genome.fa.s25.2.7.7.80.10.50.1000.122.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  122  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)
43231677--43231721	21	2.1	21	91	0	72	33	20	4	42	1.72
43231694--43231760	21	3.0	22	79	14	59	28	13	4	53	1.59
43234820--43234960	63	2.3	63	86	3	187	34	18	17	30	1.94
43234820--43235155	53	5.8	63	70	19	205	33	18	16	31	1.93
43235081--43235238	84	1.9	82	86	2	226	37	14	12	35	1.84
43235157--43235462	53	5.3	63	69	21	199	33	17	16	33	1.92
43234850--43235464	307	2.0	307	99	0	1221	33	17	15	33	1.92
43235250--43235503	107	2.4	106	84	5	339	28	19	18	33	1.96
43239766--43239834	16	4.2	16	96	3	129	24	0	37	37	1.56
43239766--43239834	33	2.1	32	97	2	129	24	0	37	37	1.56
43241821--43241862	15	2.9	15	82	10	52	52	0	0	47	1.00
43241928--43242210	91	3.0	93	84	7	317	48	3	3	44	1.35
43242028--43242088	28	2.2	28	85	5	81	50	3	0	45	1.17
43242035--43242178	47	3.1	46	65	23	113	49	4	2	44	1.33
43242003--43242210	91	2.3	90	90	4	326	46	4	3	45	1.39
43242028--43242170	44	3.2	43	68	16	119	48	3	2	46	1.31
43242053--43242191	47	3.0	47	68	17	137	49	4	2	43	1.34
43257149--43257211	31	2.0	31	100	0	126	34	12	6	46	1.68
43263155--43263224	31	2.2	32	77	7	81	30	24	18	27	1.98
43263225--43263301	31	2.5	31	84	0	109	24	24	23	27	2.00
43263155--43263329	77	2.3	77	91	0	278	27	24	20	27	1.99
43263309--43263536	50	4.5	50	92	0	366	25	21	15	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43266599--43266631	2	17.0	2	93	6	59	48	0	0	51	1.00
43266699--43266739	16	2.5	17	80	7	50	43	2	17	36	1.62
43266851--43266922	25	3.0	25	86	6	87	22	23	16	37	1.94
43271824--43271876	17	3.2	17	86	2	63	9	9	0	81	0.89
43272019--43272231	118	1.8	118	93	0	372	29	30	17	22	1.97
43273189--43273252	5	13.0	5	78	15	55	79	0	1	18	0.81
43273197--43273247	20	2.7	20	84	6	70	80	0	1	17	0.81
43278960--43278993	17	1.9	18	88	5	52	55	5	0	38	1.24
43293923--43294248	53	5.5	53	64	20	157	26	13	21	37	1.91
43293581--43294005	192	2.2	193	95	1	771	29	14	20	35	1.92
43293847--43294249	122	3.3	122	98	0	770	26	14	22	36	1.92
43294195--43294344	73	2.1	73	87	3	214	30	14	18	37	1.90
43294073--43294481	195	2.1	195	89	4	644	27	13	19	39	1.89
43294464--43294497	16	2.1	16	94	0	59	17	8	5	67	1.37
43294402--43294670	91	3.1	87	81	10	300	26	17	17	39	1.91
43294759--43294977	54	4.1	55	89	7	333	28	16	17	37	1.91
43295248--43295349	30	3.4	31	82	5	113	30	23	2	43	1.69
43295718--43295764	3	15.3	3	95	4	85	68	0	31	0	0.90
43295879--43295935	16	3.4	17	77	13	55	78	17	3	0	0.88
43295879--43295920	19	2.2	19	91	0	66	80	16	2	0	0.81
43295897--43295966	15	4.6	15	75	8	70	70	20	10	0	1.16
43295880--43295952	31	2.3	31	86	9	94	73	19	6	0	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43296085--43296182	15	6.5	15	81	8	110	80	0	19	0	0.71
43296083--43296178	8	12.0	8	76	12	99	80	0	19	0	0.72
43296083--43296182	22	4.4	23	76	15	102	80	0	20	0	0.72
43296083--43296178	26	3.7	26	76	16	94	80	0	19	0	0.72
43296727--43296769	22	2.0	22	86	8	63	53	16	4	25	1.62
43296383--43296806	219	1.9	219	79	9	472	38	13	11	36	1.81
43296765--43296927	17	9.4	17	78	9	159	30	12	10	47	1.74
43296765--43296927	35	4.7	34	79	8	168	30	12	10	47	1.74
43298293--43298336	22	2.0	22	82	8	54	59	15	13	11	1.62
43298379--43298717	166	2.0	167	92	5	567	35	13	13	36	1.84
43300635--43301169	44	11.6	44	67	14	204	31	20	17	31	1.96
43301018--43301182	89	1.9	89	80	1	197	32	17	18	30	1.94
43313034--43313108	32	2.3	33	77	11	82	62	1	12	24	1.37
43315746--43315783	17	2.2	17	95	0	67	18	0	31	50	1.47
43327700--43327741	22	1.9	22	90	0	66	23	11	14	50	1.76
43334108--43334152	6	7.5	6	82	0	54	17	0	6	75	1.01
43334103--43334151	18	2.9	17	85	8	64	18	0	6	75	1.00
43334109--43334152	18	2.4	19	81	11	65	18	0	6	75	1.02
43335083--43335116	16	2.1	16	89	10	52	82	0	17	0	0.67
43335078--43335128	22	2.3	22	83	16	70	76	0	17	5	0.98
43336697--43336809	56	2.0	56	92	0	190	32	9	22	35	1.87
43343899--43343937	14	2.8	14	80	0	51	48	2	12	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43344606--43344630	9	2.8	9	100	0	50	60	0	0	40	0.97
43344601--43344643	18	2.3	18	80	4	50	53	0	0	46	1.00
43344977--43345042	9	6.9	10	72	14	50	63	3	0	33	1.10
43345574--43345636	27	2.2	29	81	10	69	25	7	3	63	1.37
43345614--43345674	10	6.3	10	73	19	58	37	4	0	57	1.20
43346291--43346330	13	3.0	13	82	7	53	62	0	0	37	0.95
43348577--43348618	22	2.0	21	85	4	57	59	9	2	28	1.41
43348881--43348922	21	2.0	21	85	4	57	61	2	7	28	1.35
43349022--43349084	26	2.5	25	86	2	81	58	1	4	34	1.29
43348962--43349084	25	4.7	26	73	13	108	60	2	4	32	1.31
43350552--43351501	44	20.6	44	68	13	214	29	21	18	30	1.97
43350542--43350843	88	3.4	88	79	1	237	28	22	16	33	1.95
43351011--43351509	94	5.3	94	90	0	737	29	20	19	30	1.97
43351527--43351651	46	2.7	45	85	10	182	29	24	16	28	1.97
43352488--43352626	6	23.2	6	89	2	109	0	28	0	71	0.87
43352496--43352626	12	10.9	12	90	0	199	0	29	0	70	0.87
43352496--43352626	9	14.6	9	90	0	199	0	29	0	70	0.87
43352496--43352626	15	8.7	15	93	0	199	0	29	0	70	0.87
43357872--43357913	22	2.0	21	85	4	57	59	9	2	28	1.41
43358176--43358217	21	2.0	21	85	4	57	61	2	7	28	1.35
43358256--43358439	54	3.4	52	75	15	144	59	2	4	32	1.33
43358256--43358378	26	4.8	25	75	14	101	60	1	4	33	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43358392--43358471	25	3.1	25	74	10	88	68	5	2	23	1.21
43361275--43361304	15	1.9	16	93	6	53	16	40	0	43	1.48
43363229--43363272	21	2.1	21	100	0	88	34	9	22	34	1.86
43363194--43363311	61	1.9	61	98	0	227	38	7	19	33	1.80
43363250--43363353	40	2.6	40	93	0	172	42	9	16	31	1.80
43363915--43363947	17	1.9	17	93	0	57	33	0	0	66	0.92
43364192--43364247	16	3.5	16	78	7	60	30	25	5	39	1.78
43364249--43364310	31	2.0	31	96	0	115	37	19	16	27	1.93
43366064--43366104	20	2.1	20	90	4	66	31	7	4	56	1.48
43367302--43367367	26	2.5	26	95	0	114	21	28	25	24	1.99
43380398--43380462	28	2.4	27	76	19	71	18	23	29	29	1.98
43384026--43384088	22	2.9	22	75	11	67	49	3	1	46	1.27
43384100--43384156	29	1.9	29	89	10	89	61	0	3	35	1.13
43384097--43384174	15	5.1	16	73	16	67	62	0	3	33	1.13
43384124--43384181	15	3.5	16	79	13	64	60	0	6	32	1.23
43384129--43384219	18	4.7	20	71	19	68	63	1	4	30	1.21
43384149--43384205	15	4.2	13	84	10	62	59	1	5	33	1.30
43384149--43384212	14	4.6	14	81	16	80	60	1	4	32	1.26
43384104--43384218	26	4.6	25	69	13	76	61	0	4	33	1.21
43384129--43384257	40	3.3	38	78	13	104	65	3	3	27	1.22
43384086--43384257	12	14.2	12	68	18	81	63	2	2	30	1.23
43384283--43384347	25	2.7	24	75	15	64	63	0	1	35	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43384774--43384873	50	2.0	50	100	0	200	14	38	34	14	1.85
43385751--43386154	90	4.5	90	89	3	566	25	26	15	31	1.96
43385782--43386116	45	7.5	45	65	13	188	25	25	15	32	1.95
43385767--43386154	179	2.2	180	89	2	586	26	26	15	31	1.96
43386041--43386272	117	2.0	118	90	0	367	27	27	15	29	1.96
43386155--43386784	171	3.6	171	91	1	963	26	27	15	30	1.96
43386280--43386784	90	5.7	90	89	4	767	26	27	16	30	1.96
43386462--43386789	45	7.3	45	66	15	203	26	26	15	31	1.96
43394826--43394851	10	2.6	10	100	0	52	0	42	0	57	0.98
43394817--43394855	14	2.8	14	88	0	51	2	41	0	56	1.13

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