genome.fa.s1.2.7.7.80.10.50.1000.115.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  115  of  187  ( 22383 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)
34634574--34634610	16	2.3	16	86	13	58	40	0	0	59	0.97
34634800--34634848	22	2.4	20	80	12	55	20	18	12	48	1.79
34636608--34636648	16	2.6	16	96	0	73	24	7	46	21	1.77
34637332--34637379	24	2.0	24	100	0	96	37	8	16	37	1.79
34637904--34637933	9	3.3	9	95	0	51	26	0	40	33	1.57
34638292--34638359	26	2.4	26	77	20	66	50	1	1	47	1.19
34641311--34641373	24	2.7	24	82	7	67	30	11	19	39	1.86
34643805--34643861	3	19.0	3	100	0	114	0	33	0	66	0.92
34644439--34644469	16	1.9	16	93	0	53	41	9	0	48	1.36
34646400--34646431	16	2.0	16	93	0	55	21	0	0	78	0.76
34652522--34652604	28	3.0	28	78	7	71	34	19	14	31	1.92
34652628--34652695	27	2.4	28	80	9	77	27	29	16	26	1.97
34652669--34652784	56	2.1	55	82	4	135	27	25	16	31	1.96
34652878--34652937	26	2.3	26	91	0	93	25	23	15	36	1.93
34660881--34661268	210	1.8	210	86	0	560	29	19	10	40	1.85
34661493--34661581	20	4.4	21	73	7	76	30	10	26	32	1.89
34661493--34661572	40	2.0	41	90	2	126	31	10	27	31	1.89
34661492--34664288	931	3.0	931	97	0	5315	31	13	18	36	1.90
34663355--34663460	40	2.6	41	83	3	124	28	11	25	34	1.90
34666041--34666113	37	2.0	37	97	0	137	35	15	12	36	1.84
34679521--34679560	10	3.8	10	84	12	53	35	0	2	62	1.09
34683680--34683736	29	2.0	29	89	6	89	31	8	10	49	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34695306--34695360	18	3.0	18	77	17	60	63	5	1	29	1.27
34695432--34695488	20	2.8	20	80	15	64	64	0	5	29	1.15
34695414--34695488	17	3.9	19	75	16	66	64	1	5	29	1.24
34695977--34696023	19	2.4	20	82	10	53	31	8	0	59	1.27
34696083--34696124	20	2.1	20	82	8	50	26	2	2	69	1.13
34699281--34699332	19	2.7	20	73	11	54	40	17	7	34	1.78
34699730--34699809	26	2.9	26	72	16	72	43	1	1	53	1.16
34699876--34699940	15	4.1	15	72	16	51	50	3	1	44	1.26
34706833--34706909	37	2.1	37	83	9	95	38	1	2	57	1.21
34707508--34707565	10	6.2	10	79	18	63	44	1	0	53	1.10
34707508--34707595	25	3.6	25	71	24	80	40	1	0	57	1.06
34713506--34713573	34	2.0	34	91	2	111	23	32	10	33	1.88
34714883--34714933	26	2.0	25	81	11	59	68	1	13	15	1.30
34720403--34720505	50	2.1	50	94	0	179	25	19	33	21	1.97
34722602--34722784	50	3.7	50	88	2	253	24	22	31	22	1.99
34722602--34722784	98	1.9	98	87	0	267	24	22	31	22	1.99
34730056--34730097	22	2.1	19	86	13	57	52	0	2	45	1.13
34734106--34734443	51	6.7	50	79	6	358	28	26	15	29	1.96
34734100--34734443	102	3.4	102	86	3	471	29	26	15	29	1.96
34744420--34744454	14	2.4	14	90	4	52	37	2	20	40	1.67
34751639--34751695	23	2.5	24	78	18	59	28	0	12	59	1.33
34754542--34754618	27	2.7	29	78	11	97	32	15	14	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34759650--34759741	3	30.7	3	91	4	150	64	2	0	33	1.06
34763124--34763350	54	4.2	54	78	5	242	43	20	15	20	1.88
34763153--34763350	110	1.8	107	88	5	299	43	21	15	20	1.88
34763143--34763351	83	2.5	82	81	5	244	42	22	15	19	1.88
34763143--34763351	27	7.7	27	80	5	208	42	22	15	19	1.88
34770407--34770455	3	16.3	3	79	8	55	61	4	0	34	1.15
34770724--34770760	20	2.0	20	84	10	51	45	0	0	54	1.00
34771315--34771372	20	2.9	20	87	5	73	43	13	6	36	1.71
34771511--34771549	20	2.0	20	89	0	60	46	12	10	30	1.75
34778600--34778648	25	2.0	25	87	0	71	34	16	12	36	1.86
34779463--34779572	53	2.1	53	98	0	211	28	20	23	28	1.99
34783088--34783146	29	2.0	29	100	0	118	45	6	3	44	1.47
34784068--34784105	6	6.5	6	93	6	69	84	0	15	0	0.63
34784489--34784527	20	2.0	20	89	0	60	15	5	33	46	1.68
34786697--34786787	44	2.1	44	97	0	173	28	12	13	46	1.79
34787393--34787431	20	2.0	20	89	0	60	33	10	15	41	1.81
34787544--34787617	20	3.7	20	78	3	69	36	9	21	32	1.86
34787726--34787793	20	3.4	19	82	8	73	36	10	14	38	1.81
34788003--34788056	17	2.9	18	76	10	56	37	12	12	37	1.83
34787842--34788287	20	22.7	20	67	15	164	35	8	16	39	1.80
34792149--34792345	81	2.4	82	84	5	249	40	21	17	20	1.92
34792149--34792345	27	7.3	27	81	1	207	40	21	17	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34792149--34792453	27	11.3	28	76	10	198	38	20	18	22	1.94
34792190--34792463	81	3.4	80	78	8	245	36	19	20	22	1.95
34792322--34792452	53	2.5	53	84	3	165	35	17	21	25	1.95
34792498--34792544	23	2.0	23	91	0	76	19	8	25	46	1.77
34792671--34792726	26	2.2	26	83	0	67	12	21	32	33	1.91
34792715--34792962	32	7.8	33	72	16	150	19	20	22	36	1.95
34792748--34792954	96	2.2	95	81	7	267	19	19	22	38	1.94
34794577--34794655	29	2.7	29	84	7	90	26	15	22	35	1.94
34794851--34794902	16	3.2	16	94	0	86	28	0	36	34	1.58
34794883--34794992	45	2.6	43	80	9	129	33	5	29	31	1.80
34797011--34797062	25	2.1	25	100	0	104	42	15	26	15	1.87
34797163--34797426	137	1.9	138	91	3	435	47	12	13	26	1.79
34799073--34799317	29	8.4	29	80	3	215	24	15	22	37	1.93
34799164--34799375	58	3.8	55	72	7	167	26	15	19	38	1.91
34799326--34799387	29	2.1	29	81	0	70	27	11	19	41	1.85
34800054--34800295	29	8.4	29	75	5	132	22	14	23	39	1.91
34800124--34800300	87	2.0	87	82	4	214	24	15	21	38	1.92
34800463--34800615	29	5.4	29	73	14	124	24	11	26	37	1.90
34800227--34800704	252	1.9	252	86	1	681	27	16	22	33	1.95
34800564--34800635	29	2.5	29	79	4	74	29	13	25	31	1.94
34800483--34800633	82	1.8	82	84	0	203	27	12	25	33	1.92
34801264--34801659	29	13.8	29	75	7	254	23	15	24	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34801493--34801653	83	1.9	83	81	2	189	26	16	22	34	1.95
34802311--34802556	58	4.2	58	75	5	169	22	15	22	39	1.92
34802336--34802668	29	11.7	29	73	8	191	21	17	24	36	1.94
34802332--34802527	87	2.3	87	81	3	216	21	16	22	39	1.92
34802510--34802661	82	1.9	82	84	0	205	23	17	25	32	1.97
34802598--34802698	29	3.5	28	80	6	105	21	18	27	31	1.97
34802598--34802755	56	2.8	56	78	12	146	23	18	27	29	1.98
34803310--34803677	29	12.9	29	72	10	229	22	14	24	38	1.92
34803305--34803677	58	6.5	58	71	9	264	22	15	24	38	1.92
34805299--34805433	33	3.8	34	70	18	112	34	25	20	20	1.96
34805336--34805567	102	2.3	103	90	0	358	33	28	18	20	1.96
34805514--34805564	27	1.9	27	88	4	77	31	31	23	13	1.93
34812724--34812933	76	2.8	75	82	0	231	32	26	18	22	1.97
34812835--34813063	102	2.2	102	89	0	341	32	28	17	21	1.96
34814503--34814727	29	7.8	29	80	5	188	21	14	23	40	1.90
34814491--34814667	58	3.1	58	81	4	207	17	14	27	40	1.89
34814489--34814691	87	2.3	86	78	7	223	19	13	26	40	1.89
34814800--34814870	29	2.4	29	100	0	142	30	16	23	28	1.97
34815568--34815698	58	2.3	58	82	0	163	25	16	19	38	1.93
34815544--34815790	29	8.6	27	76	9	136	25	15	19	39	1.91
34815829--34815904	29	2.6	29	87	0	98	25	13	26	35	1.92
34816636--34816913	117	2.5	111	82	4	324	22	15	23	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34816547--34816922	29	13.1	29	77	7	302	22	15	23	38	1.92
34816750--34816959	111	1.9	110	80	2	242	24	15	21	38	1.92
34817593--34817810	29	7.5	29	72	12	117	22	17	19	39	1.92
34817585--34817837	58	4.3	58	77	5	224	22	17	19	39	1.92
34817881--34817966	29	3.0	29	82	3	93	26	18	22	32	1.97
34818597--34818989	29	13.7	29	75	9	229	22	16	24	36	1.94
34818597--34818960	87	4.2	86	75	7	305	21	15	25	37	1.93
34818946--34819017	29	2.5	28	84	2	90	23	23	26	26	2.00
34818946--34819033	29	3.1	29	75	6	83	27	21	26	25	1.99
34819027--34819096	28	2.5	28	93	4	115	32	18	22	25	1.97

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