genome.fa.s10.2.7.7.80.10.50.1000.135.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  135  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)
41921925--41922012	25	3.4	26	80	13	85	27	6	6	59	1.49
41921951--41922012	27	2.3	26	84	13	74	27	4	6	61	1.41
41926944--41926978	18	1.9	18	94	0	61	77	8	0	14	0.99
41929108--41930065	88	10.9	88	89	1	1411	27	23	25	24	2.00
41930291--41930373	44	1.9	43	92	0	130	30	20	25	24	1.99
41930047--41930374	131	2.5	129	83	6	421	29	20	25	24	1.99
41930680--41930792	44	2.6	44	90	5	167	28	24	20	26	1.99
41932203--41932243	20	2.0	21	85	4	57	39	0	4	56	1.21
41932234--41932321	25	3.4	26	80	13	85	27	6	6	59	1.49
41932260--41932321	27	2.3	26	84	13	74	27	4	6	61	1.41
41936727--41936814	31	2.8	31	79	3	97	38	18	19	23	1.93
41937598--41937623	5	5.2	5	100	0	52	42	19	19	19	1.90
41938378--41938437	30	2.0	31	86	3	86	40	0	40	20	1.52
41950171--41950476	146	2.1	145	90	1	468	43	11	5	39	1.63
41950160--41950395	74	3.2	74	66	22	190	43	11	5	39	1.65
41953106--41953162	22	2.6	22	76	15	55	52	5	3	38	1.41
41953049--41953274	73	3.1	71	66	18	167	42	9	4	43	1.56
41954755--41954813	30	2.0	29	90	3	91	55	13	3	27	1.54
41959157--41959627	42	11.3	42	87	0	667	37	23	18	20	1.94
41959152--41959627	167	2.8	168	88	2	688	37	23	18	21	1.94
41959157--41959627	125	3.8	126	88	1	651	37	23	18	20	1.94
41960025--41960074	20	2.5	20	75	18	59	8	6	6	80	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41964604--41964644	4	10.2	4	83	0	55	43	0	31	24	1.54
41967205--41967245	18	2.3	18	91	8	66	26	21	17	34	1.95
41968629--41968690	27	2.3	26	89	8	97	43	9	11	35	1.73
41968636--41968690	27	2.0	27	96	0	101	43	10	9	36	1.72
41969576--41969893	146	2.2	144	87	3	460	41	10	6	41	1.64
41970114--41970139	3	8.7	3	100	0	52	0	0	30	69	0.89
41974860--41974890	11	2.8	11	100	0	62	29	19	0	51	1.47
41979180--41979222	23	2.0	21	86	9	59	0	32	0	67	0.91
41993473--41993521	18	2.7	17	78	12	53	32	2	0	65	1.04
41999972--42000011	16	2.5	16	91	0	62	47	2	7	42	1.45
42000941--42000990	9	5.6	9	95	0	91	10	34	20	36	1.86
42003139--42003532	92	4.3	92	94	0	673	40	10	10	38	1.75
42004046--42004108	17	3.5	17	89	10	90	50	11	7	30	1.66
42005976--42006022	20	2.3	20	82	10	60	70	8	4	17	1.29
42006006--42006091	30	3.0	28	79	17	97	55	4	0	39	1.20
42006660--42006697	18	2.1	18	85	9	51	36	5	0	57	1.21
42023987--42024036	26	1.9	26	91	0	82	32	12	10	46	1.74
42025607--42025650	20	2.2	20	95	0	79	34	11	11	43	1.77
42039287--42039319	14	2.3	15	89	5	50	45	6	3	45	1.43
42039688--42039754	22	3.0	22	93	0	107	34	14	25	25	1.94
42044171--42044210	19	2.1	19	90	0	62	30	0	7	62	1.23
42046467--42046572	6	19.3	6	70	18	70	37	14	30	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42046482--42046519	15	2.6	15	91	4	60	42	13	26	18	1.87
42046515--42046582	21	3.2	21	78	0	64	35	11	32	20	1.89
42057533--42057567	17	1.9	19	88	11	56	45	2	17	34	1.63
42065255--42065286	2	16.0	2	93	0	55	53	46	0	0	1.00
42066556--42066784	111	2.1	109	95	1	413	22	13	15	48	1.80
42073856--42074189	125	2.7	125	95	0	596	30	15	20	32	1.94
42077304--42077338	10	3.5	10	100	0	70	48	0	8	42	1.33
42077434--42077516	26	3.2	26	100	0	166	59	7	7	26	1.50
42077514--42077922	85	4.8	85	91	2	617	26	0	23	49	1.50
42077514--42077929	57	7.3	56	88	2	582	26	0	23	49	1.50
42077514--42077929	28	14.6	28	88	3	591	26	0	23	49	1.50
42078000--42078048	25	1.9	25	87	4	71	38	16	4	40	1.67
42078162--42078214	24	2.2	24	82	0	61	1	24	28	45	1.64
42080187--42080224	14	2.6	15	79	8	51	68	7	0	23	1.16
42080309--42080372	29	2.2	28	86	2	83	62	0	0	37	0.95
42084159--42084191	15	2.1	16	88	5	50	63	0	12	24	1.28
42090326--42090400	36	2.1	36	97	0	141	42	8	17	32	1.78
42096402--42096594	107	1.8	107	81	0	242	26	15	25	32	1.95
42102753--42102785	17	1.9	17	100	0	66	51	0	12	36	1.39
42112359--42112385	3	9.0	3	100	0	54	33	0	0	66	0.92
42113388--42113463	28	2.7	28	93	0	125	40	22	1	35	1.62
42113631--42113694	29	2.2	29	82	2	74	35	7	15	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42116537--42116576	20	2.0	20	90	0	62	50	12	10	27	1.72
42116525--42116591	34	1.9	35	93	3	118	46	14	8	29	1.76
42116560--42116599	14	2.9	14	84	0	53	42	17	7	32	1.77
42117417--42117496	24	3.4	23	77	5	79	27	18	25	28	1.98
42117963--42118470	254	2.0	254	88	1	759	40	15	19	24	1.90
42118775--42118819	23	2.0	23	90	0	72	40	17	8	33	1.81
42118776--42118825	23	2.2	23	85	0	64	42	18	10	30	1.82
42130533--42130581	15	2.9	18	80	20	61	44	0	0	55	0.99
42130533--42130587	15	3.4	16	80	16	53	43	0	1	54	1.10
42130393--42130680	156	1.8	156	97	0	549	47	6	3	43	1.45
42130803--42130854	16	3.2	16	94	0	95	38	34	0	26	1.57
42131455--42131493	18	2.2	18	86	9	53	35	2	0	61	1.10
42142779--42142923	23	6.3	23	83	4	186	31	27	19	22	1.98
42142779--42142922	46	3.1	46	89	0	216	31	27	19	21	1.97
42153280--42153361	42	2.0	42	95	0	146	45	14	10	29	1.79
42153282--42153372	42	2.2	42	87	0	128	50	13	7	28	1.68
42154460--42154510	24	2.1	24	92	7	86	33	25	21	19	1.97
42156530--42156575	19	2.5	19	89	3	67	41	10	6	41	1.66
42161351--42161381	15	2.1	15	93	0	53	80	0	9	9	0.90
42162218--42162250	10	3.4	10	87	4	50	63	9	6	21	1.45
42169742--42169961	93	2.4	93	95	0	395	41	12	10	35	1.78
42190811--42191020	107	2.0	107	89	1	323	39	20	16	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42192678--42192768	43	2.1	43	87	2	130	45	9	10	34	1.73
42195955--42196031	39	2.0	38	89	2	118	35	1	6	57	1.33
42196486--42196619	7	18.7	7	75	10	65	44	35	0	20	1.57
42196552--42196614	14	4.4	14	88	4	81	47	31	0	20	1.51
42196729--42196924	41	4.8	41	90	1	288	28	29	20	20	1.98
42197031--42197148	40	3.0	40	89	0	182	20	19	24	35	1.96
42198604--42198635	4	8.0	4	100	0	64	75	0	0	25	0.81
42198822--42198879	2	29.0	2	100	0	116	50	0	0	50	1.00
42199021--42199087	3	22.3	3	87	0	98	62	2	2	31	1.25
42202525--42202617	29	3.3	28	79	8	100	55	1	8	34	1.37
42204041--42204084	22	2.0	22	86	0	61	4	9	22	63	1.42
42204432--42204681	44	5.8	44	68	9	120	29	20	20	30	1.98
42204646--42204778	45	3.0	45	73	2	142	25	26	20	27	1.99
42204605--42204778	89	2.0	89	90	0	276	26	25	21	27	1.99
42204616--42204766	44	3.4	44	77	1	176	25	23	21	29	1.99
42216016--42216040	12	2.1	12	100	0	50	20	32	40	8	1.81
42216945--42217022	29	2.7	28	88	5	111	57	1	7	33	1.35
42217340--42217396	9	6.3	9	76	8	53	56	1	12	29	1.46
42217340--42217396	18	3.2	18	80	9	62	56	1	12	29	1.46
42218126--42218160	13	2.8	13	86	4	54	82	5	0	11	0.82
42223039--42223076	20	2.1	18	85	14	51	26	0	18	55	1.43
42224484--42224538	20	2.8	20	89	10	94	49	0	29	21	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42225060--42225111	26	2.0	26	100	0	104	26	7	23	42	1.81
42227540--42227611	20	3.6	20	94	0	126	22	27	0	50	1.50
42227549--42227581	15	2.1	16	88	5	50	21	27	0	51	1.48
42242905--42242960	28	2.0	28	89	6	87	21	48	0	30	1.51
42250429--42250677	50	4.8	50	86	3	309	20	28	23	27	1.99
42250428--42250677	100	2.4	104	88	5	355	20	28	23	27	1.99
42250772--42250803	13	2.5	13	94	0	55	56	12	0	31	1.37
42251015--42251072	30	1.9	30	92	0	98	32	24	3	39	1.72
42251966--42252008	22	2.0	22	90	0	68	11	20	0	67	1.22
42252576--42252635	31	1.9	31	96	0	111	23	21	3	51	1.62

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