genome.fa.s25.2.7.7.80.10.50.1000.116.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: At_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  116  of  297  ( 35593 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)
41570787--41570844	17	3.2	17	78	9	53	36	3	3	56	1.33
41572795--41572878	31	2.7	31	94	1	143	27	26	17	28	1.98
41572902--41572993	42	2.2	42	98	0	175	32	20	15	31	1.94
41573141--41573210	25	2.8	25	93	0	113	24	22	25	27	2.00
41574006--41574070	27	2.4	28	80	14	75	27	23	18	30	1.97
41574018--41574082	27	2.4	27	82	5	78	24	24	15	35	1.94
41574133--41574377	27	9.0	27	76	6	154	31	9	19	40	1.84
41574200--41574349	81	1.9	81	87	5	223	28	8	21	42	1.81
41574116--41574377	54	4.8	53	74	9	188	30	9	20	40	1.84
41574196--41574377	81	2.2	80	82	8	217	29	9	20	40	1.84
41574198--41574608	27	15.4	26	75	10	167	30	9	21	37	1.85
41574451--41574608	80	2.0	80	80	5	176	29	10	22	38	1.86
41574136--41574616	54	8.9	53	72	12	182	31	9	20	37	1.85
41576850--41576964	31	3.7	31	95	1	205	28	26	16	27	1.97
41576988--41577163	42	4.2	42	99	0	343	34	19	14	31	1.92
41577311--41577380	25	2.8	25	91	4	106	24	24	27	24	2.00
41578177--41578236	27	2.2	27	79	5	68	28	21	20	30	1.98
41578311--41578519	27	7.7	27	77	10	99	31	8	20	39	1.82
41578370--41578519	81	1.9	81	87	2	221	29	8	21	40	1.83
41578368--41578787	27	15.7	27	75	10	188	31	9	21	37	1.86
41580978--41581035	30	2.0	29	86	3	80	34	24	15	25	1.95
41582306--41582541	25	9.4	25	78	0	238	39	25	15	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41582316--41582541	50	4.5	50	93	0	371	39	26	15	19	1.90
41582680--41582803	41	3.0	41	90	0	185	29	31	20	18	1.97
41583042--41583295	27	9.4	27	74	9	176	29	8	20	41	1.81
41583071--41583268	54	3.7	53	82	6	195	29	7	20	43	1.78
41583292--41583395	27	3.9	27	87	0	136	29	21	15	33	1.94
41585678--41585762	26	3.3	26	87	6	113	27	23	20	29	1.99
41586551--41586646	27	3.6	28	83	8	94	26	23	18	31	1.98
41586563--41586646	27	3.1	27	86	3	107	25	25	17	32	1.97
41586563--41586696	27	5.0	25	70	18	67	23	21	17	36	1.95
41586685--41586924	53	4.4	54	74	6	180	30	10	20	39	1.85
41586685--41586964	54	5.1	54	75	5	215	32	9	20	38	1.84
41586685--41586991	27	11.3	27	78	7	192	33	9	20	37	1.84
41586913--41587099	81	2.3	79	76	5	203	39	8	20	31	1.83
41586914--41587072	27	5.9	27	85	2	203	41	8	19	30	1.81
41586889--41587058	54	3.1	54	88	3	234	40	7	18	33	1.79
41588109--41588383	50	5.6	50	79	6	285	29	19	28	23	1.98
41588109--41588326	95	2.2	98	85	4	280	28	19	29	22	1.98
41588113--41588394	145	1.9	146	84	2	370	28	18	28	24	1.98
41590509--41590550	22	1.9	22	100	0	84	45	9	9	35	1.69
41591580--41591643	28	2.3	28	83	0	83	18	20	35	25	1.95
41591964--41592299	27	12.5	27	80	4	288	37	20	11	31	1.87
41591981--41592180	107	1.9	108	87	5	298	36	19	12	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41592009--41592273	81	3.3	81	83	3	320	38	18	9	33	1.84
41592198--41592313	54	2.1	54	84	3	144	40	16	12	31	1.85
41592238--41592313	27	2.8	27	85	0	98	39	19	14	26	1.90
41592829--41592886	27	2.2	26	81	9	64	25	18	25	29	1.98
41595228--41595293	28	2.4	28	92	0	105	24	16	33	25	1.96
41595608--41595780	26	6.5	27	82	5	201	39	17	11	30	1.86
41595608--41595780	53	3.3	54	83	6	194	39	17	11	30	1.86
41595796--41595857	27	2.3	27	94	0	106	41	12	11	33	1.79
41595809--41595884	27	2.8	27	87	0	98	38	18	15	27	1.91
41601492--41601579	46	1.9	46	83	0	113	29	25	19	26	1.98
41604592--41604696	43	2.5	43	78	10	108	26	17	24	31	1.97
41617314--41617371	10	5.7	10	76	11	64	29	27	13	29	1.94
41617314--41617374	20	3.0	20	83	9	79	27	26	13	32	1.93
41628921--41629004	41	2.0	41	100	0	168	34	2	23	39	1.68
41638946--41638988	18	2.4	18	81	14	61	46	4	9	39	1.57
41639426--41639523	27	3.5	28	88	5	128	25	13	28	32	1.93
41639454--41639537	27	3.0	27	87	5	96	29	11	25	33	1.91
41644595--41644632	15	2.5	16	83	12	53	15	10	18	55	1.68
41646698--41646728	16	1.9	16	93	0	53	48	6	3	41	1.45
41646433--41648259	608	3.0	608	99	0	3600	35	9	19	35	1.84
41647914--41647944	16	1.9	16	93	0	53	48	6	3	41	1.45
41653461--41653485	11	2.3	11	100	0	50	60	12	0	28	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41654523--41654566	22	1.9	24	86	9	65	43	11	2	43	1.53
41656775--41656850	26	2.8	27	82	4	91	28	11	21	38	1.89
41658299--41658432	26	5.2	26	93	1	225	36	23	7	32	1.83
41665187--41665218	16	1.9	17	93	6	57	50	0	12	37	1.41
41676351--41676500	75	2.0	75	96	0	273	25	15	28	31	1.96
41682058--41682148	24	3.7	25	80	14	68	29	19	25	25	1.99
41682071--41682148	24	3.2	24	79	18	90	32	19	26	21	1.97
41685240--41685311	31	2.3	31	90	2	117	25	26	11	37	1.89
41685380--41685541	56	2.9	56	84	9	190	24	29	17	28	1.98
41685385--41685541	28	5.6	28	75	11	126	24	29	17	28	1.97
41690878--41690909	16	2.0	16	93	0	55	50	34	6	9	1.60
41692371--41692475	29	3.7	29	78	6	106	27	16	33	22	1.95
41700890--41700937	25	1.9	25	91	0	78	33	22	14	29	1.94
41700967--41701020	11	5.4	10	78	12	58	35	11	18	35	1.86
41701065--41701138	26	2.9	27	88	8	109	28	24	21	25	1.99
41701077--41701151	26	2.9	25	86	9	98	28	24	20	28	1.99
41701323--41701407	31	2.7	31	94	0	143	31	14	29	24	1.94
41706314--41706489	50	3.5	48	82	4	190	30	26	17	25	1.97
41710495--41710701	40	5.2	40	90	4	305	26	27	22	23	2.00
41711163--41711235	37	2.0	37	97	0	137	38	20	8	32	1.82
41718153--41718430	79	3.3	79	72	16	279	25	28	23	22	1.99
41718120--41718301	40	4.6	40	80	11	214	26	26	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41718246--41718356	55	2.0	55	91	3	179	26	28	21	23	1.99
41718301--41718430	40	3.3	40	89	4	192	24	30	23	22	1.99
41720093--41720165	36	2.0	37	94	2	130	20	34	16	28	1.94
41720099--41720173	36	2.1	36	90	5	116	24	30	14	30	1.95
41722614--41722704	46	2.0	46	95	0	164	30	19	17	31	1.95
41724347--41724429	43	1.9	43	100	0	166	30	20	14	34	1.92
41726426--41726619	40	4.9	40	94	0	336	22	28	23	26	1.99
41726399--41726619	80	2.8	80	89	2	340	21	27	23	27	1.99
41756886--41756971	43	2.0	43	86	8	122	22	24	1	52	1.54
41760458--41760594	50	2.8	50	86	4	197	23	16	30	29	1.96
41774891--41774955	12	5.3	12	71	14	53	55	15	12	16	1.69
41774900--41775009	6	17.8	6	71	15	64	50	11	18	20	1.78
41774905--41774987	31	2.7	31	86	0	112	49	14	18	18	1.80
41774945--41775009	25	2.6	25	85	0	85	46	10	20	23	1.81
41775900--41775991	27	3.4	27	84	3	114	25	17	20	36	1.94
41775900--41776018	54	2.2	54	80	5	125	26	14	20	39	1.90
41775942--41776096	27	5.7	27	89	4	179	25	6	22	45	1.76
41775942--41776096	81	1.9	81	82	5	197	25	6	22	45	1.76
41784661--41784688	8	3.5	8	100	0	56	42	21	25	10	1.85
41792133--41792361	46	5.0	46	100	0	458	32	17	27	21	1.96
41792133--41792450	138	2.3	135	87	6	379	31	17	27	22	1.97
41792133--41792549	92	4.4	95	84	7	328	30	18	27	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41792334--41792507	49	3.6	48	74	8	140	28	18	27	24	1.98
41794914--41795239	32	10.6	30	69	17	149	64	3	1	30	1.20
41794919--41794971	22	2.5	21	84	9	63	64	5	1	28	1.27
41794919--41794994	10	7.3	10	73	15	57	64	3	1	30	1.20
41795168--41795203	19	1.9	19	88	5	56	63	2	0	33	1.08
41795011--41795240	9	25.6	9	67	20	83	65	3	1	30	1.18
41795073--41795241	10	17.4	10	71	13	77	64	3	0	31	1.15
41797840--41797877	19	2.0	20	85	15	53	39	23	0	36	1.55
41798101--41798228	46	2.8	46	78	9	145	30	26	19	23	1.98
41798104--41798247	46	3.1	45	70	18	118	29	27	19	23	1.98

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297