genome.fa.s7.2.7.7.80.10.50.1000.15.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  15  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)
4527903--4528021	43	2.8	42	80	2	148	32	26	16	23	1.96
4533515--4533740	48	4.7	47	77	10	217	26	26	17	29	1.98
4533519--4533750	96	2.4	95	89	2	349	26	26	17	29	1.98
4539694--4539737	23	1.9	23	86	9	63	52	11	0	36	1.38
4551828--4551987	50	3.2	50	72	10	148	36	18	21	24	1.95
4560902--4561131	46	5.0	45	89	3	343	23	23	14	38	1.91
4562937--4562984	11	4.2	11	79	10	51	62	2	0	35	1.07
4564202--4564310	43	2.6	42	78	9	107	31	26	11	30	1.92
4568116--4568244	68	1.9	68	86	0	186	33	18	23	24	1.97
4570587--4570636	25	2.0	25	100	0	100	24	8	24	44	1.80
4582689--4583117	215	2.0	215	98	0	831	26	20	18	35	1.95
4583946--4584314	185	2.0	185	97	0	702	33	9	17	40	1.81
4584404--4584561	46	3.4	46	78	11	160	23	19	27	29	1.98
4584632--4584798	46	3.6	46	75	10	169	22	21	27	28	1.99
4584338--4584786	225	2.0	225	96	0	837	24	19	27	28	1.99
4584623--4584793	93	1.8	93	87	0	252	21	22	28	28	1.99
4585023--4585060	19	2.0	20	85	15	53	36	0	23	39	1.55
4610865--4610906	22	1.9	22	85	9	59	38	11	7	42	1.69
4621862--4621895	16	2.1	16	100	0	68	32	14	5	47	1.69
4621869--4621957	45	2.0	44	95	2	160	37	15	6	40	1.74
4626831--4626950	45	2.7	45	80	2	161	23	15	28	33	1.94
4633876--4633935	22	2.6	23	87	10	79	28	15	30	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4638547--4638603	28	2.0	28	100	0	114	36	28	10	24	1.88
4650710--4650896	72	2.6	71	84	3	248	33	27	16	22	1.96
4652945--4653024	41	1.9	42	82	7	101	15	32	28	23	1.95
4654704--4654742	20	2.0	20	84	0	51	7	12	2	76	1.09
4662151--4662308	79	2.0	79	100	0	316	15	8	3	72	1.24
4663978--4664058	42	1.9	42	97	0	153	19	29	18	32	1.96
4664499--4664546	26	1.9	26	87	8	73	60	10	8	20	1.55
4668122--4668203	41	2.0	41	95	0	146	24	7	24	43	1.79
4668323--4668350	1	28.0	1	100	0	56	0	0	0	100	0.00
4671356--4671486	68	1.9	68	88	0	199	28	9	21	40	1.85
4672844--4672951	44	2.4	44	87	3	144	29	23	13	33	1.93
4681287--4681341	28	2.0	28	82	7	67	32	0	23	43	1.54
4687842--4687882	3	14.0	3	85	14	59	31	2	0	65	1.05
4692304--4692355	23	2.2	23	82	3	59	25	13	19	42	1.87
4692324--4692397	32	2.3	32	77	13	80	31	10	20	37	1.87
4692780--4692954	90	2.0	88	82	4	217	34	19	11	34	1.88
4692966--4693040	36	2.1	36	82	5	89	65	0	6	28	1.18
4693032--4693083	20	2.5	20	87	9	70	46	1	3	48	1.31
4693107--4693143	19	1.9	19	88	0	56	32	13	8	45	1.73
4693307--4693391	9	9.3	9	71	13	50	34	4	0	61	1.17
4693316--4693413	9	10.6	9	69	21	60	31	4	0	64	1.12
4693342--4693414	29	2.5	30	82	10	89	31	2	0	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693333--4693419	19	4.6	19	80	5	79	31	3	0	65	1.09
4693342--4693443	38	2.7	38	76	11	104	34	1	0	62	1.13
4700356--4700449	46	2.0	46	100	0	188	34	6	4	55	1.45
4702375--4702414	16	2.7	14	85	11	53	55	0	2	42	1.13
4704363--4704396	14	2.4	14	95	0	59	17	17	14	50	1.79
4707099--4707123	9	2.8	9	100	0	50	56	20	12	12	1.67
4710229--4710267	20	2.0	20	84	0	51	41	15	5	38	1.69
4714045--4714089	14	3.5	13	85	8	56	44	0	6	48	1.29
4714054--4714107	14	4.0	13	83	7	63	46	0	3	50	1.19
4716304--4716349	23	2.0	23	100	0	92	21	26	8	43	1.81
4717520--4717781	39	6.7	40	88	7	337	24	27	22	25	2.00
4721521--4721560	21	1.9	21	89	0	62	47	0	15	37	1.45
4721768--4721819	25	2.1	24	82	10	61	21	21	19	38	1.94
4732204--4732342	43	2.9	47	77	13	151	30	29	17	23	1.97
4732252--4732370	43	2.8	43	80	3	125	31	33	15	19	1.93
4740171--4740255	43	2.0	43	90	0	134	27	31	20	21	1.97
4742246--4742324	39	2.1	38	87	2	113	31	24	21	22	1.98
4750558--4750611	26	2.1	26	89	0	81	38	12	24	24	1.90
4751915--4751954	21	1.9	21	89	0	62	47	0	17	35	1.48
4752106--4752173	30	2.3	30	100	0	136	32	5	13	48	1.66
4752106--4752188	30	2.7	30	90	5	105	33	7	10	48	1.66
4758211--4758501	44	6.7	43	76	5	291	31	25	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4758211--4758499	87	3.3	87	100	0	578	31	24	19	23	1.98
4765051--4765687	318	2.0	318	100	0	1274	41	25	6	26	1.79
4765860--4765904	23	2.0	23	100	0	90	35	17	20	26	1.95
4772374--4772635	39	6.7	40	88	7	337	24	27	22	25	2.00
4780279--4780542	40	6.7	40	86	5	306	25	27	21	25	1.99
4781944--4782027	42	2.0	42	95	0	150	33	21	22	22	1.97
4782741--4782916	46	3.8	46	76	12	189	21	20	27	30	1.98
4782738--4782908	93	1.8	93	92	0	288	21	21	27	29	1.98
4789127--4789609	241	2.0	241	99	0	948	34	22	10	32	1.88
4790209--4790298	44	2.0	44	95	0	162	27	18	7	45	1.77
4790907--4791054	48	3.1	48	90	0	224	29	22	8	38	1.85
4791299--4791342	23	1.9	23	85	0	61	45	11	6	36	1.67
4809065--4809106	15	2.7	16	85	7	59	26	19	23	30	1.98
4816416--4816538	45	2.9	41	72	17	108	41	15	20	22	1.90
4816454--4816539	45	1.9	45	85	4	120	41	16	19	22	1.90
4816617--4816681	27	2.4	27	84	5	78	46	30	15	7	1.74
4816736--4816795	27	2.3	25	80	11	66	28	16	35	20	1.94
4822977--4823089	58	1.9	58	98	0	217	25	23	7	43	1.79
4823534--4823939	46	8.9	45	70	15	212	23	31	20	24	1.98
4823536--4823939	90	4.4	90	74	9	320	24	31	20	24	1.98
4823586--4823888	136	2.2	136	98	0	588	24	30	20	25	1.98
4829713--4830068	46	7.8	45	73	8	274	24	30	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4829710--4830015	136	2.2	136	98	0	594	24	30	19	26	1.98
4831255--4831279	11	2.3	11	100	0	50	48	8	8	36	1.62
4833475--4833549	39	1.9	39	81	5	89	22	24	26	26	2.00
4841256--4841490	39	6.0	40	84	4	248	24	22	27	25	2.00
4852136--4852234	42	2.3	42	80	1	117	36	22	15	26	1.93
4852117--4852273	43	3.7	43	78	5	158	33	23	17	25	1.96
4853844--4854003	42	3.8	42	80	4	187	31	24	15	29	1.95
4853831--4854004	85	2.1	84	87	3	251	31	25	14	28	1.95
4857900--4858049	43	3.6	42	84	7	207	28	24	17	30	1.97
4867711--4867894	50	3.7	50	87	1	262	28	26	18	26	1.98
4867711--4867894	101	1.8	99	91	2	305	28	26	18	26	1.98
4876355--4876418	31	2.1	31	100	0	128	28	17	3	51	1.60
4881553--4881601	25	2.0	24	88	8	64	30	14	22	30	1.93
4886408--4886480	35	2.1	35	89	0	110	16	19	34	30	1.94
4900120--4900172	27	2.0	27	82	10	65	26	16	22	33	1.96
4900276--4900321	20	2.3	20	100	0	92	10	28	28	32	1.91
4904635--4904689	28	1.9	29	88	3	85	20	47	20	12	1.82
4920950--4920994	22	2.0	22	91	0	72	35	8	26	28	1.87
4925550--4925727	27	6.6	27	84	3	205	29	28	15	26	1.96
4925571--4925726	82	1.9	81	88	3	233	29	28	15	26	1.96
4929342--4929385	21	2.2	20	83	4	52	36	18	9	36	1.82
4932082--4932235	33	4.6	33	72	7	96	28	25	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4931981--4932243	101	2.6	101	89	1	384	30	25	15	28	1.96
4947674--4947806	46	2.9	47	82	3	153	24	22	21	31	1.98
4951358--4951392	16	2.2	16	89	0	52	51	14	22	11	1.74
4951608--4951717	29	3.9	28	84	2	130	27	16	29	27	1.97
4954822--4955076	55	4.8	54	78	9	251	36	17	24	21	1.95
4954829--4955029	108	1.8	110	88	4	309	34	17	25	22	1.96
4955268--4955298	16	1.9	16	93	0	53	41	0	22	35	1.54
4956263--4956527	136	1.9	136	93	0	458	24	18	22	34	1.96
4962544--4962797	55	4.8	51	78	8	210	35	16	25	22	1.94
4962551--4962750	107	1.8	110	85	5	282	34	16	26	23	1.95

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