genome.fa.s5.2.7.7.80.10.50.1000.171.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  171  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)
52119374--52119412	2	19.5	2	94	0	69	46	0	53	0	1.00
52126523--52126563	21	2.0	21	85	0	55	65	2	0	31	1.05
52131011--52131096	43	2.0	43	88	0	127	36	10	5	47	1.62
52133756--52133873	40	3.0	40	79	8	127	39	17	18	23	1.92
52133861--52133979	41	2.9	40	87	5	157	23	22	26	26	2.00
52133756--52133931	80	2.2	80	81	9	200	36	19	20	23	1.95
52134631--52134679	15	3.3	15	82	8	64	22	0	30	46	1.52
52134674--52134703	14	2.1	14	93	0	51	20	0	43	36	1.52
52139585--52139836	43	5.9	43	82	2	283	22	17	30	29	1.96
52139928--52139970	22	2.0	22	90	0	68	44	23	20	11	1.84
52150605--52150692	44	2.0	44	86	0	122	46	4	9	39	1.56
52151640--52151687	19	2.5	20	74	19	55	62	6	0	31	1.20
52151652--52151727	28	2.7	28	80	13	84	57	2	1	38	1.21
52152020--52152118	9	10.4	9	68	20	51	30	2	3	64	1.20
52152020--52152102	19	4.3	19	77	10	78	31	1	3	63	1.19
52152292--52152483	94	2.1	91	81	11	221	39	9	13	37	1.77
52170578--52170648	19	3.8	19	74	17	69	54	2	1	40	1.23
52170689--52170761	29	2.4	30	81	6	85	56	12	2	28	1.50
52170886--52171017	59	2.2	59	94	0	228	30	12	18	37	1.89
52170924--52171015	29	3.1	29	66	9	78	29	11	18	40	1.86
52182806--52182837	11	2.9	11	100	0	64	62	18	18	0	1.33
52188956--52189011	16	3.5	16	90	0	94	37	7	26	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52188993--52189085	44	2.1	44	90	6	143	32	4	26	36	1.76
52188993--52189097	44	2.5	41	77	18	110	32	3	26	37	1.75
52189241--52189276	18	2.0	18	100	0	72	66	0	0	33	0.92
52189208--52189313	55	1.9	54	83	7	133	50	4	0	43	1.29
52201592--52201662	34	2.1	35	97	2	135	42	2	15	39	1.62
52203763--52203818	11	5.2	11	76	8	53	25	23	3	48	1.67
52203763--52203812	5	9.4	5	81	12	55	24	24	2	50	1.60
52215033--52215070	19	2.0	19	85	10	51	15	23	42	18	1.89
52215301--52215409	27	4.0	27	83	7	132	39	20	17	22	1.92
52215286--52215425	54	2.6	54	84	8	162	40	19	17	22	1.91
52215774--52215844	28	2.5	28	97	0	133	25	26	26	21	1.99
52218349--52218392	6	7.2	6	86	2	61	0	59	0	40	0.98
52221123--52221155	12	2.8	12	95	4	59	45	33	15	6	1.70
52222152--52222204	20	2.8	18	81	10	61	52	0	3	43	1.19
52222159--52222207	20	2.5	20	86	0	71	51	0	4	44	1.20
52222731--52222783	21	2.5	21	93	0	88	28	35	9	26	1.87
52224749--52224774	2	13.0	2	100	0	52	50	50	0	0	1.00
52228515--52228624	21	5.2	21	66	6	69	39	18	26	16	1.91
52228518--52228679	42	3.8	42	84	4	182	41	17	24	16	1.90
52231063--52231105	3	14.7	3	95	4	79	65	0	0	34	0.93
52232286--52232322	9	4.1	9	92	0	65	45	13	10	29	1.77
52232673--52232718	18	2.6	17	80	19	51	21	32	0	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52235131--52235420	50	5.7	50	83	5	296	26	29	17	27	1.97
52237085--52237843	43	17.6	43	79	1	692	39	21	16	21	1.92
52237085--52237809	130	5.6	130	86	2	852	40	21	16	21	1.91
52237085--52237816	173	4.2	174	80	1	738	40	21	16	21	1.91
52237085--52237827	87	8.6	87	77	5	619	39	21	16	21	1.92
52240147--52240189	12	3.7	12	79	14	54	65	0	0	34	0.93
52248672--52248829	33	4.8	33	80	1	158	44	18	19	17	1.87
52250106--52250175	36	1.9	36	100	0	140	50	20	2	27	1.62
52250116--52250161	23	2.0	24	82	4	58	50	21	2	26	1.60
52250112--52250165	13	4.4	13	72	13	60	50	20	1	27	1.59
52263966--52264013	22	2.2	22	84	0	60	37	20	16	25	1.93
52275599--52275632	12	2.8	12	87	12	52	17	0	26	55	1.42
52283999--52284137	46	3.0	45	84	2	179	28	26	10	34	1.90
52286585--52286649	27	2.4	27	94	0	112	9	10	29	50	1.68
52289777--52289814	17	2.2	18	85	4	51	18	2	0	78	0.86
52293976--52294040	31	2.1	31	94	0	112	32	29	16	21	1.96
52295095--52295233	25	5.6	25	84	0	161	24	13	26	35	1.93
52295103--52295233	50	2.6	50	88	0	190	24	12	27	35	1.92
52307682--52307712	16	1.9	16	93	0	53	16	3	25	54	1.56
52307717--52307751	6	5.7	6	89	3	52	20	0	14	65	1.26
52309930--52310103	77	2.3	77	89	0	267	19	7	22	50	1.73
52310807--52310881	21	3.6	21	89	3	89	37	34	16	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52311659--52311782	36	3.2	36	65	18	97	50	23	7	19	1.72
52311711--52311741	16	1.9	16	93	0	53	41	29	9	19	1.83
52311616--52311866	79	3.2	79	93	0	430	45	21	11	21	1.83
52313524--52313582	26	2.3	26	85	2	84	35	18	25	20	1.95
52329796--52329832	16	2.5	15	87	12	51	78	0	18	2	0.87
52329965--52330008	9	4.5	10	81	13	56	77	0	11	11	1.00
52330463--52330546	33	2.4	36	84	15	113	47	1	2	48	1.22
52332003--52332106	33	3.2	33	70	9	95	47	1	22	28	1.62
52332642--52332672	14	2.2	14	94	0	53	29	3	6	61	1.37
52334407--52334470	7	9.3	7	75	8	51	12	0	42	45	1.42
52334407--52334469	28	2.3	28	91	2	101	12	0	42	44	1.42
52334494--52334797	96	3.2	95	85	3	396	37	2	19	40	1.67
52336303--52336496	61	3.3	60	71	17	199	45	5	5	43	1.51
52336473--52336587	30	3.8	28	82	17	149	46	4	4	44	1.43
52336473--52336621	64	2.3	64	96	1	273	46	4	5	44	1.45
52336473--52336630	34	4.9	34	80	17	178	46	4	5	43	1.47
52337056--52337098	18	2.4	18	80	0	50	44	9	25	20	1.81
52337716--52337783	7	9.7	7	100	0	136	57	14	0	27	1.38
52338936--52339007	11	6.6	11	72	13	60	41	0	30	27	1.56
52338936--52339007	21	3.3	21	83	7	90	41	0	30	27	1.56
52340555--52340589	5	7.0	5	100	0	70	80	0	0	20	0.72
52349906--52349980	20	3.5	22	76	20	79	33	38	6	21	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52351500--52351526	13	2.1	13	100	0	54	70	14	14	0	1.17
52362934--52363187	116	2.2	115	81	4	278	37	12	25	24	1.91
52362934--52363192	29	8.9	29	72	4	155	37	12	25	24	1.91
52362962--52363232	87	3.1	87	80	1	283	37	12	26	23	1.91
52368593--52368631	20	1.9	20	84	5	51	61	2	12	23	1.43
52374120--52374284	79	2.1	79	82	0	195	32	10	10	46	1.73
52389976--52390006	9	3.4	9	90	0	53	25	12	22	38	1.90
52390059--52390095	9	4.1	9	92	0	65	45	13	10	29	1.77
52391126--52391151	5	5.2	5	100	0	52	19	19	19	42	1.90
52392973--52392999	2	13.5	2	100	0	54	51	0	0	48	1.00
52398051--52398081	3	10.3	3	100	0	62	67	0	0	32	0.91
52402219--52402654	48	8.8	49	78	7	318	30	18	24	26	1.98
52402218--52402654	50	8.9	50	77	8	335	30	18	24	26	1.98
52402220--52402655	99	4.4	95	73	12	346	30	18	24	26	1.98
52402277--52402563	148	1.9	147	81	6	346	26	20	25	27	1.99
52403939--52403976	20	1.9	20	100	0	76	21	7	39	31	1.82
52409346--52409448	41	2.5	41	91	1	161	26	21	24	28	1.99
52409851--52409881	7	4.3	7	95	4	53	12	0	58	29	1.35
52409844--52409881	14	2.6	15	87	8	60	15	0	52	31	1.43
52409937--52409984	25	1.9	25	95	0	87	35	0	2	62	1.07
52410196--52410235	7	5.7	7	96	0	71	25	0	45	30	1.54
52410196--52410265	21	3.3	21	79	2	77	27	1	44	27	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52410533--52410582	12	4.2	12	75	14	59	34	6	6	54	1.50
52412343--52412369	8	3.4	8	100	0	54	0	0	11	88	0.50
52412578--52412614	16	2.3	16	100	0	74	24	18	16	40	1.90
52413440--52413500	28	2.2	28	85	5	79	32	9	24	32	1.88
52413509--52413535	5	5.4	5	100	0	54	18	0	0	81	0.69
52414541--52414573	17	1.9	17	100	0	66	24	9	18	48	1.76
52414946--52415150	43	4.8	42	83	3	239	21	17	32	28	1.96
52414946--52415151	86	2.4	86	90	0	304	21	17	33	28	1.96
52416064--52416116	16	3.3	16	83	0	70	39	3	28	28	1.74
52416103--52416191	44	2.0	46	86	8	130	31	5	28	34	1.80

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