genome.fa.s10.2.7.7.80.10.50.1000.161.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  161  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)
50390949--50391018	35	2.0	35	97	0	131	30	17	12	40	1.87
50395645--50396203	276	2.0	276	99	0	1100	31	10	21	36	1.87
50420735--50420860	40	3.2	39	95	2	216	27	15	19	36	1.93
50424549--50424573	6	4.2	6	100	0	50	84	0	0	16	0.63
50428435--50428490	3	18.7	3	100	0	112	67	0	32	0	0.91
50437673--50437724	16	3.4	16	68	10	54	30	15	28	25	1.96
50437664--50437725	30	2.1	30	100	0	124	32	16	29	22	1.95
50444496--50444573	39	2.0	39	97	0	147	39	10	12	37	1.78
50445823--50445953	55	2.4	55	84	2	174	22	21	32	22	1.98
50446396--50446431	16	2.2	16	100	0	72	25	0	36	38	1.56
50446699--50446732	17	2.0	17	88	11	52	55	0	0	44	0.99
50446795--50446836	15	2.7	16	82	14	52	52	2	0	45	1.13
50446804--50446845	15	2.9	15	82	10	52	52	0	0	47	1.00
50446914--50446965	15	3.6	15	80	12	56	53	1	0	44	1.11
50447039--50447089	18	3.0	16	78	18	50	52	0	1	45	1.12
50447053--50447089	16	2.2	17	86	13	51	54	0	2	43	1.14
50446682--50447090	120	3.4	118	90	5	614	49	5	2	43	1.37
50447131--50447178	26	1.9	25	84	16	64	52	2	0	45	1.12
50447086--50447314	92	2.5	92	83	8	236	47	3	3	44	1.38
50450941--50451172	66	3.2	66	64	22	169	42	8	17	31	1.79
50451007--50451239	74	3.1	74	64	21	194	41	9	18	30	1.82
50450881--50451318	151	2.9	151	99	0	867	41	8	18	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50452038--50452126	23	4.0	21	75	12	79	53	22	3	20	1.60
50453813--50453880	29	2.4	27	75	18	66	50	5	29	14	1.67
50453936--50453963	11	2.5	11	100	0	56	42	10	39	7	1.67
50471981--50472122	22	6.3	22	80	11	162	44	16	14	25	1.85
50471970--50472107	47	3.0	47	79	9	176	46	16	12	24	1.82
50472479--50472517	20	2.0	20	89	0	60	41	12	5	41	1.65
50477556--50477582	12	2.2	12	100	0	54	22	18	14	44	1.86
50480506--50480548	22	2.0	22	90	0	68	37	13	13	34	1.85
50493256--50493294	18	2.2	18	85	0	51	30	5	35	28	1.79
50497437--50497472	19	1.9	19	94	5	65	5	16	5	72	1.23
50503652--50503773	33	3.7	32	78	5	127	46	15	22	15	1.83
50507965--50508003	13	2.9	13	81	7	51	51	5	2	41	1.38
50520603--50520645	18	2.4	18	88	0	59	55	4	0	39	1.20
50524727--50524795	26	2.7	26	82	4	70	37	18	5	37	1.75
50533038--50534261	414	3.0	409	95	1	2150	33	7	17	41	1.78
50537035--50537203	81	2.1	81	92	0	275	44	4	13	37	1.64
50537873--50537900	13	2.2	13	100	0	56	28	0	17	53	1.44
50537916--50538216	91	3.3	90	77	7	311	32	6	20	40	1.78
50539212--50539244	15	2.1	16	94	5	59	84	6	3	6	0.84
50543776--50543846	4	16.8	4	80	11	70	70	4	5	19	1.24
50553367--50553409	2	21.5	2	100	0	86	51	0	0	48	1.00
50558099--50558141	21	2.0	21	100	0	86	23	13	0	62	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50558952--50558994	9	4.7	9	81	13	52	23	2	0	74	0.93
50558973--50559035	30	2.1	29	80	13	74	38	3	0	58	1.14
50560516--50560556	22	1.9	21	85	5	55	46	0	0	53	1.00
50566578--50566630	25	2.0	26	89	7	81	20	0	11	67	1.21
50566577--50566635	25	2.4	23	79	17	66	23	0	10	66	1.22
50571525--50571556	15	2.1	15	100	0	64	37	12	6	43	1.68
50578665--50578697	7	4.7	7	100	0	66	87	0	0	12	0.53
50581902--50581944	20	2.2	20	100	0	86	25	0	39	34	1.56
50592220--50592290	31	2.3	31	100	0	142	46	7	26	19	1.75
50592932--50593347	131	3.2	131	88	4	597	30	20	24	24	1.99
50593358--50593399	21	2.0	21	95	0	75	35	4	35	23	1.76
50595119--50595151	12	2.8	12	95	0	57	30	3	0	66	1.06
50597917--50597941	12	2.1	12	100	0	50	52	0	8	40	1.31
50599658--50599692	15	2.3	16	85	14	56	71	0	28	0	0.86
50606433--50606504	32	2.2	32	82	7	83	23	6	18	51	1.70
50608486--50608535	17	3.2	17	72	21	63	56	22	10	12	1.65
50610806--50610840	2	17.5	2	100	0	70	51	0	0	48	1.00
50611656--50611714	25	2.4	25	82	0	73	32	18	25	23	1.97
50612157--50612182	13	2.0	13	100	0	52	38	23	0	38	1.55
50619415--50619542	43	3.0	41	75	2	121	28	14	25	32	1.94
50626359--50626398	14	2.9	14	84	0	53	42	0	5	52	1.23
50650372--50650445	38	1.9	38	94	0	130	12	12	6	68	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50652320--50652349	2	15.0	2	100	0	60	50	0	0	50	1.00
50671855--50672768	23	38.5	23	74	18	658	27	1	24	46	1.61
50671899--50672282	50	8.0	49	75	20	268	27	1	24	46	1.62
50671948--50671987	21	2.0	21	90	5	64	22	0	30	47	1.52
50671820--50672035	118	1.8	119	88	8	334	28	1	24	45	1.61
50671855--50672674	187	4.3	189	76	17	748	27	1	24	46	1.61
50671855--50672702	118	7.2	115	77	16	698	27	1	24	46	1.61
50672160--50672241	28	3.1	28	86	10	111	28	2	23	46	1.65
50672169--50672252	28	3.2	26	69	17	75	30	2	20	46	1.63
50672297--50672544	49	5.1	49	83	12	314	26	1	27	45	1.61
50672424--50672478	28	2.0	28	100	0	110	29	1	25	43	1.65
50672000--50672742	261	2.8	256	84	10	865	26	1	24	47	1.61
50672452--50672674	44	4.9	44	79	15	238	27	0	25	47	1.56
50672682--50672748	30	2.2	30	81	0	80	20	2	25	50	1.62
50672774--50672860	44	2.0	45	90	2	140	49	12	0	37	1.41
50674770--50674794	7	3.6	7	100	0	50	60	12	0	28	1.32
50675938--50676052	51	2.2	52	92	4	198	46	0	24	28	1.53
50676025--50676075	22	2.3	22	100	0	102	39	0	33	27	1.57
50676433--50676471	16	2.4	16	86	4	51	48	2	10	38	1.51
50683963--50684007	23	2.0	22	83	12	56	28	4	24	42	1.74
50691464--50691850	27	14.4	26	82	2	220	32	18	23	25	1.97
50691464--50691850	54	7.2	54	83	2	440	32	18	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50691462--50691850	81	4.8	80	82	5	426	32	18	23	25	1.97
50691868--50692001	24	5.6	24	80	0	124	29	7	19	44	1.78
50692149--50692348	32	6.3	32	84	0	240	23	19	19	38	1.94
50692151--50692348	96	2.1	95	86	0	270	23	19	18	37	1.94
50694389--50694511	34	3.5	36	80	5	144	23	16	17	42	1.89
50706085--50706196	27	4.2	27	82	1	127	27	18	16	36	1.93
50706072--50706196	54	2.3	53	86	1	178	27	20	17	35	1.95
50706072--50706250	54	3.3	54	81	3	164	30	18	15	35	1.93
50706167--50706241	27	2.8	26	78	6	87	34	17	10	37	1.84
50708597--50708700	27	3.9	27	80	0	91	26	27	9	35	1.88
50708811--50708967	54	2.9	54	82	10	178	26	23	17	32	1.96
50708842--50708967	27	4.7	26	86	2	162	28	23	17	30	1.97
50721278--50721616	51	6.7	51	78	4	262	29	26	16	28	1.97
50721275--50721616	102	3.4	101	82	4	381	29	26	16	27	1.97
50721273--50721615	153	2.3	149	78	6	361	29	26	16	28	1.97
50728904--50729037	50	2.7	50	90	1	216	29	23	17	29	1.97
50728904--50729240	51	6.7	49	75	7	234	29	26	15	29	1.96
50728899--50729240	102	3.4	101	81	4	363	29	26	15	28	1.96
50731852--50731890	20	2.0	20	89	0	60	46	12	7	33	1.71
50734575--50734614	18	2.2	18	86	0	53	20	20	27	32	1.97
50752710--50752764	27	2.0	27	82	10	67	47	1	9	41	1.46
50753396--50753421	13	2.0	13	100	0	52	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50764563--50764618	15	3.7	15	92	0	94	19	10	39	30	1.86
50768028--50768063	18	1.9	19	94	5	65	50	5	0	44	1.25
50768032--50768074	18	2.3	18	84	11	52	51	6	0	41	1.29
50770196--50770250	27	2.0	27	82	0	65	14	12	38	34	1.84
50782050--50782137	27	3.2	26	79	6	86	17	14	31	36	1.90
50782059--50782180	54	2.3	54	81	2	129	18	14	31	35	1.91
50782189--50782253	27	2.4	27	89	5	96	24	23	27	24	2.00
50787677--50787735	27	2.3	26	81	18	72	67	3	6	22	1.29
50792103--50792143	6	6.8	6	97	0	55	60	0	21	17	1.35
50800647--50800677	13	2.4	13	100	0	62	22	0	0	77	0.77

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