--52367164	61	3.0	57	68	20	153	51	4	2	41	1.35
52367083--52367146	26	2.4	26	84	5	74	57	0	1	40	1.08
52385841--52385967	62	2.0	63	96	1	238	35	14	17	33	1.90
52389127--52389160	18	1.9	18	88	5	52	29	0	5	64	1.17
52390011--52390051	21	2.0	21	90	0	64	29	31	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52390086--52390154	30	2.3	31	87	7	97	21	8	20	49	1.76
52391235--52391297	30	2.1	30	96	0	117	57	15	3	23	1.53
52392474--52392508	2	18.0	2	94	5	63	51	0	0	48	1.00
52393173--52393200	6	4.7	6	100	0	56	14	32	17	35	1.90
52395759--52395810	24	2.2	24	82	0	59	50	9	3	36	1.54
52399967--52400026	29	2.1	27	84	6	75	41	45	1	11	1.50
52400374--52400404	7	4.6	7	92	8	55	12	0	0	87	0.55
52400374--52400404	13	2.3	14	94	5	55	12	0	0	87	0.55
52401196--52401229	16	2.1	17	94	5	61	32	0	0	67	0.91
52401374--52401421	14	3.4	14	79	2	51	35	4	6	54	1.45
52402302--52402353	24	2.2	24	89	0	77	50	9	3	36	1.54
52410522--52410578	30	1.9	30	85	7	80	22	49	3	24	1.66
52418915--52418947	6	5.5	6	92	0	57	0	48	33	18	1.48
52426148--52426203	29	1.9	29	85	0	76	48	12	12	26	1.77
52428548--52428626	24	3.2	24	80	7	88	36	24	22	16	1.94
52428942--52428981	18	2.2	19	86	4	55	27	12	12	47	1.77
52429177--52429243	33	2.0	33	97	0	125	40	19	8	31	1.82
52432678--52432911	46	5.1	46	91	2	355	28	22	8	40	1.84
52436413--52436442	15	2.0	15	100	0	60	40	6	13	40	1.71
52437755--52437793	18	2.0	21	85	14	57	41	0	0	58	0.98
52442176--52442214	14	2.7	14	84	4	51	82	2	10	5	0.93
52442243--52442284	18	2.4	17	84	11	50	73	4	2	19	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52442336--52442385	5	9.8	5	76	20	50	80	0	0	20	0.72
52442306--52442385	21	3.9	21	74	20	71	76	0	2	21	0.91
52442306--52442385	31	2.6	30	80	13	83	76	0	2	21	0.91
52442309--52442384	35	2.2	35	83	9	93	76	0	2	21	0.91
52466053--52466106	26	2.1	26	82	0	63	55	9	1	33	1.42
52466100--52466186	24	3.6	23	80	13	79	63	2	4	29	1.27
52466105--52466186	25	3.3	26	75	14	82	62	2	4	30	1.29
52469747--52469829	42	2.0	42	87	0	121	40	10	26	21	1.86
52472324--52472481	50	3.1	50	87	0	235	20	31	24	24	1.98
52474943--52475007	20	3.3	19	78	8	67	30	1	0	67	1.00
52475126--52475183	19	3.1	19	79	16	59	34	8	0	56	1.30
52484446--52484503	27	2.2	26	84	12	73	37	1	5	55	1.33
52487393--52487424	2	16.0	2	100	0	64	50	0	0	50	1.00
52491569--52491608	15	2.9	13	82	13	53	10	7	7	75	1.20
52494216--52494258	12	3.5	13	81	9	54	39	4	0	55	1.20
52494764--52494820	22	2.6	22	82	0	69	12	50	21	15	1.76
52495706--52495754	3	15.7	3	79	8	53	30	6	2	61	1.32
52495693--52495739	19	2.4	20	89	3	69	27	8	4	59	1.45
52495955--52496030	33	2.4	32	75	18	77	36	6	0	56	1.25
52499335--52499449	45	2.6	45	94	2	198	26	24	15	33	1.95
52499858--52499935	28	2.7	29	74	9	70	53	1	2	42	1.22
52499869--52499936	31	2.3	28	78	9	73	54	1	2	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52500811--52500859	18	2.7	18	93	0	80	36	0	8	55	1.30
52500813--52500862	3	16.7	3	82	0	64	36	0	6	58	1.23
52500813--52500862	12	4.2	12	92	0	73	36	0	6	58	1.23
52501001--52501072	24	2.9	24	78	15	67	44	0	22	33	1.53
52501216--52501311	39	2.5	39	80	6	108	20	23	28	27	1.99
52512194--52512284	32	2.8	32	96	0	164	23	12	24	40	1.88
52526759--52526799	14	3.0	14	76	16	50	21	7	31	39	1.81
52527306--52528094	50	15.7	50	74	3	564	25	20	22	31	1.98
52527310--52528125	100	8.1	100	87	0	1076	25	21	21	31	1.98
52527310--52528125	201	4.1	200	87	0	1071	25	21	21	31	1.98
52528131--52528337	44	4.7	44	65	17	115	26	24	17	31	1.97
52528132--52528484	132	2.7	132	91	0	564	26	22	18	31	1.97
52529706--52529757	22	2.4	22	81	15	63	3	17	1	76	1.02
52532407--52532440	12	2.8	12	81	0	50	8	23	23	44	1.81
52557916--52557962	21	2.2	20	78	17	51	51	2	0	46	1.13
52557923--52557961	19	2.0	20	85	14	55	51	0	0	48	1.00
52561209--52561234	4	6.5	4	100	0	52	23	26	0	50	1.50
52573171--52573238	9	7.7	9	78	17	63	2	14	0	82	0.79
52573171--52573229	8	7.0	8	83	11	73	3	15	0	81	0.82
52574633--52574692	32	1.9	32	86	10	88	40	3	3	53	1.34
52575779--52575857	27	2.8	30	77	9	85	53	7	10	29	1.62
52576161--52576190	5	6.0	5	100	0	60	20	0	20	60	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52576802--52577722	111	8.5	108	82	10	991	40	13	15	30	1.86
52577439--52577723	97	2.8	99	87	6	373	43	14	16	26	1.85
52582413--52583223	108	7.9	107	79	11	789	30	14	13	41	1.85
52582612--52583226	98	6.1	100	77	10	612	30	14	13	41	1.84
52583216--52583246	16	1.9	16	100	0	62	0	9	6	83	0.79
52584062--52584102	21	1.9	22	90	5	66	43	21	4	29	1.73
52585873--52585935	21	3.0	21	75	9	74	42	17	20	19	1.89
52585867--52585987	42	2.9	42	79	3	129	42	16	20	20	1.89
52590701--52590734	13	2.7	13	90	4	52	73	0	0	26	0.83
52590701--52590763	12	5.2	12	75	17	51	68	0	1	30	0.99

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   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196