genome.fa.s5.2.7.7.80.10.50.1000.97.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  97  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)
29022836--29022909	20	3.7	20	90	0	112	27	18	27	27	1.98
29025482--29025534	11	4.6	11	90	6	79	16	5	1	75	1.08
29025482--29025534	12	4.5	12	90	4	81	16	5	1	75	1.08
29027387--29027451	10	6.5	10	73	23	57	30	18	27	23	1.97
29027387--29027471	20	4.2	21	86	8	106	31	18	25	23	1.97
29027398--29027476	20	4.0	20	96	0	131	31	18	24	25	1.98
29034715--29034760	23	2.0	23	87	4	67	63	2	0	34	1.07
29038947--29038995	21	2.3	21	82	0	62	28	34	10	26	1.89
29044476--29044523	25	1.9	25	95	0	87	27	31	8	33	1.86
29046605--29046670	32	2.1	31	91	2	105	62	1	0	36	1.05
29046595--29046685	25	3.4	25	80	19	119	57	1	0	41	1.06
29052931--29052993	18	3.3	18	75	16	72	26	3	26	42	1.70
29054633--29054685	6	8.8	6	78	0	61	20	0	3	75	0.96
29054639--29054685	18	2.6	18	86	6	69	21	0	4	74	0.99
29058628--29058671	16	2.6	17	85	7	63	25	0	4	70	1.06
29060260--29060311	24	2.2	24	82	6	61	17	3	3	75	1.11
29060266--29060311	24	1.9	24	86	8	67	19	0	4	76	0.96
29064963--29065012	19	2.6	19	78	9	57	44	2	12	42	1.53
29065003--29065047	22	2.1	21	84	12	56	48	4	8	37	1.55
29068248--29068297	21	2.2	23	82	10	59	44	30	2	24	1.65
29068927--29068959	13	2.5	13	95	0	57	24	21	0	54	1.45
29068953--29069009	13	4.5	13	77	2	53	31	22	3	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29069052--29069112	25	2.4	25	83	0	86	32	24	18	24	1.97
29073026--29073059	17	2.0	17	88	11	52	38	0	47	14	1.45
29086433--29086628	51	3.9	51	80	3	243	31	29	16	22	1.96
29086440--29086624	101	1.8	101	91	3	309	31	28	16	22	1.96
29087648--29087683	17	2.1	18	89	5	56	47	0	2	50	1.15
29089637--29089684	11	4.5	11	76	10	55	33	4	14	47	1.63
29100353--29100537	27	6.9	27	79	7	141	39	18	20	21	1.93
29100348--29100538	54	3.5	55	74	12	164	38	19	19	21	1.93
29100365--29100657	27	10.9	27	76	8	120	37	18	19	23	1.94
29100518--29100657	54	2.6	54	80	5	165	36	20	18	25	1.95
29100944--29101190	32	7.7	32	76	11	202	22	20	21	36	1.95
29100944--29101182	64	3.7	62	77	11	225	21	19	21	37	1.95
29101212--29101266	22	2.5	22	73	5	58	21	23	12	41	1.88
29105236--29105378	42	3.4	42	86	0	180	28	20	22	28	1.98
29107480--29107554	19	3.8	19	93	6	132	37	10	16	36	1.83
29107480--29107577	19	4.7	22	80	14	95	36	9	16	37	1.80
29108497--29108541	3	15.0	3	100	0	90	33	0	0	66	0.92
29108540--29108580	3	13.7	3	94	0	55	7	0	24	68	1.15
29116298--29116393	48	2.0	48	85	4	131	43	23	11	20	1.85
29116345--29116389	21	2.1	22	87	4	65	40	22	13	24	1.90
29128701--29128744	18	2.4	18	76	0	52	9	18	6	65	1.42
29128712--29128769	18	3.3	18	80	7	57	5	13	6	74	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29128728--29128769	6	7.2	6	81	5	50	2	14	4	78	1.01
29128765--29128812	21	2.3	21	100	0	96	12	29	0	58	1.35
29128809--29128850	22	2.0	21	85	4	57	7	23	2	66	1.28
29131561--29131615	21	2.4	22	76	14	58	41	16	16	25	1.88
29132172--29132240	34	2.0	34	100	0	138	31	31	11	24	1.91
29132307--29132358	27	1.9	27	96	0	95	21	23	15	40	1.91
29134444--29134478	18	1.9	18	88	11	54	22	20	0	57	1.41
29134508--29134592	18	4.4	18	67	18	55	7	23	5	63	1.42
29134561--29134594	6	5.7	6	85	0	50	2	20	0	76	0.92
29138910--29138964	22	2.8	18	78	21	58	56	10	0	32	1.34
29142190--29142241	22	2.3	23	81	12	65	40	25	9	25	1.85
29144654--29144793	54	2.6	54	94	1	244	22	25	19	32	1.97
29146397--29146609	71	3.1	71	63	22	162	41	6	4	47	1.47
29146513--29146725	67	3.1	67	63	17	157	40	7	5	46	1.56
29146254--29146892	138	4.7	138	93	1	1045	40	7	5	46	1.55
29146580--29146796	71	3.1	71	63	21	186	36	8	6	47	1.62
29147035--29147060	12	2.2	12	100	0	52	57	19	0	23	1.40
29148993--29149034	12	3.4	12	93	3	66	16	2	9	71	1.23
29151657--29151699	20	2.2	20	86	0	59	27	9	16	46	1.77
29154792--29154824	10	2.9	12	82	17	52	51	33	0	15	1.43
29155484--29155528	15	2.9	15	90	3	63	28	26	2	42	1.67
29167074--29167116	12	3.6	12	90	0	68	16	4	2	76	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29170372--29170457	29	3.1	28	84	12	90	33	8	12	45	1.72
29170385--29170457	29	2.5	29	95	0	128	31	9	13	45	1.76
29172575--29172646	15	4.7	15	82	5	81	29	23	5	41	1.77
29173730--29173791	10	6.9	9	84	12	58	41	0	0	58	0.98
29173735--29173788	5	11.6	5	84	15	80	40	0	0	59	0.98
29175137--29175231	45	2.3	41	75	16	104	21	15	20	43	1.88
29175151--29175238	45	2.0	45	90	0	140	21	17	19	42	1.90
29175218--29175267	6	8.2	6	86	4	73	18	20	16	46	1.85
29182449--29182520	29	2.5	29	88	0	108	52	0	31	15	1.43
29185515--29185574	26	2.4	25	78	13	61	26	6	8	58	1.52
29185525--29185574	26	1.9	26	84	8	66	30	6	6	58	1.46
29188150--29188185	12	3.0	12	91	0	54	27	0	5	66	1.13
29191399--29191502	49	2.1	49	92	0	172	32	7	10	49	1.66
29194440--29194692	41	6.1	41	96	0	425	28	20	27	23	1.99
29196020--29196062	21	2.0	21	82	8	52	34	2	6	55	1.39
29196027--29196386	121	3.0	121	94	2	622	42	1	4	51	1.29
29196317--29196364	18	2.7	18	87	12	64	39	0	0	60	0.97
29200843--29200978	69	2.0	69	89	0	209	42	5	8	43	1.58
29206436--29206547	54	2.1	54	84	3	145	26	23	12	37	1.90
29206506--29206545	18	2.2	18	86	0	53	30	27	10	32	1.89
29213723--29213774	24	2.2	24	89	0	77	38	3	5	51	1.44
29215420--29215468	19	2.6	19	93	0	89	24	14	42	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29215886--29215914	12	2.5	12	94	5	51	75	0	24	0	0.80
29219124--29219162	17	2.3	17	100	0	78	17	41	5	35	1.72
29222235--29222472	50	4.7	50	78	3	217	23	28	21	26	1.99
29230336--29230581	50	4.8	50	80	3	242	23	27	21	27	1.99
29231226--29231565	169	2.0	169	92	0	572	36	18	18	25	1.94
29238697--29238882	93	2.0	93	98	0	363	32	10	15	42	1.80
29258710--29258743	9	4.0	9	85	14	54	11	11	11	64	1.50
29258710--29258742	16	2.1	16	100	0	66	12	12	12	63	1.52
29262464--29262626	43	3.8	43	80	6	152	30	25	18	25	1.98
29267805--29267849	20	2.3	19	84	7	54	24	33	11	31	1.90
29272156--29272198	21	2.0	21	86	8	61	11	11	34	41	1.78
29276483--29276510	14	2.0	14	100	0	56	28	28	7	35	1.84
29280236--29280366	25	5.3	24	85	8	149	23	23	22	30	1.99
29288146--29288192	22	2.2	20	85	14	60	53	0	2	44	1.12
29288273--29288334	30	2.1	30	84	6	81	51	11	4	32	1.59
29288273--29288331	29	2.0	30	83	3	75	50	11	5	32	1.61
29300585--29300666	41	2.0	42	88	7	123	48	8	3	39	1.51
29301426--29301459	6	5.7	6	85	0	50	79	0	0	20	0.73
29338195--29338256	32	1.9	32	87	6	90	27	19	22	30	1.98
29338234--29338296	29	2.2	29	82	5	74	36	14	17	31	1.90
29349075--29349099	10	2.5	10	100	0	50	16	32	0	52	1.44
29351873--29351916	23	1.9	23	95	0	79	31	4	4	59	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29355828--29356281	27	16.9	27	84	1	547	41	21	18	19	1.91
29356632--29356771	28	5.0	28	83	0	181	26	25	22	26	2.00
29357348--29357372	12	2.1	12	100	0	50	24	36	24	16	1.94
29357530--29357623	9	10.4	9	88	0	143	40	23	11	24	1.88
29357726--29357769	18	2.4	18	80	0	52	15	2	40	40	1.60
29358227--29358376	75	2.0	75	89	2	230	46	10	13	30	1.77
29365998--29366078	31	2.9	28	78	20	96	35	0	4	59	1.19
29366662--29366689	13	2.2	13	100	0	56	28	7	46	17	1.75
29367447--29367510	18	3.4	18	87	12	85	29	9	10	50	1.69
29368346--29368414	28	2.5	28	97	0	129	43	8	2	44	1.50

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