genome.fa.s13.2.7.7.80.10.50.1000.46.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  46  of  199  ( 23770 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)
13325006--13325252	44	5.6	44	89	1	318	25	25	19	29	1.99
13338254--13338300	3	15.7	3	82	8	60	68	0	2	29	1.02
13338239--13338293	21	2.6	21	85	8	67	67	1	1	29	1.11
13341793--13341839	20	2.3	20	85	7	60	36	8	2	53	1.44
13345367--13345435	33	2.0	35	86	10	99	69	1	1	27	1.05
13345695--13345751	26	2.1	28	81	18	68	49	3	1	45	1.29
13360304--13360363	31	1.9	31	100	0	120	30	23	6	40	1.80
13365638--13365682	23	2.1	20	84	12	54	22	6	20	51	1.70
13368687--13368724	20	1.9	20	89	10	60	28	5	15	50	1.66
13368687--13368727	22	1.9	22	85	14	59	29	4	14	51	1.63
13368879--13368911	16	2.1	16	94	0	57	39	0	0	60	0.97
13369554--13369599	23	2.0	23	95	0	83	50	8	23	17	1.74
13373405--13373432	6	4.7	6	100	0	56	46	0	0	53	1.00
13388688--13388945	36	7.2	36	77	11	203	42	11	14	31	1.81
13388688--13388945	72	3.6	69	78	8	234	42	11	14	31	1.81
13388686--13388939	18	14.1	18	74	11	175	44	11	14	29	1.81
13389239--13389263	5	5.0	5	100	0	50	80	0	0	20	0.72
13389446--13389535	12	7.2	12	74	18	76	0	16	2	81	0.80
13389448--13389535	10	8.1	11	75	18	69	0	15	2	81	0.78
13389462--13389529	17	3.9	17	83	16	95	0	14	2	82	0.79
13389446--13389529	26	3.4	24	79	12	89	0	15	2	82	0.78
13389450--13389533	6	14.3	6	73	18	63	0	15	2	82	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13389446--13389533	25	3.7	23	70	24	56	0	15	2	81	0.78
13389556--13389625	30	2.3	30	100	0	140	11	38	28	21	1.88
13389654--13389707	26	2.1	25	86	3	72	0	20	11	68	1.19
13389661--13389711	23	2.3	23	83	10	70	0	23	7	68	1.15
13389798--13389838	19	2.2	19	86	8	57	2	14	0	82	0.76
13389798--13389838	13	3.2	13	80	13	50	2	14	0	82	0.76
13389973--13390013	12	3.4	12	83	9	57	0	14	2	82	0.76
13390156--13390206	22	2.3	21	90	6	75	0	7	9	82	0.85
13390156--13390213	22	2.6	22	86	8	64	0	10	10	79	0.94
13390414--13390512	30	3.4	29	83	5	119	42	5	20	32	1.74
13390795--13391415	77	8.1	77	86	5	821	36	20	16	26	1.94
13390703--13391415	153	4.6	152	85	5	851	36	19	16	27	1.93
13390703--13391415	230	3.1	228	85	6	869	36	19	16	27	1.93
13399672--13399973	35	8.5	35	78	11	242	44	11	15	28	1.82
13399673--13399973	18	16.9	17	77	10	262	44	11	15	27	1.82
13400266--13400312	16	2.9	16	78	12	51	59	0	2	38	1.09
13400251--13400316	21	3.1	21	82	6	80	60	0	1	37	1.06
13400463--13400529	9	7.0	9	77	15	64	0	17	1	80	0.79
13400463--13400515	18	2.9	18	84	15	74	0	15	1	83	0.74
13400717--13400807	47	2.0	46	87	10	132	1	28	0	70	0.95
13400895--13400945	12	4.4	12	79	13	54	0	23	0	76	0.79
13401339--13401447	30	3.7	29	75	17	91	48	6	11	33	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13401672--13401717	23	2.0	23	100	0	92	13	26	4	56	1.55
13412623--13412679	29	2.0	29	82	6	71	43	8	3	43	1.52
13419207--13419271	31	2.3	27	80	15	76	47	6	3	43	1.43
13421706--13421734	15	1.9	15	100	0	58	58	0	13	27	1.36
13430102--13430133	2	16.5	2	93	6	57	53	0	0	46	1.00
13431293--13431452	39	4.0	39	88	9	227	59	0	1	38	1.08
13431356--13431451	11	9.4	11	77	18	75	59	0	2	38	1.09
13431388--13431460	30	2.5	30	90	2	112	63	0	1	35	1.04
13431293--13431452	10	16.1	10	71	17	75	59	0	1	38	1.08
13437349--13438080	307	2.4	306	79	7	731	33	11	8	46	1.71
13440435--13440487	17	3.0	17	78	10	61	37	7	15	39	1.75
13447841--13447960	3	40.0	3	69	11	68	62	5	4	28	1.35
13458860--13458924	30	2.2	30	86	5	87	36	9	24	29	1.86
13461707--13461761	21	2.6	21	77	11	67	29	25	20	25	1.99
13474288--13474334	23	2.0	23	95	0	85	29	19	8	42	1.80
13475339--13475395	30	1.9	29	96	3	105	33	19	10	36	1.86
13481132--13481182	23	2.2	24	82	3	59	33	31	25	9	1.88
13484992--13485271	138	2.0	138	92	0	461	42	6	5	46	1.51
13487892--13487920	13	2.2	13	100	0	58	17	20	17	44	1.86
13491315--13491382	32	2.2	30	80	14	77	23	4	2	69	1.21
13491315--13491380	11	6.4	9	74	20	51	21	4	3	71	1.18
13491377--13491439	19	3.1	19	79	9	63	46	0	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13491810--13491864	24	2.2	25	75	9	60	47	5	3	43	1.44
13493304--13493374	29	2.4	29	85	0	97	47	15	14	22	1.81
13497586--13497614	8	3.6	8	100	0	58	34	27	13	24	1.93
13502809--13502938	65	2.0	65	96	0	242	34	15	12	37	1.85
13503236--13503370	68	2.0	68	91	1	216	50	5	3	40	1.44
13506511--13506544	17	2.1	17	89	10	54	35	26	0	38	1.57
13517053--13517116	31	2.1	31	88	2	94	25	3	12	59	1.48
13517459--13517545	31	2.9	30	79	5	95	36	11	12	39	1.80
13517686--13517745	30	2.0	30	83	9	77	51	13	3	31	1.57
13517686--13517772	31	2.8	31	77	16	83	50	11	2	35	1.51
13522095--13522469	186	2.0	186	98	0	732	20	12	16	50	1.78
13530507--13530532	13	2.0	13	100	0	52	38	0	0	61	0.96
13530595--13530630	16	2.2	16	90	0	54	69	0	30	0	0.89
13531613--13531672	21	2.9	20	85	7	84	13	20	26	40	1.89
13531729--13531763	18	1.9	18	100	0	70	17	11	28	42	1.83
13537213--13537249	18	2.1	18	100	0	74	45	27	5	21	1.73
13539799--13539859	22	2.8	22	89	0	95	26	18	13	42	1.86
13539877--13539940	23	2.8	23	83	4	76	28	20	15	35	1.93
13540048--13540077	15	2.0	15	93	0	51	26	30	13	30	1.94
13556466--13556502	2	18.5	2	100	0	74	51	0	0	48	1.00
13559907--13560018	54	2.1	54	100	0	224	33	26	3	35	1.74
13564062--13564119	14	4.2	14	72	16	50	37	0	12	50	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13567747--13567785	21	1.9	21	89	5	62	23	28	23	25	1.99
13569196--13569354	73	2.2	73	97	0	300	28	33	20	17	1.96
13571716--13571761	24	1.9	24	86	8	67	26	10	0	63	1.27
13576424--13576457	6	5.3	6	86	13	50	29	2	2	64	1.22
13578279--13578312	12	2.8	12	90	0	59	41	0	2	55	1.15
13579864--13579934	20	3.6	19	86	5	90	49	0	28	22	1.50
13579894--13579926	15	2.1	16	88	5	50	51	0	27	21	1.48
13580095--13580282	92	2.0	92	100	0	376	32	14	12	40	1.84
13585239--13585290	20	2.6	20	78	0	50	53	0	23	23	1.46
13601262--13601302	18	2.4	18	84	8	59	21	19	19	39	1.93
13605070--13605682	130	4.7	130	76	5	474	30	16	13	38	1.88
13605167--13605658	260	1.9	260	80	6	577	29	16	14	39	1.88
13619834--13619870	19	2.0	18	89	5	56	35	0	2	62	1.10
13625847--13625877	3	10.3	3	100	0	62	32	0	32	35	1.58
13630233--13630516	90	3.2	90	91	2	464	25	23	19	32	1.97
13645590--13645623	16	2.1	17	89	10	54	35	2	0	61	1.11
13645614--13645656	21	2.0	21	86	0	59	69	2	2	25	1.12
13651032--13651078	15	3.2	14	87	6	58	27	2	0	70	0.99
13657848--13657879	16	2.0	16	100	0	64	25	12	12	50	1.75
13660423--13660480	25	2.3	25	87	0	80	31	18	27	22	1.97
13660461--13660527	25	2.7	25	85	0	98	40	16	19	23	1.91
13680326--13680369	22	2.0	22	83	12	56	40	22	0	36	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13680710--13680756	18	2.5	19	89	6	69	27	29	0	42	1.56
13684378--13684536	43	3.7	43	81	7	157	28	27	18	25	1.98
13689942--13689976	15	2.2	16	90	10	54	54	0	2	42	1.15
13691008--13691062	21	2.8	20	91	5	85	38	12	12	36	1.82
13691793--13691836	23	2.0	22	90	4	70	34	6	2	56	1.38
13692007--13692063	3	19.0	3	96	0	105	33	0	1	64	1.04
13698582--13699086	45	11.4	45	83	4	616	28	16	24	31	1.96
13698896--13698970	35	2.1	35	90	0	114	29	18	21	30	1.97
13698851--13699015	80	2.1	80	87	0	231	27	19	23	29	1.98
13698806--13699031	125	1.8	125	90	0	362	29	18	23	29	1.97

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