genome.fa.s26.2.7.7.80.10.50.1000.125.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   215   216   217   218   219   220   221   

This is table  125  of  221  ( 26413 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)
38544786--38544864	40	1.9	42	87	5	117	34	1	0	64	1.02
38549353--38549421	22	2.9	21	76	21	57	21	5	0	72	1.05
38549385--38549431	12	3.9	12	76	17	53	23	6	0	70	1.10
38549355--38549423	17	4.1	17	71	16	63	20	5	0	73	1.03
38549355--38549431	24	3.1	25	77	17	81	20	6	0	72	1.06
38550180--38550366	101	1.8	100	82	7	241	27	16	24	31	1.96
38550354--38550403	16	3.1	16	83	11	57	78	2	2	18	0.95
38557979--38558559	44	13.2	44	62	13	167	25	23	20	30	1.98
38557931--38558665	132	5.6	132	95	0	1308	25	23	20	30	1.98
38566707--38566752	24	1.9	24	86	0	65	10	26	17	45	1.81
38570793--38570835	16	2.5	17	81	7	52	53	4	6	34	1.49
38571393--38571436	19	2.2	20	84	4	54	9	47	31	11	1.71
38573462--38573497	15	2.5	14	86	8	54	44	0	11	44	1.39
38576789--38576874	13	6.5	13	70	16	52	45	2	20	31	1.64
38576822--38576872	14	3.8	14	74	7	52	43	1	21	33	1.64
38576809--38576873	27	2.4	27	92	5	105	40	3	23	33	1.70
38576822--38576904	27	3.1	27	81	10	82	45	1	18	34	1.57
38580534--38580588	28	2.0	28	96	0	101	29	20	5	45	1.73
38589786--38589861	31	2.5	30	80	6	73	56	1	5	36	1.30
38590007--38590053	17	2.8	17	74	3	51	31	0	0	68	0.90
38590006--38590057	16	3.1	17	73	15	54	32	0	0	67	0.91
38591717--38591795	25	3.2	25	79	0	95	32	13	18	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38594900--38595196	50	5.8	50	83	5	294	27	20	28	23	1.99
38597706--38597768	31	2.0	31	100	0	126	46	9	15	28	1.78
38602346--38602389	23	1.9	23	100	0	88	40	18	6	34	1.77
38604159--38604216	28	2.0	29	83	9	75	53	6	0	39	1.28
38615462--38615511	25	2.0	25	84	7	66	76	6	2	16	1.08
38616031--38616070	21	1.9	21	85	10	55	15	25	25	35	1.94
38620480--38620562	40	2.1	40	100	0	166	31	19	20	28	1.97
38624302--38624382	39	2.1	39	100	0	162	19	14	9	55	1.67
38624693--38625556	29	29.3	29	94	3	1478	37	10	0	51	1.39
38624693--38625556	88	9.8	88	94	3	1497	37	10	0	51	1.39
38625602--38625690	44	2.0	44	87	6	128	10	50	3	35	1.53
38627500--38627575	21	3.7	21	94	3	129	36	11	14	36	1.83
38627512--38627598	21	4.0	24	88	8	93	37	8	16	37	1.78
38628022--38628065	18	2.5	18	85	10	56	34	0	0	65	0.93
38628022--38628066	15	3.1	14	87	9	56	35	0	0	64	0.94
38634660--38634799	44	3.2	44	68	8	131	24	27	26	21	1.99
38634634--38634776	43	3.3	43	67	7	117	24	28	28	18	1.98
38634612--38635101	88	5.6	88	87	0	667	27	27	24	20	1.99
38635103--38635455	44	8.2	44	80	8	384	28	17	25	28	1.97
38635141--38635394	126	2.0	126	92	0	427	30	16	24	27	1.97
38635122--38635430	170	1.8	170	89	2	487	29	16	25	28	1.97
38635783--38635890	44	2.5	44	81	3	119	30	20	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38636319--38636383	21	3.1	21	95	0	121	38	9	12	40	1.75
38636318--38636394	21	3.8	19	82	12	100	37	9	14	38	1.78
38636373--38636417	23	2.0	23	86	4	65	40	2	17	40	1.62
38636383--38636427	23	2.0	23	82	4	56	35	2	15	46	1.58
38636849--38636890	12	3.2	13	86	13	50	30	0	2	66	1.04
38636854--38636891	12	2.8	13	88	11	51	34	0	0	65	0.93
38638685--38638729	22	2.1	22	87	4	65	55	15	26	2	1.52
38638698--38638769	21	3.4	21	80	1	72	51	16	27	4	1.63
38646464--38646502	18	2.2	19	90	9	64	25	12	0	61	1.31
38652256--38652285	13	2.3	13	94	0	51	50	23	16	10	1.75
38658563--38658719	23	7.0	23	83	6	160	20	21	22	36	1.95
38658566--38658719	46	3.4	45	82	7	179	20	20	22	36	1.95
38658563--38658721	69	2.4	67	84	5	196	20	20	22	36	1.95
38661378--38661434	28	2.0	28	86	6	80	54	12	8	24	1.65
38662731--38662771	19	2.3	17	87	8	55	17	7	0	75	1.02
38664715--38664750	18	2.0	18	94	0	63	30	0	5	63	1.17
38664710--38664753	18	2.5	17	79	13	54	34	0	6	59	1.24
38671532--38671597	28	2.3	29	84	10	82	51	1	10	36	1.46
38672276--38672335	25	2.5	24	78	19	63	33	0	6	60	1.23
38675207--38675240	12	2.8	12	86	4	50	23	0	8	67	1.18
38675415--38675455	14	2.7	15	88	7	57	26	4	2	65	1.25
38675444--38675477	10	3.2	10	88	12	50	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38683879--38683938	27	2.2	27	96	0	111	31	28	18	21	1.97
38685662--38686140	109	4.5	108	77	11	357	29	17	19	33	1.95
38685919--38686143	112	2.0	112	86	4	317	26	17	18	37	1.93
38686096--38686185	45	2.0	45	95	0	162	17	20	28	33	1.95
38685984--38686295	158	2.0	155	86	2	428	24	18	20	36	1.95
38689375--38689493	56	2.2	55	82	5	143	57	2	11	28	1.47
38693653--38693720	33	2.1	33	97	0	127	30	27	26	14	1.95
38694953--38694987	17	2.1	17	100	0	70	31	34	11	22	1.90
38697090--38697141	27	1.9	27	92	0	86	30	0	17	51	1.45
38708651--38708715	32	2.0	32	93	0	112	26	3	16	53	1.58
38710103--38710142	20	2.0	20	90	0	62	42	12	12	32	1.80
38714161--38714197	11	3.1	13	81	18	53	67	0	0	32	0.91
38715431--38715470	9	4.3	9	81	6	53	25	42	2	30	1.68
38717362--38717469	37	3.0	33	74	16	90	52	3	2	40	1.33
38717353--38717410	31	1.9	29	83	13	73	53	5	3	37	1.40
38718344--38718399	23	2.6	21	86	11	69	55	0	5	39	1.23
38718359--38718408	11	4.3	12	92	7	86	56	0	4	40	1.18
38718359--38718449	23	4.2	23	75	13	102	59	0	4	36	1.18
38718358--38718408	12	4.3	12	82	12	70	56	0	3	39	1.18
38718433--38718478	17	2.7	17	79	0	56	60	0	0	39	0.97
38718371--38718467	41	2.4	41	84	6	142	62	0	3	34	1.11
38719803--38719842	20	2.0	20	95	0	71	25	22	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38723442--38723542	52	1.9	52	95	0	184	24	18	23	32	1.97
38737225--38737283	14	4.1	14	79	14	66	62	0	1	35	1.05
38737554--38737620	30	2.4	28	88	11	95	43	2	0	53	1.16
38737776--38737911	4	34.0	4	70	24	58	68	0	31	0	0.90
38737766--38737826	30	2.0	31	90	6	97	60	0	39	0	0.97
38737804--38737911	18	6.6	18	70	21	78	70	0	29	0	0.88
38737781--38737955	39	4.5	39	78	14	177	68	0	32	0	0.90
38737780--38737918	18	7.3	18	71	20	70	67	0	32	0	0.91
38737835--38737943	18	5.6	18	69	23	78	70	0	29	0	0.87
38737882--38737948	21	3.1	21	75	10	73	71	0	28	0	0.86
38743751--38743792	18	2.3	19	88	12	70	19	50	2	28	1.60
38744555--38744656	3	33.7	3	79	13	102	64	27	0	7	1.21
38744906--38744998	27	3.4	27	85	5	109	13	26	31	27	1.94
38745054--38745125	26	2.5	29	86	10	96	45	0	9	44	1.36
38747796--38747849	19	2.7	19	85	5	72	57	9	0	33	1.31
38748001--38748026	3	8.7	3	100	0	52	30	0	0	69	0.89
38751340--38751428	30	3.0	29	81	3	106	13	28	33	24	1.93
38753156--38753209	6	9.0	6	95	0	99	81	1	0	16	0.78
38754845--38754964	22	5.2	21	73	20	73	71	5	3	20	1.19
38754853--38754960	37	3.0	36	73	20	100	72	4	3	19	1.18
38754850--38754943	12	7.7	12	70	22	63	71	5	4	19	1.22
38758746--38758772	5	5.4	5	100	0	54	81	0	0	18	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38762064--38762094	3	10.3	3	100	0	62	0	35	0	64	0.94
38763371--38763412	19	2.2	19	87	8	59	38	0	2	59	1.10
38763944--38763976	12	2.6	13	90	4	50	18	6	0	75	1.00
38771283--38771336	28	1.9	28	96	0	99	35	7	11	46	1.67
38773566--38773603	18	2.0	21	85	15	55	28	0	15	55	1.41
38782304--38782557	27	9.5	26	78	10	219	43	18	17	20	1.88
38782304--38782554	80	3.1	77	83	7	306	44	18	17	19	1.87
38782304--38782555	54	4.7	51	79	9	256	44	19	17	19	1.87
38789417--38789659	59	4.1	59	77	2	218	30	21	11	36	1.89
38793472--38793514	21	2.1	21	87	8	63	16	4	23	55	1.59

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   215   216   217   218   219   220   221