genome.fa.s7.2.7.7.80.10.50.1000.161.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  161  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)
55074099--55074176	40	1.9	41	82	10	97	28	28	20	23	1.99
55085265--55085318	28	1.9	28	92	0	90	29	25	27	16	1.97
55085436--55085486	26	2.0	26	88	0	75	33	17	27	21	1.96
55085566--55085738	32	5.4	32	70	5	125	38	21	21	18	1.94
55085566--55085738	64	2.7	65	82	3	199	38	21	21	18	1.94
55085909--55085982	24	3.1	23	82	5	85	47	25	8	18	1.76
55086017--55086374	27	13.3	27	85	4	386	24	20	18	36	1.95
55086037--55086398	188	1.9	188	85	2	494	23	20	19	37	1.95
55087748--55087799	20	2.5	21	90	9	81	40	9	11	38	1.74
55099771--55099878	39	2.7	39	77	4	110	37	22	21	19	1.95
55099930--55100116	41	4.5	41	80	7	191	20	19	25	34	1.96
55099946--55100107	85	1.9	84	88	3	245	21	19	24	33	1.97
55101313--55101390	9	8.7	9	85	5	104	25	11	21	41	1.87
55103575--55103621	19	2.5	19	80	16	53	70	10	0	19	1.16
55103590--55103628	19	2.0	20	85	5	53	69	10	0	20	1.17
55105423--55105449	5	5.4	5	100	0	54	18	0	0	81	0.69
55105963--55106053	43	2.1	43	88	6	132	35	10	8	45	1.71
55106421--55106604	43	4.3	43	86	1	244	25	17	28	28	1.98
55106727--55106760	16	2.1	16	100	0	68	29	5	5	58	1.45
55107219--55107317	43	2.3	44	87	1	146	31	25	16	27	1.96
55112981--55113079	43	2.3	44	89	1	146	29	27	17	26	1.97
55126434--55126473	14	2.7	15	88	3	55	50	2	30	17	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55126583--55126794	115	1.8	116	87	5	322	34	17	15	32	1.92
55132496--55132984	269	1.8	269	100	0	978	29	18	22	29	1.97
55134706--55134792	44	2.0	44	100	0	174	21	27	22	27	1.99
55134766--55135069	40	7.7	40	86	3	373	26	28	20	24	1.99
55134766--55135069	119	2.5	120	86	3	373	26	28	20	24	1.99
55134766--55135069	79	3.8	79	85	4	299	26	28	20	24	1.99
55136237--55136352	55	2.2	53	95	4	207	24	15	24	36	1.94
55142403--55142587	79	2.3	81	84	7	236	25	27	22	24	2.00
55142403--55142587	40	4.7	40	83	7	234	25	27	22	24	2.00
55146965--55147002	18	2.2	18	86	13	53	10	15	0	73	1.09
55148305--55148350	20	2.4	19	78	7	56	23	17	30	28	1.97
55171225--55171399	46	3.8	45	78	7	181	28	28	20	22	1.98
55171233--55171404	93	1.8	93	91	0	281	27	29	20	22	1.99
55171276--55171419	46	3.1	46	70	14	125	29	28	19	22	1.98
55184362--55184443	33	2.5	31	80	9	94	71	1	3	23	1.08
55184373--55184444	31	2.3	29	82	13	90	72	0	2	25	0.98
55184854--55184941	30	2.9	30	91	0	149	14	36	29	19	1.92
55187458--55187488	16	1.9	16	93	0	53	35	22	0	41	1.54
55187728--55187935	55	3.8	54	78	5	215	23	24	16	35	1.95
55191764--55191820	30	1.9	30	88	0	87	19	26	31	22	1.98
55203015--55203109	39	2.4	39	92	0	163	26	22	27	24	2.00
55208426--55208471	19	2.5	18	79	6	56	39	21	4	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55214382--55214482	28	3.6	28	75	1	103	31	33	8	25	1.87
55216107--55216166	29	2.1	29	93	0	102	41	30	0	28	1.56
55216113--55216160	15	3.3	15	73	5	53	43	27	0	29	1.55
55230175--55230209	17	2.1	17	94	5	63	34	0	0	65	0.93
55238085--55238145	30	2.0	30	83	0	77	31	22	8	37	1.84
55240604--55240663	30	2.0	30	90	0	93	30	25	8	36	1.85
55240931--55241024	46	2.0	46	97	0	179	29	25	7	37	1.83
55244004--55244410	204	2.0	204	99	0	796	26	26	15	31	1.96
55247464--55247816	46	7.6	46	80	11	416	28	30	20	20	1.98
55247463--55247819	93	3.8	96	80	11	404	28	30	21	20	1.98
55247442--55247815	139	2.7	139	99	0	739	28	30	20	20	1.98
55249003--55250024	211	4.8	211	97	1	1890	35	19	9	35	1.85
55251907--55252022	54	2.1	54	98	0	223	32	13	24	29	1.94
55255809--55255979	93	1.8	93	93	2	299	21	19	29	29	1.98
55255812--55255984	46	3.7	47	79	13	214	21	19	28	30	1.98
55262635--55262767	40	3.3	40	89	3	189	22	20	25	31	1.98
55262635--55262792	80	2.0	80	81	7	187	22	20	25	31	1.98
55268530--55268589	29	2.1	29	93	0	102	43	26	0	30	1.55
55268536--55268582	15	3.2	15	69	6	51	44	23	0	31	1.54
55270176--55270272	30	3.2	30	77	2	106	28	15	25	29	1.96
55270579--55270633	20	2.8	20	88	0	83	25	29	16	29	1.97
55271560--55271606	20	2.3	20	85	0	67	29	36	12	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55277348--55277412	20	3.3	19	73	16	51	38	16	21	23	1.93
55280054--55280091	18	2.2	18	86	13	53	21	2	15	60	1.47
55285208--55285359	27	5.4	28	70	14	100	10	17	2	69	1.29
55285228--55285293	29	2.4	27	87	10	89	12	18	0	69	1.18
55285228--55285359	12	11.6	12	69	22	52	10	17	2	69	1.27
55285225--55285333	18	6.3	18	77	12	84	9	16	2	71	1.23
55285263--55285351	36	2.5	35	76	10	92	8	16	3	70	1.26
55285225--55285337	6	18.7	6	70	7	68	8	16	2	71	1.23
55290874--55291017	72	2.0	72	90	5	229	38	28	8	25	1.85
55291585--55291808	40	5.6	40	81	8	235	25	26	22	25	2.00
55291585--55291809	80	2.8	80	84	4	267	25	26	22	25	2.00
55291585--55291809	119	1.9	120	81	6	278	25	26	22	25	2.00
55295618--55295675	30	1.9	30	89	0	89	34	13	24	27	1.93
55296063--55296283	46	4.7	46	72	17	152	27	18	30	23	1.98
55304888--55304913	12	2.2	12	100	0	52	53	15	30	0	1.42
55309276--55309433	24	6.6	24	92	0	244	20	12	28	38	1.89
55311362--55311487	40	3.2	40	92	3	202	26	27	22	23	1.99
55312864--55312889	13	2.0	13	100	0	52	61	7	0	30	1.24
55320956--55321133	27	6.6	27	83	3	196	27	15	28	29	1.96
55320957--55321112	82	1.9	81	88	3	233	26	15	28	29	1.96
55323210--55323235	10	2.6	10	100	0	52	88	0	11	0	0.52
55323468--55323494	14	1.9	14	100	0	54	22	14	11	51	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55333176--55333302	47	2.8	44	81	11	148	26	17	30	25	1.97
55333365--55333497	49	2.7	48	80	10	153	27	18	31	23	1.97
55336490--55336543	28	1.9	28	96	0	99	25	12	24	37	1.91
55343128--55343187	27	2.3	26	85	2	75	35	20	23	21	1.96
55343149--55343212	33	2.0	32	84	3	83	35	20	23	20	1.96
55343229--55343279	27	1.9	26	84	4	66	35	19	27	17	1.94
55349948--55350007	27	2.3	26	82	2	66	35	16	23	25	1.95
55349969--55350030	31	2.0	32	87	3	90	35	19	24	20	1.96
55349976--55350116	67	2.0	67	83	5	174	30	21	27	19	1.98
55353772--55353863	45	2.0	45	93	0	157	17	23	8	50	1.74
55356493--55356614	56	2.2	56	80	5	149	35	22	11	30	1.90
55357275--55357317	22	1.9	23	85	4	61	25	51	0	23	1.49
55359666--55359913	33	7.6	33	90	4	308	33	20	10	35	1.87
55359821--55359909	32	2.8	32	94	1	151	34	21	13	30	1.92
55359919--55360073	29	5.3	29	88	1	238	25	29	11	34	1.91
55359919--55360073	59	2.7	58	89	1	247	25	29	11	34	1.91
55366535--55366641	53	2.0	53	96	0	196	31	26	16	25	1.97
55369379--55369443	22	3.0	22	77	8	78	35	18	23	23	1.96
55369590--55369707	41	2.9	41	90	0	173	27	28	20	22	1.99
55369938--55370283	27	12.8	27	81	4	270	31	9	17	41	1.82
55370290--55370399	27	4.1	27	85	0	139	30	20	15	33	1.94
55375587--55376109	49	10.9	49	94	2	868	31	9	30	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55375587--55376106	192	2.7	192	92	1	900	31	9	30	28	1.88
55379645--55379715	28	2.5	29	86	6	92	26	16	30	25	1.97
55380107--55380263	40	3.9	40	91	0	242	26	24	26	22	2.00
55380028--55380250	80	2.8	80	82	5	229	26	24	26	22	2.00
55383180--55383702	49	10.9	49	94	2	868	31	9	30	28	1.88
55383180--55383699	192	2.7	192	92	1	900	31	9	30	28	1.88
55393856--55394019	28	5.9	28	90	2	240	23	14	34	28	1.94
55394319--55394711	27	14.7	27	82	4	442	36	19	11	32	1.87
55394675--55394754	27	3.0	27	90	3	117	37	20	17	25	1.94
55398870--55398991	61	2.0	61	100	0	244	27	6	22	42	1.78

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