genome.fa.s10.2.7.7.80.10.50.1000.20.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  20  of  202  ( 24201 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)
5962680--5962710	2	16.0	2	93	6	55	48	0	0	51	1.00
5969190--5969235	23	2.0	23	83	8	58	41	2	19	36	1.64
5979329--5979362	8	4.2	8	84	0	50	44	0	0	55	0.99
5979837--5979870	17	1.9	18	88	5	52	41	0	23	35	1.55
5980150--5980241	36	2.5	36	80	13	98	47	1	19	31	1.57
5981778--5981814	18	1.9	18	89	10	56	67	2	0	29	1.04
5984816--5984840	6	4.2	6	100	0	50	48	0	0	52	1.00
5990763--5990930	89	1.9	89	80	7	198	22	24	19	33	1.97
5990667--5990943	148	1.9	148	79	6	319	23	22	18	34	1.96
5993461--5993499	17	2.3	17	86	8	53	30	0	20	48	1.50
5995371--5995511	40	3.6	39	76	10	135	33	24	17	25	1.96
5998010--5998037	3	9.3	3	100	0	56	32	35	0	32	1.58
5998405--5998434	9	3.2	9	95	4	51	56	0	0	43	0.99
5998616--5998641	2	13.0	2	100	0	52	50	50	0	0	1.00
6001255--6001298	3	14.7	3	100	0	88	68	0	0	31	0.90
6007756--6007820	29	2.5	25	75	22	62	47	6	0	46	1.27
6009832--6009870	4	9.8	4	100	0	78	25	0	25	48	1.51
6014897--6014985	43	2.1	43	97	0	169	31	15	13	39	1.86
6015181--6015218	18	2.2	18	85	4	51	50	15	7	26	1.72
6015298--6015406	55	2.1	51	89	6	164	41	3	11	43	1.59
6023277--6023317	21	2.0	21	90	0	64	31	0	0	68	0.90
6029252--6029278	1	27.0	1	100	0	54	0	0	0	100	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6030951--6031001	20	2.5	20	80	0	57	17	3	1	76	1.03
6033490--6033548	31	1.9	31	83	13	77	50	1	0	47	1.11
6033487--6033547	24	2.6	25	73	21	60	52	1	0	45	1.10
6035046--6035084	18	2.1	19	85	4	53	56	2	0	41	1.13
6037075--6037119	24	1.9	23	95	4	81	26	0	4	68	1.08
6043980--6044040	31	2.0	30	81	15	72	59	1	16	22	1.46
6044464--6044510	25	1.9	25	86	4	69	14	25	21	38	1.92
6044693--6044781	24	3.6	25	83	8	121	19	29	17	33	1.95
6044594--6044781	24	7.5	24	72	17	118	18	27	20	34	1.95
6044686--6044796	24	4.6	24	78	12	120	17	27	21	33	1.96
6046225--6046298	27	2.7	27	77	4	69	31	27	16	25	1.96
6054675--6054748	35	2.2	35	81	16	93	47	8	5	39	1.56
6059634--6059892	129	2.0	129	100	0	518	32	21	19	27	1.97
6060096--6060149	11	4.9	11	85	14	67	25	31	0	42	1.55
6060193--6060223	13	2.5	12	90	10	53	19	0	3	77	0.90
6065398--6065428	15	2.1	15	93	0	53	67	6	6	19	1.35
6066326--6066366	2	20.5	2	100	0	82	51	0	0	48	1.00
6068420--6068477	30	1.9	30	92	0	98	27	34	22	15	1.94
6068425--6068493	30	2.3	30	80	5	77	28	34	17	18	1.94
6078736--6078788	25	2.2	24	89	3	79	35	22	24	16	1.95
6079292--6079382	45	2.0	45	100	0	182	37	20	8	32	1.84
6080574--6080607	11	3.0	11	91	4	50	79	0	0	20	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6080574--6080605	6	5.2	6	96	3	55	81	0	0	18	0.70
6080661--6080772	56	2.0	56	98	0	215	41	5	15	37	1.70
6080774--6080848	37	2.0	37	97	0	141	32	5	16	46	1.69
6080779--6080839	17	3.4	17	68	12	50	29	3	14	52	1.58
6080855--6080887	9	3.7	9	84	15	50	27	12	18	42	1.85
6081972--6082012	20	2.0	20	85	0	55	43	0	4	51	1.23
6085306--6085433	3	42.7	3	88	0	157	42	33	24	0	1.55
6085297--6085471	15	12.1	15	83	7	191	46	33	20	0	1.51
6085300--6085478	18	9.9	18	85	0	187	45	34	20	0	1.51
6085408--6085466	3	19.7	3	89	0	64	55	33	10	0	1.33
6086241--6086287	14	3.4	14	83	16	71	17	17	8	57	1.63
6087241--6087270	6	5.2	6	96	4	53	50	30	20	0	1.49
6096330--6096410	40	2.0	40	95	0	144	35	13	17	33	1.89
6102467--6103165	363	1.9	363	91	0	1157	37	20	13	29	1.90
6103623--6103712	24	3.8	24	79	16	89	31	22	26	20	1.98
6104371--6104620	46	5.4	46	92	0	419	30	19	15	35	1.93
6108049--6108518	46	11.6	41	79	17	424	35	14	21	27	1.93
6108087--6108433	37	9.0	37	81	13	396	36	14	21	27	1.92
6114676--6114753	32	2.6	31	80	9	90	56	1	3	38	1.26
6114695--6114776	31	2.6	31	84	5	94	51	3	4	40	1.41
6114731--6114807	31	2.5	31	81	8	77	51	5	3	38	1.42
6117292--6117370	31	2.5	31	85	4	97	25	11	16	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6122957--6122991	6	5.8	6	93	0	61	80	0	2	17	0.84
6131164--6131307	25	5.8	25	76	8	93	18	26	21	33	1.97
6131181--6131307	25	5.2	23	75	12	94	17	25	22	34	1.95
6131164--6131307	49	2.9	48	84	4	162	18	26	21	33	1.97
6131214--6131313	25	4.1	25	79	8	98	21	25	23	31	1.98
6138504--6138736	13	18.1	13	75	11	185	51	8	6	34	1.56
6138496--6138565	35	2.0	35	94	0	122	47	8	5	38	1.58
6138604--6138720	40	2.9	40	92	0	180	53	8	2	35	1.45
6138584--6138736	53	2.9	53	87	2	218	54	8	3	33	1.47
6138584--6138756	53	3.3	52	81	11	201	52	8	3	35	1.49
6139406--6139475	35	2.0	35	88	0	104	48	7	4	40	1.50
6140126--6140280	36	4.0	36	79	15	175	29	20	13	36	1.91
6140162--6140316	46	3.6	46	78	16	204	28	22	12	36	1.90
6140083--6140316	82	2.9	82	92	1	375	28	22	13	35	1.92
6142336--6142490	13	11.8	13	84	3	177	54	8	3	33	1.49
6142338--6142490	53	2.9	53	87	2	218	54	8	3	33	1.47
6142358--6142474	40	2.9	40	92	0	180	53	8	2	35	1.45
6142338--6142510	53	3.3	52	81	11	201	52	8	3	35	1.49
6156536--6156570	17	2.1	16	89	5	52	31	17	0	51	1.45
6156861--6157019	79	2.0	79	97	0	300	38	7	5	48	1.55
6164327--6164483	80	2.0	79	96	1	287	38	17	18	26	1.92
6164513--6164560	12	4.0	12	78	7	53	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6164547--6164615	26	2.7	27	82	10	74	68	4	4	23	1.26
6167588--6167622	3	11.7	3	100	0	70	68	0	0	31	0.90
6168633--6168726	47	2.0	47	97	0	179	32	18	12	36	1.88
6172859--6173031	82	2.1	82	97	0	328	40	13	16	29	1.87
6192020--6192084	30	2.2	30	86	5	87	35	1	6	56	1.33
6193090--6193121	3	10.7	3	100	0	64	34	0	0	65	0.93
6193296--6193338	20	2.2	19	87	4	59	23	6	4	65	1.37
6201168--6201248	25	3.2	25	87	3	110	17	27	20	34	1.95
6202070--6202146	38	2.0	39	94	2	138	50	28	2	18	1.60
6202281--6202346	17	3.7	17	69	11	60	34	3	13	48	1.58
6202278--6202352	37	2.0	37	92	0	105	37	4	13	45	1.62
6202359--6202399	9	4.6	9	90	0	64	29	7	17	46	1.74
6204698--6204777	24	3.2	24	77	7	72	40	17	22	20	1.92
6210466--6210506	2	20.5	2	94	0	73	48	0	0	51	1.00
6219488--6219556	31	2.2	31	86	0	93	46	10	7	36	1.65
6220255--6220289	13	2.7	13	95	0	61	42	28	17	11	1.83
6221749--6221884	40	3.5	40	75	7	125	34	22	16	26	1.95
6221749--6221884	41	3.5	40	74	7	134	34	22	16	26	1.95
6225461--6225496	18	1.9	19	88	5	56	33	22	0	44	1.53
6226203--6226236	6	5.7	6	100	0	68	50	0	0	50	1.00
6226306--6226340	18	1.9	18	88	0	52	45	0	0	54	0.99
6227279--6227336	22	2.6	22	73	15	57	67	5	3	24	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6231451--6231480	15	2.0	15	100	0	60	66	0	0	33	0.92
6234990--6235073	42	2.0	43	90	2	134	57	4	1	36	1.28
6236395--6236434	19	2.0	20	85	4	55	52	5	10	32	1.56
6236814--6236869	3	18.7	3	100	0	112	66	0	0	33	0.92
6250364--6250473	57	1.9	57	84	0	148	33	20	9	36	1.85
6256141--6256178	13	3.0	13	80	3	51	7	55	34	2	1.43
6256312--6256355	24	1.9	24	86	9	65	38	0	2	59	1.10
6256543--6256584	16	2.6	16	92	0	66	42	7	2	47	1.43
6256558--6256619	23	2.7	23	82	2	72	48	1	1	48	1.21
6271151--6271175	13	1.9	13	100	0	50	0	12	0	88	0.53

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