genome.fa.s7.2.7.7.80.10.50.1000.154.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  154  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)
52420821--52420890	21	3.5	20	74	16	74	45	8	14	31	1.75
52420818--52420894	38	2.0	38	97	0	145	48	7	14	29	1.72
52420818--52420874	17	3.1	17	72	18	60	50	5	12	31	1.62
52423743--52424004	39	6.7	40	88	7	337	24	27	22	25	2.00
52431275--52431536	39	6.7	40	88	7	337	24	27	22	25	2.00
52434977--52435011	18	1.9	18	88	0	52	25	28	0	45	1.54
52442487--52442598	49	2.3	49	85	3	145	25	25	21	28	1.99
52442669--52442794	46	2.7	46	88	2	173	23	28	16	30	1.96
52450754--52450799	19	2.5	19	82	6	60	45	2	2	50	1.26
52453607--52454060	230	2.0	230	94	0	793	31	22	15	30	1.95
52455841--52456102	39	6.7	40	87	7	337	25	22	27	24	2.00
52491070--52491110	18	2.3	18	86	0	55	24	2	4	68	1.22
52510691--52510720	16	1.9	15	93	6	51	33	23	0	43	1.54
52512237--52512342	42	2.5	43	84	3	151	35	26	22	15	1.93
52512237--52512332	21	4.5	21	89	2	129	36	27	22	13	1.92
52512715--52512772	15	3.8	15	88	2	89	51	12	0	36	1.39
52525755--52526016	39	6.7	40	88	7	337	24	27	22	25	2.00
52530237--52530461	40	5.7	40	86	4	249	26	28	20	24	1.99
52530393--52530470	40	1.9	41	82	10	97	26	28	20	24	1.99
52535517--52535579	21	3.0	21	88	2	81	33	31	4	30	1.78
52535909--52535944	13	2.8	13	91	0	63	75	0	5	19	1.00
52535908--52535945	12	3.1	12	88	7	58	71	0	10	18	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52538574--52538678	53	2.0	53	96	0	192	23	20	26	28	1.99
52539187--52539234	20	2.4	20	67	0	51	33	18	27	20	1.96
52544226--52544255	10	2.9	10	95	5	51	80	6	3	10	1.01
52544318--52544375	21	2.8	20	75	15	55	77	5	10	6	1.11
52544337--52544423	40	2.3	37	83	13	108	73	4	13	8	1.22
52545410--52545517	6	17.7	6	68	6	65	70	2	19	7	1.24
52545410--52545515	24	4.3	23	73	13	72	70	2	18	7	1.23
52545478--52545535	27	2.1	27	87	12	84	70	0	18	10	1.15
52545479--52545535	14	4.2	13	79	16	62	71	0	17	10	1.12
52545532--52545594	33	1.9	33	84	12	85	53	6	26	12	1.62
52547376--52547421	20	2.3	20	84	0	56	23	19	17	39	1.92
52547368--52547441	30	2.5	30	84	8	80	22	20	18	37	1.94
52549788--52549817	15	2.1	14	93	6	51	6	20	0	73	1.05
52549839--52549881	19	2.2	20	87	4	61	6	11	2	79	1.02
52553726--52553766	15	2.6	16	96	3	75	19	12	4	63	1.46
52553804--52553855	13	3.8	13	85	9	68	17	1	7	73	1.16
52553803--52553861	28	2.1	28	90	0	91	23	3	8	64	1.37
52561344--52561513	40	4.3	40	90	0	234	26	28	21	24	1.99
52561388--52561566	80	2.2	80	81	3	191	26	27	21	24	1.99
52565504--52565546	20	2.2	20	86	0	59	53	2	30	13	1.53
52566881--52566955	38	2.0	38	97	0	141	28	14	21	36	1.93
52567691--52567740	18	2.6	19	87	9	66	4	20	2	74	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52567697--52567740	19	2.4	17	82	14	52	4	18	2	75	1.09
52570051--52570103	23	2.4	22	75	9	54	9	18	1	69	1.25
52570096--52570135	18	2.2	18	86	0	53	7	25	2	65	1.32
52570131--52570183	27	2.0	27	84	0	70	7	26	0	66	1.18
52571890--52572019	65	2.0	65	100	0	260	24	21	26	27	1.99
52592079--52592310	115	2.0	115	96	0	428	23	18	15	42	1.88
52592798--52592854	26	2.2	26	90	0	87	35	8	31	24	1.86
52596848--52596943	42	2.3	42	82	10	108	33	28	18	19	1.96
52597497--52597555	30	2.0	30	83	6	75	30	23	1	44	1.64
52602010--52602046	19	2.1	18	90	10	58	18	45	18	16	1.85
52606320--52606403	28	3.0	28	85	0	123	29	26	13	30	1.93
52606388--52606484	40	2.4	39	86	3	122	31	28	17	21	1.96
52617399--52617496	34	3.0	33	79	8	101	25	24	23	26	2.00
52624985--52625020	15	2.5	15	95	4	65	77	0	11	11	0.99
52626496--52626546	22	2.3	21	83	6	57	37	33	1	27	1.68
52626501--52626563	21	3.0	21	85	2	72	34	31	3	30	1.74
52629435--52629666	49	4.7	48	79	6	248	30	27	17	25	1.97
52629435--52629666	100	2.3	99	83	4	279	30	27	17	25	1.97
52634475--52634720	49	4.9	50	81	2	280	28	25	18	27	1.98
52634488--52634718	100	2.3	99	84	2	284	29	25	18	26	1.98
52641571--52641648	34	2.3	34	93	0	129	29	7	17	44	1.77
52646267--52646398	27	4.9	26	86	3	156	35	21	22	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52646648--52646798	76	2.0	76	93	0	257	25	28	20	25	1.99
52647955--52648250	148	2.0	148	100	0	592	33	18	8	39	1.82
52648233--52648285	26	2.0	26	96	0	97	37	24	7	30	1.83
52651861--52652240	43	8.6	43	83	6	409	28	30	18	22	1.97
52651908--52652013	54	1.9	55	90	5	171	30	32	16	20	1.95
52656928--52656969	6	7.0	6	91	0	66	19	2	0	78	0.86
52656928--52656989	12	4.9	12	80	9	61	16	8	1	74	1.13
52657830--52657859	15	1.9	16	93	6	53	23	23	0	53	1.46
52663095--52663123	13	2.1	14	93	6	51	20	0	27	51	1.47
52665011--52665176	43	3.9	41	82	7	156	25	20	29	24	1.99
52666028--52666228	93	2.2	93	97	0	377	38	10	14	35	1.81
52673628--52674085	229	2.0	229	99	0	907	29	18	25	26	1.98
52677725--52677902	27	6.6	27	85	3	214	26	14	28	30	1.95
52677726--52677881	82	1.9	81	89	3	242	26	14	28	30	1.95
52677722--52677902	82	2.2	81	84	2	238	27	14	27	30	1.95
52680811--52680889	37	2.1	37	90	0	122	25	31	18	24	1.98
52681008--52681601	47	12.7	47	91	3	934	29	28	9	32	1.89
52681271--52681339	22	3.3	22	63	29	60	28	28	11	30	1.92
52681059--52681580	277	1.9	275	97	0	981	29	28	9	32	1.88
52685461--52685652	40	4.8	40	85	0	267	25	26	21	26	2.00
52693200--52693365	46	3.6	45	82	8	194	25	32	18	24	1.97
52693200--52693414	46	4.7	46	77	12	178	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)
52711272--52711383	27	4.1	27	84	7	138	15	24	23	37	1.93
52711272--52711383	54	2.1	54	88	3	163	15	24	23	37	1.93
52716922--52716954	16	2.1	16	94	0	57	21	51	3	24	1.62
52718371--52718558	49	3.8	49	83	2	259	28	24	19	27	1.98
52718371--52718563	100	1.9	100	93	0	332	28	24	19	27	1.99
52718813--52718866	27	2.0	27	85	0	72	38	14	5	40	1.70
52723903--52724031	49	2.6	49	77	2	143	24	27	19	28	1.98
52728152--52728271	56	2.1	56	98	0	231	45	9	23	22	1.81
52729399--52729427	12	2.4	12	100	0	58	31	27	24	17	1.97
52729411--52729516	39	2.7	39	85	7	142	24	22	27	25	2.00
52729425--52729516	39	2.3	40	90	5	143	22	22	28	26	1.99
52733528--52734181	328	2.0	328	96	0	1191	27	22	16	33	1.95
52735180--52735321	76	1.9	74	86	5	205	42	24	11	21	1.86
52735634--52735867	28	8.4	28	89	1	337	32	29	13	24	1.93
52737535--52737638	48	2.2	48	82	6	122	31	22	28	17	1.96
52740092--52740192	38	2.6	38	90	3	148	22	25	26	24	2.00
52740108--52740215	38	2.8	38	90	0	153	21	24	26	27	1.99
52740208--52740362	43	3.6	43	92	0	265	10	23	33	31	1.90
52742619--52742677	30	2.0	30	82	0	73	15	22	42	20	1.89
52744556--52744611	23	2.4	23	96	0	103	28	48	5	17	1.69
52753275--52753330	28	2.0	27	93	3	94	28	17	16	37	1.91
52756248--52756428	40	4.6	40	85	2	231	23	25	26	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52762417--52762454	17	2.3	17	86	4	51	23	18	7	50	1.73
52785572--52785636	33	2.0	33	93	0	112	24	36	7	30	1.84
52786305--52786389	43	2.0	42	95	2	152	27	22	24	25	2.00
52787180--52787233	26	2.1	26	96	0	99	12	16	27	42	1.85
52791357--52791563	53	3.8	54	78	1	218	21	25	17	36	1.95
52797768--52797990	40	5.6	40	90	3	335	23	23	26	26	2.00
52797768--52797990	79	2.8	80	90	4	346	23	23	26	26	2.00
52797764--52797990	119	1.9	119	90	3	359	24	22	26	25	2.00
52798901--52798990	45	2.0	45	88	0	135	28	21	20	30	1.98
52806835--52806873	20	1.9	20	84	5	51	48	7	12	30	1.69

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