genome.fa.s19.2.7.7.80.10.50.1000.166.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  166  of  230  ( 27491 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)
49499387--49499453	25	2.7	25	86	2	82	20	26	17	34	1.96
49504960--49505003	13	3.5	13	82	14	56	68	6	0	25	1.14
49506822--49506978	78	2.0	78	86	0	215	31	24	17	26	1.97
49507122--49507189	34	2.0	34	100	0	136	29	17	23	29	1.97
49507133--49507205	34	2.1	34	85	5	94	30	17	21	30	1.97
49508638--49508832	93	2.1	92	88	4	286	44	4	4	47	1.41
49508865--49508898	17	2.0	17	94	0	59	44	5	0	50	1.26
49508865--49508903	17	2.4	16	87	8	53	43	5	0	51	1.24
49508869--49508908	17	2.3	18	83	12	57	47	5	0	47	1.24
49508956--49508991	16	2.2	16	90	5	54	38	0	8	52	1.32
49508988--49509122	15	8.9	15	67	24	70	42	2	3	51	1.32
49509090--49509131	15	2.7	16	82	14	52	45	0	2	52	1.13
49509081--49509378	154	1.9	156	95	2	546	47	5	3	44	1.41
49509231--49509265	18	2.0	17	88	5	52	45	0	0	54	0.99
49509498--49509536	16	2.4	16	86	0	51	28	33	2	35	1.71
49509511--49509567	16	3.6	16	95	0	87	33	36	0	29	1.58
49509585--49509876	158	1.9	157	91	0	485	36	13	9	40	1.77
49511138--49511236	52	1.9	52	85	4	137	34	19	20	26	1.96
49511472--49511540	34	2.0	34	100	0	138	5	23	11	59	1.53
49511481--49511543	16	3.8	16	72	15	65	3	23	6	66	1.29
49511539--49511587	25	1.9	26	83	4	64	16	10	10	63	1.52
49514433--49514476	25	1.9	24	82	17	58	45	4	9	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49516260--49516313	28	1.9	28	85	14	76	57	5	0	37	1.22
49516079--49516537	223	2.0	224	97	0	875	41	6	7	44	1.59
49516483--49516536	28	1.9	28	85	14	76	57	5	0	37	1.22
49516548--49516581	11	3.3	11	88	12	54	50	0	0	50	1.00
49516524--49516591	20	3.3	19	73	15	64	52	0	4	42	1.21
49519638--49519708	29	2.4	31	77	11	78	73	0	19	7	1.06
49520501--49520596	43	2.2	44	81	7	117	33	20	19	26	1.97
49522023--49522091	23	3.3	23	66	26	71	60	8	5	24	1.48
49522017--49522094	39	2.0	39	100	0	156	58	7	7	25	1.52
49539095--49539123	9	3.2	9	100	0	58	68	0	0	31	0.89
49539520--49539556	9	4.1	9	89	0	56	32	10	10	45	1.74
49541164--49541189	12	2.2	12	100	0	52	73	15	0	11	1.11
49541198--49541228	13	2.4	13	94	0	53	41	12	0	45	1.42
49541849--49542074	78	3.0	75	82	8	262	42	3	34	19	1.69
49544810--49544848	17	2.2	19	86	9	55	30	0	28	41	1.57
49545206--49545433	46	5.0	45	78	4	206	30	19	20	29	1.97
49547419--49547550	51	2.6	50	82	7	142	35	28	15	21	1.93
49547421--49547605	101	1.8	101	83	3	246	31	26	18	23	1.97
49551316--49551522	112	1.8	112	88	0	315	34	14	17	32	1.91
49565056--49565087	12	2.7	12	95	0	55	43	12	34	9	1.75
49577392--49577597	98	2.1	98	95	2	369	29	9	22	38	1.86
49581974--49582188	105	2.0	104	80	5	236	25	25	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49586016--49586078	30	2.1	30	93	0	108	22	3	17	57	1.54
49587650--49587711	21	3.0	20	79	9	63	29	4	6	59	1.43
49596026--49596057	16	1.9	17	93	6	57	53	0	18	28	1.45
49596313--49596371	30	2.0	31	83	6	77	42	0	33	23	1.55
49601671--49601720	24	2.0	27	84	11	70	44	0	4	52	1.20
49602473--49602526	27	2.0	27	89	7	83	18	20	18	42	1.89
49608657--49608708	19	2.9	17	81	10	59	38	11	17	32	1.85
49608667--49608710	19	2.1	22	88	12	67	38	9	18	34	1.82
49614263--49614305	11	4.0	10	82	11	50	81	2	16	0	0.79
49614261--49614302	15	2.9	14	89	10	66	83	2	14	0	0.75
49628380--49628422	11	4.0	10	82	11	50	81	2	16	0	0.79
49628377--49628419	15	2.9	14	90	10	68	83	2	13	0	0.74
49629662--49630547	88	10.2	88	86	5	1038	24	23	26	26	2.00
49629961--49630584	261	2.4	262	86	2	847	25	21	25	26	2.00
49630550--49630936	44	8.8	44	83	2	436	30	15	25	28	1.96
49630549--49630966	89	4.7	88	78	6	400	30	15	25	28	1.96
49630551--49630966	133	3.1	133	85	1	451	30	15	25	28	1.96
49630550--49630936	177	2.2	175	90	0	594	30	15	25	28	1.96
49631271--49631342	19	3.7	19	90	7	117	34	11	16	37	1.84
49634354--49634378	9	2.8	9	100	0	50	0	20	0	80	0.72
49642612--49642652	19	2.1	20	86	4	57	31	4	4	58	1.40
49643102--49643136	15	2.3	15	95	0	61	22	0	11	65	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49654107--49654155	26	1.9	26	88	12	75	16	12	8	63	1.51
49654848--49655568	310	2.3	310	87	1	1027	28	16	25	28	1.97
49654818--49655568	133	5.7	133	83	5	824	28	16	25	29	1.97
49654819--49655542	221	3.3	221	87	2	992	28	16	25	29	1.97
49657626--49657684	30	2.0	30	86	6	84	28	3	3	64	1.26
49658008--49658060	27	2.0	27	81	7	63	24	5	3	66	1.31
49659604--49659714	58	2.0	54	82	7	132	52	3	13	30	1.58
49661111--49661722	40	14.7	40	76	11	400	23	20	23	32	1.98
49661111--49661731	82	7.5	82	72	13	418	23	20	23	32	1.98
49661150--49661750	127	4.8	127	87	2	847	23	20	23	33	1.97
49661498--49661679	43	4.3	43	66	17	112	24	16	23	36	1.94
49661804--49662286	50	9.7	50	69	4	267	25	21	22	30	1.99
49661746--49662301	100	5.6	100	85	2	724	24	21	22	30	1.99
49661746--49662301	199	2.8	199	89	0	851	24	21	22	30	1.99
49662344--49662615	44	6.2	44	78	3	280	27	26	16	28	1.97
49662344--49662617	132	2.1	132	95	1	496	27	26	16	29	1.97
49662943--49662996	24	2.2	25	81	15	69	27	20	14	37	1.92
49664319--49664365	17	2.8	16	78	15	51	0	6	10	82	0.82
49668073--49668139	31	2.2	29	78	5	71	53	0	10	35	1.35
49672601--49672656	25	2.2	25	90	0	85	62	3	0	33	1.12
49672616--49672657	12	3.4	12	75	18	50	59	2	0	38	1.10
49675897--49676004	37	2.9	36	78	18	109	40	3	3	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49680026--49680111	21	4.0	22	80	8	106	38	23	20	17	1.93
49682282--49682333	17	3.2	15	76	15	50	1	30	0	67	1.02
49683262--49683345	34	2.4	34	80	2	96	28	15	14	41	1.86
49683390--49683563	45	3.9	45	81	6	199	28	20	13	37	1.91
49684120--49684165	24	1.9	24	90	0	74	54	13	2	30	1.50
49686083--49686128	24	1.9	24	90	0	74	54	13	2	30	1.50
49687380--49687430	15	3.1	15	77	20	57	35	0	1	62	1.06
49687390--49687432	19	2.3	18	88	11	61	32	0	2	65	1.06
49687398--49687449	25	2.1	25	88	0	77	36	0	1	61	1.07
49689039--49689080	21	2.0	22	85	4	59	28	0	26	45	1.54
49690453--49690793	113	3.0	115	84	3	449	25	21	26	26	1.99
49691392--49691424	14	2.3	15	89	5	50	33	0	30	36	1.58
49691611--49691878	97	2.9	89	80	11	308	28	1	27	41	1.66
49692073--49692235	83	2.0	84	82	3	204	30	17	20	31	1.96
49692513--49692768	84	3.0	84	80	6	254	32	15	19	32	1.93
49692548--49692769	84	2.6	83	83	5	261	32	15	20	31	1.93
49693058--49693337	84	3.3	84	83	5	257	29	16	21	32	1.96
49692010--49693485	545	2.7	544	91	0	2366	29	15	20	34	1.94
49695023--49695092	18	3.7	18	78	17	88	44	11	0	44	1.40
49695023--49695099	39	1.9	41	94	5	140	44	10	0	45	1.38
49695088--49695121	17	2.0	17	94	0	59	44	0	0	55	0.99
49695317--49695374	30	1.9	30	82	6	73	46	13	5	34	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49695335--49695704	9	42.3	9	67	18	151	48	18	1	31	1.59
49695361--49695660	16	17.9	16	68	21	145	49	19	2	30	1.59
49695453--49695556	28	3.8	28	75	8	81	51	20	0	27	1.47
49695448--49695558	44	2.5	44	80	14	120	51	19	0	28	1.47
49695335--49695702	25	14.8	25	69	17	100	48	18	1	31	1.59
49697486--49697532	21	2.2	21	96	0	85	34	19	46	0	1.50
49697902--49698111	43	4.9	43	90	0	312	28	21	25	23	1.99
49698485--49698538	10	5.6	10	75	14	51	62	1	3	31	1.23
49698760--49698802	18	2.3	19	88	4	61	25	4	0	69	1.07
49698797--49698843	19	2.5	20	82	10	62	34	2	2	61	1.20

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