genome.fa.s7.2.7.7.80.10.50.1000.54.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  54  of  204  ( 24458 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)
17613080--17613173	2	48.0	2	77	8	86	42	4	2	51	1.33
17613744--17614013	135	2.0	135	98	0	522	30	11	20	37	1.88
17613943--17614139	98	2.0	98	90	2	306	29	11	22	36	1.89
17621345--17621369	2	12.5	2	100	0	50	48	0	0	52	1.00
17622763--17622823	27	2.3	27	91	0	95	27	8	36	27	1.85
17623754--17623801	19	2.4	22	80	16	59	33	2	0	64	1.05
17623748--17623814	10	6.7	10	71	21	52	37	1	0	61	1.05
17623754--17623809	20	2.8	19	82	12	60	35	1	0	62	1.06
17623748--17623824	29	2.7	30	80	9	81	36	1	1	61	1.13
17623879--17623930	10	5.1	10	82	11	61	38	3	0	57	1.17
17623879--17623931	22	2.6	21	82	11	65	39	3	0	56	1.17
17626066--17626126	14	3.9	14	75	21	50	1	27	0	70	0.97
17626066--17626131	35	1.9	34	87	9	98	1	28	0	69	0.97
17636185--17636269	25	3.4	25	77	3	82	23	23	14	38	1.91
17636223--17636280	25	2.3	25	81	0	62	25	24	13	36	1.92
17642824--17642863	18	2.2	18	90	0	62	7	2	47	42	1.45
17645377--17645416	21	1.9	21	100	0	80	30	10	15	45	1.78
17659858--17659904	20	2.3	21	85	10	62	74	4	6	14	1.17
17661382--17661419	14	2.9	13	84	7	51	10	10	5	73	1.23
17661508--17661552	23	2.0	23	82	8	56	40	0	6	53	1.27
17662555--17662592	20	1.9	20	94	0	67	50	5	10	34	1.59
17666079--17666119	3	13.7	3	100	0	82	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17672292--17672331	3	13.3	3	100	0	80	32	0	0	67	0.91
17676565--17676619	21	2.6	22	88	8	87	23	9	38	29	1.85
17676783--17676916	18	7.9	18	69	17	90	57	1	0	40	1.13
17676834--17676889	15	4.0	15	73	17	57	55	0	0	44	0.99
17676839--17677037	59	3.3	60	72	14	214	54	3	1	40	1.24
17676817--17677059	120	2.0	120	97	0	459	51	4	1	42	1.30
17685963--17685993	9	3.4	9	90	0	53	41	22	9	25	1.84
17687640--17687675	2	18.0	2	100	0	72	50	0	0	50	1.00
17689680--17689725	20	2.2	20	85	11	58	63	2	0	34	1.07
17689729--17689773	20	2.2	21	88	4	65	66	2	0	31	1.04
17693877--17693910	16	2.0	17	88	11	52	41	0	2	55	1.15
17700888--17700917	13	2.4	13	94	5	53	26	16	10	46	1.78
17702581--17702614	11	3.2	11	87	8	52	82	8	8	0	0.85
17707074--17707149	20	3.5	20	67	25	55	40	5	1	52	1.32
17707725--17707772	25	1.9	25	83	8	62	29	2	2	66	1.14
17709294--17709323	11	2.7	11	94	0	51	43	6	0	50	1.28
17709304--17709369	22	3.2	20	78	17	82	37	3	0	59	1.13
17709282--17709386	42	2.5	40	79	13	131	38	3	0	58	1.17
17709315--17709352	8	5.0	8	81	12	53	39	0	0	60	0.97
17709338--17709404	32	2.1	32	83	5	82	32	1	2	62	1.19
17710304--17710413	55	2.0	55	83	3	141	30	20	10	38	1.86
17711266--17711296	12	2.7	12	95	5	55	58	0	12	29	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17714881--17714932	18	2.8	18	82	11	52	28	1	3	65	1.21
17716430--17716457	5	5.6	5	100	0	56	82	0	0	17	0.68
17717514--17717558	23	2.0	23	83	12	58	37	0	6	55	1.26
17717564--17717601	20	1.9	20	88	0	58	36	0	5	57	1.21
17717697--17717727	16	1.9	16	93	0	53	48	9	6	35	1.62
17717893--17717927	18	1.9	18	88	11	54	40	0	5	54	1.24
17718438--17719170	366	2.0	366	94	0	1286	33	16	9	40	1.81
17719349--17719401	16	3.2	16	82	12	63	64	1	0	33	1.05
17722008--17722073	21	3.1	21	91	0	105	57	9	25	7	1.56
17722806--17722857	24	2.2	24	85	0	68	38	15	32	13	1.86
17725206--17725236	16	1.9	16	100	0	62	38	6	35	19	1.77
17725479--17725514	18	2.0	18	88	0	54	55	0	0	44	0.99
17725459--17725742	59	4.8	58	67	17	172	47	4	2	44	1.39
17725459--17725753	119	2.5	119	92	1	493	48	4	2	44	1.38
17725459--17725756	120	2.5	117	91	3	472	48	4	2	44	1.37
17725794--17725936	44	3.2	43	69	23	123	48	3	2	46	1.31
17725794--17725944	47	3.3	44	67	21	107	49	3	1	45	1.30
17725816--17725960	47	3.1	47	69	16	131	48	3	2	45	1.30
17725760--17725975	91	2.4	91	89	0	333	46	4	2	46	1.36
17730067--17730131	28	2.3	28	91	0	112	9	32	10	47	1.70
17731589--17731855	97	2.7	97	92	0	444	42	1	16	39	1.57
17743487--17743523	10	3.8	10	82	17	51	8	24	0	67	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17743487--17743523	19	1.9	19	89	10	58	8	24	0	67	1.17
17743488--17743529	19	2.2	19	83	8	50	7	21	4	66	1.35
17749301--17749330	3	10.0	3	100	0	60	66	0	0	33	0.92
17749795--17749931	62	2.2	61	78	6	159	37	7	8	46	1.63
17760336--17760389	14	3.8	14	80	4	54	37	9	12	40	1.76
17761471--17761516	7	7.1	7	79	18	55	41	0	0	58	0.98
17761478--17761525	24	2.0	24	88	8	71	39	0	0	60	0.97
17769799--17769848	24	2.1	24	85	7	66	48	22	0	30	1.51
17781528--17781563	6	6.0	6	93	0	63	47	16	2	33	1.61
17784426--17784457	3	10.7	3	100	0	64	68	31	0	0	0.90
17793419--17793443	12	2.1	12	100	0	50	24	36	24	16	1.94
17793604--17793707	9	11.4	9	86	6	147	38	27	10	23	1.87
17794232--17794307	27	2.8	27	81	0	89	17	27	22	32	1.96
17796557--17796611	10	5.5	10	75	14	51	36	5	1	56	1.33
17811335--17811373	18	2.2	18	85	0	51	23	10	58	7	1.56
17815703--17815734	6	5.3	6	100	0	64	15	0	53	31	1.43
17815746--17815772	6	4.5	6	100	0	54	18	0	29	51	1.46
17818243--17818270	12	2.3	12	100	0	56	35	25	0	39	1.56
17826420--17826446	6	4.5	6	100	0	54	0	18	14	66	1.25
17826781--17826810	15	1.9	16	93	6	53	56	0	3	40	1.16
17829062--17829125	31	2.1	31	100	0	128	29	18	12	39	1.88
17833207--17833407	95	2.1	97	84	7	255	34	24	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17836179--17836211	2	16.5	2	93	0	57	48	0	48	3	1.17
17845995--17846030	15	2.4	15	95	0	63	61	0	8	30	1.26
17855623--17855647	2	12.5	2	100	0	50	48	0	0	52	1.00
17855967--17856034	29	2.3	29	79	5	82	35	10	14	39	1.80
17856827--17856861	6	5.8	6	89	0	52	65	5	17	11	1.43
17858110--17858143	15	2.2	16	89	5	52	35	5	0	58	1.22
17874174--17874211	2	19.0	2	100	0	76	50	0	0	50	1.00
17879033--17879558	125	4.2	126	84	5	735	28	18	23	30	1.97
17879033--17879559	250	2.1	250	93	0	903	28	18	23	30	1.97
17884488--17885022	126	4.3	125	83	3	682	29	18	21	29	1.97
17884508--17885022	250	2.1	251	90	1	809	30	17	21	30	1.96
17886421--17886447	2	13.5	2	100	0	54	48	0	0	51	1.00
17886610--17886640	2	15.0	2	93	6	53	48	3	0	48	1.17
17890638--17890734	15	6.6	15	77	16	71	17	0	31	50	1.46
17890620--17890683	29	2.2	29	86	2	85	21	0	32	45	1.52
17890642--17890801	37	4.2	36	79	14	185	16	0	30	51	1.49
17890645--17890860	22	10.5	22	72	16	167	18	0	28	52	1.49
17890752--17890793	15	2.8	15	85	0	66	16	0	28	54	1.42
17891460--17891497	18	2.1	18	90	0	58	42	7	28	21	1.81
17892982--17893025	11	3.8	12	80	19	58	43	0	31	25	1.55
17894050--17894084	17	2.1	17	89	10	54	48	0	2	48	1.16
17899034--17899063	12	2.5	12	100	0	60	10	56	26	6	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17899786--17899841	6	9.3	6	92	0	58	41	26	0	32	1.56
17899788--17899841	12	4.5	12	90	4	74	38	27	0	33	1.57
17899788--17899832	18	2.5	18	92	0	81	35	28	0	35	1.58
17902215--17902355	73	1.9	71	81	9	169	39	0	31	29	1.57
17911862--17911934	21	3.5	21	67	14	60	17	20	17	43	1.88
17911862--17911975	42	2.7	42	82	2	122	16	24	18	40	1.91
17913730--17913863	38	3.5	40	74	11	136	33	26	16	23	1.96
17916890--17916932	21	2.0	21	95	0	77	32	18	34	13	1.90
17920361--17920417	30	1.9	29	82	10	71	19	31	31	17	1.95
17924685--17924790	21	5.0	21	80	4	97	41	16	25	16	1.89

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