genome.fa.s2.2.7.7.80.10.50.1000.20.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  20  of  206  ( 24623 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)
6077351--6079148	652	2.8	651	87	2	2550	27	24	19	28	1.98
6078304--6079973	825	2.0	826	87	3	2421	27	23	18	29	1.98
6079131--6081362	218	10.3	218	85	2	2869	27	23	18	29	1.98
6079133--6081362	652	3.4	649	86	4	2887	27	23	18	29	1.98
6083814--6084423	217	2.8	218	85	2	789	28	23	17	30	1.97
6084524--6085597	218	4.9	218	87	1	1499	28	24	18	28	1.98
6084524--6085609	435	2.5	435	88	1	1575	28	24	18	28	1.98
6087400--6087521	45	2.7	45	77	8	122	28	26	17	27	1.97
6087400--6087567	91	1.9	90	81	6	205	28	26	16	27	1.97
6087490--6088234	218	3.4	218	84	0	972	26	23	20	29	1.98
6088904--6089996	217	5.0	216	82	3	1331	26	23	20	29	1.99
6089843--6090128	132	2.2	132	83	3	362	23	25	22	28	1.99
6089645--6090345	349	2.0	347	93	1	1197	24	24	22	28	2.00
6088904--6090214	649	2.0	651	79	7	1419	26	23	21	29	1.99
6089988--6092141	217	9.9	216	85	2	2473	27	22	19	30	1.98
6089988--6092141	435	5.0	435	84	2	2641	27	22	19	30	1.98
6091106--6091654	44	12.6	44	68	11	218	26	22	21	28	1.99
6089990--6092141	652	3.3	649	84	4	2900	27	22	19	30	1.98
6091977--6092090	44	2.6	44	78	10	117	28	28	19	24	1.98
6092278--6093741	217	6.7	217	85	2	1732	26	23	20	29	1.99
6092278--6093741	435	3.4	433	81	4	1623	26	23	20	29	1.99
6093263--6093592	44	7.6	43	70	11	183	27	23	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6094103--6095153	217	4.8	215	82	3	1183	26	22	19	31	1.98
6096078--6098772	217	12.4	218	82	4	3046	27	22	19	30	1.98
6096078--6098772	435	6.2	436	82	3	3085	27	22	19	30	1.98
6096078--6098772	653	4.1	653	83	3	3232	27	22	19	30	1.98
6097502--6097590	44	2.1	43	83	6	110	33	19	14	32	1.92
6097525--6097628	44	2.4	44	79	6	113	29	22	14	33	1.93
6098451--6098731	44	6.5	44	70	12	145	27	23	20	28	1.99
6108124--6108787	217	3.1	218	83	3	800	26	23	19	30	1.98
6108888--6111639	217	12.7	217	81	3	2828	28	22	19	30	1.98
6108888--6111639	435	6.3	433	82	3	3105	28	22	19	30	1.98
6110140--6111110	44	22.4	44	66	13	223	26	22	19	30	1.98
6111618--6115335	218	17.1	218	73	2	2444	26	21	18	28	1.95
6111957--6112073	44	2.6	46	75	14	120	27	30	17	23	1.97
6110794--6112638	825	2.2	823	82	5	2046	28	22	19	30	1.98
6111618--6115273	435	8.4	435	71	3	2394	26	21	17	28	1.95
6111625--6115338	652	5.7	651	71	2	2182	26	21	18	28	1.95
6115276--6115379	44	2.4	44	85	6	131	24	23	24	28	1.99
6115063--6115596	261	2.0	261	86	2	734	26	23	20	30	1.98
6115320--6116586	217	5.9	215	77	7	1132	27	22	18	30	1.98
6115111--6115681	261	2.2	261	81	3	632	26	23	20	29	1.99
6114411--6116248	913	2.0	913	84	3	2423	27	23	19	30	1.98
6115571--6116641	416	2.5	411	82	6	1026	28	22	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6116601--6117018	218	1.9	217	85	2	579	27	21	18	31	1.97
6117162--6124674	217	34.6	218	83	3	7803	27	22	19	30	1.98
6117162--6124674	435	17.3	436	83	2	8269	27	22	19	30	1.98
6117427--6137030	44	450.8	44	64	15	733	27	23	19	30	1.98
6124563--6124847	85	3.3	85	69	8	252	25	22	21	30	1.99
6124479--6124847	173	2.1	173	89	2	562	26	23	20	30	1.99
6124479--6124896	173	2.4	173	85	2	473	27	22	20	29	1.99
6124871--6125566	347	2.0	347	87	2	1013	26	24	19	28	1.99
6125082--6125354	130	2.1	129	84	4	354	25	27	21	25	1.99
6124758--6125808	565	1.9	565	86	2	1538	27	23	19	29	1.98
6124871--6125676	347	2.3	346	82	5	810	27	23	19	28	1.98
6125211--6126635	217	6.6	216	84	3	1706	27	23	19	29	1.98
6125211--6126635	435	3.3	435	82	6	1744	27	23	19	29	1.98
6125211--6126635	652	2.2	652	84	3	1841	27	23	19	29	1.98
6126366--6126923	306	1.8	307	86	3	811	25	24	19	29	1.99
6126665--6128376	217	7.9	219	85	2	2075	26	22	19	31	1.98
6126092--6127158	524	2.0	524	87	2	1525	26	23	19	30	1.98
6128189--6128549	173	2.1	173	88	2	537	28	20	19	31	1.97
6126618--6128420	869	2.1	869	84	3	2399	26	22	19	30	1.98
6128194--6128500	85	3.6	85	70	12	250	27	21	19	31	1.97
6127780--6128984	608	2.0	608	86	1	1682	27	22	19	30	1.98
6126675--6128641	652	3.0	649	80	5	1961	26	22	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6128388--6137348	218	41.2	218	85	2	10914	27	23	19	29	1.98
6127794--6129152	608	2.2	606	82	4	1457	27	22	20	29	1.98
6127577--6129593	825	2.4	823	80	5	1846	27	22	19	30	1.98
6136954--6137035	43	1.9	43	83	11	107	29	23	20	26	1.99
6137221--6137336	45	2.6	45	79	4	126	25	23	21	29	1.99
6138757--6138801	19	2.4	19	100	0	90	26	11	17	44	1.82
6141167--6141219	21	2.5	21	100	0	106	37	15	3	43	1.64
6148687--6148731	22	2.0	23	82	4	56	46	2	20	31	1.62
6156420--6156476	25	2.3	24	82	8	71	71	0	26	1	0.95
6156420--6156465	13	3.7	12	82	8	56	76	0	21	2	0.90
6156420--6156465	6	7.3	6	82	7	56	76	0	21	2	0.90
6157830--6157994	44	4.0	43	79	15	195	26	18	24	30	1.98
6157918--6157984	34	2.0	34	96	0	125	23	22	25	28	1.99
6157992--6158306	167	1.9	168	85	0	443	27	18	26	27	1.98
6157995--6158383	167	2.3	167	81	1	420	28	19	26	25	1.99
6158335--6158620	101	2.8	101	91	2	452	31	20	22	25	1.98
6158303--6158571	50	5.4	50	64	2	144	30	21	24	23	1.99
6158311--6158620	100	3.1	100	89	2	462	31	20	22	25	1.98
6158461--6158620	50	3.2	50	69	3	142	33	19	21	26	1.97
6159230--6159283	19	2.8	19	91	0	90	37	7	16	38	1.77
6159230--6159306	42	1.9	41	84	10	106	36	6	16	40	1.75
6159462--6159506	20	2.2	20	84	8	54	4	22	11	62	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6159556--6159585	2	15.5	2	93	6	53	50	0	0	50	1.00
6162221--6162411	96	2.0	96	98	0	373	54	5	9	29	1.56
6162335--6162493	68	2.3	67	81	3	165	57	3	9	28	1.47
6164076--6164915	143	5.9	143	85	0	1063	27	22	19	30	1.98
6166271--6166318	20	2.2	20	85	10	60	2	2	8	87	0.70
6169306--6169349	20	2.0	23	87	12	67	25	4	11	59	1.51
6174865--6175206	168	2.0	168	93	0	585	33	14	21	30	1.93
6184373--6184425	22	2.4	22	70	20	56	66	11	5	16	1.42
6184634--6184682	17	2.9	17	87	0	71	75	10	2	12	1.13
6187212--6187278	27	2.4	27	76	16	66	35	13	23	26	1.92
6190537--6190664	42	3.1	42	84	5	161	17	23	17	40	1.91
6190595--6190668	21	3.5	21	73	0	58	13	24	20	41	1.88
6190615--6190677	21	3.0	21	76	0	63	14	22	20	42	1.88
6190565--6190688	42	3.0	42	84	0	140	16	24	19	40	1.91
6191667--6191708	20	2.0	22	86	9	61	38	2	16	42	1.61
6192325--6192358	17	1.9	18	88	5	52	67	0	8	23	1.18
6192318--6192361	24	2.0	24	86	13	67	65	0	9	25	1.21
6193098--6193145	24	2.0	24	83	4	60	39	0	16	43	1.48
6193537--6193622	43	2.0	43	95	0	154	50	2	24	23	1.61
6193542--6193606	16	4.4	16	67	25	52	50	3	26	20	1.62
6194919--6195019	49	2.1	49	94	0	175	42	5	24	26	1.77
6196252--6196506	88	2.9	89	90	6	398	31	12	26	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6197348--6197433	31	2.9	30	82	5	111	34	12	12	39	1.82
6201595--6201630	19	1.9	18	88	5	54	41	0	2	55	1.14
6222487--6222521	3	11.7	3	100	0	70	34	0	0	65	0.93
6223868--6223900	2	16.5	2	100	0	66	48	0	0	51	1.00
6230512--6230752	118	2.0	118	99	0	473	42	14	14	29	1.85
6232102--6232126	11	2.3	11	100	0	50	88	0	12	0	0.53
6232838--6232862	13	1.9	13	100	0	50	32	0	0	68	0.90
6235991--6236071	42	1.9	42	92	0	135	34	9	19	35	1.85
6242990--6243029	17	2.4	17	91	8	64	45	2	2	50	1.28
6243309--6243363	7	7.7	7	92	8	85	72	0	12	14	1.12

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