genome.fa.s13.2.7.7.80.10.50.1000.17.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   

This is table  17  of  310  ( 37082 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)
4400210--4400294	39	2.2	39	83	8	102	60	7	1	31	1.31
4400857--4400951	9	10.4	9	75	15	88	31	1	5	62	1.24
4400857--4400931	36	2.1	36	85	9	100	32	0	4	64	1.12
4400857--4400931	19	4.2	17	78	17	80	32	0	4	64	1.12
4403781--4403830	19	2.7	18	85	14	59	66	0	2	32	1.03
4403771--4403830	17	3.3	18	79	9	59	63	1	1	33	1.14
4403791--4403830	20	2.0	20	85	9	55	70	0	2	27	1.01
4404088--4404125	20	1.9	20	100	0	76	31	31	5	31	1.80
4405187--4405260	38	1.9	38	91	0	121	27	9	21	41	1.84
4408120--4408153	16	2.1	16	88	0	50	41	2	20	35	1.68
4408716--4408756	21	2.0	21	85	0	55	34	9	14	41	1.79
4409765--4409806	10	4.1	10	80	14	50	54	28	0	16	1.42
4410259--4410293	17	2.1	17	89	10	54	22	28	0	48	1.51
4410575--4410665	40	2.3	39	84	1	119	30	26	13	29	1.94
4415508--4415564	19	3.1	18	75	9	53	7	17	1	73	1.14
4416815--4416849	17	2.0	18	88	5	54	60	0	2	37	1.12
4419673--4419735	23	3.0	20	80	13	56	63	4	0	31	1.15
4419748--4419781	17	2.1	17	88	5	52	70	2	0	26	1.01
4422780--4422973	96	2.0	96	86	0	271	40	15	29	13	1.86
4424606--4424655	22	2.2	24	85	7	68	32	6	4	58	1.41
4425459--4425505	13	3.7	13	83	16	55	23	0	2	74	0.93
4426719--4426831	47	2.4	47	83	5	131	45	13	15	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4430103--4430128	3	8.7	3	100	0	52	30	0	0	69	0.89
4438126--4438525	41	10.1	40	81	9	376	35	23	22	18	1.95
4438328--4438383	28	2.0	28	89	0	85	39	21	19	19	1.93
4438247--4438464	109	2.0	110	90	2	350	34	25	23	16	1.96
4438209--4438505	150	2.0	151	89	3	465	34	24	22	18	1.96
4442665--4442704	21	2.0	20	85	5	53	12	7	17	62	1.52
4442531--4442782	133	1.9	133	96	0	468	19	9	18	51	1.73
4444197--4445042	160	5.3	160	99	0	1683	34	13	12	39	1.82
4445371--4445410	21	1.9	21	94	0	71	30	10	12	47	1.74
4444992--4446226	460	2.7	460	99	0	2434	35	11	10	42	1.77
4445831--4445870	21	1.9	21	94	0	71	30	10	12	47	1.74
4452361--4452602	44	5.6	44	79	7	169	23	22	23	30	1.99
4452515--4452592	41	1.9	40	89	2	120	17	25	26	29	1.98
4454407--4454438	5	6.4	5	96	0	55	62	3	0	34	1.11
4457580--4457679	43	2.3	43	84	6	123	27	25	23	25	2.00
4462063--4462135	17	4.3	16	77	13	74	31	9	10	47	1.71
4462058--4462123	34	1.9	35	87	3	98	28	13	10	46	1.76
4462058--4462135	34	2.3	35	80	12	92	30	11	10	47	1.73
4462163--4462260	17	5.8	16	69	14	54	25	10	13	51	1.72
4473988--4474813	195	4.2	192	89	7	1305	31	13	20	34	1.91
4474376--4474690	70	4.5	70	86	1	445	36	14	18	30	1.91
4474376--4474758	209	1.8	208	95	0	694	33	14	20	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4474777--4475029	85	2.9	88	79	10	270	27	18	17	36	1.93
4475137--4475354	54	4.1	55	88	8	324	28	16	17	37	1.92
4475625--4475726	30	3.4	30	83	2	125	28	22	3	45	1.70
4476093--4476151	3	18.0	3	86	13	73	66	0	33	0	0.92
4476093--4476161	13	5.2	13	85	11	79	69	0	30	0	0.89
4476093--4476161	10	7.3	10	79	11	74	69	0	30	0	0.89
4476204--4476246	18	2.3	18	84	4	50	30	51	16	2	1.57
4476771--4477057	18	16.4	17	70	12	145	33	14	10	41	1.80
4476771--4477043	35	7.8	36	71	9	161	33	14	10	41	1.80
4476950--4477043	34	2.7	35	80	6	104	29	12	12	44	1.80
4477085--4477182	17	5.8	16	69	14	54	25	10	13	51	1.72
4483725--4483782	27	2.2	26	84	12	73	55	1	10	32	1.44
4483743--4483941	10	21.6	9	65	19	56	58	3	6	32	1.37
4483891--4483940	19	2.6	19	80	3	55	58	0	6	36	1.23
4491228--4491283	27	2.1	27	89	0	85	51	5	10	32	1.59
4501647--4501680	16	2.1	17	94	5	61	32	0	0	67	0.91
4503058--4503230	93	1.9	93	86	0	247	28	28	21	21	1.98
4503638--4503980	172	2.0	172	95	0	623	28	23	8	39	1.84
4508366--4508413	5	9.6	5	100	0	96	39	0	0	60	0.97
4514610--4514657	19	2.5	19	89	0	78	52	18	4	25	1.63
4518856--4518891	19	1.9	18	88	5	54	22	5	0	72	1.05
4520941--4520969	11	2.6	11	100	0	58	27	37	0	34	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4522023--4522372	92	3.8	92	91	0	502	18	25	15	40	1.90
4522023--4522388	46	8.0	46	87	0	437	19	25	15	39	1.91
4531440--4531560	55	2.2	55	82	2	136	21	33	23	21	1.97
4550264--4550298	18	1.9	18	94	0	61	65	20	0	14	1.26
4554993--4555037	22	2.0	22	100	0	90	35	8	13	42	1.75
4555480--4555970	44	11.0	44	78	8	422	34	17	19	28	1.95
4555480--4555970	132	3.7	132	77	9	494	34	17	19	28	1.95
4555480--4556089	44	13.6	44	74	12	397	33	18	19	28	1.96
4556243--4556291	15	3.4	13	81	18	53	79	8	0	12	0.93
4557528--4557563	19	1.9	18	88	5	54	22	5	0	72	1.05
4559613--4559641	11	2.6	11	100	0	58	27	37	0	34	1.57
4560695--4561014	46	7.0	46	89	0	417	20	25	15	38	1.92
4570066--4570186	55	2.2	55	82	2	136	21	33	23	21	1.97
4590268--4590302	18	1.9	18	94	0	61	65	20	0	14	1.26
4594997--4595041	22	2.0	22	100	0	90	35	8	13	42	1.75
4595484--4595974	44	11.0	44	78	8	422	34	17	19	28	1.95
4595484--4595974	132	3.7	132	77	9	494	34	17	19	28	1.95
4595484--4596093	44	13.6	44	74	12	397	33	18	19	28	1.96
4596247--4596295	15	3.4	13	81	18	53	79	8	0	12	0.93
4597532--4597577	18	2.6	18	83	10	58	19	6	0	73	1.04
4611219--4611376	3	52.7	3	98	0	307	32	0	0	67	0.96
4612304--4612350	17	2.8	16	75	18	51	51	0	12	36	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4618821--4618867	17	2.8	16	78	18	51	51	0	8	40	1.33
4618821--4618872	16	3.2	15	77	22	52	50	0	7	42	1.31
4621736--4621817	25	3.0	27	76	21	82	48	0	3	47	1.19
4623254--4623335	36	2.3	36	89	0	128	35	13	15	35	1.87
4623257--4623359	54	1.9	54	84	4	136	33	13	15	36	1.87
4623254--4623359	18	5.9	18	78	3	106	33	14	15	36	1.87
4628980--4629061	36	2.3	36	89	0	128	35	13	15	35	1.87
4628983--4629085	54	1.9	54	84	4	136	33	13	15	36	1.87
4628980--4629085	18	5.9	18	78	3	106	33	14	15	36	1.87
4634254--4634318	31	2.2	31	88	5	98	26	1	10	61	1.38
4644644--4644685	21	2.0	21	81	9	50	40	2	2	54	1.26
4648009--4648048	15	2.7	15	96	0	71	5	40	12	42	1.64
4649510--4649568	26	2.3	26	91	2	93	23	18	22	35	1.96
4649717--4649760	20	2.2	20	84	8	54	34	6	0	59	1.24
4653261--4653354	45	2.1	45	95	0	170	40	10	14	34	1.81
4659158--4659463	91	3.4	91	88	4	440	27	4	11	56	1.55
4659967--4660017	25	2.0	25	100	0	102	27	15	29	27	1.96
4663909--4663966	30	1.9	30	82	3	71	31	18	8	41	1.81
4664990--4665085	11	9.0	11	70	17	60	20	17	2	59	1.48
4664987--4665084	5	18.6	5	76	15	74	19	17	2	61	1.45
4664987--4665084	22	4.4	21	76	13	88	19	17	2	61	1.45
4664987--4665085	16	6.6	16	69	22	63	20	17	2	60	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4665029--4665084	27	2.1	27	86	0	76	19	16	1	62	1.41
4665211--4665288	5	14.0	5	74	19	57	28	14	1	56	1.46
4665212--4665284	23	3.5	22	70	22	75	28	13	1	56	1.46
4665211--4665287	28	2.7	28	80	8	75	28	14	1	55	1.47
4665208--4665292	12	6.7	12	71	15	55	28	14	1	56	1.45
4665236--4665312	30	2.7	28	80	11	77	27	10	1	61	1.37
4665360--4665416	20	2.9	19	80	15	64	24	14	0	61	1.33
4665373--4665412	18	2.2	18	86	8	55	25	12	0	62	1.30
4665798--4665907	5	20.2	5	78	12	85	23	16	2	57	1.52
4665798--4665898	22	4.6	22	89	0	139	23	14	2	58	1.51

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310