genome.fa.s12.2.7.7.80.10.50.1000.14.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  14  of  276  ( 33102 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)
4171883--4171920	19	2.0	20	85	15	53	39	23	0	36	1.55
4172646--4172706	30	2.0	30	87	0	86	32	24	6	36	1.81
4179373--4179410	19	2.0	20	85	15	53	39	23	0	36	1.55
4179640--4179810	93	1.8	93	94	0	306	29	28	20	22	1.98
4179635--4179807	46	3.7	46	79	10	208	30	27	20	22	1.98
4180230--4180289	30	2.0	30	90	0	93	30	25	8	36	1.85
4181478--4181509	5	6.4	5	100	0	64	21	0	0	78	0.76
4185130--4185227	40	2.5	40	88	5	137	24	25	29	20	1.99
4185232--4185290	29	2.0	29	96	0	109	20	8	33	37	1.83
4187829--4187925	43	2.2	44	78	8	110	28	15	23	31	1.95
4195817--4195845	15	1.9	15	100	0	58	24	6	34	34	1.82
4232960--4233129	40	4.3	40	85	0	207	24	30	21	23	1.99
4236680--4236831	75	2.0	75	98	0	295	32	28	16	22	1.95
4242568--4242625	30	1.9	30	92	0	98	56	13	17	12	1.66
4242559--4242623	15	4.4	15	76	16	64	60	12	16	10	1.59
4242570--4242632	15	4.2	15	78	8	74	57	14	15	12	1.66
4245588--4245759	93	1.8	93	94	0	308	27	30	21	20	1.98
4245580--4245755	46	3.8	46	81	10	214	28	29	21	21	1.98
4247425--4247465	16	2.4	16	88	8	55	48	34	4	12	1.62
4248893--4248950	29	2.0	28	90	3	89	29	15	29	25	1.96
4248905--4248986	29	2.8	29	77	0	83	30	15	29	24	1.96
4255459--4255512	26	2.1	26	100	0	108	16	7	29	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4256644--4256745	43	2.4	44	79	9	113	31	22	18	27	1.97
4268868--4269000	54	2.5	54	98	0	257	26	21	25	26	2.00
4288281--4288328	10	4.8	10	82	7	53	43	0	8	47	1.33
4289354--4289383	13	2.2	14	94	5	53	43	0	13	43	1.43
4293757--4293794	12	3.2	12	96	0	67	63	7	2	26	1.35
4299564--4299676	41	2.8	41	75	10	104	21	20	27	30	1.98
4312662--4312908	49	5.0	50	79	4	275	25	19	26	29	1.98
4315140--4315251	28	4.0	28	85	1	154	37	19	24	18	1.94
4323090--4323176	28	3.2	28	83	3	106	34	20	26	18	1.96
4326711--4326761	24	2.1	24	88	0	75	17	15	23	43	1.88
4326728--4326814	23	3.7	23	72	10	70	17	13	24	44	1.85
4328269--4328309	15	2.7	15	84	0	55	58	4	2	34	1.32
4329514--4329545	15	2.1	15	94	0	55	3	0	34	62	1.11
4329998--4330157	44	3.6	44	80	1	196	26	23	20	30	1.98
4333674--4333910	106	2.2	106	99	0	465	25	26	19	28	1.99
4347060--4347192	43	3.1	42	76	5	142	24	15	27	31	1.96
4347074--4347219	43	3.5	41	76	7	141	28	16	27	28	1.97
4352587--4352654	27	2.5	28	81	9	79	33	23	20	22	1.97
4353073--4353132	27	2.2	26	80	8	66	23	20	20	36	1.95
4353080--4353134	27	2.0	28	85	3	76	23	18	20	38	1.93
4366667--4366734	29	2.3	29	85	5	93	27	30	13	27	1.94
4366556--4366883	174	1.9	174	97	0	620	30	24	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4366836--4366914	29	2.7	30	82	13	110	29	30	15	25	1.96
4369818--4369901	26	3.4	25	74	8	73	28	25	17	28	1.98
4369951--4370025	20	3.8	20	91	6	111	34	18	9	37	1.83
4369951--4370006	11	5.5	11	71	16	57	32	19	10	37	1.86
4369968--4370024	9	5.8	10	76	15	57	35	19	8	36	1.83
4370505--4370767	132	2.0	132	92	0	436	25	23	17	33	1.96
4379996--4380023	8	3.5	8	100	0	56	14	21	21	42	1.88
4381872--4381898	13	2.1	13	100	0	54	29	22	7	40	1.81
4388174--4388225	25	2.1	25	100	0	104	38	7	25	28	1.83
4393441--4393516	38	2.0	38	100	0	152	26	13	26	34	1.93
4395067--4395094	6	4.7	6	100	0	56	46	0	0	53	1.00
4396595--4396655	21	2.9	21	85	4	70	29	8	1	60	1.35
4397061--4397088	14	2.0	14	100	0	56	64	0	0	35	0.94
4397046--4397105	25	2.5	25	81	10	63	56	0	1	41	1.09
4397270--4397300	15	2.0	16	93	6	55	29	0	0	70	0.87
4399360--4399490	44	2.9	45	78	13	126	35	17	22	24	1.95
4399352--4399464	23	4.9	23	72	12	99	37	15	23	23	1.93
4406380--4406414	16	2.1	17	89	5	54	60	0	2	37	1.12
4407780--4407820	18	2.3	18	86	0	55	19	2	36	41	1.65
4407952--4408041	44	2.0	44	95	0	162	36	13	22	27	1.91
4408249--4408523	133	2.1	133	89	1	417	28	25	18	27	1.98
4413917--4413985	33	2.2	31	82	15	79	42	0	5	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4414687--4414738	11	4.5	11	81	11	50	57	0	13	28	1.36
4414692--4414732	12	3.5	11	90	6	55	56	0	17	26	1.41
4427715--4427808	39	2.4	38	85	5	127	35	40	11	12	1.80
4429917--4430031	55	2.1	56	83	8	146	34	21	24	19	1.96
4429942--4430031	27	3.2	27	85	7	119	32	23	24	20	1.98
4430137--4430201	28	2.3	28	94	0	112	30	7	27	33	1.85
4440396--4440510	55	2.1	56	83	8	146	34	21	24	19	1.96
4440421--4440510	27	3.2	27	85	7	119	32	23	24	20	1.98
4440615--4440679	28	2.3	28	97	0	121	30	7	27	33	1.85
4445828--4445911	32	2.8	28	79	15	80	42	0	3	53	1.18
4445862--4445918	29	2.0	29	89	6	89	47	0	1	50	1.11
4445979--4446050	33	2.2	32	88	11	103	40	0	6	52	1.28
4446136--4446206	18	3.7	18	75	18	72	40	0	2	56	1.14
4446751--4446802	11	4.5	11	81	11	50	57	0	13	28	1.36
4446756--4446796	12	3.5	11	90	6	55	56	0	17	26	1.41
4447461--4447552	44	2.1	44	85	4	123	21	22	23	31	1.98
4449248--4449335	22	3.9	22	80	10	90	35	18	23	22	1.96
4449242--4449383	45	3.0	45	83	11	146	35	17	21	25	1.95
4449894--4449954	27	2.1	27	82	8	68	31	21	1	45	1.61
4454918--4454957	13	3.1	13	92	0	71	45	7	17	30	1.76
4455240--4455280	20	2.0	20	100	0	82	36	4	14	43	1.67
4455352--4455399	25	1.9	25	83	8	62	45	2	0	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4455316--4455448	74	1.9	72	86	9	193	45	3	2	49	1.30
4457762--4459015	627	2.0	627	98	0	2400	34	19	13	31	1.91
4461896--4464432	819	3.0	819	91	5	3759	30	24	15	30	1.96
4462837--4465503	891	3.0	891	89	5	3780	30	24	15	29	1.96
4463185--4465847	885	3.0	885	90	5	3805	30	24	15	29	1.96
4465064--4467043	990	2.0	990	100	0	3960	29	24	16	29	1.96
4471802--4471839	6	6.7	6	96	3	62	47	0	0	52	1.00
4472117--4472174	21	2.9	20	75	19	59	43	0	0	56	0.99
4472137--4472178	18	2.5	16	88	7	57	40	0	0	59	0.97
4472114--4472194	26	3.0	27	71	14	69	45	0	0	54	0.99
4472485--4472564	25	2.9	26	77	17	90	32	1	12	53	1.46
4477545--4477574	13	2.2	14	94	5	53	13	0	0	86	0.57
4478650--4478676	6	4.5	6	100	0	54	62	0	0	37	0.95
4483655--4484007	93	3.8	93	87	3	527	23	18	26	30	1.98
4483796--4483961	47	3.6	47	77	8	194	24	16	27	31	1.97
4486696--4486775	41	2.0	41	97	0	151	35	13	13	37	1.85
4491696--4491774	39	2.0	40	87	2	115	22	12	21	43	1.86
4495030--4495093	9	6.9	9	71	7	56	32	1	0	65	1.02
4495005--4495122	19	5.1	22	70	19	89	35	0	0	62	1.07
4495011--4495136	47	2.7	46	79	14	134	36	0	1	61	1.12
4495061--4495134	23	3.2	22	72	11	67	36	0	1	62	1.04
4495352--4495420	26	2.7	26	79	0	75	17	7	7	68	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4497854--4497971	39	3.0	39	79	9	134	31	25	21	22	1.98
4501527--4501563	19	1.9	19	100	0	74	24	43	0	32	1.55
4503977--4504094	42	2.8	42	83	10	150	22	17	25	34	1.96
4506299--4506393	40	2.4	40	85	7	122	29	27	16	26	1.97
4513723--4513816	40	2.3	41	87	3	129	29	26	15	27	1.96
4523244--4523322	37	2.1	37	90	0	122	25	31	18	24	1.98
4523441--4524052	47	13.0	47	98	0	1161	29	30	8	31	1.87
4531614--4531783	43	4.0	41	73	13	110	33	24	15	26	1.95
4533963--4534016	27	2.0	27	96	0	99	29	16	25	27	1.97
4538277--4538345	34	2.0	35	97	2	131	37	26	5	30	1.80

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