genome.fa.s5.2.7.7.80.10.50.1000.192.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  192  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)
58580209--58580253	21	2.1	21	84	8	56	13	8	6	71	1.31
58585329--58585374	9	5.0	9	86	5	65	82	0	17	0	0.67
58585320--58585374	18	3.1	17	79	10	56	81	0	18	0	0.68
58585329--58585374	19	2.5	18	89	3	65	82	0	17	0	0.67
58588562--58588635	23	3.2	23	90	0	112	20	21	28	29	1.98
58590020--58590251	117	2.0	117	87	1	331	25	19	27	27	1.99
58590382--58590718	44	7.7	43	68	16	133	29	18	23	28	1.97
58590512--58590629	45	2.6	45	84	10	152	26	19	26	27	1.99
58590556--58590892	173	1.9	174	82	5	423	29	18	22	29	1.97
58597398--58597432	2	17.5	2	93	0	61	48	0	0	51	1.00
58598071--58598192	41	3.0	41	87	0	181	30	18	27	24	1.98
58598729--58598786	30	1.9	30	85	0	80	31	25	6	36	1.83
58599798--58599828	2	15.5	2	100	0	62	48	0	0	51	1.00
58599820--58599933	34	3.3	34	79	8	95	33	7	17	41	1.79
58599818--58599919	34	2.9	35	79	8	109	30	8	19	41	1.82
58601759--58601819	2	30.5	2	100	0	122	50	49	0	0	1.00
58603999--58604105	25	4.3	25	69	16	71	18	27	21	32	1.97
58604110--58604227	25	4.8	25	72	3	87	22	26	18	33	1.97
58606495--58606524	13	2.3	13	94	0	51	33	3	13	50	1.58
58613208--58613237	13	2.3	13	94	0	51	33	3	13	50	1.58
58616222--58616251	15	2.1	15	93	6	53	0	6	10	83	0.81
58620311--58620362	25	2.0	27	82	14	65	48	5	1	44	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58620548--58620572	13	1.9	13	100	0	50	64	0	4	32	1.12
58620998--58621098	50	2.0	50	98	0	193	35	21	24	17	1.95
58621607--58621647	14	2.9	15	85	7	50	31	17	0	51	1.46
58628294--58628391	48	2.0	48	92	0	160	30	5	39	24	1.77
58632589--58632656	3	22.7	3	100	0	136	32	0	0	67	0.91
58633417--58633467	20	2.5	21	78	15	61	31	3	1	62	1.24
58636204--58636261	30	1.9	30	89	0	89	41	3	24	31	1.71
58636473--58636504	13	2.5	13	94	0	55	31	0	12	56	1.37
58636666--58636841	50	3.5	50	87	0	244	26	23	30	19	1.98
58636603--58636846	101	2.3	103	85	6	316	25	23	28	21	1.99
58642472--58642712	46	5.7	46	77	17	286	34	13	21	30	1.92
58642507--58642663	36	4.0	36	73	22	129	34	14	21	29	1.93
58642568--58642698	38	3.2	38	86	9	163	32	15	20	31	1.94
58642472--58642780	71	3.9	80	84	9	363	34	13	22	29	1.93
58642687--58642737	25	2.0	25	100	0	102	41	7	27	23	1.82
58642613--58642824	117	1.8	115	93	2	370	33	15	23	28	1.95
58642712--58642824	46	2.5	46	95	2	203	33	15	23	26	1.95
58645332--58645380	3	16.3	3	100	0	98	67	0	0	32	0.91
58656199--58656232	5	7.2	5	87	12	54	79	0	0	20	0.73
58656200--58656238	13	3.0	13	92	7	62	76	0	0	23	0.78
58656199--58656238	18	2.2	18	100	0	80	77	0	0	22	0.77
58666181--58666261	2	39.5	2	90	9	96	45	0	6	48	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58671143--58671335	49	3.9	49	95	0	323	23	15	30	31	1.95
58677059--58677127	27	2.4	29	80	9	88	31	1	1	65	1.11
58677768--58677804	19	1.9	19	88	0	56	40	2	2	54	1.29
58679588--58679661	37	2.0	37	100	0	148	32	27	2	37	1.71
58690013--58690048	19	1.9	18	88	5	54	30	8	2	58	1.42
58699411--58699490	26	3.2	25	73	18	69	38	0	1	60	1.05
58701418--58701448	10	3.2	10	90	9	55	19	0	0	80	0.71
58701418--58701448	9	3.3	9	95	4	53	19	0	0	80	0.71
58701445--58701486	11	3.9	11	93	6	77	47	0	0	52	1.00
58701445--58701486	21	2.0	22	95	4	77	47	0	0	52	1.00
58702400--58702430	15	2.1	15	100	0	62	38	25	12	22	1.90
58702439--58702480	20	2.1	20	90	0	66	33	16	9	40	1.81
58705004--58705034	15	2.1	15	100	0	62	38	25	12	22	1.90
58705043--58705084	20	2.1	20	90	0	66	33	16	9	40	1.81
58707080--58707254	52	3.3	52	82	7	221	45	14	13	26	1.82
58709179--58709221	13	3.3	13	86	0	59	37	6	18	37	1.78
58720163--58720228	30	2.2	31	88	2	98	22	15	21	40	1.90
58721459--58721518	30	2.0	30	86	0	84	20	38	21	20	1.94
58722136--58722186	22	2.5	20	84	9	66	31	23	3	41	1.73
58722138--58722180	22	2.0	21	90	4	68	25	25	4	44	1.73
58722355--58722485	41	3.3	41	74	9	137	34	22	16	26	1.95
58723335--58723410	4	18.5	4	76	10	73	1	26	1	71	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58723335--58723398	25	2.6	25	84	0	83	0	26	1	71	0.94
58723328--58723399	21	3.4	21	81	9	83	0	27	1	70	0.95
58723456--58723491	18	1.9	19	94	5	65	30	5	5	58	1.44
58724710--58724766	30	1.9	30	85	0	78	28	10	17	43	1.82
58726840--58726874	17	2.1	17	88	0	52	34	0	20	45	1.51
58731490--58731533	14	3.1	14	80	3	52	27	2	0	70	0.99
58733800--58733842	22	1.9	23	90	4	70	58	11	6	23	1.57
58734482--58734506	13	1.9	13	100	0	50	28	32	24	16	1.96
58736490--58736542	25	2.2	24	86	3	70	39	24	20	15	1.91
58738238--58738430	21	9.2	21	69	2	127	44	18	22	15	1.87
58738243--58738439	42	4.7	42	85	2	243	45	17	21	14	1.85
58738243--58738430	84	2.2	84	87	1	270	44	18	21	15	1.86
58738656--58738696	6	6.8	6	97	0	73	36	0	0	63	0.95
58744116--58744183	31	2.2	31	83	0	82	38	8	19	33	1.82
58747436--58747526	28	3.3	27	76	4	92	26	28	13	31	1.93
58747572--58747635	22	2.9	22	69	0	56	29	29	20	20	1.97
58752663--58752717	29	1.9	29	88	3	85	36	16	16	30	1.91
58753593--58753620	5	5.6	5	100	0	56	82	0	17	0	0.68
58760061--58760134	9	8.1	9	70	14	53	59	2	2	35	1.26
58760058--58760167	44	2.5	44	77	5	114	57	1	3	37	1.27
58760772--58760823	21	2.6	19	80	11	59	25	0	3	71	1.03
58760716--58760825	47	2.4	46	79	8	132	28	2	3	65	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58760801--58760833	17	1.9	17	88	11	50	27	0	3	69	1.03
58767104--58767206	40	2.6	40	84	3	127	31	10	23	34	1.89
58768853--58768912	30	2.0	31	90	3	95	41	0	38	20	1.52
58768987--58769047	30	2.0	31	90	3	97	39	0	40	19	1.52
58769096--58769132	9	4.1	9	92	0	65	29	10	13	45	1.77
58771800--58771852	27	1.9	28	85	11	74	30	7	11	50	1.65
58776866--58776930	18	3.5	18	74	16	53	41	4	15	38	1.68
58788200--58788420	41	5.4	40	82	4	262	25	19	23	31	1.98
58788200--58788409	82	2.6	82	88	1	296	24	18	23	32	1.97
58788200--58788422	123	1.8	123	85	5	317	25	19	23	31	1.98
58788810--58788842	14	2.3	15	94	5	59	30	0	33	36	1.58
58788862--58788893	7	4.6	7	92	0	55	15	0	50	34	1.45
58789195--58789291	37	2.6	37	96	0	176	34	2	1	62	1.13
58789255--58789318	27	2.3	28	91	2	103	34	3	1	60	1.22
58789255--58789318	28	2.3	27	89	2	92	34	3	1	60	1.22
58789189--58789314	37	3.5	35	84	10	157	32	2	1	63	1.17
58789450--58789494	7	6.4	7	89	0	54	17	0	48	33	1.48
58789450--58789494	14	3.2	14	83	0	63	17	0	48	33	1.48
58789450--58789494	21	2.1	21	91	0	72	17	0	48	33	1.48
58789455--58789547	7	13.1	7	75	10	55	20	0	41	37	1.52
58793605--58793631	5	5.4	5	100	0	54	18	0	0	81	0.69
58794829--58795021	43	4.5	43	82	5	214	25	16	29	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58797215--58797256	21	2.0	21	90	0	66	33	2	4	59	1.31
58797215--58797269	21	2.5	21	85	5	65	34	1	7	56	1.38
58804342--58804390	22	2.2	22	82	7	55	24	4	6	65	1.33
58804518--58804630	56	2.0	56	94	0	199	40	23	11	23	1.87
58815847--58815936	25	3.5	24	73	10	72	32	21	24	22	1.98
58817613--58817678	25	2.7	24	83	6	80	13	25	24	36	1.92
58817599--58817686	25	3.6	24	74	10	79	15	23	23	36	1.94
58817671--58817768	50	2.0	50	80	8	110	17	21	23	37	1.94
58817825--58817896	25	2.8	25	78	17	85	22	26	20	30	1.98
58819244--58819302	2	29.5	2	92	0	100	49	1	0	49	1.11

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