genome.fa.s4.2.7.7.80.10.50.1000.119.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  119  of  255  ( 30512 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)
38119742--38119777	13	2.8	13	91	0	63	33	11	16	38	1.84
38121037--38121280	38	5.6	47	80	10	191	32	14	22	30	1.94
38121133--38121314	38	4.6	38	80	11	220	31	14	24	29	1.94
38121078--38121331	123	2.1	123	91	0	418	31	14	23	31	1.94
38128507--38128580	38	1.9	38	100	0	148	32	13	24	29	1.93
38129767--38129911	40	3.6	40	85	4	184	25	24	26	24	2.00
38136549--38136620	37	1.9	38	97	2	137	30	13	23	31	1.94
38137795--38137939	40	3.6	40	85	4	184	25	24	26	24	2.00
38152666--38152738	38	1.9	38	100	0	146	30	13	23	32	1.93
38153919--38154063	40	3.6	40	85	4	184	25	24	26	24	2.00
38156198--38156244	3	16.0	3	91	4	78	63	0	2	34	1.06
38156201--38156244	23	1.9	23	95	0	79	63	0	2	34	1.07
38157602--38157680	37	2.1	37	90	0	122	25	31	18	24	1.98
38157799--38158397	47	12.4	47	89	5	883	29	28	8	33	1.87
38157799--38158397	98	6.2	94	88	6	883	29	28	8	33	1.87
38157814--38158396	145	4.0	145	95	0	1004	30	28	8	32	1.87
38162512--38162693	51	3.7	50	74	12	162	28	22	18	30	1.97
38162457--38162748	97	3.0	96	79	4	318	27	22	17	32	1.96
38162474--38162904	44	9.3	45	69	12	194	28	24	16	30	1.97
38162655--38162906	133	1.9	133	82	3	319	30	25	15	28	1.96
38163024--38163250	111	2.0	111	98	0	436	28	14	16	40	1.88
38173951--38173992	19	2.2	19	100	0	84	33	28	19	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38174571--38174608	3	13.0	3	86	5	51	63	5	0	31	1.17
38175884--38175915	14	2.4	13	94	5	55	84	0	9	6	0.78
38190725--38190781	30	1.9	29	89	10	89	43	5	22	28	1.75
38196227--38196256	16	1.9	15	93	6	51	33	23	0	43	1.54
38196468--38196748	50	5.6	50	81	2	276	31	27	16	24	1.97
38201173--38202081	47	19.1	47	93	2	1440	32	9	29	28	1.89
38201173--38202081	96	9.5	96	93	2	1469	32	9	29	28	1.89
38201173--38202081	143	6.4	143	92	2	1465	32	9	29	28	1.89
38202200--38202278	37	2.1	37	90	0	122	24	18	31	25	1.98
38210394--38210432	21	1.9	20	94	5	69	33	10	25	30	1.89
38213093--38213121	14	2.1	14	100	0	58	34	13	6	44	1.71
38213199--38213237	21	1.9	20	89	5	60	35	10	23	30	1.88
38213351--38213389	20	2.0	20	94	0	69	23	0	7	69	1.14
38213401--38213467	16	4.6	15	71	22	54	55	0	0	44	0.99
38213428--38213471	11	4.2	11	80	11	56	59	0	0	40	0.98
38213428--38213471	20	2.3	19	85	14	63	59	0	0	40	0.98
38217211--38217354	8	18.2	8	68	26	69	34	4	0	60	1.23
38217256--38217374	20	5.9	20	66	25	56	29	5	0	64	1.20
38217264--38217396	12	11.2	12	68	24	52	30	3	1	64	1.20
38217264--38217427	15	10.9	15	71	23	64	31	3	2	63	1.22
38217363--38217390	11	2.5	11	100	0	56	28	0	7	64	1.20
38217254--38217405	28	5.7	26	72	18	100	30	3	1	63	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38217264--38217422	39	4.0	39	75	15	139	30	3	2	63	1.23
38217355--38217422	26	2.5	27	80	15	70	29	1	5	63	1.27
38217381--38217488	31	3.4	32	78	11	114	45	0	4	50	1.22
38218435--38218472	17	2.2	17	86	9	51	23	2	5	68	1.23
38218527--38218586	31	1.9	31	100	0	120	43	0	8	48	1.33
38218633--38218664	15	2.0	17	88	11	50	31	3	6	59	1.38
38218762--38218818	27	2.1	28	90	3	89	43	7	7	42	1.58
38219212--38219249	17	2.2	17	86	9	51	23	2	5	68	1.23
38227949--38228284	168	2.0	167	96	0	618	33	13	13	38	1.84
38229885--38229966	39	2.1	39	93	0	137	29	7	21	41	1.80
38241687--38241748	30	2.1	30	100	0	124	46	12	6	33	1.68
38245311--38245454	49	2.9	48	82	6	198	29	29	15	24	1.96
38245317--38245458	50	2.8	51	85	3	200	30	30	14	23	1.95
38255555--38255624	31	2.3	31	85	5	88	32	18	7	41	1.78
38256169--38256235	31	2.2	31	86	0	89	52	7	7	32	1.58
38258874--38258925	16	3.3	17	82	12	58	40	0	0	59	0.97
38259880--38259931	24	2.2	24	89	0	77	55	9	1	32	1.43
38261842--38261893	24	2.2	24	89	0	77	55	9	1	32	1.43
38262836--38262879	18	2.4	19	84	7	63	65	0	0	34	0.93
38264696--38264771	29	2.7	27	82	8	73	30	3	3	61	1.32
38264714--38264771	27	2.1	27	87	6	80	32	5	3	58	1.37
38264709--38264772	29	2.2	31	78	16	82	31	4	3	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38265398--38265633	130	1.8	129	88	2	368	25	12	22	38	1.90
38276141--38276392	40	6.3	40	82	3	294	27	27	21	23	1.99
38276161--38276388	120	1.9	120	91	0	375	25	28	21	23	1.99
38276141--38276392	80	3.2	79	86	3	328	27	27	21	23	1.99
38280522--38280812	132	2.2	132	89	0	456	29	19	21	29	1.98
38280654--38281060	177	2.3	176	87	0	589	29	19	21	28	1.98
38280654--38281115	177	2.6	174	83	4	575	29	19	21	28	1.98
38282561--38282627	29	2.3	30	85	10	95	32	4	4	58	1.38
38283247--38283481	130	1.8	127	88	3	355	24	13	23	38	1.91
38284463--38284505	6	7.2	6	86	0	50	46	6	2	44	1.43
38284469--38284502	12	2.8	12	95	0	59	50	8	0	41	1.34
38284463--38284505	18	2.4	18	92	0	68	46	6	2	44	1.43
38284743--38284768	13	2.0	13	100	0	52	38	46	0	15	1.46
38284895--38284951	28	2.0	28	100	0	114	49	14	10	26	1.75
38285086--38285432	3	112.3	3	67	17	72	27	8	3	61	1.40
38285332--38285412	32	2.5	34	83	14	102	29	8	0	61	1.25
38290922--38291372	44	10.2	44	69	6	176	30	21	22	24	1.99
38290852--38291484	177	3.6	177	91	0	960	31	21	21	25	1.98
38291342--38291544	44	4.6	44	66	16	114	29	19	23	27	1.98
38291360--38291946	132	4.5	131	82	3	652	29	19	25	26	1.98
38291494--38291996	261	1.9	263	85	4	678	30	19	24	25	1.98
38292223--38292271	25	1.9	26	91	4	82	40	44	0	14	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38292223--38292264	13	3.3	13	80	6	59	40	50	0	9	1.35
38292229--38292271	13	3.4	12	81	9	50	44	39	0	16	1.48
38292562--38292605	3	14.7	3	86	9	63	29	4	0	65	1.12
38292876--38292923	25	1.9	25	86	0	69	27	6	2	64	1.28
38293100--38293325	125	1.8	125	80	3	276	32	15	16	35	1.91
38293376--38293494	41	2.9	41	83	5	152	33	25	22	18	1.97
38293549--38293582	16	2.2	16	89	5	52	52	32	0	14	1.42
38293534--38293604	37	1.9	37	91	0	115	49	30	0	19	1.49
38293539--38293613	37	2.0	37	87	5	107	50	30	0	18	1.47
38294065--38294100	17	2.1	18	89	5	56	50	30	0	19	1.48
38294711--38294755	19	2.3	20	92	3	74	66	2	4	26	1.22
38297186--38297238	22	2.4	23	84	12	76	28	5	22	43	1.76
38298989--38299218	43	5.4	42	84	5	248	26	14	28	31	1.95
38298989--38299224	84	2.8	85	86	1	303	25	13	27	32	1.94
38301290--38301323	10	3.3	10	84	8	50	0	14	0	85	0.60
38306540--38306577	18	2.1	19	90	5	60	21	0	23	55	1.44
38306816--38306867	22	2.4	22	87	6	70	23	9	23	44	1.82
38321733--38321797	21	3.1	21	75	0	76	33	23	21	21	1.97
38322649--38322682	11	2.8	12	86	13	52	0	23	0	76	0.79
38322764--38322804	13	3.1	13	82	3	55	58	2	0	39	1.11
38322943--38322996	21	2.4	23	76	20	60	51	3	1	42	1.30
38325137--38325227	45	2.0	45	91	0	146	38	24	9	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38337447--38337537	45	2.0	45	91	0	146	36	25	13	25	1.92
38343437--38343495	26	2.3	26	81	0	73	30	15	25	28	1.96
38346107--38346190	34	2.3	38	84	8	104	41	3	7	47	1.48
38348295--38348336	21	2.0	21	90	4	66	2	35	0	61	1.09
38354111--38354152	12	3.5	12	80	0	57	7	16	42	33	1.75
38354108--38354163	24	2.3	24	96	0	103	7	25	39	28	1.82
38354389--38354512	41	3.0	43	82	4	128	25	30	19	24	1.98
38354430--38354512	43	2.0	43	90	2	132	26	32	20	20	1.97
38355215--38355252	19	2.0	20	84	5	51	26	26	15	31	1.96
38356076--38356120	20	2.2	20	84	7	56	33	15	2	48	1.57

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   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255