genome.fa.s10.2.7.7.80.10.50.1000.90.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  90  of  172  ( 20562 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)
30150637--30150779	51	2.9	47	79	13	146	59	0	5	34	1.26
30150712--30150761	5	10.0	5	75	16	50	64	0	2	34	1.05
30150548--30150747	89	2.2	89	80	10	210	58	0	7	34	1.25
30150688--30150767	18	4.8	17	72	17	60	61	1	6	31	1.29
30150748--30150807	26	2.3	26	86	8	79	61	5	0	33	1.17
30152388--30152470	43	1.9	43	82	2	103	25	30	18	26	1.98
30152433--30152989	207	2.7	206	88	3	839	28	22	18	31	1.97
30166830--30166894	25	2.6	25	79	13	71	27	13	23	35	1.93
30168938--30168972	18	1.9	18	100	0	70	28	17	31	22	1.96
30170692--30171297	199	3.0	199	99	0	1185	26	21	18	33	1.97
30173044--30173203	43	3.7	42	76	11	137	24	18	27	30	1.98
30183026--30183076	16	3.2	16	72	5	50	54	11	0	33	1.37
30184319--30184354	19	1.9	19	88	5	56	80	2	5	11	0.98
30194584--30194634	26	2.0	26	84	0	66	35	17	9	37	1.83
30197939--30198115	27	6.5	27	82	5	169	28	28	16	25	1.97
30197960--30198119	82	2.0	81	87	3	232	28	29	16	25	1.97
30199027--30199056	15	2.0	15	100	0	60	13	13	6	66	1.43
30203362--30203463	50	2.0	50	98	0	195	19	25	34	20	1.96
30206179--30206356	27	6.6	27	84	5	180	29	28	15	26	1.96
30206200--30206355	82	1.9	81	88	3	233	29	28	15	26	1.96
30210965--30211059	40	2.4	39	80	7	102	26	26	15	31	1.96
30215122--30215182	26	2.3	26	85	0	77	36	27	9	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30215287--30215376	28	3.3	28	83	7	105	21	22	22	34	1.97
30215286--30215401	27	4.3	27	80	11	121	20	22	21	35	1.96
30221548--30221643	40	2.4	39	82	3	120	28	26	15	30	1.96
30224375--30224609	20	11.8	20	68	10	115	18	30	15	35	1.92
30224361--30224609	40	6.2	40	84	0	329	18	29	15	36	1.92
30224462--30224627	20	8.2	20	68	7	86	15	29	19	35	1.92
30229636--30229674	21	1.9	20	89	5	60	33	0	20	46	1.51
30236871--30237042	93	1.8	93	93	0	299	29	29	20	20	1.98
30236864--30237039	46	3.8	46	79	12	207	30	29	19	20	1.97
30239322--30239454	27	4.9	26	77	6	115	35	21	11	32	1.89
30239404--30239492	27	3.3	26	79	6	79	39	13	12	34	1.82
30239292--30239475	54	3.4	53	74	7	156	36	19	12	30	1.89
30240930--30241029	50	2.0	50	98	0	191	31	18	23	28	1.97
30243643--30243690	25	1.9	25	86	0	69	31	22	18	27	1.97
30243802--30243923	26	4.7	26	91	2	185	27	21	25	26	1.99
30244987--30245019	17	1.9	17	88	11	50	60	12	6	21	1.53
30245895--30246060	47	3.5	47	92	1	271	36	15	24	24	1.93
30271037--30271212	46	3.8	46	77	12	198	21	20	28	29	1.98
30271034--30271205	93	1.8	93	93	0	299	21	20	29	28	1.98
30279496--30279553	11	5.6	11	68	15	52	37	12	17	32	1.86
30279485--30279553	20	3.5	20	89	0	111	36	11	18	33	1.87
30279601--30279747	24	6.2	23	82	7	143	29	21	20	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30279602--30279745	47	3.1	46	80	2	162	29	22	20	28	1.98
30279601--30279747	71	2.1	71	85	0	195	29	21	20	27	1.98
30279960--30280023	31	2.1	31	87	0	92	37	15	21	25	1.93
30282390--30282455	29	2.3	29	86	5	89	25	15	33	25	1.95
30290040--30290137	27	3.5	28	87	2	126	27	13	27	31	1.94
30290066--30290150	27	3.1	27	86	5	91	31	11	23	32	1.91
30299600--30299646	20	2.3	20	96	0	85	34	10	21	34	1.88
30299696--30299841	24	6.2	23	87	4	202	30	23	19	26	1.98
30299696--30299841	47	3.1	47	87	3	204	30	23	19	26	1.98
30299696--30299841	71	2.1	71	92	0	238	30	23	19	26	1.98
30300055--30300118	31	2.1	31	87	0	92	37	15	21	25	1.93
30304732--30304777	20	2.3	21	88	7	69	71	0	4	23	1.03
30304864--30305043	3	60.3	3	75	7	134	61	3	6	28	1.39
30306016--30306121	46	2.3	46	75	1	106	31	16	18	33	1.93
30305921--30306254	179	1.9	179	86	2	483	28	18	21	31	1.97
30305963--30306519	89	6.2	88	72	6	325	28	21	19	31	1.97
30306167--30306519	134	2.6	134	75	7	349	27	23	17	30	1.97
30306010--30306519	179	2.9	176	79	5	488	28	21	18	31	1.97
30306230--30306515	45	6.4	45	76	5	231	28	23	17	30	1.97
30310019--30310148	66	1.9	68	81	10	158	33	15	30	20	1.94
30317519--30317648	66	1.9	67	84	10	174	33	15	30	20	1.94
30325070--30325113	15	2.9	15	86	0	70	54	13	15	15	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30332192--30332236	10	4.4	10	80	5	54	13	20	22	44	1.85
30332182--30332227	20	2.2	21	84	3	58	15	21	21	41	1.90
30332189--30332241	21	2.6	21	88	5	74	13	16	20	49	1.79
30332457--30332487	15	2.1	15	93	0	53	29	0	0	70	0.87
30332588--30332635	21	2.2	23	82	14	57	33	6	25	35	1.81
30335751--30335807	22	2.5	22	83	11	71	71	1	21	5	1.14
30335749--30335807	15	3.6	16	81	11	57	71	1	22	5	1.15
30338336--30338422	27	3.3	26	83	4	111	18	22	22	35	1.95
30340857--30341038	100	1.8	101	90	1	294	24	18	25	31	1.97
30345116--30345184	34	2.1	33	89	10	113	34	11	28	23	1.90
30348056--30348245	50	3.8	49	73	8	168	25	20	24	28	1.99
30354433--30354493	30	2.0	30	84	6	79	27	26	8	37	1.85
30364065--30364152	27	3.3	26	85	4	113	18	20	22	38	1.93
30365273--30365321	21	2.4	20	82	3	62	12	18	22	46	1.82
30367708--30367953	134	1.8	134	87	1	368	28	22	17	31	1.97
30367747--30368004	134	1.9	134	82	3	322	28	23	15	32	1.96
30374384--30374556	46	3.7	46	79	10	208	22	20	27	30	1.98
30374381--30374551	93	1.8	93	93	0	297	22	20	28	29	1.98
30376494--30376550	25	2.2	25	84	3	69	38	14	8	38	1.77
30378721--30378747	2	13.5	2	100	0	54	51	48	0	0	1.00
30382748--30382820	9	8.6	9	71	25	61	24	0	19	56	1.42
30382767--30382820	23	2.5	22	87	6	74	25	0	18	55	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30385622--30385682	30	2.0	30	83	0	77	31	24	8	36	1.85
30390066--30390126	30	2.0	30	83	0	77	32	22	6	37	1.80
30391943--30392002	28	2.1	29	84	9	79	30	23	6	40	1.80
30396013--30396062	18	2.8	18	77	19	52	58	2	32	8	1.39
30397350--30397416	27	2.5	27	87	0	89	35	20	20	22	1.96
30398158--30398217	27	2.3	26	85	2	75	21	23	20	35	1.96
30404821--30404878	27	2.1	27	93	0	98	32	20	24	22	1.98
30415666--30415699	16	2.1	16	100	0	68	38	11	32	17	1.86
30416265--30416398	54	2.5	54	97	1	252	32	27	18	21	1.97
30419374--30419417	15	2.9	15	82	0	61	56	11	13	18	1.66
30423839--30424291	39	11.5	40	94	3	451	24	29	22	23	1.99
30423841--30424243	39	10.3	39	97	0	727	23	30	22	23	1.99
30424304--30425069	64	12.0	64	100	0	1532	40	20	7	31	1.81
30429440--30429496	30	1.9	30	100	0	114	21	10	14	54	1.69
30434874--30434975	20	5.1	20	65	9	64	27	20	29	22	1.99
30434874--30435094	40	5.5	40	81	2	230	30	18	28	21	1.97
30434871--30435094	120	1.9	120	85	3	317	31	18	28	21	1.97
30436334--30436376	21	2.0	21	90	0	68	44	16	23	16	1.86
30437321--30437363	21	2.0	21	86	0	59	32	0	13	53	1.41
30438307--30438371	29	2.2	29	83	8	78	52	10	6	30	1.61
30441725--30441756	15	2.1	15	100	0	64	31	37	0	31	1.58
30443050--30443160	56	2.0	56	92	0	186	34	8	14	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30445191--30445541	173	2.0	175	96	1	643	31	8	19	41	1.81
30450009--30450040	13	2.5	13	94	0	55	25	31	28	15	1.96
30452454--30453391	28	33.5	28	92	0	1563	25	10	28	35	1.90
30452454--30453391	56	16.8	56	99	0	1806	25	10	28	35	1.90
30458028--30458138	43	2.6	43	82	2	134	29	26	17	27	1.97
30458763--30458802	21	1.9	21	84	0	53	45	22	2	30	1.66
30465702--30465851	67	2.2	67	81	8	171	32	17	28	21	1.96
30465726--30465909	67	2.8	64	77	8	194	29	17	29	22	1.97
30469197--30469279	41	2.0	41	97	0	157	31	13	14	40	1.84
30470434--30470465	5	6.4	5	92	0	55	21	3	0	75	0.95

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