genome.fa.s5.2.7.7.80.10.50.1000.111.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  111  of  208  ( 24913 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)
33510539--33510582	16	2.8	16	96	0	79	77	0	9	13	0.99
33511801--33511939	45	3.1	45	76	6	156	29	21	25	23	1.99
33511961--33513547	50	31.9	50	81	6	1623	33	21	19	26	1.97
33511949--33513762	100	18.2	100	89	2	2051	33	21	19	25	1.97
33513330--33513774	50	8.9	50	76	3	250	34	24	18	22	1.96
33513431--33513825	100	4.0	100	89	1	560	33	25	20	21	1.97
33513554--33513811	50	5.2	48	65	12	144	32	25	22	20	1.98
33513838--33514118	85	3.2	88	72	12	258	29	22	20	27	1.99
33513841--33514190	44	8.1	44	69	12	186	30	21	21	27	1.98
33513839--33514178	174	2.0	174	84	4	445	28	22	21	27	1.99
33514020--33514176	85	1.8	85	82	2	199	28	22	21	28	1.99
33514584--33514614	14	2.3	14	94	5	55	70	12	16	0	1.16
33515864--33515910	22	2.1	22	96	0	85	17	27	6	48	1.71
33516670--33516777	6	17.8	6	77	5	67	76	5	8	9	1.14
33518871--33519010	45	3.2	45	67	13	119	30	21	23	24	1.99
33519047--33519838	132	6.0	132	89	2	1010	29	18	23	28	1.98
33519103--33519419	44	7.2	44	65	13	150	27	17	23	30	1.97
33519383--33519562	44	4.1	44	67	11	107	31	16	22	30	1.95
33519630--33519937	131	2.3	131	91	2	494	30	21	24	24	1.99
33520032--33520181	50	3.0	50	79	0	165	30	26	22	20	1.98
33520040--33520201	50	3.2	48	76	6	162	33	26	20	19	1.97
33521535--33521591	3	19.0	3	100	0	114	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33522004--33522050	19	2.6	18	80	9	51	36	2	2	59	1.21
33525963--33526100	50	2.8	50	93	2	233	31	14	23	30	1.94
33538277--33538445	50	3.4	50	89	1	248	34	14	23	27	1.94
33542557--33542747	50	3.7	50	77	4	175	22	29	20	26	1.99
33544207--33544247	21	2.0	21	95	0	73	19	31	21	26	1.97
33547417--33547604	94	2.0	94	91	2	306	26	21	12	40	1.88
33551246--33551292	20	2.4	19	82	10	58	55	4	14	25	1.58
33553425--33553469	18	2.5	18	77	0	54	15	31	8	44	1.77
33559261--33559306	24	1.9	24	82	8	58	15	13	8	63	1.52
33569836--33569894	30	2.0	30	86	0	82	40	5	25	28	1.77
33570232--33570284	26	2.0	26	88	0	79	18	15	33	32	1.92
33570261--33570572	43	7.4	42	73	11	244	23	15	25	35	1.94
33570296--33570578	85	3.3	85	92	0	469	24	16	25	34	1.95
33577967--33577996	11	2.7	11	94	0	51	50	3	0	46	1.18
33579665--33579782	50	2.3	50	85	5	148	33	16	13	35	1.88
33580054--33580084	10	3.0	10	90	9	53	38	0	12	48	1.42
33582608--33582941	51	6.6	49	81	7	348	29	25	15	28	1.96
33582598--33582941	102	3.4	102	86	2	444	29	25	15	28	1.96
33583410--33583468	30	1.9	30	83	10	75	28	20	6	44	1.77
33588524--33588580	19	3.2	19	70	27	61	45	15	12	26	1.82
33596830--33596940	46	2.4	46	93	1	188	30	21	16	31	1.95
33596817--33597087	37	6.6	45	85	9	207	28	21	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33596902--33597049	37	4.0	37	94	0	251	28	19	12	39	1.89
33604040--33604150	46	2.4	46	95	1	197	29	21	17	31	1.96
33604027--33604297	37	6.6	45	85	10	200	28	21	14	36	1.92
33604112--33604259	37	4.0	37	95	0	260	27	19	13	39	1.89
33610936--33610972	19	1.9	19	88	0	56	64	8	13	13	1.48
33615947--33616014	34	2.0	34	82	5	84	25	26	19	29	1.98
33624148--33624196	21	2.3	21	96	0	89	30	18	12	38	1.87
33628222--33628266	22	2.0	22	100	0	90	60	0	22	17	1.37
33635458--33635517	25	2.4	25	76	15	61	63	3	6	26	1.35
33636541--33636740	32	6.3	32	85	2	251	38	19	19	23	1.93
33636787--33636851	27	2.5	26	80	9	78	30	23	26	20	1.98
33636915--33636996	24	3.5	24	73	8	78	50	24	6	19	1.70
33637035--33637296	27	9.7	27	81	4	287	24	22	19	33	1.97
33637042--33637376	54	6.2	53	82	4	282	23	22	19	34	1.96
33637283--33637444	27	6.0	26	79	7	94	20	19	18	40	1.91
33637291--33637443	81	1.9	81	81	5	184	20	18	18	41	1.91
33637207--33637444	54	4.4	54	80	7	184	22	19	18	38	1.93
33656888--33657021	41	3.2	42	83	6	175	58	0	4	36	1.18
33656903--33657032	41	3.2	41	87	3	190	62	0	4	33	1.16
33656888--33656948	31	2.0	31	87	6	88	59	0	3	37	1.14
33657816--33657850	18	1.9	18	88	11	54	31	2	8	57	1.44
33660257--33660422	83	2.0	83	100	0	332	28	18	28	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33669321--33669354	8	4.2	8	92	0	59	38	14	11	35	1.83
33676635--33676683	21	2.3	22	78	3	55	44	4	18	32	1.68
33685907--33685955	26	1.9	26	84	12	66	26	24	20	28	1.99
33685953--33686003	25	2.0	25	92	0	84	33	19	15	31	1.93
33686021--33686076	25	2.2	25	83	0	67	41	17	16	25	1.89
33686031--33686113	25	3.3	25	81	3	96	36	24	16	22	1.95
33690447--33690579	66	2.0	66	100	0	266	25	27	24	22	2.00
33695653--33695713	29	2.1	30	81	9	72	26	8	0	65	1.20
33695826--33695873	25	2.0	24	83	4	60	41	4	2	52	1.32
33697563--33697623	31	2.0	31	93	0	104	44	9	8	37	1.68
33698753--33698788	13	2.8	13	100	0	72	41	27	8	22	1.82
33699827--33699907	23	3.5	23	76	6	92	38	18	8	34	1.82
33699946--33699978	4	8.2	4	100	0	66	51	24	0	24	1.48
33712140--33712165	6	4.3	6	100	0	52	50	0	15	34	1.45
33721436--33721495	30	2.0	31	83	9	79	40	1	38	20	1.62
33721773--33721803	9	3.4	9	90	0	53	38	22	12	25	1.90
33725950--33726006	28	2.0	28	100	0	114	33	21	17	28	1.96
33726468--33726575	42	2.6	42	88	2	146	37	28	11	23	1.89
33729898--33730143	137	1.8	134	90	4	395	47	13	13	25	1.79
33732161--33732195	15	2.4	15	90	4	54	45	34	0	20	1.51
33732212--33732263	7	7.4	7	86	0	59	50	28	0	21	1.49
33732098--33732263	14	11.7	14	72	10	77	48	28	1	21	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33732098--33732263	21	7.8	21	69	10	77	48	28	1	21	1.61
33732430--33732473	21	2.1	21	87	8	63	38	40	0	20	1.53
33732439--33732481	20	2.2	20	87	8	61	39	39	0	20	1.53
33732473--33732515	15	2.9	15	86	3	61	39	27	0	32	1.57
33732845--33732994	76	2.0	76	85	5	205	29	28	21	21	1.98
33732843--33732997	41	3.9	41	77	16	173	29	27	21	21	1.99
33733040--33733129	40	2.3	39	82	3	99	25	25	18	30	1.98
33736610--33736656	18	2.6	18	83	6	51	27	27	19	25	1.99
33738769--33738793	12	2.1	12	100	0	50	12	8	32	48	1.69
33740888--33740928	20	2.0	20	100	0	82	9	14	29	46	1.77
33744142--33744167	12	2.2	12	100	0	52	19	34	7	38	1.80
33745590--33745633	19	2.3	18	88	7	61	68	0	0	31	0.90
33746457--33746505	17	2.6	19	78	12	57	26	0	2	71	0.97
33747239--33747318	24	3.4	23	89	8	117	50	0	33	16	1.45
33749394--33749473	34	2.4	34	84	0	106	12	13	33	40	1.83
33750497--33750543	21	2.2	21	80	0	58	21	23	38	17	1.93
33755911--33755982	23	3.1	24	84	9	87	47	1	34	16	1.56
33764854--33764878	13	1.9	13	100	0	50	40	12	8	40	1.72
33768287--33768336	19	2.6	19	82	14	66	72	2	0	26	0.96
33774018--33774055	15	2.3	17	86	13	53	18	57	15	7	1.62
33775157--33775247	3	30.3	3	76	10	62	31	7	2	58	1.39
33775520--33775605	32	2.6	32	76	20	88	37	10	3	48	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33793937--33793986	12	3.8	13	80	17	50	54	20	0	26	1.45
33794008--33794053	13	3.5	13	81	3	56	56	10	2	30	1.46
33794841--33794904	27	2.4	27	84	5	76	25	32	26	15	1.95
33798355--33798473	61	1.9	62	83	5	152	47	4	4	44	1.42
33798585--33798632	25	2.0	25	83	4	62	41	8	8	41	1.65
33801157--33801213	30	1.9	30	85	7	80	52	0	1	45	1.11
33802275--33802320	18	2.6	18	96	0	83	34	4	6	54	1.46
33802436--33802469	16	2.1	16	100	0	68	70	11	0	17	1.16
33805508--33805550	18	2.3	19	88	11	63	32	11	0	55	1.36
33808450--33808474	2	12.5	2	100	0	50	0	48	0	52	1.00

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