genome.fa.s9.2.7.7.80.10.50.1000.213.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  213  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)
66928115--66928166	16	3.2	16	88	0	77	38	32	0	28	1.57
66931987--66932025	9	4.2	9	84	15	53	33	0	0	66	0.92
66932869--66932895	2	13.5	2	100	0	54	48	0	0	51	1.00
66937790--66938066	46	6.0	46	91	2	423	28	24	10	36	1.89
66941740--66941797	27	2.2	27	84	3	82	34	1	1	62	1.16
66941720--66941781	19	3.4	19	70	19	51	32	3	1	62	1.20
66946047--66946086	6	6.7	6	97	0	53	17	25	50	7	1.72
66946047--66946086	12	3.3	12	92	0	62	17	25	50	7	1.72
66946643--66946713	6	11.8	6	81	0	70	23	0	50	25	1.49
66946633--66946712	12	6.7	12	85	5	99	23	1	50	25	1.57
66951431--66951489	20	2.8	20	73	16	55	52	10	3	33	1.52
66953310--66953354	22	2.0	22	86	4	63	37	17	6	37	1.76
66953333--66953443	19	5.8	19	86	0	168	37	12	9	40	1.75
66953333--66953436	38	2.7	38	100	0	208	38	11	8	41	1.72
66953772--66954664	132	6.8	132	91	1	1330	29	23	18	29	1.98
66953993--66954594	44	13.7	44	63	14	168	28	23	18	29	1.98
66962365--66962459	19	4.6	21	79	10	72	41	15	6	36	1.73
66962365--66962422	22	2.6	22	81	7	64	41	17	5	36	1.72
66962401--66962510	19	5.8	19	84	2	150	38	13	9	39	1.77
66962401--66962502	37	2.7	38	92	3	170	39	12	8	39	1.75
66963635--66963693	29	2.0	29	83	6	75	45	10	0	44	1.37
66963658--66963693	15	2.5	14	86	8	54	44	8	0	47	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66970552--66970596	24	1.9	23	82	13	56	24	2	4	68	1.19
66970782--66970849	22	2.9	23	78	6	75	45	13	10	30	1.76
66973069--66973102	17	2.0	17	88	0	50	17	0	17	64	1.29
66978104--66978138	17	2.0	18	88	5	54	80	2	2	14	0.95
66978174--66978244	27	2.6	27	88	0	97	18	35	28	18	1.94
66978297--66978467	10	17.5	10	69	14	72	70	0	29	0	0.88
66978299--66978437	34	4.3	32	75	13	108	70	0	29	0	0.88
66978344--66978470	44	3.0	44	87	9	174	70	0	29	0	0.88
66978299--66978469	47	3.6	47	76	12	118	70	0	29	0	0.88
66984043--66984177	40	3.2	40	78	13	139	50	12	4	32	1.60
66984337--66984373	10	3.6	10	88	3	56	0	29	0	70	0.88
66984449--66984520	27	2.7	27	97	0	135	19	25	36	19	1.95
66985037--66985086	24	2.1	24	85	10	68	14	8	2	76	1.10
66985807--66985845	18	2.2	18	86	9	53	35	12	0	51	1.40
66998059--66998159	42	2.4	43	84	1	123	29	24	18	26	1.98
66999941--67000080	44	3.2	44	69	11	133	28	25	24	21	1.99
66999880--67000164	88	3.3	87	89	2	403	28	23	23	23	1.99
66999986--67000121	44	3.1	43	69	12	132	25	24	26	24	2.00
67003619--67003661	22	2.0	22	100	0	86	23	25	13	37	1.92
67010763--67010795	17	2.0	17	88	5	50	75	6	3	15	1.11
67010798--67011092	109	2.7	108	91	3	504	22	13	14	49	1.78
67011568--67011622	26	2.1	27	82	3	67	20	1	14	63	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67013547--67013585	17	2.3	17	86	8	53	58	12	0	28	1.34
67019944--67020201	87	2.9	87	80	8	290	35	11	8	44	1.72
67020119--67020290	90	1.9	89	84	7	231	38	10	7	43	1.67
67025561--67025673	57	2.0	57	92	0	190	30	21	19	29	1.97
67040192--67040237	3	15.3	3	95	0	83	30	2	0	67	1.03
67057449--67057475	5	5.4	5	100	0	54	18	0	0	81	0.69
67067551--67067591	22	1.9	22	90	5	66	63	4	0	31	1.15
67067552--67067604	22	2.4	23	78	15	58	66	5	0	28	1.15
67068010--67068035	6	4.3	6	100	0	52	15	0	0	84	0.62
67072277--67072301	4	6.2	4	100	0	50	24	0	0	76	0.80
67076983--67077086	43	2.4	43	78	0	118	44	18	16	21	1.87
67077172--67077289	34	3.4	34	84	1	128	41	16	14	27	1.87
67079061--67079098	16	2.4	16	86	4	51	68	0	0	31	0.90
67086203--67086236	2	17.5	2	93	6	61	50	0	0	50	1.00
67087235--67087296	20	3.2	19	83	4	70	45	33	0	20	1.52
67087671--67087780	44	2.5	42	82	8	116	49	2	6	41	1.42
67092665--67092705	20	2.0	20	85	0	55	14	53	2	29	1.54
67093964--67094133	13	12.8	13	81	4	171	35	7	7	50	1.58
67093964--67094124	40	4.0	40	86	4	218	34	6	8	50	1.58
67094008--67094131	14	9.1	14	82	5	148	38	7	7	46	1.59
67093976--67094181	54	3.9	53	79	6	204	37	7	7	48	1.59
67093969--67094131	27	6.1	27	82	3	204	36	6	7	49	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67094150--67094216	35	1.9	35	90	0	107	40	2	7	49	1.46
67094951--67094996	14	3.4	14	84	3	58	56	6	2	34	1.37
67096977--67097814	89	9.4	89	89	2	1195	26	24	19	30	1.98
67121860--67121939	31	2.5	31	70	20	76	57	1	1	40	1.15
67128234--67128268	15	2.3	15	100	0	70	42	5	28	22	1.76
67131015--67131085	35	2.0	35	94	5	126	23	22	2	50	1.62
67134496--67134783	98	2.9	99	80	11	307	26	24	17	31	1.97
67135280--67135314	18	1.9	18	88	11	54	34	5	8	51	1.56
67137945--67137989	21	2.2	20	84	4	54	20	2	17	60	1.47
67137953--67137997	18	2.3	20	85	11	58	24	0	13	62	1.31
67137953--67138000	19	2.5	19	80	19	55	25	0	12	62	1.30
67138272--67138309	16	2.4	16	83	12	51	28	0	5	65	1.14
67138534--67138580	2	23.5	2	100	0	94	51	0	0	48	1.00
67141649--67141707	28	2.0	31	87	9	88	40	0	1	57	1.09
67142460--67142495	14	2.6	14	90	0	54	41	5	11	41	1.64
67142893--67142936	18	2.4	18	92	0	70	29	54	2	13	1.51
67152801--67152868	34	2.0	34	85	5	93	29	23	26	20	1.99
67156960--67156994	2	17.5	2	100	0	70	0	48	0	51	1.00
67160584--67160644	19	3.2	19	86	6	79	65	0	1	32	1.02
67160602--67160673	29	2.5	29	84	8	85	63	1	0	34	1.03
67160905--67161002	11	9.4	10	74	18	58	45	1	1	52	1.14
67160908--67160987	11	7.4	11	75	17	60	52	1	0	46	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67160944--67160990	18	2.5	18	86	6	58	46	0	0	53	1.00
67160944--67160990	9	5.0	9	76	19	51	46	0	0	53	1.00
67160958--67161019	10	6.1	10	77	9	54	33	0	1	64	1.03
67162880--67163143	124	2.1	123	86	3	370	29	14	24	31	1.94
67164322--67164573	28	9.9	23	70	22	141	31	0	21	46	1.55
67164330--67164535	28	7.5	28	82	6	262	32	0	21	46	1.52
67164322--67164567	51	4.7	51	87	8	313	30	0	22	46	1.52
67164521--67164555	17	2.0	18	88	5	54	31	0	20	48	1.50
67168418--67168452	15	2.3	15	90	0	52	37	42	8	11	1.72
67171261--67171293	9	3.8	9	88	4	50	0	6	3	90	0.52
67175765--67175804	21	1.9	21	85	10	55	50	7	27	15	1.70
67179570--67179608	17	2.2	17	86	4	51	38	7	10	43	1.67
67180963--67181029	9	6.8	9	73	23	55	55	1	0	43	1.09
67190344--67190389	21	2.3	21	85	10	62	45	0	8	45	1.34
67190443--67190502	18	3.3	18	86	6	68	51	13	0	35	1.41
67190787--67190816	3	10.0	3	100	0	60	0	33	0	66	0.92
67193209--67193245	2	18.5	2	94	0	65	48	2	0	48	1.15
67194890--67195058	50	3.4	50	73	6	162	25	23	20	30	1.98
67194816--67195113	100	3.0	100	90	1	445	24	24	21	29	1.99
67194934--67195108	50	3.5	50	72	6	174	24	25	21	29	1.99
67207152--67207189	15	2.4	16	87	12	53	63	0	10	26	1.27
67208407--67208437	2	16.0	2	93	6	55	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67210128--67210190	31	2.1	30	82	8	74	28	6	20	44	1.76
67211441--67211543	29	3.6	29	77	4	109	28	31	17	23	1.97
67211442--67211543	15	7.0	15	73	6	84	28	30	17	23	1.97
67217136--67217174	14	2.7	15	84	11	55	28	5	0	66	1.12
67217301--67217353	27	2.0	27	96	0	97	43	7	13	35	1.72
67217668--67217692	12	2.1	12	100	0	50	44	0	24	32	1.54
67218540--67218584	21	2.1	21	83	0	54	46	2	4	46	1.35
67218541--67218583	17	2.6	16	82	10	50	46	2	4	46	1.36
67222767--67222805	2	19.5	2	100	0	78	51	0	0	48	1.00
67228368--67228416	22	2.3	21	83	13	64	16	4	32	46	1.65

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