genome.fa.s9.2.7.7.80.10.50.1000.143.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  143  of  226  ( 27023 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)
47497490--47497553	20	3.2	20	85	10	80	57	4	0	37	1.19
47503355--47503444	44	2.2	41	82	13	105	40	23	3	33	1.71
47507748--47507871	43	2.9	44	77	9	112	33	26	18	20	1.96
47511388--47511420	3	10.7	3	93	6	57	66	0	3	30	1.06
47531330--47531438	41	2.6	41	89	1	164	25	22	27	23	2.00
47534176--47534260	39	2.2	40	79	10	95	48	3	2	45	1.32
47535998--47536036	4	9.8	4	88	0	60	25	5	23	46	1.73
47535998--47536036	12	3.2	12	96	0	69	25	5	23	46	1.73
47542676--47542741	29	2.3	26	75	22	62	42	7	1	48	1.40
47542796--47542834	12	3.2	12	78	7	51	35	0	2	61	1.10
47548065--47548100	2	18.0	2	100	0	72	50	0	0	50	1.00
47549333--47549400	28	2.3	30	85	12	88	38	1	7	52	1.38
47549695--47549722	5	5.6	5	100	0	56	39	0	0	60	0.97
47552260--47552301	15	2.6	18	78	21	56	33	0	0	66	0.92
47552549--47552603	28	2.0	28	92	0	92	43	7	9	40	1.64
47554226--47554265	14	2.9	14	84	0	53	32	7	17	42	1.77
47554249--47554288	20	2.0	20	90	0	62	27	10	12	50	1.72
47554234--47554300	34	1.9	35	90	3	109	31	8	13	46	1.74
47554228--47554304	14	5.0	15	71	20	52	32	9	15	42	1.78
47554281--47554365	32	2.6	31	76	9	89	25	10	18	44	1.82
47554398--47554425	14	2.0	14	100	0	56	42	0	0	57	0.99
47554615--47554772	71	2.2	72	96	1	291	43	20	8	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47555695--47555763	35	1.9	36	97	2	131	52	18	2	26	1.60
47555731--47555800	27	2.5	28	81	6	81	52	21	2	22	1.60
47557293--47557325	15	2.1	16	94	5	59	60	6	18	15	1.54
47558851--47558906	22	2.5	23	82	2	69	51	1	1	44	1.22
47558882--47558921	16	2.5	16	91	0	62	47	2	7	42	1.45
47558994--47559021	9	3.1	9	100	0	56	32	0	10	57	1.33
47558910--47559119	68	3.1	68	96	1	379	40	5	9	44	1.60
47559062--47559089	9	3.1	9	100	0	56	32	0	10	57	1.33
47559186--47559229	24	1.9	24	90	9	74	61	2	0	36	1.09
47562367--47562397	2	15.5	2	100	0	62	0	48	0	51	1.00
47574126--47574186	26	2.3	26	83	5	70	27	13	27	31	1.94
47577387--47577442	25	2.3	24	81	6	69	33	8	1	55	1.42
47579966--47580068	34	3.0	34	98	0	197	38	23	11	26	1.89
47582070--47582113	23	1.9	22	82	17	54	36	25	0	38	1.56
47582158--47582251	45	2.1	45	87	0	134	32	22	19	25	1.97
47582248--47582443	51	3.9	50	78	4	223	30	27	17	24	1.97
47582255--47582439	101	1.8	101	90	3	300	30	27	17	24	1.97
47587542--47587590	16	3.1	16	93	0	89	38	6	36	18	1.76
47587572--47587666	44	2.1	45	86	5	131	32	3	29	34	1.73
47587822--47587856	18	2.0	17	88	5	52	54	0	0	45	0.99
47587980--47588031	12	4.2	12	80	9	68	55	0	0	44	0.99
47587745--47588035	145	2.0	144	86	8	389	48	2	2	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47590751--47590789	21	1.9	20	94	5	69	25	12	5	56	1.57
47592522--47592573	22	2.4	22	83	6	61	9	3	9	76	1.12
47593297--47593383	3	28.3	3	87	4	120	33	2	1	63	1.15
47593484--47593517	10	3.0	12	83	16	54	41	14	0	44	1.45
47593589--47593620	16	1.9	17	93	6	57	43	6	0	50	1.27
47593591--47593636	24	1.9	24	82	8	58	43	8	0	47	1.34
47600363--47600469	51	2.1	51	100	0	214	34	13	9	42	1.76
47610850--47610896	18	2.6	18	79	0	58	57	4	38	0	1.18
47612742--47612895	76	2.0	76	92	0	254	29	11	16	42	1.83
47619616--47619651	18	2.0	18	89	10	56	50	2	5	41	1.40
47624208--47624624	139	3.0	139	95	1	736	33	22	11	32	1.91
47631167--47631244	23	3.4	23	75	7	68	28	16	15	39	1.89
47633997--47634210	44	4.8	44	81	1	221	40	13	24	21	1.90
47636661--47636721	7	8.9	7	77	10	54	45	37	0	16	1.47
47636652--47636721	14	5.1	14	75	11	65	47	37	0	15	1.46
47636670--47636721	21	2.5	22	81	9	72	48	34	0	17	1.48
47636652--47636721	28	2.6	27	84	8	88	47	37	0	15	1.46
47636705--47636756	26	2.0	27	84	3	70	46	25	1	26	1.63
47636798--47636853	13	4.2	13	73	11	51	17	7	35	39	1.78
47636800--47636866	20	3.3	20	77	8	64	19	7	32	40	1.79
47636889--47636920	14	2.3	14	94	0	55	9	0	43	46	1.35
47636880--47636920	21	2.0	21	85	0	55	12	0	43	43	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47650278--47650312	18	1.9	18	88	0	52	34	25	2	37	1.71
47652689--47652719	11	2.7	11	95	5	53	90	0	9	0	0.46
47655330--47655364	18	1.9	18	94	0	61	31	25	5	37	1.80
47662984--47663011	2	14.0	2	100	0	56	50	0	0	50	1.00
47663824--47663963	35	4.0	35	81	0	145	25	20	15	38	1.92
47664498--47664532	18	1.9	18	88	11	54	28	5	2	62	1.32
47668360--47668430	34	2.1	34	100	0	142	39	15	16	28	1.89
47670358--47670413	27	2.1	27	96	0	103	28	30	16	25	1.96
47672478--47672672	98	2.0	98	94	0	345	36	24	10	28	1.89
47674560--47675154	45	13.5	43	69	15	287	26	22	21	29	1.99
47674554--47675073	219	2.4	219	92	0	857	25	22	21	30	1.99
47674809--47675157	44	7.9	46	69	18	172	26	23	21	28	1.99
47674973--47675156	93	2.0	92	88	1	269	25	25	22	27	2.00
47686579--47686773	98	2.0	98	91	0	318	37	25	10	27	1.88
47695477--47695502	2	13.0	2	100	0	52	50	0	0	50	1.00
47710066--47710367	59	5.0	61	66	15	232	42	0	5	50	1.31
47710050--47710367	120	2.7	120	99	0	627	42	0	6	50	1.32
47710132--47710319	57	3.1	61	69	22	196	40	1	7	50	1.37
47710303--47710610	157	2.0	157	96	0	562	47	4	3	44	1.40
47710470--47710504	18	2.0	17	88	5	52	45	0	0	54	0.99
47710740--47710791	16	3.2	16	94	0	86	38	32	0	28	1.57
47711133--47711193	19	3.0	19	77	18	61	31	3	0	65	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47714907--47714934	14	2.0	14	100	0	56	35	14	14	35	1.86
47714928--47715018	43	2.1	43	86	6	123	35	9	9	45	1.71
47716383--47716473	43	2.1	43	87	2	130	34	10	9	45	1.73
47716877--47717050	43	4.1	43	84	4	237	26	18	25	28	1.98
47716883--47717039	83	1.9	83	91	0	260	27	19	24	28	1.98
47718983--47719375	161	2.4	162	86	2	549	25	20	17	36	1.94
47726809--47726904	30	3.2	30	92	2	156	55	10	8	26	1.62
47733969--47733999	14	2.2	14	94	0	53	48	12	0	38	1.42
47743150--47743223	3	24.7	3	100	0	148	32	0	0	67	0.91
47765128--47765174	4	11.2	4	78	17	51	23	2	0	74	0.93
47765129--47765170	9	4.8	9	80	13	52	21	2	0	76	0.90
47765128--47765174	13	3.7	13	81	13	62	23	2	0	74	0.93
47765126--47765170	22	2.0	23	87	12	67	26	2	0	71	0.98
47772372--47772420	19	2.6	19	83	3	55	51	0	8	40	1.32
47791982--47792042	3	20.3	3	100	0	122	67	0	0	32	0.91
47792097--47792172	22	3.2	22	75	15	80	39	2	0	57	1.12
47792141--47792186	23	2.0	22	87	4	65	45	0	0	54	0.99
47792097--47792197	48	2.1	49	81	9	118	39	1	0	57	1.17
47792161--47792215	18	3.1	17	84	10	58	38	0	5	56	1.23
47792173--47792215	19	2.3	18	88	4	59	37	0	6	55	1.27
47797161--47797190	13	2.3	13	94	0	51	40	3	0	56	1.16
47799383--47799417	15	2.2	16	90	5	54	20	5	2	71	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47805364--47805672	44	7.2	42	68	14	139	26	24	19	29	1.98
47805416--47805854	216	2.0	216	88	1	639	26	24	19	29	1.98
47805945--47806068	44	2.8	44	92	0	203	32	26	16	24	1.96
47808414--47808490	22	3.5	20	73	20	64	15	2	7	74	1.16
47808436--47808477	18	2.3	18	87	0	66	14	2	7	76	1.10
47808440--47808490	23	2.2	23	86	6	68	11	3	5	78	1.06
47809533--47809598	25	2.6	25	85	9	80	57	6	16	19	1.60
47816833--47816949	44	2.7	44	85	2	110	26	24	18	29	1.98
47816865--47816967	44	2.4	43	90	1	152	20	26	18	34	1.95
47817000--47817117	44	2.7	44	78	2	121	32	22	16	28	1.96

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226