genome.fa.s6.2.7.7.80.10.50.1000.162.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  162  of  168  ( 20060 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)
48674340--48674385	22	2.1	22	84	8	58	23	6	2	67	1.25
48674347--48674393	22	2.1	22	81	14	53	21	4	6	68	1.30
48678730--48678756	2	13.5	2	100	0	54	48	0	0	51	1.00
48682567--48682591	6	4.2	6	100	0	50	48	0	36	16	1.46
48685609--48685645	16	2.2	17	90	4	58	35	0	0	64	0.94
48688513--48688580	20	3.2	21	75	12	59	44	2	0	52	1.16
48688513--48688555	21	2.0	23	86	9	63	41	2	0	55	1.12
48688638--48688671	2	17.0	2	100	0	68	50	0	0	50	1.00
48689172--48689202	2	15.5	2	100	0	62	48	0	0	51	1.00
48701109--48701141	16	2.1	16	100	0	66	57	30	12	0	1.35
48702980--48703046	34	1.9	35	87	3	100	32	7	14	44	1.74
48707640--48707665	6	4.3	6	100	0	52	50	15	0	34	1.45
48713053--48713098	20	2.6	18	83	16	60	58	0	0	41	0.98
48713054--48713087	17	2.1	17	94	5	61	52	0	0	47	1.00
48713207--48713233	13	2.1	13	100	0	54	29	0	7	62	1.22
48713716--48713753	20	1.9	20	88	0	58	44	13	2	39	1.57
48716044--48716075	16	2.1	15	94	5	55	53	12	0	34	1.39
48717867--48718048	62	3.0	61	80	7	201	36	5	17	40	1.72
48724331--48724368	3	12.7	3	100	0	76	68	0	0	31	0.90
48724415--48724467	19	2.9	18	88	5	79	41	0	0	58	0.98
48724421--48724468	19	2.5	19	96	3	87	43	0	0	56	0.99
48724420--48724457	10	3.9	10	79	6	51	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48724437--48724479	19	2.3	19	87	0	59	48	0	0	51	1.00
48729963--48729992	8	3.8	8	100	0	60	76	0	0	23	0.78
48731089--48731113	9	2.8	9	100	0	50	0	24	8	68	1.16
48733613--48733657	20	2.3	19	85	11	63	44	2	2	51	1.26
48735980--48736020	6	6.8	6	91	0	64	0	21	9	68	1.18
48735978--48736020	12	3.6	12	93	0	77	0	23	9	67	1.19
48735978--48736024	3	15.7	3	81	0	58	0	25	8	65	1.20
48735978--48736024	18	2.6	18	89	0	76	0	25	8	65	1.20
48738947--48739007	19	3.3	19	73	15	56	26	3	4	65	1.28
48738956--48739001	19	2.5	19	85	3	58	28	4	4	63	1.33
48739479--48739503	9	2.8	9	100	0	50	80	0	12	8	0.92
48740036--48740065	2	15.0	2	92	0	51	50	3	0	46	1.18
48741288--48741335	26	1.9	25	83	8	62	43	16	2	37	1.60
48742480--48742550	16	4.0	16	72	21	52	61	0	1	36	1.05
48742462--48742598	39	3.5	38	81	9	168	62	0	2	34	1.16
48742493--48742553	10	6.4	10	75	22	60	67	0	1	31	1.01
48742449--48742599	79	2.0	73	87	7	212	60	0	2	35	1.15
48742972--48743006	17	2.0	17	88	5	52	62	0	0	37	0.95
48742972--48743044	27	2.6	27	85	8	94	63	0	0	36	0.95
48742989--48743055	11	6.5	11	71	20	56	61	0	0	38	0.96
48744015--48744151	65	2.2	62	82	11	154	42	17	8	32	1.78
48745292--48745348	28	2.0	28	90	6	89	38	5	0	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48745540--48745568	14	2.0	15	93	6	51	51	20	0	27	1.47
48746256--48746353	29	3.3	29	70	13	67	43	4	10	41	1.57
48747893--48747965	21	3.6	21	71	14	71	56	0	2	41	1.14
48747899--48747996	11	9.6	11	68	19	61	59	0	2	38	1.09
48747893--48747974	11	7.9	11	75	21	79	56	0	2	41	1.13
48747899--48747992	40	2.3	40	96	0	170	59	0	2	38	1.09
48748340--48748364	3	8.3	3	100	0	50	64	0	0	36	0.94
48753620--48753671	18	2.9	18	82	0	59	26	21	30	21	1.98
48759416--48759451	2	18.0	2	100	0	72	50	0	0	50	1.00
48774160--48774230	28	2.5	29	88	6	101	39	9	0	50	1.36
48774282--48774340	27	2.2	27	90	0	91	27	27	30	15	1.96
48774290--48774355	27	2.4	27	82	5	80	27	25	28	18	1.98
48774489--48774527	19	2.0	21	85	10	55	23	0	10	66	1.22
48774594--48774652	3	19.7	3	100	0	118	0	0	32	67	0.91
48775475--48775519	18	2.5	18	74	0	54	31	8	46	13	1.74
48782180--48782210	16	1.9	16	93	0	53	0	0	12	87	0.55
48782179--48782210	17	1.9	17	93	6	57	0	0	12	87	0.54
48784335--48784400	13	5.1	13	84	0	96	37	24	7	30	1.83
48789745--48789809	31	2.1	32	85	2	87	49	15	3	32	1.60
48792727--48792764	18	2.1	18	100	0	76	18	42	5	34	1.73
48792971--48793036	19	3.6	18	74	17	64	34	1	1	62	1.14
48792982--48793035	17	3.1	17	81	13	56	31	0	1	66	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48792983--48793030	8	5.6	8	76	13	51	27	0	2	70	0.98
48793002--48793042	19	2.2	18	86	4	55	39	0	0	60	0.96
48793013--48793057	23	2.0	23	82	8	56	42	0	2	55	1.12
48792998--48793060	21	3.2	19	78	14	65	41	0	1	57	1.08
48793944--48794007	27	2.4	28	73	7	69	34	6	9	50	1.60
48810746--48810804	28	2.3	24	75	13	57	42	3	5	49	1.41
48828465--48828509	21	2.1	22	84	12	58	51	6	33	8	1.59
48829493--48829555	30	2.1	30	87	0	90	57	14	1	26	1.47
48829589--48829615	14	1.9	14	100	0	54	51	14	11	22	1.73
48832591--48832624	12	2.8	12	81	0	50	11	0	67	20	1.21
48839273--48839307	16	2.2	16	90	5	54	25	0	0	74	0.82
48843091--48843129	21	2.0	21	85	10	55	56	2	0	41	1.13
48844273--48844304	11	2.9	11	100	0	64	46	0	0	53	1.00
48848601--48848758	82	1.9	82	90	2	255	34	18	7	39	1.79
48851007--48851046	10	4.3	10	78	18	50	22	0	2	75	0.93
48855807--48855848	22	1.9	22	95	0	75	69	7	0	23	1.13
48862299--48862331	16	2.1	16	100	0	66	51	0	18	30	1.46
48870602--48870635	16	2.1	17	88	5	52	38	2	0	58	1.13
48870672--48870714	23	1.9	22	85	4	59	51	4	0	44	1.22
48870645--48870720	32	2.5	30	76	16	75	51	2	1	44	1.23
48870926--48871012	45	1.9	45	90	4	140	54	3	0	42	1.17
48872958--48873080	61	2.0	61	95	0	219	26	22	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48874577--48874606	4	7.5	4	100	0	60	76	23	0	0	0.78
48886799--48886847	23	2.2	22	81	3	53	38	8	0	53	1.31
48887454--48887516	29	2.2	29	82	5	74	44	6	11	38	1.66
48902302--48902453	31	4.9	31	78	11	129	42	0	4	52	1.26
48902379--48902472	31	3.0	31	98	0	179	36	0	8	55	1.31
48905014--48905051	19	2.1	18	85	14	51	28	5	0	65	1.14
48910258--48910287	14	2.1	14	93	0	51	23	0	76	0	0.78
48911264--48911298	17	2.1	17	88	0	52	51	0	14	34	1.42
48914940--48914977	19	1.9	19	89	5	58	28	15	10	44	1.80
48926383--48926429	22	2.1	22	96	0	85	51	0	0	48	1.00
48927190--48927220	8	3.9	8	100	0	62	25	0	0	74	0.82
48929289--48929350	26	2.4	26	88	0	97	40	9	0	50	1.35
48943123--48943185	28	2.3	27	80	2	72	60	6	3	30	1.37
48943435--48943488	20	2.5	21	85	8	65	57	1	1	38	1.20
48943986--48944019	14	2.4	14	90	5	50	64	2	2	29	1.22
48952790--48952840	24	2.1	24	88	0	75	25	11	33	29	1.91
48953838--48953890	26	2.0	27	85	10	74	43	0	5	50	1.25
48957039--48957080	20	2.1	20	82	8	50	50	2	0	47	1.14
48962538--48962934	216	1.9	208	80	10	455	28	13	25	32	1.94
48965254--48965296	21	2.1	20	86	4	59	48	2	0	48	1.14
48974351--48974419	35	2.0	35	97	0	129	31	30	20	17	1.95
48976396--48976455	17	3.5	17	73	13	68	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48978613--48978685	20	3.7	20	70	26	57	35	4	0	60	1.16
48978625--48978674	9	5.4	9	73	21	50	38	2	0	60	1.09
48978624--48978686	20	3.3	20	75	16	62	38	3	0	58	1.14
48978965--48979039	32	2.4	32	81	14	95	38	2	5	53	1.38
48978965--48979062	26	3.4	28	77	18	103	35	3	4	57	1.33
48979032--48979090	17	3.4	17	80	15	59	32	1	1	64	1.13
48979041--48979090	19	2.7	19	84	6	59	30	2	2	66	1.14
48979100--48979176	10	8.0	10	72	13	54	36	1	1	61	1.13
48979099--48979154	19	2.9	19	84	7	78	37	0	1	60	1.07
48979283--48979352	36	1.9	36	97	0	131	41	17	21	20	1.90

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