genome.fa.s25.2.7.7.80.10.50.1000.107.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  107  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)
38458120--38458229	27	4.1	27	79	2	132	31	24	7	36	1.83
38458123--38458228	53	2.0	54	94	1	187	32	22	7	37	1.82
38458456--38458579	27	4.6	27	82	6	135	43	20	6	29	1.77
38458535--38458637	27	3.8	26	74	16	84	45	17	5	31	1.72
38458682--38458755	27	2.7	27	76	12	71	37	20	20	21	1.94
38458695--38458759	27	2.4	27	82	5	78	35	18	24	21	1.96
38459569--38459638	25	2.8	25	93	0	113	27	25	22	24	2.00
38459568--38459663	25	3.9	24	81	9	95	28	23	22	25	2.00
38459569--38459663	50	1.9	50	80	8	113	28	24	23	24	2.00
38462897--38462943	22	2.2	21	84	3	58	36	21	8	34	1.84
38462916--38462966	19	2.9	16	78	18	57	35	17	9	37	1.83
38462914--38462956	19	2.1	21	91	8	72	34	18	9	37	1.83
38466867--38466902	16	2.1	17	90	10	56	44	13	5	36	1.68
38479054--38479116	27	2.3	27	86	0	90	38	14	22	25	1.92
38483778--38483818	22	1.9	22	90	5	66	9	41	29	19	1.83
38492400--38492431	12	2.7	12	100	0	64	25	28	40	6	1.79
38494424--38494647	49	4.5	50	78	3	220	29	25	18	25	1.98
38497297--38497354	29	2.0	29	100	0	116	44	13	17	24	1.85
38499624--38499868	49	4.9	49	79	4	267	28	26	17	27	1.97
38499637--38499862	101	2.3	99	82	3	258	29	26	16	27	1.97
38500427--38500595	84	2.0	84	100	0	338	36	18	11	33	1.88
38515753--38515901	51	3.1	50	71	19	145	32	28	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38515817--38515925	43	2.6	43	82	1	121	32	32	17	18	1.94
38523639--38523738	51	2.0	51	84	4	130	31	26	22	21	1.98
38523700--38523815	43	2.7	43	78	6	137	27	29	20	22	1.99
38544441--38544489	25	2.0	25	100	0	98	16	36	14	32	1.89
38546606--38546828	40	5.6	40	84	3	227	26	28	21	24	1.99
38546760--38546837	40	1.9	41	82	10	97	26	28	21	23	1.99
38552664--38552704	22	1.9	22	90	5	66	17	26	41	14	1.88
38554970--38555138	46	3.7	46	75	13	175	22	18	27	30	1.98
38555363--38555400	19	2.0	20	85	15	53	36	0	23	39	1.55
38562165--38562223	24	2.5	24	82	0	73	27	18	28	25	1.98
38567878--38567958	30	2.7	30	90	0	126	37	25	8	28	1.86
38570990--38571201	40	5.6	37	72	18	154	22	5	4	67	1.30
38570987--38571197	113	1.9	113	100	0	422	23	5	4	66	1.31
38571160--38571223	22	2.9	22	82	13	62	14	4	3	78	1.04
38576219--38576442	48	4.8	47	74	13	203	30	23	16	29	1.96
38576268--38576354	42	2.1	42	80	4	95	31	21	17	29	1.96
38576236--38576403	90	1.9	90	81	5	205	30	22	16	30	1.96
38585800--38586301	250	2.0	251	96	1	927	28	18	15	36	1.92
38590733--38590998	56	4.8	56	90	0	399	27	17	22	32	1.96
38590728--38590998	111	2.4	112	90	1	411	28	16	22	32	1.96
38592165--38592235	36	2.0	36	97	0	133	25	4	28	42	1.73
38593975--38594045	30	2.3	30	87	4	106	15	19	35	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38612498--38612585	44	2.0	44	93	0	149	46	6	11	35	1.66
38614610--38614647	20	1.9	20	89	10	60	39	10	7	42	1.69
38616709--38616889	40	4.6	40	80	6	199	25	27	20	25	1.99
38616711--38616889	79	2.2	80	83	7	222	25	27	21	25	1.99
38619345--38619407	23	2.6	24	77	10	65	39	17	23	19	1.92
38622513--38622885	49	7.5	49	77	4	372	30	27	16	26	1.96
38622513--38622885	99	3.8	96	79	10	344	30	27	16	26	1.96
38622500--38622886	150	2.6	148	88	3	555	30	26	16	26	1.96
38626435--38626680	133	1.9	132	86	2	359	27	25	21	25	1.99
38631913--38631953	21	2.0	21	85	0	55	36	26	0	36	1.57
38635898--38635943	24	1.9	24	82	8	58	28	6	4	60	1.40
38652397--38652421	12	2.1	12	100	0	50	56	0	0	44	0.99
38652973--38653042	28	2.5	28	90	4	106	28	14	24	32	1.94
38660292--38660316	12	2.1	12	100	0	50	56	0	0	44	0.99
38660864--38660933	28	2.5	28	90	4	106	27	12	27	32	1.93
38665632--38665727	48	2.0	48	97	0	183	44	10	33	11	1.75
38670048--38670440	87	4.5	84	68	16	221	33	19	19	27	1.96
38669949--38670270	174	1.8	177	87	5	485	33	18	19	27	1.96
38670466--38670599	42	3.2	42	94	0	232	34	18	15	31	1.93
38670710--38670807	25	4.0	24	73	13	58	25	22	24	27	2.00
38671616--38671717	27	3.8	26	72	12	80	24	20	16	38	1.93
38671711--38671947	27	8.7	27	79	5	174	31	8	19	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38671824--38671980	54	2.9	54	78	3	165	29	10	19	39	1.86
38671824--38671980	81	1.9	81	82	10	196	29	10	19	39	1.86
38671979--38672176	27	7.3	27	85	2	236	39	7	23	29	1.81
38671979--38672176	81	2.4	81	88	1	272	39	7	23	29	1.81
38679364--38679430	32	2.1	32	94	0	116	29	23	7	38	1.82
38680480--38680616	71	1.9	71	96	0	256	32	5	17	43	1.73
38680480--38680633	71	2.2	71	91	2	247	32	5	18	43	1.74
38681325--38681412	39	2.2	41	85	4	126	23	23	27	25	2.00
38681213--38681612	200	2.0	201	98	0	775	29	14	24	32	1.94
38681525--38681719	81	2.4	80	90	0	291	23	22	27	26	2.00
38681526--38681719	40	4.8	40	87	1	280	23	22	26	26	2.00
38688757--38688951	81	2.4	80	89	0	282	23	22	27	27	1.99
38688758--38688951	40	4.8	40	87	1	271	23	22	26	27	1.99
38690502--38690729	75	3.0	75	100	0	456	22	26	29	21	1.99
38704234--38704275	22	2.0	22	86	13	63	45	2	0	52	1.13
38707259--38707305	10	4.6	10	77	12	51	36	2	2	59	1.21
38712686--38712948	40	6.6	39	86	4	278	25	27	21	25	1.99
38712686--38712948	120	2.2	119	82	4	307	25	27	21	25	1.99
38712880--38712957	40	1.9	41	82	10	97	26	28	20	24	1.99
38721591--38722108	258	2.0	258	95	0	928	31	23	19	25	1.98
38725246--38725507	39	6.7	40	88	7	337	24	27	22	25	2.00
38732638--38732674	8	4.6	8	89	0	56	5	40	32	21	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38732638--38732677	16	2.5	16	100	0	80	5	37	32	25	1.77
38738832--38738964	67	2.0	67	86	5	189	30	21	26	21	1.98
38745769--38745802	18	1.9	18	88	5	52	11	23	44	20	1.84
38768083--38768179	51	1.9	51	93	0	167	37	14	22	25	1.92
38770460--38770643	40	4.6	40	83	6	205	23	21	27	27	1.99
38770460--38770640	80	2.3	81	84	9	230	23	21	27	27	1.99
38784266--38784307	22	1.9	22	90	0	66	54	4	0	40	1.21
38784302--38784343	20	2.1	20	100	0	84	26	9	9	54	1.63
38786857--38786933	38	2.0	38	94	0	136	28	18	28	24	1.98
38800925--38801012	46	1.9	46	88	0	122	27	30	22	19	1.98
38805985--38806079	47	2.0	46	92	4	163	22	26	22	28	1.99
38812272--38812306	9	3.8	9	88	3	52	85	2	8	2	0.79
38812272--38812315	21	2.1	21	86	0	61	81	2	11	4	0.92
38815158--38815185	4	7.0	4	100	0	56	25	0	0	75	0.81
38820054--38820097	20	2.1	22	83	8	56	72	6	6	13	1.25
38823907--38823953	20	2.3	20	81	0	58	23	12	34	29	1.92
38825624--38825729	48	2.2	48	85	9	137	14	24	1	59	1.45
38826758--38826793	10	3.8	9	89	10	54	2	8	2	86	0.77
38826999--38827274	137	2.0	137	99	0	543	22	14	32	30	1.94
38830225--38830303	37	2.1	37	88	4	115	25	30	18	25	1.98
38830422--38830581	47	3.4	47	88	0	230	26	31	9	31	1.88
38830682--38830799	47	2.5	47	95	2	209	30	28	8	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38830474--38830898	218	1.9	218	99	0	832	31	24	10	33	1.90
38843349--38843445	42	2.3	42	80	5	106	32	22	17	26	1.96
38846738--38846887	43	3.5	43	80	3	169	28	15	24	32	1.95
38849769--38849872	44	2.4	42	82	7	120	23	19	25	32	1.97
38849757--38849928	43	4.0	43	72	13	156	23	16	26	32	1.96
38853060--38853089	15	2.0	15	93	0	51	46	16	0	36	1.47
38864747--38864840	28	3.4	28	89	2	127	32	27	12	26	1.93
38867539--38867594	11	5.5	11	75	16	66	35	14	19	30	1.91
38867528--38867594	20	3.3	20	89	0	107	34	13	20	31	1.92
38867646--38867857	23	9.1	23	86	4	300	28	22	21	27	1.99

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