genome.fa.s5.2.7.7.80.10.50.1000.163.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  163  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)
49762217--49762250	18	1.9	18	88	5	52	67	2	0	29	1.05
49769828--49769874	25	1.9	25	91	4	78	31	0	0	68	0.90
49769824--49769874	12	4.1	13	90	7	79	33	0	0	66	0.92
49770010--49770054	24	1.9	23	81	4	54	35	2	4	57	1.31
49779079--49779163	27	3.1	27	88	6	127	20	16	21	42	1.89
49785050--49785084	14	2.5	14	95	0	61	34	5	25	34	1.80
49792517--49792553	9	4.1	9	89	0	56	45	10	10	32	1.74
49798242--49798297	28	2.0	28	100	0	112	35	3	25	35	1.73
49798718--49798857	51	2.7	52	94	2	255	23	10	28	37	1.87
49798860--49799265	125	3.2	124	92	3	638	30	16	22	31	1.96
49800431--49800492	23	2.7	23	100	0	124	33	0	24	41	1.55
49800434--49800797	29	12.5	29	82	11	410	31	0	23	44	1.54
49800447--49800797	63	5.9	61	81	9	363	32	0	23	44	1.54
49800431--49800718	28	10.2	25	77	16	125	33	0	22	44	1.53
49800875--49800899	7	3.6	7	100	0	50	60	12	0	28	1.32
49801988--49802046	29	2.0	29	90	6	93	55	1	0	42	1.09
49802077--49802182	52	2.1	51	85	1	140	33	1	31	33	1.69
49802135--49802203	22	3.1	22	87	0	102	39	1	27	31	1.66
49802420--49802473	29	1.9	27	85	7	72	40	18	14	25	1.89
49806393--49806509	25	4.7	25	73	16	71	29	21	23	26	1.99
49808414--49808519	36	2.9	36	97	0	194	38	15	14	32	1.87
49814524--49814635	44	2.5	44	86	0	161	30	24	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49814562--49815158	44	13.8	44	72	11	330	26	20	21	31	1.98
49814560--49815113	129	4.3	129	87	1	741	26	20	21	31	1.98
49814744--49815162	85	4.9	85	75	9	375	26	20	22	30	1.98
49815166--49815581	101	4.2	100	89	1	584	25	23	22	28	1.99
49815196--49815578	50	7.7	50	73	2	259	25	24	23	27	2.00
49817977--49818080	42	2.5	42	96	0	190	32	27	16	23	1.96
49818092--49818143	26	2.0	27	92	3	88	30	30	21	17	1.96
49817875--49818143	144	1.9	144	93	0	468	31	28	19	21	1.97
49818413--49818565	22	7.0	22	90	0	225	32	14	26	26	1.94
49820042--49820091	12	4.4	11	80	14	57	2	6	6	86	0.79
49820058--49820102	15	2.9	16	83	12	58	0	8	11	80	0.92
49820058--49820102	8	5.9	8	89	7	67	0	8	11	80	0.92
49829591--49829697	25	4.3	25	80	11	112	28	23	25	22	1.99
49829585--49829698	50	2.3	51	89	3	169	28	23	25	21	1.99
49842665--49842705	20	2.0	20	86	9	57	73	0	0	26	0.84
49853122--49853161	22	2.0	20	85	14	55	37	0	2	60	1.11
49856629--49856686	19	2.7	22	84	10	68	36	8	17	37	1.80
49858387--49858430	22	2.0	22	86	0	61	36	4	0	59	1.18
49863776--49863858	41	2.0	41	97	0	157	22	18	26	32	1.97
49873266--49873320	27	2.0	27	96	0	101	50	10	7	30	1.64
49876918--49876950	16	2.1	16	94	0	57	39	12	9	39	1.74
49878493--49878561	33	2.1	33	94	0	120	26	23	5	44	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49885321--49885381	22	2.7	23	82	12	74	19	22	21	36	1.95
49889184--49889210	8	3.4	8	100	0	54	51	0	11	37	1.37
49890307--49890341	13	2.7	13	95	0	61	40	45	0	14	1.45
49890448--49890541	9	10.4	9	83	4	109	24	9	24	41	1.84
49890456--49890541	18	4.8	18	87	5	120	23	10	24	41	1.85
49890603--49890682	29	2.8	29	94	0	142	32	6	17	43	1.74
49890730--49890754	12	2.1	12	100	0	50	16	24	36	24	1.94
49891887--49891918	8	4.0	8	91	0	55	50	21	0	28	1.49
49891934--49891962	14	2.1	14	100	0	58	41	0	6	51	1.28
49900220--49900257	16	2.4	16	95	0	67	36	2	34	26	1.71
49900239--49900331	44	2.1	44	84	9	118	32	5	27	34	1.80
49900852--49900885	17	2.0	17	100	0	68	58	0	0	41	0.98
49900740--49900927	53	3.1	63	66	25	168	52	4	1	42	1.30
49900912--49900955	21	2.1	21	83	8	54	59	6	0	34	1.24
49903210--49903280	27	2.5	29	88	8	103	43	9	0	46	1.37
49903344--49903420	27	2.9	27	94	0	127	28	29	28	12	1.94
49903343--49903436	27	3.5	26	84	8	82	28	28	28	13	1.95
49903519--49903557	11	3.6	11	86	6	62	71	0	28	0	0.86
49903518--49903556	21	1.9	20	94	5	69	69	0	30	0	0.89
49903684--49903733	3	16.7	3	100	0	100	0	0	32	68	0.90
49904536--49904572	18	2.1	18	94	0	65	32	8	48	10	1.67
49910405--49910482	18	4.4	17	76	10	66	0	37	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49910437--49910491	22	2.5	22	96	3	101	0	45	0	54	0.99
49910522--49910590	27	2.6	27	90	0	111	15	28	27	27	1.96
49910655--49910721	27	2.3	29	90	7	102	47	0	10	41	1.38
49915694--49915767	29	2.5	29	86	4	94	48	14	14	21	1.80
49937128--49937163	19	1.9	18	88	5	54	69	2	0	27	1.02
49937344--49937450	34	3.1	34	62	10	83	51	11	8	28	1.67
49937332--49937468	68	2.0	68	97	0	256	51	10	9	27	1.68
49939484--49939532	26	1.9	26	83	4	64	63	2	14	20	1.40
49941131--49941164	17	2.1	16	88	5	50	52	5	17	23	1.66
49943257--49943313	24	2.4	24	82	5	71	17	33	15	33	1.92
49943276--49943358	24	3.4	25	77	12	75	19	28	19	32	1.96
49943404--49943488	26	3.4	25	80	6	91	15	25	23	35	1.94
49943419--49943557	25	5.7	24	77	5	91	16	25	24	33	1.96
49943518--49943565	24	2.0	24	87	0	69	18	20	25	35	1.95
49946022--49946148	33	4.0	33	77	5	129	40	12	24	22	1.89
49946068--49946155	28	3.0	28	74	14	79	39	11	25	23	1.88
49947513--49947554	16	2.5	17	80	7	50	23	7	2	66	1.28
49949519--49949606	41	2.2	40	81	4	104	57	4	4	32	1.39
49957574--49957607	16	2.2	16	89	5	52	26	0	14	58	1.36
49958707--49958788	43	1.9	43	85	5	112	18	23	28	30	1.97
49959092--49959125	2	17.0	2	100	0	68	50	0	0	50	1.00
49962539--49962650	21	5.3	21	72	0	98	14	20	17	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49962523--49962671	42	3.5	42	86	0	208	16	20	18	44	1.86
49962610--49962692	21	4.0	21	76	7	73	16	22	19	40	1.91
49964741--49964769	12	2.3	13	94	5	51	44	6	0	48	1.29
49965388--49965418	10	2.9	11	90	9	55	0	9	0	90	0.46
49965387--49965420	16	2.1	16	88	0	50	0	14	0	85	0.60
49965737--49965792	18	3.2	17	85	12	69	3	16	0	80	0.85
49965743--49965785	14	3.3	13	81	9	52	2	16	0	81	0.79
49965743--49965797	13	4.2	13	80	17	53	1	18	0	80	0.81
49965866--49965920	20	2.7	20	81	16	67	1	30	0	67	1.01
49968403--49968605	21	9.8	21	66	6	92	16	23	16	43	1.87
49968390--49968590	42	4.8	42	82	4	217	16	23	16	43	1.87
49973117--49973176	26	2.3	26	88	5	86	30	10	13	46	1.75
49979804--49979832	14	2.1	14	93	6	51	6	6	17	68	1.34
49982071--49982124	10	5.2	10	80	8	63	11	14	14	59	1.62
49982069--49982124	21	2.7	21	97	0	103	10	14	14	60	1.58
49982069--49982118	11	4.8	10	80	9	64	10	12	14	64	1.51
49987203--49987266	24	2.7	24	90	4	94	35	4	9	50	1.56
49991680--49991725	23	2.0	23	91	0	74	34	4	8	52	1.52
49991680--49991740	23	2.6	23	84	7	61	34	4	9	50	1.57
49998879--49998903	5	5.0	5	100	0	50	40	20	20	20	1.92
50004303--50004354	3	17.3	3	100	0	104	32	34	0	32	1.58
50007717--50007788	19	3.7	19	85	7	99	33	11	16	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50011392--50011478	20	4.6	19	73	17	74	48	5	3	42	1.44
50015739--50015773	16	2.1	17	89	5	54	37	0	51	11	1.38
50028189--50028240	25	2.0	26	82	10	63	38	13	9	38	1.77
50028349--50028458	54	2.0	54	83	10	136	50	3	1	43	1.30
50028435--50028486	20	2.8	18	78	21	63	51	1	1	44	1.23
50030079--50030111	16	2.1	16	94	0	57	66	6	12	15	1.42
50033802--50033905	51	2.0	52	92	1	174	40	2	20	36	1.67
50042335--50042404	25	2.7	26	82	8	81	38	11	15	34	1.84
50053229--50053279	24	2.1	24	100	0	102	21	11	29	37	1.89
50064011--50064035	10	2.5	10	100	0	50	28	0	0	72	0.86

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