genome.fa.s8.2.7.7.80.10.50.1000.59.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  59  of  190  ( 22705 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)
16836803--16837023	86	2.6	86	82	3	268	22	14	21	41	1.89
16838722--16838817	45	2.1	45	84	3	122	39	12	21	26	1.89
16838952--16839017	27	2.4	27	76	2	78	42	18	19	19	1.90
16838970--16839071	27	3.8	28	75	14	90	38	16	25	19	1.92
16838975--16839097	54	2.3	54	76	10	126	39	17	23	19	1.92
16847580--16847604	11	2.3	11	100	0	50	40	8	0	52	1.31
16848157--16848212	27	2.1	27	100	0	112	32	10	14	42	1.80
16848809--16848857	24	2.0	24	100	0	98	40	4	8	46	1.52
16856912--16857051	40	3.5	39	79	3	147	33	16	22	27	1.95
16857115--16857197	40	2.0	41	81	6	98	33	18	21	26	1.96
16856744--16857359	190	3.2	194	79	5	658	32	16	22	28	1.96
16857401--16857441	8	5.4	8	82	5	50	14	0	31	53	1.41
16857401--16857441	16	2.7	16	85	11	59	14	0	31	53	1.41
16857401--16857442	15	2.8	15	82	13	59	16	0	30	52	1.44
16857503--16857562	7	8.6	7	81	7	68	20	0	33	46	1.51
16857503--16857562	21	2.9	21	82	0	75	20	0	33	46	1.51
16857610--16857661	7	7.6	7	76	4	52	25	1	28	44	1.65
16857694--16857853	7	22.6	7	67	5	61	24	2	32	40	1.68
16857610--16857723	14	8.3	14	71	11	65	25	1	29	42	1.65
16857694--16857823	50	2.6	50	88	1	190	26	1	33	39	1.66
16858547--16858774	126	1.8	125	82	4	298	32	14	17	35	1.90
16858821--16858907	42	2.1	40	83	10	104	27	36	6	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16860566--16860707	65	2.2	66	88	3	207	35	4	13	47	1.62
16860659--16860745	38	2.3	38	92	2	140	32	1	16	50	1.52
16861147--16861302	43	3.4	43	81	14	177	47	19	0	33	1.50
16861145--16861302	52	3.2	51	77	16	197	47	18	0	33	1.49
16867094--16867179	43	2.0	43	88	0	127	27	17	24	30	1.97
16878706--16878758	22	2.4	22	70	3	52	41	3	3	50	1.38
16879661--16879709	15	3.3	15	72	16	57	32	32	10	24	1.89
16882982--16883006	11	2.3	11	100	0	50	16	0	36	48	1.46
16887322--16887362	21	2.0	21	85	0	55	31	4	0	63	1.15
16887843--16888031	51	3.7	51	83	5	258	30	26	16	25	1.97
16887841--16888025	101	1.8	102	92	3	320	30	25	17	25	1.97
16901357--16901439	42	2.0	42	83	4	105	18	33	21	26	1.96
16908579--16908618	20	2.0	20	95	0	71	42	10	5	42	1.60
16913968--16914066	45	2.2	46	79	12	109	30	19	5	45	1.71
16917247--16917271	6	4.2	6	100	0	50	80	0	0	20	0.72
16918206--16918271	13	5.5	13	74	20	72	48	15	0	36	1.45
16918206--16918278	23	3.2	23	90	5	114	49	13	0	36	1.43
16919157--16919213	21	2.8	20	76	10	60	24	5	3	66	1.28
16919157--16919213	20	2.8	21	75	19	50	24	5	3	66	1.28
16922482--16922534	23	2.3	23	93	0	97	20	20	26	32	1.98
16924291--16924359	30	2.3	30	94	0	120	31	18	5	43	1.74
16925468--16925509	14	3.0	14	83	10	50	76	2	4	16	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16926401--16926466	13	5.5	13	71	20	63	46	15	1	36	1.55
16926401--16926475	23	3.3	23	88	3	107	48	14	1	36	1.53
16928534--16928560	14	1.9	14	100	0	54	37	0	7	55	1.28
16940130--16940162	16	2.1	16	88	5	50	33	0	0	66	0.92
16940256--16940282	14	1.9	14	100	0	54	37	0	7	55	1.28
16945771--16945831	14	4.2	14	78	19	63	81	11	0	6	0.85
16945771--16945810	17	2.4	16	88	8	62	90	7	0	2	0.55
16945771--16945827	30	1.9	30	88	0	87	82	10	0	7	0.84
16945775--16945838	15	4.3	15	77	15	60	78	12	1	7	1.03
16946656--16946689	7	5.0	7	85	7	52	67	0	17	14	1.23
16946659--16946683	13	1.9	13	100	0	50	64	0	20	16	1.30
16947903--16948800	46	19.9	46	84	6	1095	25	16	27	29	1.97
16948316--16948373	30	1.9	30	100	0	116	22	20	17	39	1.92
16948271--16948416	76	1.9	75	94	1	256	24	18	23	32	1.97
16948853--16949197	44	7.8	43	65	13	139	31	18	23	26	1.97
16948785--16949251	132	3.5	132	93	0	799	31	17	23	27	1.97
16953900--16953946	22	2.1	23	84	11	62	42	0	0	57	0.98
16954559--16954588	15	2.0	15	100	0	60	40	13	20	26	1.89
16963607--16963645	15	2.5	15	83	8	51	48	0	0	51	1.00
16963770--16963825	23	2.5	24	81	16	68	69	8	7	14	1.35
16964346--16964415	23	3.1	23	76	11	65	50	1	0	48	1.09
16969156--16969192	11	3.4	11	96	0	65	59	5	0	35	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16971568--16971621	26	2.1	25	83	10	65	44	1	0	53	1.11
16975786--16975890	45	2.3	45	88	0	147	20	20	25	34	1.96
16978820--16978900	27	3.0	27	98	0	153	34	29	9	25	1.88
16981575--16982043	109	4.3	109	86	1	625	31	28	17	22	1.97
17002269--17002364	23	4.3	23	75	10	99	41	22	14	20	1.89
17002269--17002364	44	2.1	46	81	11	110	41	22	14	20	1.89
17004298--17004442	45	3.2	45	84	2	184	36	19	20	23	1.95
17004296--17004507	45	4.7	45	79	3	158	39	18	21	21	1.93
17004508--17004542	16	2.2	16	90	5	54	60	8	14	17	1.58
17012837--17012890	20	2.7	20	88	0	72	48	12	7	31	1.69
17018957--17019067	45	2.5	45	91	2	170	37	17	20	24	1.93
17018957--17019083	45	2.8	45	86	2	121	37	18	18	24	1.94
17025405--17025611	75	2.8	75	85	2	267	44	13	14	28	1.82
17025837--17025867	16	1.9	16	93	0	53	64	0	0	35	0.94
17027298--17027343	14	3.4	14	77	17	53	54	2	0	43	1.12
17032321--17032389	34	2.0	34	97	0	129	18	28	28	23	1.98
17037802--17038372	306	1.9	308	82	4	729	43	11	11	33	1.77
17040245--17040271	5	5.4	5	100	0	54	0	18	0	81	0.69
17048422--17048470	25	2.0	25	92	8	82	28	18	20	32	1.96
17048426--17048486	25	2.5	26	76	10	65	29	18	24	27	1.98
17054006--17054079	36	2.1	36	94	0	130	33	16	8	41	1.77
17061061--17061120	6	10.0	6	79	13	61	20	18	1	60	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17061057--17061120	24	2.7	24	87	4	85	18	18	1	60	1.43
17063131--17063320	96	2.0	96	88	0	281	26	14	17	40	1.89
17071176--17071272	33	2.9	33	92	0	158	17	8	32	41	1.79
17071180--17071293	33	3.5	33	86	0	93	20	8	32	38	1.83
17071176--17071326	66	2.3	66	80	4	151	17	9	34	38	1.82
17076947--17077015	26	2.7	25	72	26	63	76	5	17	0	0.97
17077748--17077796	23	2.1	22	82	14	55	26	4	16	53	1.61
17077878--17077906	3	9.7	3	100	0	58	31	0	0	68	0.89
17078194--17078225	16	2.0	16	93	0	55	28	6	0	65	1.16
17080484--17080564	9	8.4	10	80	12	66	56	2	1	39	1.20
17080489--17080528	20	2.0	20	90	5	62	50	2	2	45	1.28
17082944--17083113	48	3.5	48	84	0	205	22	30	21	25	1.99
17089729--17089834	52	2.0	52	98	0	203	28	20	16	34	1.94
17094926--17095084	87	1.8	86	87	4	239	37	23	13	25	1.92
17100484--17100521	19	2.0	19	100	0	76	31	26	10	31	1.90
17105861--17105929	30	2.3	30	89	0	102	23	31	23	21	1.98
17107573--17107610	17	2.3	17	86	4	51	21	2	5	71	1.19
17111321--17111351	15	2.1	15	93	0	53	25	22	22	29	1.99
17112763--17112822	32	1.9	30	83	10	75	60	3	1	35	1.23
17119477--17119517	3	13.7	3	100	0	82	34	0	31	34	1.58
17133965--17134076	48	2.4	47	86	7	156	30	5	0	64	1.16
17134092--17134143	18	3.1	17	76	15	54	21	1	3	73	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17134241--17134306	10	6.5	10	71	15	55	24	4	1	69	1.15
17137687--17137830	47	3.1	47	67	16	120	44	2	3	50	1.30
17137655--17137862	91	2.3	91	88	0	308	45	3	3	47	1.37
17137676--17137837	44	3.6	43	69	19	107	45	1	3	49	1.30
17137777--17137837	28	2.2	28	85	5	81	45	0	3	50	1.17
17137656--17137886	91	2.5	89	83	7	293	45	3	3	48	1.36
17138012--17138066	24	2.2	26	81	12	71	45	0	1	52	1.11
17138190--17138294	44	2.5	40	76	18	115	32	29	3	34	1.76
17138188--17138297	45	2.6	44	81	11	133	32	29	4	33	1.78
17138278--17138329	16	3.2	16	94	0	86	34	36	0	28	1.58

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