genome.fa.s7.2.7.7.80.10.50.1000.170.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  170  of  290  ( 34714 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)
58359841--58360401	283	2.0	283	91	1	919	30	16	21	30	1.96
58360452--58360588	43	3.2	44	61	12	111	33	20	22	23	1.97
58360406--58360637	86	2.7	86	99	0	455	34	20	21	24	1.97
58360410--58360630	43	5.2	42	60	12	108	34	20	20	24	1.97
58360469--58360600	41	3.1	41	60	12	95	32	21	22	23	1.98
58361159--58361284	44	2.9	44	82	3	148	32	15	23	27	1.95
58361041--58361277	132	1.8	131	82	2	305	32	16	24	26	1.96
58361737--58361798	27	2.3	27	91	2	97	22	4	19	53	1.64
58362268--58362293	3	8.7	3	100	0	52	34	0	0	65	0.93
58362389--58362430	3	14.0	3	100	0	84	33	0	0	66	0.92
58362525--58362567	16	2.8	15	86	6	59	30	6	0	62	1.21
58362671--58362702	16	2.0	16	93	0	55	21	21	6	50	1.71
58362702--58362843	36	4.0	35	71	12	103	33	7	2	57	1.38
58362889--58362949	22	2.8	22	80	2	61	18	6	6	68	1.33
58362702--58362904	3	67.3	3	65	15	62	32	7	3	56	1.45
58370120--58370219	50	2.0	50	98	0	191	32	25	14	29	1.94
58373325--58373367	19	2.1	21	87	8	63	58	0	6	34	1.25
58373325--58373365	20	2.0	21	85	4	57	58	0	7	34	1.26
58373749--58373818	35	2.0	35	97	0	131	40	24	11	24	1.88
58378641--58378783	47	3.0	47	93	0	250	34	13	27	25	1.93
58378933--58379037	47	2.2	47	83	3	122	34	11	29	24	1.91
58378487--58379037	298	1.8	297	93	2	953	35	9	24	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58379011--58379147	46	3.0	46	86	0	184	35	10	30	23	1.89
58387327--58387376	16	3.2	16	68	21	52	32	0	46	22	1.52
58387325--58387381	30	1.9	29	96	3	105	36	0	43	19	1.51
58390628--58390980	47	7.5	47	90	3	550	31	8	30	29	1.87
58397852--58397914	25	2.5	24	77	10	63	26	19	23	30	1.98
58409236--58409275	20	2.0	20	100	0	80	45	5	25	25	1.73
58428962--58429113	27	5.6	27	92	3	232	27	13	28	30	1.94
58428962--58429113	55	2.8	55	92	0	241	27	13	28	30	1.94
58432274--58432325	21	2.5	21	93	0	86	13	38	26	21	1.90
58441545--58441689	40	3.6	40	85	3	193	21	14	28	35	1.93
58452549--58452612	31	2.1	31	93	0	110	23	23	15	37	1.93
58452807--58452928	25	5.0	23	85	7	118	28	22	22	26	1.99
58452821--58452928	25	4.4	25	88	5	141	28	23	21	26	1.99
58452976--58453022	20	2.3	20	92	7	78	34	19	10	36	1.86
58460687--58460750	31	2.1	31	90	0	101	21	23	15	39	1.92
58460959--58461066	25	4.4	25	88	5	141	27	22	22	27	1.99
58461114--58461340	20	11.4	20	99	0	438	34	19	10	35	1.86
58464803--58464987	40	4.7	40	78	6	189	25	27	21	25	1.99
58468848--58468996	27	5.6	27	85	0	174	39	17	19	23	1.92
58468848--58468996	54	2.8	54	85	3	194	39	17	19	23	1.92
58468849--58468997	81	1.9	80	84	4	201	39	17	19	23	1.92
58469334--58469428	34	2.8	34	91	0	145	26	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58491700--58491935	118	2.0	118	100	0	472	22	14	22	41	1.89
58495094--58495135	19	2.2	19	100	0	84	42	9	21	26	1.83
58495623--58495663	8	5.1	8	100	0	82	51	0	24	24	1.49
58496030--58496176	42	3.5	42	73	14	131	27	18	24	29	1.98
58497598--58497645	20	2.4	20	96	0	87	8	29	43	18	1.79
58498486--58498517	6	5.3	6	100	0	64	53	15	15	15	1.74
58499443--58499475	8	4.1	8	96	0	57	33	0	0	66	0.92
58503839--58504063	40	5.7	40	84	5	278	24	22	27	25	2.00
58503839--58504096	80	3.2	80	81	7	224	25	21	27	25	1.99
58503839--58504096	119	2.2	119	79	6	265	25	21	27	25	1.99
58511990--58512777	66	11.9	66	98	1	1501	27	21	25	25	1.99
58519513--58519554	6	7.0	6	91	0	57	52	11	14	21	1.73
58520464--58520513	8	6.4	8	81	9	50	26	4	0	70	1.05
58520476--58520512	13	2.8	13	91	0	56	29	0	0	70	0.88
58522614--58522640	13	2.1	13	100	0	54	14	33	37	14	1.88
58528205--58528510	40	7.7	40	78	12	317	25	21	26	25	2.00
58529168--58529285	59	2.0	59	98	0	227	34	13	18	33	1.90
58533230--58533264	18	2.0	17	88	5	52	54	0	0	45	0.99
58533321--58533396	28	2.8	28	78	4	84	56	0	2	40	1.13
58535337--58535586	71	3.5	71	100	0	500	36	15	16	32	1.90
58537872--58537950	29	2.7	30	82	13	110	30	30	13	25	1.94
58542883--58542946	31	2.1	31	93	0	110	23	23	15	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58543155--58543262	25	4.4	25	88	5	141	27	22	22	27	1.99
58543310--58543356	20	2.3	20	92	7	78	34	19	10	36	1.86
58543392--58543439	25	1.9	25	86	0	69	27	14	22	35	1.93
58546202--58546234	12	3.0	11	87	12	50	21	0	0	78	0.75
58548659--58548828	46	3.7	46	74	10	166	22	20	26	30	1.99
58549053--58549090	19	2.0	20	85	15	53	36	0	23	39	1.55
58556247--58556419	46	3.7	46	78	10	199	21	20	27	30	1.98
58556244--58556414	93	1.8	93	92	0	288	21	20	28	29	1.98
58556644--58556681	19	2.0	20	85	15	53	36	0	23	39	1.55
58557771--58557890	27	4.5	27	82	1	143	40	17	19	23	1.92
58557771--58557904	54	2.5	54	83	6	164	39	18	17	23	1.92
58558262--58558299	18	2.1	18	90	0	58	26	15	15	42	1.87
58558295--58558389	34	2.8	34	88	3	138	28	22	24	25	1.99
58562728--58562904	27	6.5	26	81	6	176	27	15	28	28	1.96
58562729--58562884	82	1.9	81	85	6	217	27	15	28	28	1.96
58562725--58562904	82	2.2	81	81	4	211	27	15	27	28	1.96
58576218--58576294	38	2.0	38	94	0	136	35	10	22	32	1.88
58587450--58587482	8	4.1	8	100	0	66	51	0	24	24	1.48
58587848--58587995	42	3.5	42	72	12	115	28	18	24	28	1.98
58589414--58589461	20	2.4	20	89	0	78	8	27	43	20	1.80
58590380--58590499	56	2.1	56	98	0	231	22	23	9	45	1.81
58600987--58601025	19	2.1	19	95	0	69	23	20	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58617385--58617461	29	2.7	29	91	0	118	25	31	18	24	1.97
58620712--58620804	24	3.9	24	91	0	141	21	37	5	35	1.76
58627035--58627135	24	4.2	23	88	6	139	19	37	5	36	1.77
58627037--58627134	48	2.0	49	90	2	153	20	37	6	35	1.78
58631174--58631234	30	2.1	29	84	9	79	29	3	0	67	1.07
58633102--58633313	80	2.7	80	86	5	286	23	19	28	28	1.98
58633102--58633313	40	5.3	40	77	2	221	23	19	28	28	1.98
58643906--58643940	17	2.1	17	100	0	70	17	11	25	45	1.81
58645842--58646061	46	4.7	46	73	13	180	29	18	28	23	1.98
58647395--58647419	8	3.1	8	100	0	50	24	36	12	28	1.91
58648431--58648655	49	4.5	49	87	2	297	25	18	27	28	1.98
58650205--58650245	22	1.9	21	85	5	55	19	43	17	19	1.88
58656562--58656717	42	3.7	42	86	3	206	27	25	17	29	1.98
58656562--58656717	85	1.8	84	84	4	215	27	25	17	29	1.98
58657999--58658049	23	2.2	23	82	3	57	39	19	15	25	1.91
58660572--58660644	31	2.4	30	88	8	112	26	4	4	65	1.28
58661543--58661598	24	2.2	26	78	15	64	64	8	12	14	1.50
58666155--58666235	29	2.8	29	81	5	94	35	13	23	27	1.92
58666167--58666235	29	2.4	29	90	0	102	36	10	24	28	1.88
58675305--58675401	30	3.2	30	76	2	106	27	27	16	27	1.97
58687382--58687425	22	2.0	22	90	0	70	54	4	0	40	1.21
58691086--58691357	27	10.1	27	85	7	347	26	22	9	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58691087--58691353	54	5.0	54	87	3	387	26	22	9	41	1.85
58691103--58691357	134	1.9	134	86	7	367	26	22	9	41	1.85
58697070--58697247	27	6.6	27	77	3	142	28	28	16	26	1.97
58697070--58697247	54	3.3	54	79	3	178	28	28	16	26	1.97
58697091--58697246	82	1.9	81	82	3	197	28	28	16	26	1.97
58704235--58704423	95	2.0	95	97	0	360	30	22	8	38	1.85
58704964--58705150	93	2.0	93	97	0	356	34	21	14	29	1.93
58705246--58705423	27	6.6	27	84	3	205	29	28	15	26	1.96
58705267--58705422	82	1.9	81	88	3	233	29	28	15	26	1.96
58709134--58709192	27	2.2	27	84	6	75	35	23	8	32	1.85

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