genome.fa.s5.2.7.7.80.10.50.1000.125.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  125  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)
38442971--38443161	102	1.9	100	89	3	267	24	16	27	31	1.96
38443157--38443255	46	2.2	43	84	12	128	24	19	24	32	1.97
38445377--38445484	44	2.5	44	90	0	162	44	10	26	18	1.82
38445502--38445592	33	2.8	33	83	6	105	40	16	24	18	1.90
38445498--38445605	33	3.3	33	80	5	85	44	15	22	17	1.86
38445604--38445677	27	2.8	26	83	6	85	43	6	18	31	1.76
38450838--38451022	51	3.7	50	81	5	185	32	25	14	27	1.95
38467498--38467541	23	1.9	23	85	0	61	29	2	22	45	1.65
38467668--38467806	42	3.3	42	83	4	181	15	19	19	46	1.85
38467668--38467806	21	6.6	21	71	6	93	15	19	19	46	1.85
38469959--38470257	50	5.9	50	79	5	264	28	19	28	23	1.99
38470436--38470493	20	3.3	17	77	15	55	55	5	24	15	1.61
38472428--38472480	22	2.4	22	100	0	106	32	28	18	20	1.97
38473247--38473340	33	2.8	33	85	3	127	28	13	12	44	1.81
38487635--38487664	5	6.0	5	100	0	60	20	20	0	60	1.37
38489833--38489898	25	2.6	25	77	18	73	56	6	6	31	1.48
38490006--38490042	15	2.3	17	86	9	51	72	0	2	24	0.97
38491763--38492251	44	10.9	44	75	9	340	30	21	16	31	1.95
38491803--38491974	91	1.9	90	89	4	265	31	22	16	29	1.96
38498660--38498728	3	22.7	3	78	8	50	60	4	4	30	1.35
38498794--38498825	6	4.9	7	92	7	50	62	0	0	37	0.95
38498899--38498927	8	3.6	8	100	0	58	65	0	10	24	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38499730--38499772	23	1.9	22	81	13	52	9	23	11	55	1.64
38509793--38509964	83	2.1	83	95	1	308	40	14	10	34	1.80
38518612--38518678	34	1.9	35	84	3	91	31	8	13	46	1.74
38519088--38519142	26	2.1	27	82	3	67	52	7	3	36	1.47
38519138--38519177	21	1.9	21	84	0	53	77	2	17	2	0.99
38519684--38519915	96	2.4	97	86	4	308	39	2	18	39	1.65
38519948--38520363	126	3.3	126	94	1	728	32	18	22	25	1.97
38524455--38524548	11	8.5	11	83	4	100	44	0	30	24	1.54
38524967--38525000	6	5.7	6	92	0	59	0	20	0	79	0.73
38524967--38525008	12	3.4	12	93	3	66	0	23	0	76	0.79
38527349--38527375	2	13.5	2	100	0	54	51	0	0	48	1.00
38529791--38529851	29	2.1	29	81	6	70	40	6	0	52	1.27
38530674--38530709	14	2.6	14	86	0	54	33	19	2	44	1.65
38532121--38532154	14	2.5	14	95	4	61	14	0	35	50	1.44
38543810--38543835	5	5.2	5	100	0	52	38	0	0	61	0.96
38545252--38545340	45	2.0	45	95	0	160	24	17	24	32	1.97
38550826--38550957	50	2.6	50	81	3	158	23	19	28	28	1.98
38550822--38550998	51	3.5	50	75	4	167	24	18	28	28	1.98
38551005--38551093	45	2.0	45	93	0	151	25	17	23	32	1.97
38551169--38551241	37	1.9	37	84	13	96	42	1	23	32	1.63
38552046--38552093	13	3.5	13	75	13	51	70	8	0	20	1.12
38552087--38552136	23	2.2	22	82	3	55	80	0	18	2	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38552087--38552136	17	2.9	17	84	0	55	80	0	18	2	0.82
38553847--38553890	21	2.1	21	91	0	70	40	6	31	20	1.79
38553756--38553981	123	1.8	123	89	3	357	30	15	26	28	1.96
38553796--38553937	72	2.0	72	84	2	187	32	14	27	26	1.94
38553868--38554269	51	7.6	51	72	10	263	31	16	26	25	1.97
38553857--38554312	159	2.9	159	92	0	752	31	16	25	26	1.97
38553857--38554286	108	4.0	108	68	13	278	30	16	25	26	1.97
38554319--38554654	44	7.5	44	76	7	257	30	19	21	29	1.97
38554557--38554667	44	2.5	44	80	8	111	33	17	21	27	1.96
38554739--38554860	44	2.8	44	81	6	147	32	15	22	28	1.95
38554743--38554911	45	3.8	44	79	2	149	32	14	23	30	1.94
38554743--38554945	89	2.3	89	80	4	214	31	15	22	30	1.95
38554834--38554951	43	2.7	43	78	5	112	30	16	22	30	1.96
38554874--38554987	43	2.6	43	81	4	113	32	16	19	31	1.94
38560227--38560260	17	1.9	18	88	5	52	5	26	8	58	1.51
38571099--38571141	22	2.0	23	86	9	63	41	13	0	44	1.44
38572670--38572712	18	2.3	18	81	14	52	34	2	4	58	1.32
38575166--38575204	20	2.0	20	85	5	53	53	5	7	33	1.51
38577685--38577726	18	2.3	18	91	0	66	11	35	38	14	1.83
38577693--38577728	18	2.0	18	100	0	72	11	33	38	16	1.84
38578650--38578674	5	5.0	5	100	0	50	20	0	0	80	0.72
38580459--38580531	20	3.7	20	79	0	74	34	26	31	8	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38582220--38582262	18	2.5	17	80	3	50	48	4	4	41	1.44
38583875--38584149	131	2.1	131	85	6	369	24	22	22	29	1.99
38584023--38584281	87	3.0	87	92	0	419	24	24	20	30	1.99
38583905--38584278	44	8.6	44	70	6	240	24	24	21	29	1.99
38584398--38585360	44	22.4	44	70	10	402	29	19	18	32	1.96
38584369--38584770	219	1.8	219	90	2	646	29	19	17	32	1.95
38584520--38584945	175	2.4	175	96	0	771	29	18	18	33	1.94
38584695--38585360	212	3.1	212	89	3	960	28	19	18	33	1.96
38586684--38586727	22	2.0	22	86	0	61	22	18	18	40	1.91
38596363--38596403	18	2.3	18	100	0	82	26	26	24	21	2.00
38597006--38597053	23	2.1	23	100	0	96	29	4	20	45	1.70
38602372--38602419	20	2.5	20	86	3	62	35	14	27	22	1.93
38605384--38605416	15	2.2	15	94	0	57	12	24	6	57	1.57
38614549--38614701	9	17.6	9	68	22	53	32	3	1	62	1.25
38614649--38614694	22	2.0	22	84	12	58	32	2	2	63	1.19
38617435--38617539	41	2.5	41	87	1	147	28	19	25	26	1.98
38617704--38617733	2	15.0	2	92	0	51	46	0	0	53	1.00
38618616--38618640	2	12.5	2	100	0	50	48	0	0	52	1.00
38626033--38626108	23	3.3	23	96	0	143	31	26	21	21	1.98
38634096--38634189	25	3.8	25	81	5	102	22	20	20	37	1.95
38636123--38636163	16	2.6	16	85	14	59	70	12	0	17	1.16
38636131--38636165	15	2.4	14	86	13	52	71	11	0	17	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38637439--38637519	24	3.5	24	81	5	85	35	7	2	54	1.42
38637832--38637866	17	2.1	16	89	5	52	42	0	0	57	0.99
38639823--38639863	19	2.2	19	95	0	73	26	29	9	34	1.88
38639892--38639943	3	17.3	3	100	0	104	67	0	32	0	0.91
38641258--38641283	10	2.6	10	100	0	52	34	7	11	46	1.69
38643507--38643553	22	2.1	22	84	0	58	36	19	25	19	1.95
38645933--38645998	27	2.4	27	79	0	78	28	24	13	33	1.93
38648468--38648523	22	2.7	21	74	17	53	37	3	3	55	1.35
38651739--38651809	37	1.9	37	91	0	115	38	30	15	15	1.89
38661107--38661146	13	3.0	14	82	17	50	40	7	0	52	1.30
38665659--38665717	23	2.7	22	78	5	57	61	0	5	33	1.18
38666524--38666557	16	2.1	17	88	5	52	67	2	0	29	1.05
38666746--38666782	18	2.2	18	85	9	51	45	10	2	40	1.53
38666905--38666948	17	2.5	18	81	7	54	29	2	0	68	1.02
38666899--38666947	17	2.8	17	78	3	53	26	4	0	69	1.06
38666904--38666957	18	3.1	16	77	15	54	29	1	1	66	1.12
38670604--38670658	29	1.9	29	85	3	76	49	3	3	43	1.37
38674335--38674367	14	2.3	15	94	5	59	24	0	6	69	1.10
38680329--38680419	44	2.0	45	91	2	148	31	23	16	28	1.96
38680428--38680603	51	3.5	50	83	3	228	30	27	17	24	1.97
38680426--38680610	101	1.8	102	90	3	302	31	27	17	23	1.97
38684828--38684914	22	3.6	25	78	10	83	14	40	8	36	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38692182--38692365	61	3.0	61	95	0	323	21	21	14	42	1.88
38692960--38692990	16	1.9	16	93	0	53	6	16	0	77	0.97
38693960--38694007	21	2.2	22	85	3	62	27	12	22	37	1.90
38698917--38698967	23	2.2	23	89	0	75	41	19	9	29	1.84
38702988--38703241	45	5.7	45	82	4	300	25	24	11	39	1.88
38702988--38703229	89	2.7	90	89	3	371	25	24	11	38	1.89
38709443--38709816	17	21.3	17	69	21	91	42	11	13	32	1.80
38709492--38709817	17	18.3	18	66	16	103	42	12	13	30	1.81
38709491--38709670	19	10.0	19	66	18	73	43	11	13	31	1.79
38709546--38709820	35	7.8	34	73	11	180	42	12	14	30	1.82

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