genome.fa.s5.2.7.7.80.10.50.1000.123.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  123  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)
37618853--37618942	28	3.2	28	83	0	108	26	23	11	38	1.88
37634022--37634054	16	2.1	16	100	0	66	54	21	0	24	1.45
37648239--37648334	51	1.9	50	84	2	129	30	23	16	29	1.96
37652698--37652881	29	6.3	29	83	2	226	35	10	27	26	1.90
37652724--37652895	87	2.0	87	95	0	308	34	11	27	25	1.91
37662012--37662127	62	1.9	61	84	5	155	50	6	1	41	1.37
37663514--37663547	15	2.3	15	100	0	68	44	20	0	35	1.52
37671877--37671990	57	1.9	56	84	10	147	28	22	26	22	1.99
37672139--37672267	67	1.9	67	93	0	222	20	17	33	28	1.95
37676090--37676129	20	2.0	20	100	0	80	30	5	20	45	1.72
37676485--37676767	23	12.3	23	81	4	295	21	14	19	44	1.86
37680563--37680715	63	2.5	61	79	5	148	47	10	13	28	1.75
37681090--37681175	19	4.2	20	82	10	104	55	4	0	39	1.20
37681173--37681216	9	4.6	9	81	13	52	65	2	2	29	1.16
37681325--37681355	16	1.9	16	93	0	53	35	6	9	48	1.62
37696336--37696374	20	2.0	20	94	0	69	43	15	12	28	1.83
37705758--37705793	2	18.0	2	100	0	72	50	0	0	50	1.00
37708511--37708541	13	2.5	12	94	5	53	3	12	0	83	0.75
37709654--37709710	21	2.8	21	78	2	62	28	24	24	22	2.00
37711018--37711073	28	2.0	28	85	0	76	35	14	1	48	1.54
37711030--37711092	13	4.7	13	75	13	56	30	12	1	55	1.47
37710974--37711128	41	3.8	42	80	7	169	35	14	2	47	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37712249--37712296	20	2.4	21	76	13	57	12	25	6	56	1.59
37712489--37712730	50	4.7	50	79	4	218	23	27	20	28	1.99
37714433--37714578	73	2.0	73	95	0	265	27	20	21	30	1.98
37716237--37716296	13	4.5	14	79	10	56	41	18	1	38	1.60
37716313--37716437	40	3.0	41	88	3	180	32	12	3	51	1.56
37716312--37716437	13	9.4	13	65	17	53	33	12	3	50	1.56
37716480--37716549	25	2.8	24	77	10	70	34	21	14	30	1.93
37720846--37721078	79	3.0	78	85	3	297	21	30	17	30	1.96
37720846--37721078	39	5.9	39	84	4	288	21	30	17	30	1.96
37733419--37733453	16	2.1	17	89	5	54	11	51	0	37	1.38
37741198--37741472	27	10.2	27	86	3	367	40	21	18	19	1.91
37752346--37752384	18	2.2	18	85	0	51	79	7	5	7	1.05
37753965--37754007	12	3.7	12	87	3	61	74	0	9	16	1.06
37753947--37753992	16	3.0	16	75	21	53	73	2	10	13	1.17
37753963--37754052	14	6.3	14	70	14	51	75	1	5	17	1.05
37755506--37755739	50	4.7	50	79	3	224	19	27	22	30	1.98
37763659--37763721	27	2.4	27	81	2	74	36	20	14	28	1.92
37769707--37769762	21	2.7	21	85	0	67	12	28	32	26	1.93
37772023--37772062	21	1.9	21	84	0	53	47	7	2	42	1.45
37781352--37781432	28	2.8	29	77	9	76	35	18	25	19	1.95
37782442--37782500	30	2.1	27	81	12	66	52	5	16	25	1.64
37791955--37792069	47	2.4	47	85	1	149	45	18	13	23	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37792435--37792493	29	2.0	29	96	0	91	30	22	13	33	1.92
37804422--37804460	20	1.9	21	94	5	71	33	20	7	38	1.81
37809401--37809648	50	4.9	50	83	5	266	28	20	29	22	1.98
37813523--37813694	51	3.4	48	79	7	155	25	14	27	32	1.95
37813697--37813791	45	2.1	45	88	0	145	28	16	23	31	1.96
37817154--37817183	13	2.3	13	94	0	51	43	3	0	53	1.17
37819360--37819399	15	2.7	15	84	3	55	27	0	0	72	0.85
37821020--37821080	29	2.1	29	84	6	79	34	13	19	32	1.90
37821355--37821442	29	3.0	29	82	9	99	35	4	26	34	1.77
37823669--37823703	16	2.1	17	89	5	54	37	0	51	11	1.38
37843324--37843462	39	3.6	39	87	3	199	45	17	3	33	1.66
37849279--37849349	33	2.1	34	84	7	92	26	21	25	26	1.99
37849317--37849422	28	3.8	28	85	0	149	29	21	25	23	1.99
37850196--37850246	26	2.0	26	92	0	84	39	25	21	13	1.90
37850379--37850620	27	9.0	27	85	0	313	15	20	21	42	1.89
37865497--37865529	11	3.0	11	95	0	57	21	9	6	63	1.45
37866634--37866875	50	4.7	50	76	5	175	28	21	26	23	1.99
37870239--37870391	27	5.7	27	75	9	143	20	19	18	41	1.91
37870240--37870390	53	2.8	54	80	7	173	20	19	18	41	1.91
37870239--37870391	80	1.9	81	82	6	195	20	19	18	41	1.91
37870240--37870409	80	2.1	81	80	5	184	20	19	18	41	1.90
37872007--37872405	27	14.9	27	79	3	394	19	18	20	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37872007--37872405	53	7.5	53	78	5	401	19	18	20	42	1.90
37872007--37872405	80	5.0	78	81	5	397	19	18	20	42	1.90
37873679--37873713	16	2.1	18	89	10	56	42	17	0	40	1.49
37894539--37894572	16	2.1	16	88	0	50	23	5	11	58	1.55
37910194--37910335	40	3.5	40	80	9	155	33	17	28	19	1.95
37918372--37918565	51	3.8	51	76	9	209	29	25	18	26	1.98
37918374--37918557	102	1.8	100	87	4	271	29	24	19	26	1.98
37920581--37920642	31	2.1	30	82	17	76	29	17	8	45	1.77
37920854--37920918	24	2.6	25	83	9	89	32	21	26	20	1.97
37920795--37920918	50	2.5	50	82	3	144	33	22	21	22	1.98
37938219--37938248	15	1.9	16	93	6	53	46	0	13	40	1.43
37945091--37945169	28	2.8	28	96	0	140	21	21	29	27	1.99
37948287--37948316	15	2.0	15	100	0	60	40	0	20	40	1.52
37949398--37949510	41	2.7	43	81	4	131	27	15	26	30	1.96
37952990--37953171	27	6.7	26	86	5	220	40	20	16	23	1.91
37952990--37953199	54	3.9	52	78	10	165	39	20	16	23	1.92
37954187--37954222	17	2.1	17	89	0	54	44	5	22	27	1.75
37957678--37957902	27	8.3	27	81	1	236	40	17	16	25	1.91
37957671--37957932	81	3.2	80	78	8	269	39	16	18	25	1.91
37961382--37961605	105	2.1	104	90	4	353	18	18	31	31	1.95
37966859--37966939	43	1.9	41	82	9	101	32	12	24	30	1.92
37980867--37980935	22	3.3	22	69	22	76	26	17	14	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37980854--37980935	40	2.0	40	100	0	164	28	18	14	39	1.90
37982859--37982898	21	1.9	21	85	10	55	27	5	2	65	1.27
37991224--37991253	6	5.0	6	91	0	51	33	3	0	63	1.11
38003946--38003989	3	14.7	3	100	0	88	65	0	0	34	0.93
38005686--38005770	9	9.4	9	75	14	86	37	22	10	29	1.88
38009551--38009587	18	2.1	17	90	5	56	54	8	0	37	1.30
38009959--38009996	4	9.8	4	88	5	60	2	23	0	73	0.95
38016944--38017016	36	2.0	36	92	5	121	31	31	1	35	1.67
38018874--38018925	17	3.1	17	77	8	52	38	11	0	50	1.39
38019322--38019545	24	9.5	22	72	11	142	28	19	15	37	1.92
38019322--38019544	48	4.7	46	80	10	236	28	19	15	37	1.92
38019465--38019532	23	2.9	23	76	10	75	27	20	17	33	1.95
38019552--38019633	30	2.7	30	86	0	110	26	24	20	28	1.99
38019552--38019633	15	5.5	15	80	0	92	26	24	20	28	1.99
38021196--38021222	2	13.5	2	100	0	54	51	0	0	48	1.00
38032796--38032826	16	1.9	16	93	0	53	35	19	16	29	1.93
38041493--38041563	27	2.6	27	80	8	83	22	22	26	28	1.99
38045816--38045885	25	2.8	25	74	8	79	22	18	27	31	1.97
38053027--38053108	25	3.3	25	78	0	83	23	20	20	35	1.96
38054680--38054918	40	6.0	40	83	1	282	35	17	29	17	1.93
38054678--38054918	120	2.0	120	87	1	349	35	17	29	17	1.93
38054758--38054902	20	7.2	20	68	14	84	33	17	33	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38067317--38067510	27	7.2	27	84	4	232	42	19	15	22	1.89
38067317--38067510	81	2.4	81	86	3	266	42	19	15	22	1.89
38082344--38082406	31	2.0	31	100	0	126	33	19	6	41	1.76
38085011--38085063	27	1.9	28	84	3	72	47	1	7	43	1.42
38085011--38085070	27	2.2	28	81	3	68	46	1	8	43	1.43
38087184--38087212	9	3.0	10	90	10	51	82	0	6	10	0.83
38091035--38091104	26	2.8	25	69	20	58	25	1	22	50	1.58
38095521--38095745	27	8.4	27	81	1	166	34	19	20	25	1.96
38095533--38095746	54	4.0	54	79	4	202	34	19	20	25	1.96
38095521--38095745	81	2.8	81	79	2	231	34	19	20	25	1.96

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