genome.fa.s4.2.7.7.80.10.50.1000.150.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  150  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)
47575731--47575899	82	2.1	82	98	0	329	30	3	20	45	1.68
47576320--47576408	32	2.7	32	77	6	99	35	7	12	43	1.71
47578871--47578933	33	1.9	33	90	0	99	23	17	6	52	1.67
47579523--47579602	41	2.0	41	85	5	108	37	25	0	37	1.56
47580656--47580716	5	12.4	5	87	8	90	59	1	0	39	1.08
47582835--47582882	21	2.3	21	88	0	69	27	27	27	18	1.98
47582835--47582895	21	2.8	21	78	9	61	34	26	22	16	1.95
47584025--47584060	16	2.2	16	90	0	54	0	36	0	63	0.94
47586922--47587066	69	2.1	69	88	0	209	40	15	17	26	1.89
47587666--47587760	43	2.2	43	83	3	120	28	25	16	29	1.97
47590415--47590614	41	4.9	41	91	1	303	36	25	17	21	1.95
47591554--47591585	13	2.5	13	100	0	64	40	18	6	34	1.76
47597806--47597842	3	13.3	3	88	11	53	70	0	29	0	0.88
47597793--47597838	14	3.4	14	79	11	51	65	0	34	0	0.93
47597793--47597846	27	2.0	27	85	7	74	66	0	33	0	0.92
47597793--47597857	21	3.0	22	75	20	66	69	0	30	0	0.89
47597806--47597850	14	2.9	17	78	21	62	71	0	28	0	0.87
47597950--47598068	60	2.0	60	94	0	211	33	0	12	53	1.39
47600664--47600699	17	2.1	18	94	5	65	33	5	0	61	1.19
47603922--47603983	27	2.3	27	100	0	124	19	32	25	22	1.97
47603935--47603992	27	2.1	27	90	0	89	27	27	22	22	1.99
47603942--47603999	27	2.1	27	83	0	71	27	32	20	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47609521--47609550	16	1.9	15	93	6	51	26	3	6	63	1.35
47609778--47609874	29	3.0	30	73	26	99	59	0	3	37	1.13
47609768--47609893	39	3.2	38	87	7	166	58	0	3	38	1.14
47609811--47609874	29	2.3	29	91	5	105	62	0	3	34	1.11
47609772--47609901	68	1.9	66	92	3	215	61	0	3	35	1.12
47609821--47609881	29	2.1	28	84	3	86	65	0	4	29	1.13
47609821--47609900	29	2.8	29	83	7	83	65	0	3	31	1.11
47609723--47609785	11	5.9	11	76	9	51	52	0	1	46	1.10
47610323--47610351	5	5.8	5	100	0	58	41	58	0	0	0.98
47615424--47615468	21	2.1	21	88	8	65	20	4	11	64	1.42
47615432--47615463	15	2.1	15	94	0	55	18	3	12	65	1.38
47616900--47616945	24	1.9	24	86	8	67	67	0	8	23	1.18
47618972--47618996	2	12.5	2	100	0	50	52	0	0	48	1.00
47625241--47625269	12	2.5	12	94	5	51	41	20	0	37	1.53
47631490--47631532	12	3.7	12	90	3	61	81	4	11	2	0.93
47631725--47631775	19	2.8	19	77	16	54	68	1	1	27	1.11
47631719--47631776	24	2.3	25	82	11	66	70	3	1	24	1.12
47633638--47633669	12	2.7	12	100	0	64	50	12	0	37	1.41
47637238--47637275	18	2.1	19	85	14	53	42	18	2	36	1.64
47638935--47639060	56	2.1	59	85	12	179	23	25	21	30	1.99
47640578--47640610	2	16.5	2	100	0	66	51	0	0	48	1.00
47641556--47641636	30	2.7	30	79	9	87	58	0	1	40	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47641556--47641646	10	9.1	10	69	21	57	57	0	1	41	1.06
47641577--47641687	12	9.5	12	67	27	62	57	0	1	40	1.09
47641579--47641735	82	1.9	81	92	1	260	60	0	2	36	1.10
47641556--47641687	11	12.9	11	69	25	78	57	0	1	40	1.08
47641556--47641737	39	4.5	39	87	6	247	59	0	2	38	1.10
47641556--47641736	40	4.5	40	86	4	238	59	0	2	38	1.10
47652974--47653002	13	2.3	13	94	5	51	58	6	0	34	1.25
47657910--47658055	54	2.9	50	84	14	183	48	8	8	33	1.66
47662729--47662839	42	2.6	42	82	2	143	40	17	25	17	1.90
47662806--47662846	21	2.0	21	85	0	55	48	19	19	12	1.80
47664077--47664144	21	3.3	21	91	2	111	33	11	16	38	1.85
47667101--47667134	18	1.9	18	88	5	52	35	2	5	55	1.39
47669824--47669883	28	2.1	28	82	14	70	41	5	0	53	1.23
47670142--47670176	18	1.9	18	88	0	52	45	0	2	51	1.16
47674907--47674949	22	2.0	22	86	4	61	32	13	23	30	1.93
47678190--47678269	39	2.1	39	95	0	142	33	12	25	28	1.92
47688399--47688484	31	2.9	30	76	10	86	41	11	10	36	1.76
47689000--47689053	3	18.0	3	96	0	99	64	0	1	33	1.04
47695469--47695521	25	2.2	24	93	3	88	16	22	22	37	1.94
47702470--47702501	7	4.6	7	96	0	55	25	28	0	46	1.53
47705281--47705308	2	14.0	2	100	0	56	50	0	0	50	1.00
47710710--47710755	2	23.5	2	95	4	85	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47714400--47714465	31	2.1	31	89	10	100	36	1	15	46	1.55
47717416--47717462	21	2.3	21	85	10	62	36	0	8	55	1.31
47717685--47717776	44	2.1	44	83	6	114	36	25	3	34	1.72
47717758--47717809	16	3.2	16	84	10	70	26	26	5	40	1.79
47727506--47727564	30	2.0	30	96	0	109	59	11	3	25	1.48
47727596--47727643	11	4.4	11	78	0	51	60	8	10	20	1.55
47727597--47727639	22	2.0	22	90	0	68	58	9	11	20	1.61
47727604--47727644	11	3.7	11	80	0	55	56	9	14	19	1.66
47736242--47736316	32	2.3	32	86	8	109	26	41	4	28	1.74
47736397--47736486	42	2.1	42	89	0	135	36	27	1	34	1.65
47739417--47739554	64	2.1	66	82	9	165	38	26	9	26	1.86
47744357--47744442	31	2.8	30	72	6	75	41	16	9	32	1.80
47747128--47747216	45	2.0	45	90	0	142	38	3	15	42	1.64
47747276--47747385	24	4.6	24	88	0	166	43	7	27	21	1.79
47747480--47747670	21	9.1	21	63	4	89	17	24	15	42	1.88
47747495--47747678	42	4.4	42	88	0	242	16	25	16	41	1.89
47747480--47747678	84	2.4	84	86	0	272	16	24	16	42	1.88
47747480--47747705	84	2.7	84	83	1	229	17	23	16	42	1.88
47749846--47749915	22	3.2	22	76	15	72	40	20	25	14	1.90
47751453--47751562	25	4.4	25	73	10	82	20	27	21	30	1.98
47751452--47751564	50	2.3	50	82	3	129	20	26	21	31	1.98
47756277--47756404	67	1.9	67	95	0	229	21	17	34	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47756530--47756597	26	2.5	27	77	15	70	51	8	8	30	1.63
47757616--47757702	32	2.7	32	76	15	81	63	6	3	26	1.36
47762643--47762885	50	4.7	50	81	3	252	27	21	27	23	1.99
47771873--47771902	6	5.0	6	100	0	60	16	16	16	50	1.79
47773176--47773206	16	1.9	16	93	0	53	22	0	41	35	1.54
47777242--47777294	3	17.7	3	96	0	97	33	33	0	32	1.58
47779897--47779925	15	1.9	15	100	0	58	58	13	6	20	1.58
47780401--47780432	14	2.3	14	100	0	64	31	31	12	25	1.92
47780437--47780467	13	2.4	13	100	0	62	54	16	0	29	1.42
47781144--47781225	26	3.3	25	70	14	71	34	25	25	14	1.94
47785416--47785450	7	5.0	7	100	0	70	14	0	0	85	0.59
47788022--47788124	17	6.6	16	66	26	53	42	1	2	52	1.27
47788034--47788082	18	2.5	19	87	9	64	42	0	2	55	1.11
47789020--47789107	36	2.4	36	82	0	104	21	32	28	17	1.96
47789927--47789951	8	3.1	8	100	0	50	60	0	0	40	0.97
47789863--47789930	5	13.8	5	98	1	129	41	0	0	58	0.98
47790715--47790764	15	3.2	15	79	20	66	34	0	14	52	1.42
47790714--47790782	11	6.7	11	70	20	51	34	0	14	50	1.43
47790743--47790785	18	2.3	19	80	8	52	37	0	11	51	1.39
47790897--47791028	41	3.3	40	75	7	135	26	18	24	31	1.97
47790897--47791004	37	2.8	40	76	8	114	26	18	23	31	1.97
47793145--47793198	27	1.9	29	81	7	67	57	7	1	33	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47801784--47801827	23	2.0	22	90	4	70	56	2	6	34	1.38
47802541--47802617	19	3.7	21	80	13	68	40	16	6	36	1.75
47802541--47802598	22	2.6	22	81	7	64	41	17	5	36	1.72
47802577--47802630	19	2.8	19	100	0	108	35	16	11	37	1.84
47807881--47807914	16	2.1	16	94	0	59	41	0	2	55	1.15
47808629--47808682	21	2.7	21	75	16	60	33	9	12	44	1.75
47810615--47810639	12	2.1	12	100	0	50	60	8	0	32	1.26
47810644--47810689	20	2.2	20	85	11	58	58	6	2	32	1.36
47811255--47811292	20	1.9	20	88	0	58	34	0	2	63	1.09
47811349--47811406	21	2.7	22	81	7	57	39	0	1	58	1.08

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