genome.fa.s6.2.7.7.80.10.50.1000.63.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  63  of  168  ( 20060 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)
18231747--18231790	16	2.7	16	78	3	52	79	4	2	13	0.98
18232079--18232126	21	2.3	20	85	3	60	8	29	33	29	1.86
18232216--18232255	10	4.2	10	87	9	57	0	27	0	72	0.85
18232215--18232264	10	4.8	10	83	9	55	0	26	0	74	0.83
18232352--18232394	14	2.9	15	86	6	52	0	25	2	72	0.97
18232398--18232448	24	2.1	24	82	7	59	1	9	17	70	1.24
18232412--18232452	18	2.3	18	87	4	57	0	12	19	68	1.21
18232798--18232914	59	2.0	60	93	1	200	37	1	25	35	1.66
18232752--18232920	89	1.9	89	86	2	241	37	5	24	32	1.78
18232761--18232921	30	5.4	30	85	3	200	36	4	26	31	1.78
18233127--18234807	77	21.9	76	82	7	1553	36	20	15	27	1.93
18233209--18234793	307	5.1	306	88	4	2049	36	20	15	27	1.93
18233117--18234805	230	7.3	232	85	5	1886	35	20	16	27	1.94
18235660--18235711	7	7.6	7	89	10	81	11	13	0	75	1.06
18235708--18235733	8	3.2	8	100	0	52	0	0	11	88	0.52
18240462--18240515	20	2.7	20	83	13	67	33	12	14	38	1.85
18240462--18240548	20	4.5	21	72	20	66	37	11	10	40	1.76
18240480--18240558	37	2.1	38	83	6	99	40	10	7	41	1.67
18240585--18240815	17	12.9	16	73	19	140	43	10	14	31	1.79
18240585--18240809	18	12.4	18	75	15	173	44	10	14	31	1.78
18240569--18240806	74	3.2	74	78	11	206	43	10	14	31	1.80
18240585--18240815	37	6.4	37	72	17	157	43	10	14	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18240932--18240963	17	1.9	16	100	0	55	56	12	12	18	1.67
18241101--18241151	22	2.3	23	86	3	68	78	3	1	15	0.99
18241149--18241192	21	2.1	21	82	0	52	63	11	6	18	1.48
18241578--18241628	14	3.9	14	75	15	54	0	25	0	74	0.82
18242125--18242274	30	5.0	30	83	6	162	37	4	24	33	1.76
18242105--18242274	30	5.7	29	79	8	155	37	6	24	31	1.81
18242114--18242263	59	2.5	60	79	8	171	36	6	26	32	1.81
18242105--18242270	89	1.9	89	86	5	237	36	6	24	31	1.81
18243202--18243246	20	2.2	20	84	7	56	51	11	6	31	1.63
18243847--18243873	4	6.8	4	100	0	54	22	0	0	77	0.76
18245603--18245635	16	2.1	16	94	0	57	15	21	30	33	1.94
18252182--18252273	46	2.0	44	87	4	130	36	22	19	20	1.95
18253607--18253666	28	2.2	28	84	3	77	53	15	6	25	1.65
18254174--18255754	791	2.0	790	98	0	3029	40	12	18	28	1.87
18258869--18258982	50	2.2	50	83	6	131	35	13	16	34	1.88
18268709--18268766	22	2.7	21	89	7	89	31	5	34	29	1.79
18276768--18276832	22	2.9	22	90	2	94	33	33	4	27	1.78
18282989--18283049	10	6.1	10	74	12	54	32	13	24	29	1.93
18282990--18283050	20	3.0	20	83	9	79	32	13	26	27	1.93
18282994--18283070	30	2.5	30	81	6	84	29	15	29	24	1.96
18283362--18283447	29	3.1	28	84	12	90	33	8	12	45	1.72
18283375--18283447	29	2.5	29	95	0	128	31	9	13	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18284679--18284725	19	2.5	19	89	3	69	12	8	4	74	1.19
18284679--18284725	10	5.0	10	82	15	55	12	8	4	74	1.19
18288675--18288906	45	5.2	45	92	0	365	36	16	20	26	1.93
18295098--18295333	45	5.2	45	94	0	391	38	14	19	26	1.91
18298233--18298404	50	3.4	51	81	7	192	40	12	15	31	1.84
18300192--18300238	20	2.3	20	85	0	58	25	19	29	25	1.98
18311502--18311726	44	5.1	43	63	13	109	26	22	25	25	2.00
18311224--18315047	88	43.4	88	83	2	3921	23	22	23	26	1.98
18313298--18314932	44	37.2	44	62	11	204	25	23	24	26	2.00
18315922--18317663	88	19.5	88	79	3	1616	22	24	22	24	1.96
18327609--18328452	88	9.6	88	87	1	1181	24	24	24	27	2.00
18327609--18328452	175	4.8	176	88	1	1190	24	24	24	27	2.00
18327618--18328452	263	3.2	263	88	1	1226	24	24	24	27	2.00
18330644--18332359	88	19.5	88	89	1	2530	24	24	24	26	2.00
18333062--18336373	88	37.5	88	77	3	2832	22	23	22	25	1.96
18334820--18335052	47	5.1	46	66	18	130	22	22	26	27	1.99
18336123--18336260	44	3.2	43	65	11	109	22	23	25	28	1.99
18336611--18337146	88	6.1	88	85	1	733	23	25	23	27	2.00
18336756--18336896	44	3.2	44	65	23	107	24	21	26	26	2.00
18336474--18337146	176	3.8	176	84	2	843	23	24	24	27	2.00
18336474--18337146	264	2.5	260	85	4	830	23	24	24	27	2.00
18341535--18342265	88	8.1	88	89	3	1068	24	24	24	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18350571--18353280	88	30.8	88	88	1	3838	25	24	24	26	2.00
18363047--18366776	44	84.8	44	64	15	1049	24	24	24	26	2.00
18363039--18366776	88	42.5	88	90	0	5627	24	24	24	27	2.00
18367980--18368018	9	4.8	8	84	15	53	10	12	0	76	1.01
18367971--18368019	10	5.6	9	85	14	59	10	12	0	77	0.99
18367971--18368019	17	2.8	17	82	17	57	10	12	0	77	0.99
18368834--18368886	16	3.2	16	87	10	79	11	0	9	79	0.94
18368834--18368888	9	6.3	9	89	8	87	10	0	9	80	0.92
18370918--18370960	19	2.3	18	84	15	52	39	13	25	20	1.90
18372797--18372853	20	2.7	22	71	20	59	61	8	10	19	1.54
18373378--18373478	18	5.7	18	72	9	73	58	3	4	32	1.38
18373378--18373476	3	33.3	3	71	13	62	59	4	5	31	1.37
18374185--18374234	6	8.7	6	77	16	52	80	2	2	16	0.91
18374185--18374216	11	2.9	11	95	0	55	84	3	0	12	0.74
18374190--18374233	23	1.9	23	86	9	63	79	2	2	15	0.93
18374550--18374606	27	2.1	28	83	9	73	8	3	35	52	1.50
18374646--18374979	46	7.3	46	90	0	515	25	15	31	27	1.96
18375403--18375459	27	2.1	29	83	9	75	52	35	3	8	1.50
18375777--18375823	11	4.3	11	84	7	60	17	2	2	78	0.94
18375775--18375823	17	2.8	16	82	14	53	16	2	2	79	0.92
18376504--18376556	24	2.2	24	86	0	70	33	1	5	58	1.32
18376535--18376657	15	8.5	15	77	15	71	31	5	3	59	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18376576--18376657	3	27.3	3	85	9	114	30	4	0	64	1.14
18377147--18377182	15	2.4	15	90	0	54	16	5	5	72	1.23
18378895--18378929	17	2.1	17	94	0	61	31	34	5	28	1.81
18386031--18386101	22	3.1	23	73	15	67	46	1	1	50	1.18
18386302--18386379	40	2.0	40	100	0	156	38	12	16	32	1.87
18390594--18390652	28	2.1	28	100	0	118	45	10	15	28	1.78
18399437--18399474	20	1.9	20	89	10	60	47	31	5	15	1.68
18400582--18400701	25	4.9	24	84	9	136	32	22	21	23	1.98
18400607--18400713	49	2.2	49	89	0	160	35	19	22	22	1.96
18400566--18400713	74	2.0	74	84	5	192	33	20	22	23	1.98
18402213--18402262	24	2.1	24	96	0	91	16	18	10	56	1.67
18404934--18405018	22	3.9	22	75	3	82	31	14	25	28	1.94
18408756--18408786	12	2.6	12	94	0	53	6	41	22	29	1.78
18415150--18415345	100	2.0	101	91	3	324	41	8	21	28	1.82
18422179--18422273	30	3.2	29	81	8	86	25	20	29	25	1.99
18422206--18422281	30	2.6	29	78	12	84	27	21	26	25	1.99
18422403--18422477	26	2.9	27	76	6	82	37	22	22	17	1.94
18422669--18422842	27	6.5	27	80	6	104	22	18	17	41	1.90
18422698--18422890	54	3.6	55	83	5	225	24	17	16	41	1.89
18422688--18422890	27	7.6	27	76	5	160	23	17	16	42	1.89
18422687--18422890	107	1.9	108	83	3	268	23	17	16	42	1.89
18429252--18429317	28	2.3	28	84	5	78	31	25	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18429273--18429330	28	2.0	29	90	3	91	27	25	24	22	2.00
18429442--18429533	26	3.5	26	80	0	94	42	25	17	15	1.88
18429731--18429823	27	3.5	28	76	15	97	18	23	19	38	1.93
18429749--18429890	27	5.3	27	83	5	155	19	21	19	40	1.91
18429789--18429899	54	2.1	54	91	0	177	21	18	16	43	1.88
18443950--18443981	16	2.0	16	100	0	64	68	12	0	18	1.20
18445332--18445461	33	3.9	33	77	7	147	32	21	24	21	1.98
18445319--18445442	66	1.9	65	94	0	212	32	22	24	20	1.98
18445891--18445948	27	2.2	26	79	11	64	22	20	18	37	1.94
18452539--18452609	23	3.1	23	82	8	90	22	19	23	33	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