genome.fa.s5.2.7.7.80.10.50.1000.54.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  54  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)
15269692--15269725	16	2.1	16	88	0	50	61	17	8	11	1.54
15275499--15275664	51	3.3	50	83	4	190	31	27	15	26	1.95
15282680--15282727	17	2.7	18	83	6	62	22	4	0	72	1.01
15282792--15282825	17	2.1	16	89	10	52	26	5	8	58	1.51
15289339--15289503	35	4.7	35	77	5	131	35	36	5	22	1.77
15289328--15289503	69	2.6	67	73	8	174	35	35	5	24	1.78
15292601--15292644	23	1.9	23	85	0	61	47	0	9	43	1.35
15294271--15294310	19	2.1	19	95	0	71	32	15	25	27	1.95
15302814--15302925	43	2.6	43	92	0	179	33	19	4	41	1.72
15317695--15317959	29	9.1	29	81	0	251	26	17	20	35	1.95
15317695--15317959	58	4.6	58	81	1	280	26	17	20	35	1.95
15317695--15317969	87	3.2	85	81	5	282	26	17	20	35	1.95
15321106--15321131	5	5.2	5	100	0	52	61	19	0	19	1.35
15323394--15323446	16	3.4	15	78	14	54	75	7	5	11	1.18
15330401--15330430	15	2.0	15	100	0	60	40	26	13	20	1.89
15334430--15334463	9	3.8	9	84	0	50	47	14	8	29	1.75
15349581--15349630	26	1.9	26	84	8	66	56	0	0	44	0.99
15349584--15349624	18	2.2	19	91	4	66	53	0	0	46	1.00
15366224--15366297	37	2.0	37	97	0	139	41	8	22	27	1.82
15368238--15368294	30	1.9	29	89	3	87	31	33	22	12	1.91
15377319--15377349	12	2.6	12	94	0	53	25	3	0	70	1.02
15377576--15377619	22	2.0	22	100	0	88	18	4	40	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15382347--15382377	9	3.4	9	100	0	62	41	9	12	35	1.76
15393339--15393383	17	2.8	16	83	13	56	31	2	0	66	1.04
15393348--15393386	15	2.6	16	84	8	55	35	0	0	64	0.94
15410953--15410991	20	2.0	20	94	0	69	2	7	10	79	1.02
15426426--15426578	56	2.7	56	84	2	209	45	18	4	30	1.70
15430065--15430221	56	2.8	56	91	2	253	43	16	8	30	1.78
15432590--15432916	163	2.0	163	99	0	645	26	25	8	39	1.84
15437479--15437614	29	4.6	29	72	11	89	40	18	13	27	1.89
15441079--15441134	24	2.3	24	84	9	69	19	25	10	44	1.83
15441087--15441134	24	2.0	25	87	4	71	18	22	10	47	1.79
15445236--15445571	29	11.6	29	83	2	327	22	25	13	38	1.90
15445234--15445599	58	6.3	58	80	1	392	23	25	13	38	1.90
15445233--15445599	87	4.2	86	79	5	380	23	25	13	38	1.90
15446975--15447130	73	2.1	74	91	1	251	41	10	26	21	1.86
15449674--15449855	97	1.9	97	94	0	319	32	24	10	32	1.89
15455595--15455642	21	2.3	20	82	6	60	6	4	20	68	1.28
15455601--15455642	21	2.0	21	90	0	66	4	2	21	71	1.16
15463151--15463528	126	3.0	126	94	0	648	37	16	17	29	1.91
15473692--15473762	35	2.0	35	94	0	124	32	29	7	30	1.84
15474054--15474081	9	3.1	9	100	0	56	21	10	10	57	1.63
15476500--15476560	20	3.1	20	73	2	61	24	19	27	27	1.99
15477370--15477430	30	2.0	30	90	0	95	45	4	18	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15478847--15478897	26	2.0	26	88	0	75	27	17	19	35	1.94
15478958--15479015	29	2.0	29	89	0	89	24	13	22	39	1.90
15481099--15481156	25	2.3	26	78	3	64	39	12	13	34	1.82
15502046--15502124	30	2.5	31	84	10	99	44	10	18	26	1.82
15502053--15502110	31	1.9	30	89	3	89	46	12	18	22	1.82
15503877--15503917	21	2.0	21	85	4	57	19	0	43	36	1.51
15503909--15503957	7	6.9	7	76	4	53	20	0	46	32	1.51
15503905--15503972	15	4.7	15	80	10	63	22	0	44	33	1.53
15509004--15509158	43	3.6	41	86	5	175	24	17	25	32	1.96
15509252--15509294	22	2.0	22	90	0	68	41	25	20	11	1.86
15511519--15511571	26	2.0	26	85	0	70	41	26	18	13	1.87
15522060--15522124	31	2.1	31	91	0	103	41	13	12	32	1.82
15524170--15524211	16	2.8	15	89	10	68	66	11	0	21	1.23
15524181--15524227	19	2.3	21	89	10	71	63	14	0	21	1.30
15525163--15525197	2	17.5	2	100	0	70	51	0	0	48	1.00
15525412--15525483	30	2.4	30	85	0	99	29	25	12	33	1.92
15525514--15525622	49	2.2	49	82	11	125	9	55	2	33	1.46
15527275--15527474	110	1.8	111	90	1	321	32	23	14	30	1.94
15528624--15528727	8	14.0	7	73	23	56	73	0	4	22	1.02
15528622--15528714	20	4.8	19	77	22	88	73	0	4	22	1.01
15528639--15528725	5	16.4	5	73	17	61	74	0	4	20	0.99
15528622--15528724	54	1.9	53	88	5	154	73	0	4	21	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15528632--15528724	16	5.4	17	75	20	86	74	0	4	21	0.99
15528622--15528727	16	6.3	16	72	20	67	73	0	4	21	1.01
15532449--15532477	10	2.9	10	100	0	58	72	0	10	17	1.11
15533517--15533573	30	1.9	30	88	0	87	31	12	22	33	1.91
15534261--15534286	2	13.0	2	100	0	52	50	0	0	50	1.00
15535327--15535359	14	2.3	15	89	5	50	33	0	0	66	0.92
15543900--15544599	375	1.9	375	90	0	1114	26	12	22	39	1.89
15555038--15555104	22	3.0	22	93	0	107	25	28	16	29	1.97
15560660--15560707	25	1.9	25	100	0	96	31	27	20	20	1.98
15560696--15560744	25	2.0	25	87	0	71	30	12	26	30	1.92
15562479--15562524	23	2.0	23	95	0	83	45	0	28	26	1.54
15577636--15577794	51	3.1	51	81	5	203	38	26	3	32	1.72
15583412--15583447	18	2.0	18	89	10	56	61	0	11	27	1.30
15588168--15588357	61	3.1	61	84	0	245	27	24	15	32	1.95
15592623--15592668	16	2.9	16	78	15	51	54	0	4	41	1.20
15595055--15595140	35	2.4	34	79	11	102	40	18	26	13	1.88
15601094--15601217	63	2.0	63	93	0	212	48	23	8	19	1.77
15602079--15602202	43	2.9	43	82	1	149	29	20	25	25	1.99
15602846--15602896	26	2.0	26	100	0	102	37	19	7	35	1.81
15607164--15607249	27	3.1	27	86	6	136	51	6	2	39	1.42
15607199--15607244	15	3.1	15	70	17	51	60	4	0	34	1.16
15609613--15609646	5	6.8	5	93	0	59	41	17	0	41	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15610148--15610178	2	15.5	2	100	0	62	48	0	0	51	1.00
15612922--15612961	14	2.9	14	84	0	53	32	7	17	42	1.77
15612945--15612984	20	2.0	20	90	0	62	27	10	12	50	1.72
15613154--15613204	26	2.2	24	78	21	56	60	5	0	33	1.21
15615580--15615628	25	2.0	24	84	15	64	44	8	8	38	1.64
15619131--15619184	29	2.0	28	82	13	69	46	0	3	50	1.19
15621223--15621267	3	14.7	3	81	4	54	35	4	0	60	1.17
15621339--15621391	25	2.1	25	100	0	106	39	32	3	24	1.73
15621967--15622005	19	2.1	19	100	0	78	38	10	20	30	1.86
15625262--15625301	20	2.0	20	86	13	57	27	22	10	40	1.86
15627860--15627890	16	1.9	16	93	0	53	19	16	38	25	1.92
15633390--15633901	43	11.8	43	67	8	221	30	23	24	21	1.99
15633381--15633950	87	6.6	87	90	0	852	30	23	23	22	1.99
15636816--15636853	18	2.1	18	90	0	58	23	7	2	65	1.32
15640386--15640512	62	2.0	62	96	0	236	33	9	12	44	1.74
15641560--15641659	42	2.4	42	89	0	146	37	10	27	26	1.88
15642765--15642789	2	12.5	2	100	0	50	52	0	0	48	1.00
15646140--15646719	44	12.8	43	71	13	294	33	17	19	28	1.95
15646131--15646710	92	6.4	88	70	12	341	33	18	19	28	1.95
15646126--15646536	181	2.3	181	90	0	635	33	17	20	28	1.95
15646503--15646628	49	2.6	50	83	6	156	34	17	20	27	1.95
15646141--15646631	45	10.7	46	70	13	167	33	17	20	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15647010--15647042	17	1.9	17	93	0	57	75	9	0	15	1.03
15647192--15647234	16	2.7	15	79	10	50	23	60	13	2	1.45
15648361--15648407	18	2.6	18	80	12	51	23	6	2	68	1.24
15651911--15651976	10	6.9	9	79	16	71	72	4	1	21	1.10
15654368--15654545	87	2.0	87	80	8	193	39	16	8	34	1.80
15654653--15654716	28	2.2	29	78	13	71	59	1	1	37	1.16
15654652--15654696	20	2.2	20	84	11	56	60	0	2	37	1.09
15655000--15655061	9	6.9	8	79	17	52	25	3	1	69	1.13
15654992--15655059	10	7.0	10	74	14	54	26	2	1	69	1.12
15655008--15655061	9	5.9	9	78	8	56	27	1	1	68	1.10

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