genome.fa.s12.2.7.7.80.10.50.1000.15.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_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  15  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)
4538438--4538494	27	2.1	27	100	0	114	36	36	10	15	1.82
4541632--4541687	24	2.5	22	80	11	60	41	10	12	35	1.78
4541643--4541692	24	2.1	24	92	0	82	40	12	14	34	1.82
4542907--4542960	30	1.9	30	82	14	71	53	9	5	31	1.56
4544222--4544308	39	2.2	39	93	0	147	22	22	26	27	2.00
4544222--4544321	39	2.6	39	85	6	132	23	22	27	28	1.99
4551054--4551140	39	2.2	39	95	0	156	21	22	27	27	1.99
4551054--4551153	39	2.6	39	90	3	139	22	22	28	28	1.99
4551591--4551667	38	2.0	38	97	0	145	33	12	9	44	1.75
4554660--4554768	40	2.7	40	100	0	218	23	25	22	27	2.00
4564660--4564691	13	2.5	13	100	0	64	18	31	31	18	1.95
4565987--4566429	222	2.0	222	96	0	823	33	27	11	27	1.91
4568265--4568551	143	2.0	143	98	0	556	32	14	18	34	1.91
4568800--4569061	39	6.7	40	87	7	328	25	22	27	24	2.00
4578989--4579014	13	2.0	13	100	0	52	46	0	0	53	1.00
4581235--4581285	24	2.1	24	88	0	75	15	15	9	58	1.62
4586483--4586587	42	2.5	43	78	7	115	25	17	23	33	1.96
4586442--4586600	43	3.7	42	73	9	133	23	16	27	32	1.96
4593245--4593312	33	2.1	33	94	0	118	54	10	33	1	1.43
4593314--4593352	19	2.1	19	95	0	69	69	0	30	0	0.89
4594216--4594245	6	5.0	6	91	0	51	20	16	13	50	1.78
4594216--4594253	12	3.2	12	88	0	58	21	18	13	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4594376--4594442	18	3.7	18	87	0	80	35	16	17	29	1.92
4601006--4601114	40	2.7	40	84	4	148	25	22	26	24	2.00
4601006--4601147	40	3.6	39	79	8	144	27	22	26	23	2.00
4611388--4611629	49	4.9	49	79	3	268	27	26	19	26	1.99
4611879--4611932	27	2.0	27	85	0	72	38	14	7	38	1.75
4616125--4616198	38	1.9	38	97	0	139	48	17	13	20	1.80
4617913--4618144	49	4.7	49	76	8	227	30	26	17	25	1.97
4618391--4618444	27	2.0	27	85	0	72	38	14	7	38	1.75
4622848--4622897	21	2.4	21	100	0	100	32	12	20	36	1.89
4623910--4624066	43	3.6	42	77	10	158	24	19	25	30	1.98
4627736--4627829	27	3.5	27	88	0	134	28	25	7	38	1.83
4627748--4627959	54	4.1	54	75	14	223	31	22	7	38	1.82
4627788--4627871	42	2.0	42	90	0	132	30	25	5	38	1.80
4627748--4627923	96	1.8	96	87	0	262	30	22	7	39	1.82
4627830--4627961	27	4.9	27	82	0	165	31	21	7	39	1.81
4627891--4628145	27	9.4	27	80	5	133	38	20	7	33	1.82
4627830--4627986	81	1.9	81	81	2	190	33	21	7	38	1.80
4627830--4627987	54	2.9	54	83	1	147	33	21	6	37	1.80
4627938--4628129	54	3.6	54	78	5	199	40	21	7	30	1.81
4627938--4628129	81	2.4	81	81	6	219	40	21	7	30	1.81
4628149--4628362	27	8.0	27	86	5	281	35	16	21	26	1.94
4628566--4628635	25	2.8	25	93	0	113	27	25	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4635209--4635276	34	2.0	34	97	0	127	47	5	30	16	1.70
4635621--4635885	49	5.6	49	72	11	142	24	29	18	27	1.98
4635809--4635935	46	2.8	46	86	2	166	22	29	18	29	1.97
4642244--4642467	39	5.7	40	85	6	262	24	26	23	25	2.00
4642244--4642467	79	2.8	78	83	9	274	24	26	23	25	2.00
4642225--4642467	40	6.1	40	82	9	229	24	26	23	25	2.00
4647906--4648089	92	2.0	92	91	0	296	25	27	18	28	1.98
4648472--4648637	84	2.0	84	93	0	287	28	15	24	31	1.95
4649160--4649348	103	1.8	103	94	0	333	24	23	16	34	1.95
4650301--4650496	40	4.9	40	83	5	252	24	28	23	23	2.00
4650292--4650496	80	2.6	79	90	3	304	24	27	23	23	2.00
4653233--4653265	17	1.9	17	88	11	50	72	0	27	0	0.85
4656206--4656338	60	2.2	61	80	10	150	25	25	21	27	1.99
4667521--4667618	5	18.2	5	70	19	56	18	5	3	73	1.15
4667529--4667578	26	2.0	25	88	4	73	14	6	0	80	0.90
4667533--4667618	12	7.2	11	72	11	55	17	5	2	74	1.12
4667533--4667595	6	10.2	6	77	6	63	14	6	1	77	1.03
4670522--4670567	21	2.1	22	84	4	58	54	4	6	34	1.46
4670946--4671063	59	2.0	59	90	3	184	24	23	23	27	2.00
4673978--4674567	294	2.0	295	98	0	1155	31	12	25	31	1.92
4674960--4675342	40	9.6	40	86	4	517	25	21	27	25	1.99
4675013--4675342	79	4.2	79	96	1	581	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4684942--4685388	67	6.7	65	77	6	369	37	16	19	25	1.93
4684941--4685387	134	3.4	133	81	2	486	37	16	20	25	1.93
4684938--4685381	200	2.2	201	81	4	531	37	16	20	25	1.93
4686148--4686824	343	2.0	344	92	1	1124	36	11	26	25	1.90
4706469--4706840	67	5.6	67	72	12	237	38	16	19	25	1.92
4706469--4706856	134	2.9	134	73	11	373	38	15	20	25	1.92
4710333--4710536	43	4.8	43	79	3	216	32	25	17	25	1.97
4710335--4710564	43	5.4	42	77	5	194	33	26	16	23	1.95
4710421--4710564	42	3.4	42	78	6	139	34	27	15	21	1.94
4713238--4713473	48	4.9	48	93	0	391	37	6	23	31	1.81
4713620--4713729	37	3.0	37	93	0	184	23	18	31	26	1.97
4715002--4715080	23	3.4	23	89	0	131	40	20	3	35	1.70
4717581--4717791	95	2.2	95	91	1	334	37	22	23	17	1.94
4719637--4719675	18	2.1	19	86	13	55	38	7	5	48	1.54
4732338--4732385	21	2.3	21	92	0	78	41	8	22	27	1.82
4732526--4732600	37	2.0	37	94	0	132	24	5	17	53	1.64
4733575--4733659	43	2.0	43	83	0	107	47	32	1	18	1.57
4733549--4733638	7	12.6	7	74	4	54	43	33	1	22	1.61
4733578--4733755	7	25.4	7	67	11	51	47	29	1	20	1.60
4733712--4733755	14	3.1	14	86	0	61	52	29	0	18	1.46
4734175--4734320	40	3.7	39	79	1	148	28	20	19	30	1.97
4734370--4734498	40	3.2	40	73	0	114	26	19	19	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4734077--4734496	194	2.2	195	80	1	475	28	20	18	31	1.97
4738211--4739339	283	4.0	283	98	0	2120	34	7	18	39	1.79
4750539--4750643	43	2.4	43	88	0	165	22	27	21	27	1.99
4751641--4751679	9	4.2	9	86	3	51	51	7	0	41	1.31
4752428--4752504	38	2.0	38	97	0	145	27	29	9	33	1.88
4756297--4756369	37	2.0	37	97	0	137	28	24	9	36	1.87
4759506--4760335	47	17.7	47	96	2	1544	25	19	27	27	1.99
4767804--4768624	93	8.8	93	99	0	1588	25	19	24	29	1.98
4778232--4778307	38	2.0	38	100	0	152	28	13	23	34	1.92
4779220--4779259	18	2.1	20	86	9	57	17	27	35	20	1.95
4792729--4792807	37	2.1	37	88	4	115	25	30	18	25	1.98
4796067--4796382	40	7.9	40	82	3	325	25	27	22	24	2.00
4796694--4796766	29	2.5	29	88	4	103	26	31	16	26	1.96
4796748--4796850	43	2.4	43	93	0	179	27	33	15	23	1.95
4798705--4798783	37	2.1	37	90	0	122	25	31	18	24	1.98
4798902--4799312	47	8.7	47	97	0	750	29	30	8	32	1.86
4806821--4806969	66	2.3	66	94	2	246	24	26	28	19	1.99
4811040--4811088	25	1.9	26	91	4	82	51	4	0	44	1.20
4811038--4811102	30	2.2	29	81	13	80	50	3	0	46	1.17
4812180--4812241	31	2.0	31	90	0	97	53	9	19	17	1.71
4814208--4814249	20	2.1	20	82	8	50	76	2	0	21	0.90
4814284--4814353	8	7.9	8	73	20	50	60	2	0	37	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4814307--4814373	11	6.8	10	75	14	59	64	1	0	34	1.03
4814301--4814358	19	3.1	19	80	11	75	62	0	0	37	0.96
4814333--4814389	28	2.0	28	83	10	71	70	5	0	24	1.08
4814301--4814374	38	1.9	38	83	5	96	63	1	0	35	1.03
4814304--4814386	18	4.4	18	78	7	58	66	2	0	31	1.05
4814423--4814486	32	2.0	32	87	6	94	60	6	3	29	1.36
4814333--4814476	10	14.1	10	67	20	52	65	4	0	29	1.18
4814418--4814505	10	8.8	10	69	9	63	61	4	2	31	1.28
4814455--4814515	19	3.2	19	76	2	68	62	4	1	31	1.26
4815031--4815155	9	13.6	9	68	20	71	24	2	4	68	1.22

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