genome.fa.s4.2.7.7.80.10.50.1000.118.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  118  of  198  ( 23681 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)
37853401--37853657	83	3.1	82	86	2	336	29	28	21	21	1.98
37853719--37853827	39	2.8	40	83	5	141	21	23	18	36	1.95
37861963--37862006	11	3.9	11	78	3	52	72	2	2	22	1.07
37865075--37865359	96	3.0	96	95	1	502	35	12	18	33	1.88
37865934--37866019	43	2.0	43	97	0	163	29	23	19	27	1.98
37866943--37866967	12	2.1	12	100	0	50	16	16	0	68	1.22
37868424--37868876	226	2.0	225	95	1	818	32	15	17	34	1.91
37880725--37880764	12	3.3	12	89	0	62	10	27	40	22	1.86
37889441--37889472	16	2.0	16	100	0	64	50	0	37	12	1.41
37898449--37898510	24	2.6	24	90	10	92	16	22	24	37	1.94
37898464--37898526	24	2.6	24	85	7	74	19	25	19	36	1.94
37904470--37904517	24	2.0	24	87	0	69	52	12	4	31	1.58
37906414--37906461	24	2.0	24	87	0	69	52	12	4	31	1.58
37908358--37908405	24	2.0	24	87	0	69	52	12	4	31	1.58
37909506--37909588	20	4.2	20	74	10	80	33	7	14	44	1.73
37909506--37909588	40	2.1	40	86	8	116	33	7	14	44	1.73
37912763--37912805	14	3.1	14	83	6	52	51	4	0	44	1.22
37919052--37919094	19	2.3	19	88	8	61	20	9	2	67	1.30
37920194--37920397	63	3.2	62	70	13	169	36	13	19	30	1.90
37920111--37920493	130	2.9	130	84	0	496	35	13	19	31	1.91
37920383--37920566	94	2.0	94	86	0	260	33	13	20	32	1.92
37924028--37924090	27	2.4	25	78	5	81	73	0	23	3	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37928246--37928291	23	2.0	23	100	0	92	30	21	17	30	1.96
37932510--37932563	28	1.9	28	84	0	72	38	12	18	29	1.88
37932554--37932620	24	2.8	24	83	0	80	31	11	20	35	1.89
37932601--37932667	28	2.4	28	79	0	71	25	13	23	37	1.92
37934983--37935167	51	3.6	51	83	2	212	31	26	15	25	1.96
37938556--37938600	16	2.8	16	96	0	81	37	8	13	40	1.76
37938823--37939018	51	3.9	51	75	8	193	24	17	26	31	1.97
37945789--37945973	51	3.7	50	79	6	176	30	27	16	25	1.96
37956321--37956360	19	2.2	18	86	4	53	47	2	7	42	1.45
37958319--37958472	44	3.6	44	70	8	145	28	20	22	28	1.98
37958287--37958472	85	2.2	85	87	1	257	29	20	21	29	1.98
37958484--37958641	50	3.2	50	78	3	201	25	22	22	29	1.99
37958484--37958694	50	4.2	50	77	2	199	26	23	21	29	1.99
37958484--37958694	100	2.1	100	91	1	343	26	23	21	29	1.99
37958507--37958700	50	3.9	50	76	1	201	25	24	22	27	2.00
37958884--37959068	88	2.1	88	88	0	280	27	26	20	25	1.99
37963606--37963631	8	3.2	8	100	0	52	76	0	11	11	1.01
37970956--37970987	15	2.2	14	94	5	55	46	0	12	40	1.42
37971004--37971077	35	2.1	35	82	0	85	54	2	5	37	1.38
37971010--37971076	19	3.7	18	73	13	57	56	1	4	37	1.29
37971568--37971600	3	11.0	3	93	0	57	63	0	0	36	0.95
37972929--37972994	19	3.5	19	69	8	53	54	0	1	43	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37972898--37972996	38	2.6	38	83	1	128	53	0	1	45	1.07
37974262--37974298	9	4.1	9	92	0	65	45	13	10	29	1.77
37986045--37986130	27	3.2	27	75	6	93	36	10	26	26	1.89
37986041--37986143	54	1.9	54	88	4	154	35	9	26	28	1.88
37986043--37986165	54	2.3	54	84	4	149	36	11	26	26	1.90
38004268--38004304	15	2.4	16	82	13	51	24	5	8	62	1.44
38016210--38016764	44	12.8	43	69	12	260	29	18	24	28	1.98
38016267--38016463	89	2.2	89	79	10	208	31	16	26	25	1.97
38016212--38016498	133	2.2	133	90	0	439	29	17	24	28	1.97
38016256--38016719	128	3.6	132	84	6	445	28	18	24	28	1.98
38016434--38016760	128	2.6	128	89	3	482	27	19	23	29	1.98
38018221--38018253	18	1.9	17	88	11	50	30	6	3	60	1.36
38018551--38018589	15	2.6	15	80	15	53	25	7	7	58	1.52
38029262--38029340	40	2.0	40	97	0	149	39	13	16	30	1.88
38031055--38031093	20	1.9	21	89	5	62	43	0	12	43	1.42
38035818--38035851	14	2.4	14	90	9	52	29	44	2	23	1.68
38036265--38036536	41	6.7	41	81	3	289	30	28	16	24	1.97
38036265--38036536	82	3.3	82	82	5	336	30	28	16	24	1.97
38036571--38036659	39	2.2	40	82	7	101	22	17	20	39	1.92
38036584--38036659	39	1.9	40	84	7	102	25	19	18	36	1.94
38042738--38042841	52	2.0	52	98	0	199	35	13	24	26	1.92
38043125--38043189	30	2.3	27	81	7	76	55	1	1	41	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38053426--38053499	36	2.1	36	86	0	103	36	20	20	22	1.95
38054482--38054526	18	2.5	17	82	10	54	15	13	2	68	1.30
38054487--38054526	18	2.2	18	86	8	55	15	12	2	70	1.28
38062464--38062500	19	2.0	19	89	5	58	75	5	2	16	1.10
38094228--38094325	22	4.5	22	81	0	124	33	21	29	15	1.94
38094228--38094337	22	5.0	21	79	6	103	34	21	28	15	1.94
38102146--38102181	18	2.1	18	89	5	56	25	16	16	41	1.89
38110577--38110607	16	1.9	16	93	0	53	9	9	6	74	1.23
38112210--38112287	37	2.1	39	80	9	90	43	5	5	46	1.48
38112345--38112401	16	3.5	17	76	9	57	54	1	1	42	1.21
38133072--38133105	16	2.1	16	94	0	59	35	5	14	44	1.70
38135089--38135161	39	1.9	37	86	10	103	42	5	2	49	1.40
38146874--38146903	2	15.0	2	92	0	51	46	0	3	50	1.18
38147923--38148077	41	3.8	41	86	0	204	39	16	27	16	1.90
38148152--38148241	34	2.6	35	77	11	96	27	34	3	34	1.74
38148281--38148349	25	2.8	25	90	0	102	17	42	14	26	1.87
38148292--38148383	25	3.7	25	86	4	96	17	40	15	27	1.89
38150416--38150499	29	3.1	28	62	28	65	46	11	4	36	1.62
38150438--38150465	8	3.5	8	100	0	56	53	10	0	35	1.36
38150406--38150508	51	2.0	51	94	0	179	48	10	5	34	1.62
38157984--38158028	22	2.0	22	100	0	90	37	8	17	35	1.81
38159584--38159619	10	3.6	10	100	0	72	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38159567--38159627	20	2.9	20	79	16	70	49	4	0	45	1.23
38170973--38170999	9	3.0	9	100	0	54	44	22	0	33	1.53
38174976--38175022	9	5.2	9	89	0	76	42	23	8	25	1.82
38186318--38186454	72	2.0	68	86	5	193	50	5	3	40	1.44
38186398--38186473	11	6.8	11	70	24	52	55	2	1	40	1.22
38186366--38186472	19	5.8	18	69	18	60	52	3	2	41	1.34
38186398--38186473	37	2.1	36	85	11	102	55	2	1	40	1.22
38203488--38203531	22	2.0	21	83	12	54	40	0	0	59	0.98
38209003--38209038	17	2.1	17	89	0	54	36	36	11	16	1.84
38209517--38209575	25	2.4	25	85	0	73	28	23	18	28	1.98
38213300--38213326	12	2.2	12	100	0	54	44	14	7	33	1.73
38213597--38213702	44	2.4	44	93	1	176	43	29	6	20	1.77
38213973--38214012	14	2.9	14	84	0	53	20	10	50	20	1.76
38214293--38214325	14	2.4	14	94	0	57	15	9	60	15	1.58
38216785--38216811	6	4.5	6	100	0	54	48	0	0	51	1.00
38220574--38220633	3	20.0	3	89	0	93	0	38	0	61	0.96
38223115--38223147	17	2.0	17	88	5	50	57	3	3	36	1.29
38223229--38223257	2	15.0	2	92	7	51	51	0	0	48	1.00
38224295--38224322	12	2.3	12	100	0	56	7	7	0	85	0.73
38224288--38224333	20	2.3	20	85	7	58	4	13	0	82	0.81
38233566--38233620	27	2.0	27	96	0	101	25	20	7	47	1.75
38235065--38235120	25	2.2	26	79	17	73	62	1	1	33	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38235814--38235847	16	2.2	15	89	5	50	55	0	0	44	0.99
38246205--38246338	37	3.6	37	81	4	146	41	28	11	17	1.85
38246733--38246787	23	2.3	24	93	3	94	30	16	1	50	1.55
38246737--38246776	13	3.3	13	73	20	50	30	17	0	52	1.45
38252633--38252689	25	2.3	25	75	0	60	24	7	12	56	1.61
38253792--38254350	114	4.9	114	87	2	752	26	22	25	25	2.00
38254598--38254628	15	2.1	15	93	0	53	19	0	45	35	1.51
38254929--38254970	15	2.8	16	89	10	63	16	0	45	38	1.48
38254932--38254980	14	3.4	14	86	13	57	20	0	44	34	1.52
38254907--38254988	36	2.3	36	79	8	87	23	0	40	36	1.55

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