genome.fa.s25.2.7.7.80.10.50.1000.17.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  17  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)
4860870--4860904	18	2.0	17	88	5	52	45	0	0	54	0.99
4861181--4861277	44	2.2	44	81	5	115	34	26	6	32	1.81
4861257--4861305	16	3.1	16	90	0	80	20	36	8	34	1.82
4862315--4862391	33	2.5	31	79	10	84	38	10	11	38	1.76
4865204--4865447	120	2.1	118	83	7	298	31	20	7	40	1.80
4869201--4869246	24	1.9	24	86	0	65	45	0	34	19	1.51
4869814--4869856	16	2.6	17	78	10	54	53	0	2	44	1.13
4869927--4870002	11	6.8	11	68	24	52	53	1	1	43	1.17
4869895--4869944	20	2.7	19	80	20	61	54	2	2	42	1.23
4870336--4870367	3	11.0	3	93	6	57	31	0	0	68	0.90
4873535--4873574	19	2.1	19	90	0	62	37	5	5	52	1.45
4876392--4876427	17	2.1	17	89	5	54	16	22	41	19	1.90
4876657--4876752	27	3.6	27	82	1	131	33	15	22	28	1.95
4876657--4876758	54	1.9	54	87	2	152	32	17	21	28	1.96
4876819--4876880	24	2.6	24	84	0	70	29	8	20	41	1.81
4876827--4876951	24	5.2	24	80	7	119	22	6	24	47	1.74
4876875--4876944	11	6.0	11	69	12	50	18	4	25	51	1.64
4876843--4876951	48	2.3	48	87	6	150	22	6	23	46	1.75
4877068--4877117	26	1.9	26	91	0	82	14	22	28	36	1.92
4877122--4877215	32	2.9	32	73	6	91	23	23	15	37	1.93
4881342--4881413	20	3.7	19	77	7	65	56	6	1	34	1.35
4881382--4881419	20	2.0	20	89	5	60	52	5	0	42	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4881409--4881448	17	2.3	18	82	8	55	45	0	0	55	0.99
4881420--4881452	17	2.0	16	94	5	57	48	0	0	51	1.00
4881420--4881452	16	2.0	17	88	5	50	48	0	0	51	1.00
4881475--4881499	9	2.8	9	100	0	50	56	0	0	44	0.99
4881472--4881510	17	2.2	18	86	4	53	56	0	2	41	1.13
4883799--4883837	16	2.5	16	84	15	55	74	5	0	20	1.01
4884765--4884812	21	2.2	21	79	13	53	66	4	29	0	1.10
4892223--4892292	22	3.4	21	78	15	83	55	24	2	17	1.55
4892217--4892292	40	1.9	40	91	0	125	55	23	3	17	1.58
4894713--4894750	20	2.0	20	94	5	69	36	10	13	39	1.79
4905521--4905553	7	4.7	7	100	0	66	69	0	0	30	0.88
4908825--4908904	28	2.8	27	77	11	79	68	3	0	27	1.06
4908826--4908915	13	7.3	12	71	19	53	66	3	0	30	1.07
4908845--4908889	19	2.4	19	85	3	56	66	4	0	28	1.11
4908875--4908905	16	2.0	15	93	6	53	77	0	0	22	0.77
4908856--4908905	22	2.3	22	86	6	66	72	2	0	26	0.96
4910890--4911062	87	2.0	87	80	0	193	30	21	16	31	1.96
4911121--4911227	51	2.1	51	80	0	115	29	19	14	35	1.92
4911190--4911263	36	2.1	36	84	0	94	31	20	20	28	1.97
4911225--4911376	51	3.0	51	85	0	214	26	26	18	28	1.98
4911154--4911314	87	1.9	87	86	0	232	27	21	18	32	1.96
4911145--4911626	138	3.6	138	76	9	519	26	24	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4910664--4911689	261	4.0	261	84	4	1314	26	24	17	31	1.97
4911303--4911439	72	1.9	72	83	3	177	24	26	16	33	1.95
4911375--4911471	51	1.9	51	89	0	149	25	23	18	31	1.97
4911256--4911689	123	3.4	124	75	10	444	25	25	18	30	1.98
4911379--4911488	51	2.2	51	84	0	139	26	23	18	31	1.97
4911451--4911524	36	2.1	36	89	0	112	29	21	21	27	1.99
4911487--4911635	51	2.9	51	82	0	181	26	26	20	26	1.99
4911401--4911575	87	2.0	87	84	2	226	26	23	21	28	1.99
4927171--4927232	33	2.0	30	84	9	79	30	9	4	54	1.54
4927669--4928075	112	3.7	110	88	3	559	31	15	18	33	1.93
4930694--4931798	50	22.2	50	71	8	572	33	25	20	21	1.97
4930694--4931798	100	11.1	100	81	3	1147	33	25	20	21	1.97
4930694--4931782	199	5.5	198	83	3	1218	32	25	20	21	1.97
4931802--4931957	85	1.8	84	81	10	192	30	21	18	30	1.97
4931778--4932132	129	2.8	129	84	0	460	31	19	21	28	1.97
4931804--4932223	44	9.5	44	69	14	161	30	20	20	27	1.98
4933853--4933914	33	2.0	30	84	9	79	30	9	4	54	1.54
4934337--4934870	109	4.8	110	90	2	743	32	14	18	33	1.92
4934354--4934870	112	4.7	110	90	2	736	32	15	18	33	1.92
4935912--4935950	19	2.1	19	85	0	51	33	2	0	64	1.08
4938552--4938596	21	2.0	21	87	8	63	64	2	0	33	1.06
4940327--4940357	16	1.9	16	93	0	53	16	3	22	58	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4940425--4940473	22	2.2	22	85	7	64	22	18	20	38	1.93
4951224--4951255	11	2.8	12	90	9	50	28	31	0	40	1.57
4956042--4956083	22	2.0	21	85	4	57	35	2	0	61	1.09
4970076--4970144	23	3.0	23	73	12	70	20	24	20	34	1.96
4976869--4976960	23	3.9	23	72	16	71	21	26	20	31	1.98
4978262--4978295	12	2.8	12	90	0	50	73	2	17	5	1.16
4984142--4984181	19	2.1	19	86	9	55	32	7	0	60	1.25
4985530--4985571	18	2.3	18	87	4	57	45	4	0	50	1.23
4989555--4989826	125	2.2	125	90	4	424	30	15	21	32	1.95
4993030--4993666	29	22.1	29	82	8	658	30	0	24	44	1.57
4993413--4993689	23	10.6	23	77	20	212	29	0	23	46	1.53
4999360--4999385	13	2.0	13	100	0	52	15	30	15	38	1.88
5000780--5000807	9	3.1	9	100	0	56	21	0	10	67	1.20
5000944--5000984	22	2.0	20	85	9	55	31	9	0	58	1.31
5003616--5003661	23	2.0	23	82	0	56	41	10	2	45	1.51
5003629--5003689	31	2.0	31	83	6	79	39	13	3	44	1.60
5003758--5003788	14	2.1	15	94	5	55	16	6	3	74	1.16
5015658--5015684	10	2.7	10	100	0	54	7	81	11	0	0.87
5015898--5015940	18	2.2	20	88	8	63	25	2	6	65	1.30
5017219--5018063	296	2.8	300	78	7	813	37	13	9	40	1.76
5016915--5018776	840	2.2	835	79	7	1938	36	13	9	39	1.78
5019368--5019949	304	1.9	306	82	5	739	33	13	9	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5024396--5024431	18	1.9	18	88	5	54	47	5	25	22	1.73
5029824--5029870	21	2.2	21	85	11	60	27	0	4	68	1.08
5029823--5029884	22	2.8	23	81	16	69	27	0	3	69	1.04
5030720--5030753	10	3.6	9	88	11	50	17	0	0	82	0.67
5030782--5030953	58	2.9	58	81	7	152	24	11	13	51	1.73
5031304--5031361	19	3.1	18	79	16	73	63	3	1	31	1.21
5031305--5031376	19	3.6	19	78	14	67	63	2	1	31	1.17
5031341--5031404	30	2.1	30	82	5	76	62	1	1	34	1.14
5035119--5035167	25	2.0	25	92	4	82	51	4	2	42	1.32
5041464--5041515	3	17.3	3	76	7	52	36	3	1	57	1.28
5041464--5041515	24	2.2	24	86	6	70	36	3	1	57	1.28
5046701--5046748	24	2.0	24	100	0	96	45	12	12	29	1.78
5063053--5063184	69	1.9	69	95	3	239	36	16	12	34	1.87
5065081--5065253	10	17.3	10	68	23	82	68	0	30	0	0.94
5065080--5065289	38	5.3	40	79	17	192	68	0	31	0	0.94
5065097--5065289	44	4.5	44	76	18	187	68	0	31	0	0.94
5065626--5066145	158	3.3	158	74	12	583	50	8	10	29	1.66
5065619--5066380	320	2.4	318	92	3	1237	50	8	10	30	1.68
5068573--5068599	11	2.5	11	100	0	54	37	7	14	40	1.74
5070868--5070906	18	2.2	18	90	0	60	15	48	2	33	1.58
5071753--5071790	3	12.7	3	88	0	58	63	5	0	31	1.17
5072036--5072096	27	2.3	27	88	0	95	22	32	26	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5073530--5073617	35	2.4	36	75	17	92	31	6	6	54	1.53
5079209--5079253	18	2.5	18	85	7	65	42	15	8	33	1.78
5081697--5081750	27	2.0	27	100	0	108	40	29	22	7	1.81
5082012--5082116	49	2.2	48	81	5	122	19	19	34	27	1.95
5085292--5085427	49	2.8	49	82	1	148	33	16	25	24	1.96
5086473--5086526	19	2.8	18	81	16	56	48	3	0	48	1.19
5086479--5086526	23	2.1	23	84	7	62	47	2	0	50	1.12
5086827--5086866	19	2.0	20	95	4	73	47	5	0	47	1.24
5087694--5087834	49	2.9	49	81	1	149	34	16	21	26	1.95
5088976--5089030	4	13.8	4	96	0	101	27	0	21	50	1.49

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