genome.fa.s25.2.7.7.80.10.50.1000.131.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  131  of  214  ( 25680 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)
39887971--39888036	21	3.2	21	87	10	100	57	12	1	28	1.44
39889138--39889174	19	1.9	19	88	0	56	56	0	0	43	0.99
39889420--39889444	6	4.2	6	100	0	50	48	0	0	52	1.00
39890539--39890590	23	2.3	23	89	0	77	25	26	17	30	1.97
39892276--39892333	15	4.0	15	75	8	66	29	18	15	36	1.92
39895357--39895393	14	2.5	15	91	4	58	62	0	5	32	1.18
39895919--39896287	125	3.0	125	90	0	576	30	15	22	31	1.95
39899449--39899585	64	2.2	64	84	6	172	29	1	25	43	1.63
39899532--39900530	68	14.8	67	82	8	953	26	0	24	48	1.54
39899497--39900550	23	46.9	22	75	7	879	26	0	24	48	1.54
39899497--39900550	45	23.5	43	76	9	814	26	0	24	48	1.54
39901824--39901861	20	1.9	20	84	10	51	55	7	2	34	1.43
39902847--39902923	11	6.9	11	71	19	61	44	1	29	24	1.62
39902869--39902923	22	2.4	23	87	6	85	47	1	27	23	1.62
39903447--39903496	25	2.1	24	85	10	68	46	6	2	46	1.39
39906053--39906124	26	2.8	26	73	10	67	37	6	19	36	1.79
39912940--39913023	5	16.8	5	100	0	168	39	0	0	60	0.97
39915934--39915999	31	2.1	31	83	5	80	24	10	9	56	1.62
39921371--39921434	25	2.5	25	80	9	67	37	3	0	59	1.13
39927254--39927281	9	3.1	9	100	0	56	67	0	0	32	0.91
39927535--39927594	30	2.0	31	83	9	79	41	0	38	20	1.52
39927897--39927927	9	3.4	9	90	0	53	38	22	12	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39934410--39934601	49	3.8	50	86	2	260	26	21	30	21	1.98
39934410--39934601	99	1.9	101	86	2	271	26	21	30	21	1.98
39936807--39936851	21	2.2	21	84	11	58	55	4	13	26	1.57
39937188--39937247	22	2.7	23	74	5	61	46	3	8	41	1.50
39938040--39938070	15	2.1	15	100	0	62	80	0	6	12	0.89
39939774--39939833	28	2.1	28	84	6	77	60	0	6	33	1.23
39940171--39940205	18	1.9	18	88	11	54	62	14	0	22	1.31
39940202--39940241	15	2.7	15	84	0	53	57	5	2	35	1.34
39948857--39948905	23	2.1	23	88	0	71	36	2	6	55	1.37
39949247--39949381	40	3.4	39	74	4	119	37	20	20	20	1.94
39949418--39949658	41	5.9	41	89	1	367	22	23	23	29	1.99
39950753--39950786	7	4.9	7	92	0	50	8	0	55	35	1.31
39951663--39952189	143	3.7	142	88	4	681	42	14	10	32	1.80
39952199--39952243	21	2.2	20	84	4	54	24	48	2	24	1.62
39955453--39955482	12	2.5	12	100	0	60	33	6	10	50	1.62
39956701--39956809	43	2.5	43	87	1	146	21	13	29	35	1.92
39958852--39958909	30	1.9	30	85	0	80	37	10	13	37	1.79
39959347--39959410	29	2.2	30	82	2	76	54	6	7	31	1.54
39960103--39960156	18	2.9	18	86	2	72	42	46	0	11	1.39
39960184--39960233	6	7.8	6	84	10	55	68	10	0	22	1.19
39960198--39960233	6	5.8	6	96	3	63	66	13	0	19	1.24
39960308--39960383	27	2.8	27	84	4	91	27	7	21	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39960308--39960383	9	8.4	9	82	5	73	27	7	21	43	1.80
39964617--39964766	41	3.6	41	88	0	210	26	22	26	26	2.00
39971515--39971567	12	4.2	12	77	13	52	45	3	7	43	1.50
39972229--39972369	41	3.4	41	92	0	219	26	22	26	24	2.00
39973130--39973176	23	2.0	24	87	8	69	27	23	6	42	1.78
39973910--39974094	46	4.0	46	95	0	325	28	27	9	34	1.89
39975321--39975368	17	2.9	17	87	3	62	54	20	0	25	1.45
39977872--39977904	12	3.0	11	91	8	50	48	18	9	24	1.76
39977758--39978064	151	2.0	149	82	5	348	39	19	15	25	1.91
39978093--39978282	94	2.0	94	90	2	301	39	15	15	30	1.88
39979398--39979508	31	3.6	31	77	10	111	32	10	9	46	1.72
39983216--39983240	12	2.1	12	100	0	50	24	36	0	40	1.55
39990367--39990392	3	8.7	3	100	0	52	69	0	30	0	0.89
39991466--39991532	34	1.9	35	93	3	118	50	13	4	31	1.61
39991501--39991540	14	2.9	14	84	0	53	47	17	2	32	1.61
39994130--39994213	3	27.3	3	73	13	64	60	3	4	30	1.34
39995695--39996675	44	22.8	44	69	13	417	28	20	19	31	1.97
39995818--39996720	175	5.2	175	92	2	1466	28	20	19	31	1.97
39995829--39996720	345	2.6	345	95	0	1577	28	20	19	31	1.97
39995695--39996508	129	6.3	129	73	10	561	28	20	19	31	1.97
40003195--40003278	3	27.3	3	73	13	64	61	2	4	30	1.29
40005963--40006016	21	2.6	21	90	0	81	33	25	14	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40006529--40006593	33	2.0	33	96	0	121	41	12	9	36	1.75
40006923--40006969	24	2.0	24	83	8	60	31	12	17	38	1.87
40013658--40013743	25	3.3	25	72	18	68	38	0	17	44	1.49
40014095--40014149	27	2.0	27	82	0	65	52	1	21	23	1.56
40018149--40018285	56	2.4	56	78	10	154	60	1	8	29	1.34
40019854--40020542	45	15.3	43	74	11	190	28	19	18	33	1.95
40019854--40019949	42	2.2	44	87	7	135	30	22	15	31	1.95
40020070--40020554	45	10.9	44	82	4	483	28	19	18	33	1.96
40019854--40020554	89	7.8	88	75	10	553	29	19	18	33	1.95
40020070--40020554	178	2.7	179	90	1	735	28	19	18	33	1.96
40032439--40032492	19	2.8	20	80	8	58	75	1	3	18	1.03
40032521--40032546	4	6.5	4	100	0	52	76	0	0	23	0.78
40032420--40032570	64	2.4	63	81	5	180	62	1	6	28	1.31
40033752--40033793	21	2.0	21	86	9	59	9	9	57	23	1.60
40035399--40035428	14	2.2	14	94	5	53	13	13	23	50	1.77
40035413--40035454	19	2.2	20	86	4	59	19	16	11	52	1.74
40038712--40038817	53	2.0	53	98	0	203	44	8	7	39	1.63
40040255--40040295	21	1.9	22	90	5	66	29	14	7	48	1.71
40045852--40045894	18	2.4	18	80	7	52	51	0	2	46	1.13
40049314--40049345	3	10.7	3	100	0	64	34	0	0	65	0.93
40049797--40049851	22	2.5	22	84	0	65	34	16	25	23	1.95
40055860--40055905	20	2.3	20	85	7	58	60	2	6	30	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40057033--40057081	3	16.3	3	100	0	98	67	0	32	0	0.91
40058057--40058383	44	7.4	44	65	12	161	26	25	17	30	1.97
40058047--40058392	132	2.6	132	91	0	557	26	25	18	30	1.98
40059826--40059860	6	6.2	6	87	12	56	0	17	0	82	0.66
40059826--40059860	11	3.1	11	91	4	52	0	17	0	82	0.66
40059827--40059859	16	2.0	17	94	5	59	0	12	0	87	0.53
40059862--40059930	35	2.0	35	86	5	97	18	2	7	71	1.23
40072060--40072097	19	2.0	20	85	10	53	34	13	10	42	1.78
40077013--40077083	27	2.6	27	82	4	90	22	21	26	29	1.99
40083085--40083154	6	11.2	6	71	14	52	78	2	2	15	0.99
40084028--40084103	26	2.9	26	84	0	98	36	21	22	19	1.95
40084040--40084124	26	3.2	26	81	1	71	35	21	22	21	1.96
40084158--40084239	36	2.4	32	77	14	92	29	13	18	39	1.89
40084318--40084406	27	3.3	27	93	3	144	20	21	19	39	1.93
40085882--40085912	14	2.2	14	94	0	53	48	12	0	38	1.42
40087289--40087322	15	2.2	16	89	5	52	44	0	0	55	0.99
40088233--40088262	12	2.4	13	94	5	53	20	30	0	50	1.49
40091372--40091400	13	2.2	13	100	0	58	13	6	0	79	0.93
40096948--40096986	16	2.3	18	91	8	64	58	5	0	35	1.20
40100656--40100689	15	2.2	16	89	5	52	44	0	0	55	0.99
40101942--40101972	14	2.2	14	94	0	53	48	12	0	38	1.42
40107377--40107407	14	2.2	14	94	0	53	48	12	0	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40109037--40109083	11	4.2	11	88	2	67	23	25	4	46	1.70
40109268--40109318	24	2.1	24	85	7	68	29	1	1	66	1.13
40110011--40110065	28	2.0	28	88	0	83	21	34	36	7	1.81
40110006--40110083	28	2.8	28	78	1	68	21	32	37	8	1.85
40113678--40113720	18	2.4	18	80	0	50	18	25	6	48	1.73
40114071--40114265	94	2.1	93	92	0	318	35	2	4	56	1.33
40115946--40116025	41	2.0	39	88	7	117	33	0	36	30	1.58
40125684--40125718	17	1.9	18	88	11	54	22	22	31	22	1.98
40129133--40129214	15	5.5	15	73	5	67	68	3	6	21	1.28
40129199--40129231	17	1.9	17	88	11	50	75	0	0	24	0.80

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   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214