genome.fa.s9.2.7.7.80.10.50.1000.129.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   

This is table  129  of  226  ( 27023 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)
43365507--43365703	75	2.7	75	90	1	308	16	20	40	23	1.91
43370949--43380545	128	75.5	128	72	9	986	17	26	34	21	1.96
43377954--43378377	222	1.9	223	85	3	595	17	23	34	24	1.96
43378492--43380579	43	49.3	43	74	7	1370	17	27	33	21	1.96
43379843--43379917	36	2.1	36	85	5	98	16	24	37	22	1.93
43380816--43381175	127	2.8	127	77	5	370	16	25	37	19	1.93
43380807--43381214	85	4.8	85	79	6	330	16	26	37	19	1.93
43383431--43383773	43	8.3	43	70	13	198	18	26	34	19	1.95
43383592--43383748	85	1.8	85	83	2	208	19	28	34	18	1.95
43388192--43391201	85	35.4	85	72	5	1492	17	25	32	20	1.94
43388192--43391199	297	10.1	296	75	5	1904	17	25	32	20	1.94
43389591--43389665	36	2.1	36	85	9	100	14	26	36	22	1.93
43395967--43396071	43	2.4	43	80	3	122	17	36	31	15	1.91
43396651--43396819	42	4.0	42	83	5	196	19	27	32	20	1.97
43396655--43396812	85	1.8	86	83	1	210	18	26	32	21	1.97
43418943--43419018	24	3.2	24	81	3	100	7	39	35	17	1.78
43418944--43419011	23	2.9	24	84	4	93	8	36	36	17	1.81
43419117--43419926	85	9.5	85	84	4	997	16	29	34	20	1.94
43419120--43419926	255	3.2	254	85	2	1109	16	28	34	20	1.94
43425179--43425249	23	3.1	23	83	0	88	9	40	32	16	1.82
43425350--43426526	85	13.9	85	82	3	1234	15	26	36	21	1.93
43425350--43426526	127	9.3	127	82	4	1241	15	26	36	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43425350--43426526	212	5.6	212	82	4	1304	15	26	36	21	1.93
43437251--43437298	24	2.0	23	88	4	69	10	31	33	25	1.89
43437261--43437306	23	2.0	24	86	4	67	13	36	28	21	1.91
43437420--43437887	42	11.0	42	84	5	548	15	27	34	22	1.94
43437420--43437887	85	5.5	83	84	3	517	15	27	34	22	1.94
43437420--43437887	127	3.7	125	82	5	564	15	27	34	22	1.94
43438134--43438211	24	3.3	24	80	3	95	10	39	30	19	1.85
43438310--43439700	85	16.4	85	84	2	1740	15	28	35	20	1.94
43452073--43452267	43	4.6	42	81	5	212	16	32	34	16	1.91
43452720--43452842	43	2.9	44	82	4	162	17	31	30	19	1.95
43459249--43459292	23	1.9	23	95	0	79	11	36	31	20	1.88
43459391--43460823	85	16.9	85	85	2	1755	15	26	36	21	1.93
43459393--43460823	297	4.8	297	86	3	1826	15	26	36	21	1.93
43468192--43468402	43	4.9	43	79	4	203	17	31	33	17	1.93
43468251--43468411	85	1.9	85	88	0	241	19	30	32	17	1.95
43474035--43474201	42	3.9	42	88	5	246	17	31	32	18	1.94
43474037--43474194	85	1.8	86	90	1	255	16	30	33	19	1.94
43474411--43474484	24	3.1	24	82	3	96	9	39	31	20	1.84
43474421--43474486	23	2.8	23	83	2	87	10	39	31	18	1.85
43474556--43475238	42	16.2	42	75	9	527	16	27	35	19	1.94
43474556--43474938	85	4.5	84	88	4	520	15	26	37	20	1.92
43474556--43475238	127	5.4	127	75	9	563	16	27	35	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43475036--43475238	85	2.4	86	80	0	219	16	32	33	17	1.92
43479775--43479941	42	3.9	42	82	5	201	18	28	31	21	1.97
43479777--43479934	85	1.8	86	84	1	219	17	27	31	22	1.97
43480268--43481233	42	22.7	42	84	4	1161	15	28	35	20	1.94
43480276--43481233	85	11.3	84	85	3	1163	15	28	35	20	1.93
43488268--43488416	43	3.5	44	77	10	148	20	29	32	18	1.96
43488866--43489031	42	3.9	42	85	7	219	19	30	31	18	1.96
43488868--43489031	85	1.9	85	85	4	224	19	30	31	18	1.96
43500214--43500865	42	15.4	42	87	4	864	14	27	36	21	1.93
43500214--43500865	127	5.1	126	87	4	882	14	27	36	21	1.93
43500210--43500847	169	3.8	169	89	3	953	14	27	36	20	1.92
43507945--43508023	24	3.3	24	92	0	131	8	43	31	16	1.79
43507982--43508023	13	3.4	13	74	12	52	9	45	30	14	1.77
43508122--43509768	85	19.4	84	83	4	1814	16	26	36	20	1.93
43517643--43518104	42	10.9	42	83	3	561	16	27	35	20	1.94
43517643--43518104	85	5.5	85	84	2	592	16	27	35	20	1.94
43525682--43525726	21	2.1	21	100	0	90	40	15	26	17	1.90
43526886--43527178	43	6.9	41	82	7	300	14	27	36	20	1.92
43526889--43527178	86	3.4	84	84	5	359	14	27	36	21	1.92
43526889--43527178	129	2.3	127	83	4	361	14	27	36	21	1.92
43531639--43531744	42	2.5	43	78	3	115	16	32	34	16	1.91
43532236--43532402	42	3.9	42	85	5	219	17	29	32	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43532631--43532685	23	2.4	23	93	0	101	14	30	27	27	1.95
43532789--43533035	42	5.8	42	85	5	282	17	29	33	19	1.95
43532789--43533035	85	2.9	84	87	4	318	17	29	33	19	1.95
43532789--43533035	127	1.9	127	85	0	341	17	29	33	19	1.95
43533324--43534208	85	10.4	85	83	3	1041	15	27	36	20	1.93
43544145--43544239	48	2.0	48	89	0	145	44	22	14	18	1.86
43544537--43544608	36	2.0	36	89	7	112	31	26	8	33	1.86
43547542--43547666	43	2.9	43	83	1	153	14	30	39	16	1.88
43548183--43548350	42	4.0	42	86	5	230	17	30	33	19	1.94
43548186--43548343	85	1.8	86	87	1	237	16	29	33	20	1.94
43548563--43548640	24	3.3	24	77	10	88	11	37	29	21	1.89
43548581--43548636	23	2.4	23	87	3	76	14	35	26	23	1.93
43548740--43549418	42	16.0	42	88	2	939	16	28	34	20	1.94
43548740--43549418	85	8.0	84	87	2	939	16	28	34	20	1.94
43548735--43549418	127	5.4	127	87	2	962	16	28	34	20	1.94
43549492--43549518	14	1.9	14	100	0	54	11	29	37	22	1.89
43560737--43560777	20	2.0	22	85	9	59	17	9	12	60	1.57
43565474--43565521	25	2.0	24	87	4	69	2	4	39	54	1.32
43574560--43574654	48	2.0	48	91	0	154	43	20	15	21	1.88
43574952--43575023	36	2.0	36	86	2	101	33	27	6	31	1.83
43579835--43579929	48	2.0	48	91	0	154	43	22	16	17	1.88
43580227--43580298	36	2.0	36	94	2	128	31	26	8	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43583224--43583392	43	4.0	42	75	10	137	17	28	34	18	1.94
43583868--43584033	42	3.9	42	86	5	226	18	30	31	19	1.96
43584247--43584294	23	2.1	23	92	0	78	8	33	35	22	1.84
43584352--43584861	42	12.0	42	83	4	594	17	28	33	20	1.95
43584352--43584861	85	6.0	85	82	3	580	17	28	33	20	1.95
43584352--43584854	127	4.0	126	85	3	589	16	28	34	20	1.95
43584935--43584960	13	2.0	13	100	0	52	7	30	38	23	1.83
43585105--43585145	20	2.0	22	85	9	59	17	9	12	60	1.57
43590375--43591328	85	11.2	85	85	2	1238	15	27	36	20	1.93
43591859--43592026	43	3.9	43	78	4	117	17	32	35	15	1.91
43591921--43592032	42	2.6	43	82	1	127	17	34	32	15	1.91
43591906--43592032	43	3.0	42	80	2	137	17	34	31	16	1.92
43592500--43592666	42	3.9	42	85	5	228	17	31	31	18	1.95
43592502--43592659	85	1.8	86	87	1	237	17	31	32	19	1.95
43597962--43598012	24	2.1	24	88	0	75	13	45	23	17	1.84
43598139--43598817	42	16.0	42	84	2	822	16	28	34	20	1.94
43598139--43598817	85	8.0	85	84	1	837	16	28	34	20	1.94
43598139--43598817	127	5.3	127	82	3	787	16	28	34	20	1.94
43598139--43608144	255	39.2	254	70	8	1722	17	25	33	21	1.94
43599035--43599100	23	2.8	24	83	4	98	9	34	31	24	1.87
43599200--43610879	42	274.7	43	72	7	5354	17	25	33	21	1.95
43599200--43610828	85	137.2	85	72	6	5931	17	25	33	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43604905--43610828	297	20.0	296	73	9	2999	18	26	33	21	1.96
43605985--43606379	205	1.9	205	82	1	486	15	26	36	21	1.93
43599200--43610871	127	91.8	126	71	7	5474	17	25	33	21	1.95
43611041--43611740	42	16.5	42	74	7	486	17	25	34	22	1.95
43611075--43611740	85	7.9	83	73	10	332	17	25	34	22	1.95
43611041--43611315	127	2.2	128	79	8	301	17	25	34	21	1.95
43611074--43611696	170	3.7	169	74	10	398	17	25	34	22	1.95
43611041--43611695	297	2.2	296	88	1	979	17	25	34	22	1.95
43611236--43611738	212	2.4	213	79	6	581	16	25	34	22	1.95
43612238--43612389	42	3.6	41	83	10	182	19	30	31	18	1.96

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