genome.fa.s1.2.7.7.80.10.50.1000.117.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  117  of  187  ( 22383 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)
35222386--35222455	33	2.1	33	91	0	113	12	12	34	40	1.82
35222403--35222474	33	2.2	33	82	0	81	15	15	33	36	1.89
35226709--35226773	27	2.4	27	78	0	67	18	10	3	67	1.33
35229536--35230381	420	2.0	427	83	3	1086	37	16	18	27	1.92
35231365--35231463	48	2.1	48	92	0	162	32	26	17	24	1.97
35231855--35231888	12	2.8	12	86	0	50	41	32	8	17	1.80
35233891--35233920	8	3.6	8	95	4	51	26	0	23	50	1.50
35235098--35235130	15	2.2	15	94	0	57	72	0	0	27	0.85
35235264--35235312	25	2.0	25	91	0	80	42	10	6	40	1.63
35235344--35235558	105	2.0	105	83	3	270	39	9	11	39	1.74
35235689--35235714	2	13.0	2	100	0	52	50	0	0	50	1.00
35236792--35236837	23	1.9	24	86	8	67	23	4	4	67	1.27
35237717--35237757	15	2.7	15	88	3	55	43	0	0	56	0.99
35238562--35238586	12	2.1	12	100	0	50	24	36	24	16	1.94
35238745--35238812	9	7.4	9	83	3	91	41	27	8	22	1.83
35238950--35238979	13	2.3	13	100	0	60	16	0	43	40	1.48
35245098--35245140	19	2.3	18	81	18	52	48	0	32	18	1.48
35246659--35246700	19	2.2	19	86	0	57	42	16	4	35	1.69
35257823--35257870	13	3.7	13	89	10	64	72	4	6	16	1.20
35257911--35257944	13	2.6	13	95	0	59	70	2	11	14	1.27
35264655--35264722	21	3.3	20	72	4	64	19	7	16	57	1.62
35266438--35266477	20	2.0	20	85	0	53	27	10	12	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35267618--35267688	29	2.4	29	80	4	79	46	12	14	26	1.80
35270780--35270809	6	5.0	6	91	0	51	36	50	13	0	1.42
35272163--35272328	72	2.3	72	81	4	183	28	24	16	30	1.97
35272461--35272557	40	2.5	39	77	9	99	41	18	19	20	1.91
35272590--35272788	41	4.9	41	93	1	319	19	21	31	28	1.97
35272590--35272788	83	2.4	82	91	2	328	19	21	31	28	1.97
35273109--35273326	7	31.0	7	73	8	129	20	0	38	39	1.59
35273137--35273239	28	3.6	28	89	1	152	16	0	36	45	1.54
35273201--35273288	27	3.1	29	76	14	85	19	1	40	38	1.59
35273389--35273457	17	4.0	16	74	20	59	50	0	2	46	1.16
35273420--35273462	16	2.6	16	88	7	59	55	0	0	44	0.99
35273397--35273469	17	4.2	17	77	16	69	50	0	2	46	1.15
35273569--35273644	7	10.7	7	76	8	55	18	0	36	44	1.50
35279247--35279472	43	5.3	42	80	8	253	28	15	26	28	1.96
35279682--35279754	35	2.1	35	92	0	119	21	15	32	30	1.94
35279682--35279774	35	2.7	35	86	0	105	20	11	33	34	1.89
35279991--35280112	60	2.0	60	96	0	226	36	8	12	42	1.72
35280011--35280111	30	3.4	29	73	16	107	36	8	11	42	1.73
35283236--35283372	70	2.0	70	97	0	256	27	26	12	34	1.92
35285350--35285420	33	2.1	35	84	5	92	11	22	0	66	1.23
35285394--35285444	15	3.5	14	79	10	66	3	17	0	78	0.90
35285369--35285455	21	4.2	21	80	4	97	6	22	0	70	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35286274--35286345	29	2.5	29	86	6	101	9	15	2	72	1.22
35286389--35286443	13	4.6	12	85	12	69	12	3	5	78	1.06
35287589--35287725	70	2.0	70	95	0	247	27	25	12	34	1.92
35288216--35288253	20	1.9	19	89	5	58	34	15	26	23	1.95
35294072--35294194	57	2.2	58	85	5	162	46	5	20	27	1.73
35294174--35294220	6	7.7	6	83	11	60	55	0	27	17	1.42
35302663--35302726	12	5.4	12	83	1	76	18	4	3	73	1.14
35302663--35302726	24	2.7	24	90	2	103	18	4	3	73	1.14
35319712--35319736	13	1.9	13	100	0	50	40	32	12	16	1.84
35321879--35321950	22	3.3	22	94	0	117	25	27	16	30	1.97
35325034--35325071	20	1.9	20	88	0	58	26	0	2	71	1.00
35327335--35327562	27	8.5	27	89	0	323	44	21	17	16	1.87
35335251--35335386	66	2.1	66	88	0	200	33	13	20	32	1.91
35342887--35342928	12	3.4	12	83	3	57	59	0	23	16	1.37
35342887--35342928	18	2.3	19	91	4	68	59	0	23	16	1.37
35349280--35349770	252	1.9	252	89	1	752	33	15	22	28	1.95
35356767--35356799	17	1.9	17	93	0	57	48	3	6	42	1.43
35371421--35371450	15	1.9	16	93	6	53	43	0	0	56	0.99
35386264--35386397	45	3.0	45	82	8	166	26	20	13	39	1.90
35387880--35387928	24	2.0	24	96	0	89	20	10	14	55	1.68
35391687--35391750	13	4.9	13	81	7	85	37	25	6	31	1.81
35393409--35393469	5	12.2	5	100	0	122	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35395058--35395094	9	4.1	9	85	0	56	29	8	13	48	1.71
35404700--35404806	42	2.6	41	82	5	108	25	19	30	24	1.98
35404726--35404820	42	2.3	42	92	0	154	27	15	27	29	1.96
35404921--35404988	34	2.0	34	100	0	136	32	11	14	41	1.82
35410783--35410826	19	2.3	19	88	7	63	38	4	20	36	1.73
35411115--35411193	33	2.6	31	80	9	83	27	25	25	21	1.99
35411368--35411446	27	2.9	27	96	0	140	37	22	20	18	1.94
35411616--35411667	26	2.0	26	88	0	77	25	19	19	36	1.95
35415021--35415065	20	2.2	20	88	4	63	26	26	6	40	1.81
35418273--35418314	19	2.2	19	91	4	66	38	2	21	38	1.67
35418798--35418847	26	1.9	26	87	0	73	34	18	24	24	1.96
35418849--35418906	27	2.1	27	83	0	71	34	20	22	22	1.97
35423166--35423213	25	1.9	25	86	0	69	31	25	18	25	1.98
35423171--35423258	25	3.6	25	81	1	79	34	19	22	23	1.97
35433789--35433882	28	3.0	30	73	20	77	30	24	21	23	1.99
35433816--35433871	28	2.0	28	96	0	103	33	25	19	21	1.97
35433979--35434055	26	3.0	26	82	0	100	35	20	22	22	1.96
35436557--35436586	3	10.0	3	100	0	60	33	0	0	66	0.92
35453175--35453231	16	3.5	16	73	17	55	12	8	1	77	1.07
35459378--35459470	25	3.6	24	73	19	62	74	4	17	4	1.15
35459381--35459471	6	15.0	6	69	17	55	72	4	18	4	1.18
35459431--35459462	15	2.1	15	94	0	55	78	0	21	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35459431--35459469	11	3.6	11	86	13	55	79	0	20	0	0.73
35459650--35460317	143	4.7	143	88	0	971	30	20	22	26	1.98
35459654--35460317	285	2.3	286	90	0	1026	30	20	22	26	1.98
35468941--35468989	25	2.0	25	88	8	73	44	2	6	46	1.39
35474708--35474737	15	2.0	15	93	0	51	16	13	0	70	1.18
35477546--35477812	29	9.1	29	74	10	204	23	27	12	37	1.90
35477558--35477781	59	3.8	59	79	8	208	22	29	11	37	1.89
35477622--35477816	59	3.3	58	80	9	211	22	27	11	38	1.89
35477710--35477838	29	4.4	29	73	5	107	27	26	9	37	1.87
35477651--35477854	88	2.3	89	83	5	254	25	26	11	37	1.89
35477550--35477854	147	2.1	147	83	2	380	23	27	12	36	1.91
35482025--35482407	27	14.2	27	87	2	466	42	19	20	17	1.90
35482585--35482661	26	3.0	26	90	0	118	15	23	23	37	1.93
35486622--35486691	32	2.3	30	85	5	86	25	14	7	52	1.66
35487866--35488055	88	2.2	89	83	2	233	37	13	24	24	1.91
35487814--35488059	29	8.4	29	80	1	197	36	13	23	26	1.91
35489033--35489059	12	2.2	12	100	0	54	25	40	25	7	1.82
35493302--35493342	21	2.0	21	90	0	64	39	0	12	48	1.41
35493307--35493354	7	6.9	7	80	0	51	39	2	12	45	1.54
35500400--35500473	36	2.1	36	92	0	121	21	24	16	37	1.93
35500602--35500649	21	2.3	21	92	0	78	56	0	27	16	1.41
35500609--35500655	21	2.2	21	88	0	67	53	2	23	21	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35506353--35506405	26	2.0	26	100	0	106	26	22	3	47	1.68
35508679--35508776	47	2.1	46	84	1	124	40	19	16	23	1.90
35511220--35511250	3	10.3	3	92	0	53	64	0	3	32	1.09
35512249--35512274	4	6.5	4	100	0	52	26	0	0	73	0.84
35512372--35512428	3	18.7	3	96	3	105	33	0	0	66	0.92
35513509--35513544	2	18.5	2	94	5	65	52	0	0	47	1.00
35521795--35521922	62	2.1	62	80	2	141	40	17	6	35	1.75
35525637--35526379	153	4.9	153	81	2	811	36	19	10	34	1.85
35527658--35527719	3	20.7	3	88	0	61	29	8	35	27	1.85
35531010--35531278	135	2.0	132	89	7	411	28	14	9	47	1.76

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