genome.fa.s5.2.7.7.80.10.50.1000.57.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  57  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)
16187127--16187165	18	2.2	18	100	0	78	69	15	10	5	1.34
16192062--16192162	20	5.6	18	70	20	61	49	6	1	41	1.41
16192069--16192203	68	2.0	69	88	1	200	49	5	3	40	1.45
16198879--16198933	24	2.3	24	79	14	60	58	5	1	34	1.32
16200594--16200663	3	23.3	3	91	0	113	68	1	28	1	1.06
16201377--16201409	3	11.0	3	100	0	66	0	33	0	66	0.92
16201408--16201437	3	10.0	3	100	0	60	33	33	0	33	1.58
16202038--16202079	3	14.3	3	90	5	68	0	30	0	69	0.89
16202204--16202270	31	2.2	31	86	7	93	26	8	17	46	1.78
16202850--16202918	31	2.3	30	82	7	77	26	10	20	43	1.83
16201426--16203776	638	3.7	641	93	2	3953	30	14	17	37	1.90
16203478--16203546	31	2.3	31	85	7	88	26	8	20	44	1.80
16206468--16206526	6	8.4	7	82	14	52	44	0	0	55	0.99
16218231--16218284	26	2.1	26	89	0	81	9	9	14	66	1.43
16220856--16221048	95	2.0	95	96	0	359	26	23	19	30	1.98
16226773--16226857	27	3.2	27	75	12	104	36	16	21	25	1.94
16226765--16226895	52	2.5	52	87	2	174	35	18	22	22	1.95
16226765--16226839	25	2.9	26	77	11	82	34	17	25	22	1.96
16226994--16227040	24	2.0	24	82	0	58	38	19	23	19	1.93
16226896--16227242	153	2.3	153	96	0	640	33	19	24	22	1.97
16227117--16227186	24	2.9	24	84	2	86	34	18	27	20	1.96
16227140--16227194	24	2.3	24	83	0	65	36	18	29	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16234483--16234554	25	2.9	25	81	2	83	34	22	23	19	1.96
16234522--16234603	24	3.4	25	73	9	71	36	23	23	17	1.94
16235858--16235925	15	4.2	16	81	12	70	75	4	1	19	1.06
16235972--16236005	13	2.4	15	90	9	54	52	0	5	41	1.25
16237526--16237560	18	1.9	18	88	0	52	20	22	28	28	1.98
16238083--16238887	44	18.6	44	74	9	638	30	24	16	28	1.96
16238345--16238407	32	2.0	32	87	0	90	31	23	15	28	1.96
16238377--16238857	132	3.6	132	90	1	707	29	25	16	28	1.96
16252974--16253096	25	5.0	24	75	5	86	33	22	25	18	1.97
16253012--16253096	24	3.5	24	77	7	91	35	22	25	16	1.95
16254343--16254396	23	2.2	23	87	9	72	81	3	0	14	0.82
16254343--16254396	8	6.6	8	82	8	65	81	3	0	14	0.82
16254341--16254404	15	4.3	15	79	13	62	79	3	0	17	0.85
16254374--16254411	20	1.9	19	89	5	58	81	2	2	13	0.90
16256031--16256065	18	1.9	18	88	0	52	20	22	28	28	1.98
16262679--16262744	25	2.7	25	83	2	80	25	24	19	30	1.98
16262690--16262756	25	2.7	25	86	4	82	28	23	22	25	1.99
16267219--16267262	20	2.2	20	91	0	70	38	4	2	54	1.33
16277123--16277268	74	2.0	75	95	1	267	34	9	30	25	1.88
16277532--16277577	24	1.9	24	86	0	65	45	17	26	10	1.81
16285810--16285917	45	2.4	44	82	13	132	30	18	27	23	1.98
16285885--16286120	128	1.9	126	90	3	384	30	19	20	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16285885--16286210	86	3.8	87	81	6	295	30	19	21	29	1.97
16285883--16286309	214	2.0	214	90	0	674	30	19	21	28	1.98
16285851--16286309	44	10.7	43	72	8	299	30	19	22	27	1.98
16286099--16286383	128	2.2	128	86	0	390	28	20	22	28	1.99
16287981--16288029	22	2.1	25	85	11	68	30	2	4	63	1.24
16290272--16290323	26	2.0	26	100	0	104	26	3	26	42	1.73
16295996--16296024	12	2.4	12	100	0	58	20	17	6	55	1.65
16296273--16296512	50	4.7	50	81	4	239	22	28	22	25	1.99
16301444--16301489	24	1.9	24	100	0	92	17	23	21	36	1.94
16303564--16303592	12	2.4	12	100	0	58	20	17	6	55	1.65
16303841--16304080	50	4.7	50	82	3	255	21	28	22	27	1.99
16303791--16304080	50	5.7	50	79	4	235	22	27	22	28	1.99
16305389--16305898	140	3.6	139	84	0	624	27	18	21	32	1.96
16307471--16307507	5	7.2	5	90	3	56	0	56	40	2	1.13
16307607--16307778	86	2.0	85	84	10	226	47	6	5	40	1.53
16307767--16307806	17	2.4	17	87	8	55	45	7	15	32	1.74
16307824--16307880	16	3.6	16	90	0	87	45	3	3	47	1.37
16309517--16309750	35	6.5	34	74	15	177	21	18	17	42	1.89
16309527--16309817	37	7.9	35	74	13	155	21	18	17	42	1.89
16309514--16309750	73	3.3	72	79	9	259	21	18	17	42	1.89
16314733--16314787	9	5.9	9	91	4	74	23	34	1	40	1.66
16314733--16314779	10	4.9	10	94	2	71	25	34	0	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16314733--16314787	19	2.9	19	86	7	76	23	34	1	40	1.66
16315875--16315978	51	2.0	51	100	0	208	26	13	21	38	1.90
16320063--16320525	232	2.0	232	93	0	793	27	26	16	29	1.97
16321016--16321069	28	1.9	28	84	0	72	55	12	9	22	1.65
16327995--16328026	15	2.1	15	100	0	64	53	12	6	28	1.62
16337306--16337332	5	5.4	5	100	0	54	81	0	0	18	0.69
16344259--16344439	43	4.2	43	89	0	272	33	25	16	24	1.96
16344555--16344636	31	2.7	30	81	3	92	42	17	9	30	1.81
16347525--16347560	18	2.0	18	100	0	72	50	11	11	27	1.72
16350753--16350977	110	2.0	110	99	0	441	24	7	23	44	1.79
16357411--16357441	15	2.1	15	93	0	53	38	12	9	38	1.77
16360238--16360285	25	1.9	25	86	0	69	37	4	25	33	1.75
16360383--16360407	13	1.9	13	100	0	50	52	8	0	40	1.31
16361241--16361449	102	2.0	102	92	0	346	34	22	6	35	1.80
16364912--16364968	30	1.9	30	96	0	105	29	5	29	35	1.79
16364907--16364976	30	2.3	30	87	0	104	25	5	28	40	1.78
16368732--16368761	16	1.9	16	93	6	53	50	20	0	30	1.49
16370923--16370971	25	2.0	25	87	0	71	34	24	16	24	1.95
16370953--16371021	25	2.8	25	73	4	68	30	21	23	24	1.99
16380787--16380842	22	2.5	22	85	0	76	39	17	28	14	1.89
16389335--16389383	15	3.3	15	72	11	55	30	24	20	24	1.98
16390064--16390105	21	2.0	22	90	4	68	26	4	9	59	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16391166--16391193	14	2.0	14	100	0	56	50	0	7	42	1.30
16393799--16393823	10	2.5	10	100	0	50	80	0	0	20	0.72
16395807--16395848	23	2.0	22	86	13	61	42	4	7	45	1.52
16397844--16397908	30	2.2	30	85	0	85	26	33	24	15	1.95
16402855--16402896	13	3.2	13	83	12	50	16	7	0	76	1.00
16402848--16402896	21	2.3	21	89	10	73	18	6	0	75	1.00
16404245--16404273	12	2.4	12	100	0	58	6	6	17	68	1.34
16424037--16424098	24	2.5	24	82	7	72	48	0	3	48	1.17
16424641--16424701	18	3.3	18	82	11	79	70	3	18	8	1.26
16424650--16424701	9	5.8	9	79	0	50	73	3	17	5	1.19
16426023--16426059	2	18.5	2	94	0	65	0	45	0	54	1.00
16432081--16432161	40	2.0	40	100	0	162	24	12	12	50	1.74
16436464--16436497	17	2.0	17	94	0	59	52	8	17	20	1.71
16441465--16441493	13	2.1	14	93	6	51	10	6	13	68	1.37
16448291--16448322	16	2.1	16	94	5	57	84	0	15	0	0.63
16449537--16449625	46	1.9	46	100	0	178	32	19	4	43	1.71
16453991--16454050	28	2.2	27	84	3	75	23	25	23	28	2.00
16455689--16455714	12	2.2	12	100	0	52	34	7	7	50	1.60
16463774--16463823	21	2.4	21	83	3	66	50	14	2	34	1.54
16463777--16463823	10	4.6	10	89	5	67	51	12	2	34	1.52
16473880--16474859	27	36.4	27	80	7	851	43	18	16	21	1.88
16473880--16474858	81	12.1	80	80	8	963	43	18	16	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16475247--16475420	28	6.2	29	87	5	243	24	22	22	30	1.99
16475259--16475420	84	1.9	84	92	0	270	22	22	24	30	1.99
16475419--16475481	33	1.9	33	96	0	117	31	23	19	25	1.98
16478607--16478717	45	2.5	45	84	0	150	25	18	18	38	1.92
16481053--16481123	36	2.0	36	86	5	99	30	16	16	35	1.92
16484304--16484333	16	1.9	15	93	6	51	46	16	10	26	1.78
16506385--16506450	33	2.0	33	96	0	123	45	16	16	21	1.85
16507762--16507989	43	5.4	41	79	9	219	35	26	15	22	1.94
16507762--16507988	42	5.4	43	79	9	227	36	25	15	22	1.94
16507762--16507989	85	2.7	85	88	2	334	35	26	15	22	1.94

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