genome.fa.s9.2.7.7.80.10.50.1000.130.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  130  of  284  ( 34012 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)
43488595--43488652	20	2.9	20	76	5	55	32	3	17	46	1.65
43488945--43488986	21	1.9	23	85	9	61	33	0	16	50	1.46
43491419--43491506	40	2.2	40	81	0	95	31	4	21	42	1.73
43491412--43491471	20	3.0	20	85	0	75	31	6	16	45	1.74
43491668--43491771	40	2.6	40	77	7	111	34	10	15	39	1.82
43491953--43492021	20	3.5	20	72	4	59	37	5	10	46	1.62
43491933--43492027	40	2.4	40	77	10	95	38	6	11	43	1.66
43492023--43492063	20	2.0	21	95	4	75	39	4	24	31	1.76
43498465--43498518	23	2.3	24	78	9	58	40	22	1	35	1.65
43500129--43500174	18	2.6	18	89	0	74	26	17	28	28	1.98
43500512--43500612	27	3.7	27	89	0	130	40	19	9	29	1.84
43501028--43501112	28	2.8	30	75	12	84	24	20	24	30	1.98
43501571--43501664	33	2.8	33	91	0	152	28	22	24	24	1.99
43504373--43504406	18	1.9	18	88	5	52	11	23	44	20	1.84
43504615--43504688	27	2.7	27	78	12	80	40	17	9	32	1.82
43504615--43504698	27	3.2	25	78	8	78	39	19	9	32	1.83
43504652--43504712	27	2.3	27	82	0	68	40	13	14	31	1.84
43505148--43505231	33	2.9	27	74	17	78	25	23	27	23	2.00
43505162--43505260	33	3.0	33	92	0	162	30	21	23	25	1.99
43505129--43505260	61	2.1	63	83	7	160	28	21	23	25	1.99
43510091--43510247	42	3.7	42	73	10	131	31	26	18	23	1.97
43512134--43512177	23	1.9	23	86	9	63	36	15	11	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43512279--43512337	23	2.8	21	80	19	70	55	20	1	22	1.52
43512279--43512342	9	6.6	9	75	20	58	54	20	1	23	1.53
43512399--43512491	19	5.1	19	70	12	77	46	13	8	31	1.74
43512389--43512517	54	2.4	54	93	0	213	42	15	8	33	1.77
43517756--43517802	20	2.2	22	88	7	71	68	2	14	14	1.31
43518638--43518747	51	2.1	51	85	8	143	45	6	20	28	1.75
43526808--43526979	93	1.8	93	96	0	317	27	29	21	20	1.98
43526801--43526976	46	3.8	46	79	12	216	28	29	21	20	1.98
43528992--43529039	14	3.4	14	88	0	69	45	6	29	18	1.74
43532762--43533236	40	11.9	40	92	1	749	23	21	28	27	1.99
43533275--43533399	29	4.4	28	76	8	110	22	16	28	32	1.96
43533245--43533399	57	2.7	57	89	0	220	23	18	27	30	1.98
43533304--43533399	28	3.4	28	80	8	131	21	16	28	33	1.95
43536658--43536835	27	6.6	27	84	3	205	29	28	15	26	1.96
43536679--43536834	82	1.9	81	88	3	233	29	28	15	26	1.96
43544118--43544322	88	2.3	91	88	3	299	45	3	3	46	1.40
43544472--43544526	24	2.2	26	81	12	71	45	0	1	52	1.11
43544664--43544758	45	2.1	45	88	1	138	32	27	5	34	1.79
43544739--43544806	16	4.2	16	96	0	118	35	36	0	27	1.58
43553611--43553671	25	2.4	25	94	0	104	39	9	9	40	1.72
43558195--43558273	25	3.2	25	96	0	140	35	11	13	39	1.81
43560071--43560143	37	2.0	37	100	0	146	41	10	26	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43563535--43563594	31	1.9	31	83	10	77	31	0	3	65	1.09
43564137--43564178	21	2.0	21	90	0	66	40	4	11	42	1.63
43564385--43564428	19	2.4	18	82	14	54	40	9	2	47	1.48
43564545--43564585	20	2.1	20	86	4	57	46	0	9	43	1.36
43568557--43568809	123	2.1	121	91	1	407	37	3	6	52	1.44
43571486--43571523	15	2.5	15	100	0	76	18	18	7	55	1.66
43576637--43576832	35	5.6	35	86	0	239	18	15	29	35	1.93
43577527--43577583	28	2.0	28	89	0	87	21	5	19	54	1.63
43580120--43580297	27	6.6	27	84	3	205	29	28	15	26	1.96
43580141--43580296	82	1.9	81	88	3	233	29	28	15	26	1.96
43585432--43585527	27	3.6	26	80	2	102	34	12	16	36	1.87
43585520--43585639	27	4.4	27	92	0	186	43	17	15	24	1.87
43588356--43588531	50	3.5	49	83	7	194	28	28	18	25	1.98
43588356--43588542	101	1.9	99	86	4	268	27	29	18	24	1.98
43591703--43591766	31	2.1	31	90	0	101	21	23	15	39	1.92
43591972--43592123	24	6.4	24	92	3	245	26	21	21	29	1.99
43591972--43592123	71	2.1	71	95	1	268	26	21	21	29	1.99
43591972--43592123	47	3.2	48	92	3	245	26	21	21	29	1.99
43592173--43592239	20	3.3	20	91	0	107	32	19	11	35	1.88
43592276--43592323	25	1.9	25	86	0	69	25	16	25	33	1.96
43593483--43593560	27	2.9	27	79	11	88	21	20	21	35	1.96
43593578--43593788	54	3.9	53	79	6	226	32	9	18	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43593581--43593796	110	2.0	108	81	5	256	31	9	18	39	1.83
43593578--43593789	27	7.8	27	77	6	169	32	9	18	39	1.83
43593781--43593957	27	6.6	27	85	6	207	42	7	20	28	1.80
43593755--43593922	54	3.1	54	82	1	140	42	7	19	30	1.79
43593782--43593957	81	2.2	81	86	4	248	42	7	20	28	1.80
43593971--43594060	27	3.3	27	81	3	101	32	11	16	40	1.84
43597020--43597193	35	5.0	35	84	1	206	18	14	28	38	1.90
43599647--43599795	74	2.0	74	100	0	298	42	24	12	21	1.87
43599682--43599796	37	3.2	35	62	22	83	42	22	12	22	1.86
43607070--43607130	30	2.0	30	96	0	113	36	24	13	26	1.92
43630211--43630297	34	2.5	35	80	10	90	32	6	16	44	1.74
43632926--43633133	54	3.9	54	79	7	206	36	17	25	21	1.95
43632934--43633122	55	3.5	53	80	6	202	35	18	24	20	1.95
43632934--43633132	53	3.7	54	79	7	188	35	17	25	21	1.95
43632934--43633144	108	2.0	109	82	1	264	37	17	25	20	1.93
43638177--43638463	96	3.0	96	99	0	567	18	14	26	39	1.90
43641215--43641321	37	2.8	37	88	2	142	28	28	22	20	1.99
43658257--43658361	52	2.0	52	96	0	192	40	5	26	26	1.78
43660348--43660435	40	2.2	40	87	0	131	28	18	23	29	1.98
43660408--43660500	40	2.3	40	88	3	143	24	19	26	29	1.98
43664230--43664347	47	2.5	47	86	2	166	26	18	25	29	1.98
43669685--43669817	38	3.5	38	88	3	178	36	27	18	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43669718--43669834	38	3.1	38	90	2	137	35	26	18	19	1.95
43669685--43669834	76	1.9	78	81	5	180	35	27	18	18	1.95
43678807--43678863	9	5.9	9	73	15	51	35	8	21	35	1.84
43678805--43678867	20	3.2	20	95	0	117	36	12	19	31	1.89
43678921--43679280	24	15.0	24	98	0	686	29	20	21	28	1.98
43679473--43679567	38	2.5	38	87	5	138	36	14	24	24	1.93
43687134--43687190	9	5.9	9	73	15	51	35	8	21	35	1.84
43687132--43687194	20	3.2	20	95	0	117	36	12	19	31	1.89
43687246--43687318	23	3.0	24	84	9	96	28	19	21	30	1.98
43687511--43687573	30	2.1	31	87	3	92	34	17	23	23	1.96
43690800--43690882	41	2.0	41	95	0	148	30	6	26	37	1.80
43692970--43693081	43	2.6	42	80	8	138	30	17	24	27	1.97
43693168--43693206	20	2.0	20	89	0	60	33	2	23	41	1.68
43697107--43697369	40	6.6	39	86	4	278	25	27	21	25	1.99
43697107--43697369	120	2.2	119	82	4	307	25	27	21	25	1.99
43697301--43697378	40	1.9	41	82	10	97	26	28	20	24	1.99
43705055--43705226	40	4.3	40	88	2	222	25	27	21	25	1.99
43705057--43705279	40	5.6	39	83	5	216	25	27	21	25	1.99
43705055--43705279	80	2.8	79	80	7	240	25	27	21	25	1.99
43705211--43705288	40	1.9	41	82	10	97	26	28	20	24	1.99
43710818--43710987	43	3.9	44	71	9	107	33	24	16	25	1.96
43720128--43720174	18	2.7	18	73	26	55	17	8	0	74	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43727402--43727569	43	3.9	42	76	13	164	30	25	18	25	1.98
43739278--43739495	79	2.8	80	79	7	205	25	27	20	25	1.99
43739311--43739495	40	4.7	40	80	7	207	25	28	21	24	1.99
43742433--43742531	40	2.5	40	79	9	112	22	28	24	25	1.99
43742837--43742915	29	2.7	29	80	5	88	30	31	13	24	1.94
43742897--43742999	43	2.4	43	96	0	188	27	34	14	23	1.94
43759670--43760025	180	2.0	180	85	1	480	34	18	8	37	1.82
43760584--43760877	50	5.8	50	78	4	277	29	26	17	26	1.98
43760645--43760826	101	1.8	101	87	0	274	28	25	19	26	1.99
43764210--43764271	32	1.9	32	100	0	124	32	0	9	58	1.31

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