genome.fa.s2.2.7.7.80.10.50.1000.134.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  134  of  206  ( 24623 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)
40845366--40845612	32	7.7	32	78	7	171	18	21	23	36	1.95
40845366--40845612	64	3.9	64	79	3	246	18	21	23	36	1.95
40845430--40845605	96	1.8	96	85	0	244	17	19	24	38	1.93
40849133--40849182	24	2.0	27	88	11	79	50	14	0	36	1.43
40860785--40860927	74	1.9	75	88	4	218	43	9	15	31	1.79
40860904--40861177	138	2.0	139	89	3	419	40	7	5	46	1.54
40861240--40861288	25	2.0	25	100	0	98	44	8	2	44	1.45
40867438--40867688	136	1.8	136	84	1	342	21	19	25	33	1.97
40871158--40871208	21	2.4	21	80	6	59	49	7	7	35	1.61
40871246--40871529	138	2.1	138	92	1	471	40	7	5	46	1.56
40886025--40886170	42	3.5	42	80	6	161	36	22	17	23	1.94
40886173--40886282	41	2.7	41	88	1	148	25	24	16	33	1.96
40886259--40886308	26	1.9	26	95	0	91	24	34	20	22	1.97
40886219--40886349	67	2.0	67	89	3	201	23	28	19	29	1.98
40891879--40891916	19	2.0	19	100	0	76	63	21	0	15	1.31
40892724--40892770	4	11.8	4	100	0	94	25	0	23	51	1.49
40913370--40914039	44	15.6	43	69	16	239	28	21	22	27	1.99
40913408--40913726	163	2.0	162	91	0	521	27	20	22	29	1.99
40913704--40913828	45	2.8	44	79	10	137	28	20	24	27	1.99
40921273--40921408	50	2.7	51	87	4	195	24	16	29	29	1.97
40929674--40929703	12	2.5	12	94	0	51	6	23	40	30	1.80
40930876--40931022	29	4.9	30	79	5	165	19	26	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40930860--40931022	60	2.7	61	76	10	174	20	26	12	39	1.89
40930800--40930966	30	5.6	30	78	7	115	22	26	13	37	1.91
40930830--40931051	90	2.5	90	87	1	302	20	27	14	38	1.91
40934666--40934758	37	2.5	35	81	15	98	41	3	4	50	1.38
40937043--40937117	19	3.8	19	93	6	132	36	16	10	37	1.83
40939194--40939299	40	2.6	39	89	2	149	36	18	26	17	1.94
40941004--40941036	16	2.1	16	94	0	57	39	12	9	39	1.74
40941168--40941197	12	2.5	12	94	0	51	66	6	6	20	1.38
40941163--40941206	19	2.4	19	85	7	56	65	6	6	20	1.39
40946084--40946117	14	2.5	14	90	4	52	35	14	0	50	1.44
40953891--40953917	14	1.9	14	100	0	54	29	14	22	33	1.94
40955228--40955380	76	2.0	76	100	0	306	28	14	15	41	1.86
40958203--40958274	21	3.3	21	88	5	81	12	22	11	54	1.69
40958223--40958274	21	2.5	21	96	0	95	9	23	11	55	1.64
40960636--40960729	18	5.4	18	79	3	77	30	8	22	38	1.84
40970265--40970300	17	2.1	17	89	0	54	25	22	36	16	1.94
40974385--40976816	617	3.9	618	91	1	3973	26	17	23	32	1.97
40976320--40993136	617	27.3	580	84	7	12712	26	17	22	32	1.97
40976820--40993136	619	26.4	617	88	2	21111	26	17	22	32	1.97
40979491--40979534	22	2.0	22	100	0	88	13	9	36	40	1.76
40996422--40997757	616	2.2	617	88	2	1984	26	17	23	32	1.97
40998869--41002342	619	5.5	618	80	5	3776	26	17	22	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41000512--41002342	617	3.0	617	88	1	2749	26	18	23	31	1.97
41002131--41002569	230	1.9	231	88	0	673	30	16	25	27	1.97
41004377--41015789	618	18.5	618	86	3	14548	26	17	22	32	1.96
41016932--41017003	27	2.6	27	84	6	92	38	20	19	20	1.93
41017166--41017252	26	3.3	26	83	1	102	20	24	17	37	1.93
41017153--41017254	52	2.0	52	86	3	143	20	23	18	37	1.94
41017366--41017426	28	2.2	28	91	2	97	22	22	24	29	1.99
41020949--41020978	12	2.6	12	94	5	53	33	26	10	30	1.89
41029486--41029579	28	3.4	28	89	2	145	27	24	24	23	2.00
41029680--41029730	26	2.0	25	88	7	75	39	23	21	15	1.92
41029929--41030140	27	7.9	27	85	5	225	21	17	17	42	1.89
41029929--41030140	81	2.6	81	87	3	293	21	17	17	42	1.89
41029929--41030142	54	3.9	55	83	3	256	21	17	18	42	1.89
41032829--41032916	27	3.3	27	87	1	124	34	18	22	25	1.96
41032829--41032931	53	1.9	54	84	2	136	32	18	21	28	1.97
41032989--41033107	24	5.0	24	81	4	114	27	7	21	43	1.79
41033065--41033122	24	2.4	24	88	0	80	27	8	20	43	1.81
41034834--41034896	32	2.0	32	96	0	117	22	22	17	38	1.93
41034901--41034952	22	2.4	21	75	15	52	19	15	19	46	1.85
41040070--41040123	20	2.7	20	82	0	63	24	20	18	37	1.94
41040070--41040143	30	2.5	30	86	8	98	21	20	18	39	1.93
41040070--41040134	20	3.2	20	71	16	53	23	21	16	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41044125--41044317	40	4.8	40	86	7	230	60	0	3	36	1.12
41044125--41044268	11	13.9	11	68	19	62	59	0	2	38	1.12
41045185--41045324	40	3.6	39	81	4	158	40	20	21	17	1.91
41045189--41045344	78	2.0	79	84	2	206	39	19	23	18	1.93
41048548--41048593	24	1.9	24	86	0	65	30	19	21	28	1.98
41052830--41052972	50	2.9	50	83	0	187	27	22	27	22	1.99
41053231--41053269	20	2.0	20	90	10	62	56	5	23	15	1.59
41057468--41057567	41	2.4	41	83	0	128	29	32	17	22	1.96
41057556--41057645	25	3.6	25	79	8	85	30	23	20	26	1.98
41068880--41068939	20	3.0	20	70	0	57	20	25	21	33	1.97
41069320--41069358	20	1.9	20	89	5	60	33	10	10	46	1.72
41074510--41074573	30	2.1	30	94	0	110	23	34	25	17	1.96
41076392--41076451	28	2.2	26	80	16	68	18	5	0	76	0.96
41084537--41084574	19	2.0	19	94	0	67	39	5	13	42	1.66
41084612--41084693	41	2.0	41	92	0	137	30	6	15	47	1.70
41096848--41096885	20	2.0	20	90	10	62	55	10	0	34	1.34
41103379--41103568	90	2.1	89	88	1	274	36	22	12	29	1.90
41103664--41103706	19	2.3	19	80	8	52	60	0	2	37	1.10
41111328--41111386	27	2.1	28	87	3	84	18	16	28	35	1.93
41115778--41115913	42	3.2	42	75	4	121	41	17	21	19	1.90
41122631--41122681	24	2.1	25	82	17	63	23	19	7	49	1.74
41128411--41128437	6	4.5	6	100	0	54	14	29	0	55	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41131594--41131677	41	2.0	41	100	0	168	35	23	7	33	1.82
41131973--41132148	41	4.3	41	91	0	280	25	27	18	28	1.98
41142676--41142771	20	4.8	19	71	14	70	12	32	19	35	1.89
41142680--41142771	40	2.3	40	90	3	141	13	32	18	35	1.89
41147480--41147564	40	2.1	40	82	0	98	11	34	20	34	1.89
41147476--41147564	20	4.4	20	71	0	70	11	33	21	33	1.89
41147400--41147564	60	2.8	60	86	0	213	13	33	20	32	1.91
41147497--41147587	40	2.3	40	84	0	110	10	31	21	35	1.89
41152744--41152858	62	1.9	60	83	7	151	41	5	3	49	1.42
41155343--41155392	9	5.6	9	80	0	55	48	18	8	26	1.75
41155343--41155392	18	2.8	18	84	0	64	48	18	8	26	1.75
41161136--41161161	13	2.0	13	100	0	52	0	23	0	76	0.78
41167063--41167245	51	3.6	51	76	7	176	27	18	24	30	1.98
41180079--41180208	68	1.9	71	85	4	185	42	3	3	51	1.33
41181032--41181067	13	2.8	13	82	0	54	30	8	16	44	1.77
41181247--41181296	20	2.5	20	80	3	57	42	2	2	54	1.23
41183978--41184215	50	4.7	50	82	5	248	21	28	21	28	1.99
41191015--41191201	50	3.6	50	83	4	212	22	28	22	26	1.99
41193137--41193349	67	3.1	66	64	21	159	45	7	6	41	1.57
41193107--41193391	138	2.1	138	94	0	498	45	6	7	40	1.59
41195874--41195983	27	4.1	27	70	5	80	17	20	20	40	1.91
41205570--41205602	17	1.9	17	88	11	50	33	27	6	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41218758--41218796	18	2.1	19	85	9	53	71	0	17	10	1.12
41219575--41219615	21	2.0	21	85	9	57	29	12	17	41	1.85
41226000--41226025	6	4.3	6	100	0	52	65	19	15	0	1.27
41237991--41238046	21	2.5	23	80	13	64	51	1	0	46	1.11
41237991--41238055	20	2.9	22	80	11	71	50	3	0	46	1.17
41252800--41252831	16	2.0	16	93	0	55	40	6	15	37	1.73
41252856--41252886	16	1.9	16	93	0	53	45	0	12	41	1.42
41252801--41252904	55	1.9	55	89	0	163	40	5	10	43	1.63
41256775--41256807	3	11.0	3	100	0	66	33	0	0	66	0.92
41263827--41263867	21	1.9	22	85	14	59	31	7	34	26	1.84

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