genome.fa.s9.2.7.7.80.10.50.1000.15.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  15  of  284  ( 34012 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)
4979838--4980350	194	2.7	188	90	3	795	25	10	21	41	1.86
4981467--4981491	3	8.3	3	100	0	50	32	0	0	68	0.90
4984671--4984822	79	1.9	79	87	6	223	30	6	7	55	1.52
4984671--4984841	84	2.1	79	84	7	218	29	8	8	54	1.59
4985403--4985603	89	2.3	89	80	12	209	40	14	7	36	1.75
4985611--4985715	47	2.3	46	77	12	108	56	0	1	40	1.17
4985652--4985757	20	5.4	19	70	17	65	56	1	2	38	1.25
4985652--4985756	19	5.3	20	70	18	69	56	1	2	39	1.25
4985668--4985758	27	3.2	28	75	23	84	57	2	2	38	1.23
4985986--4986028	19	2.3	19	79	0	50	37	2	2	58	1.24
4988207--4988238	6	5.3	6	96	0	55	37	0	12	50	1.41
4991213--4991292	39	2.1	39	100	0	160	42	10	12	35	1.76
4991736--4991796	30	2.0	30	93	0	104	39	18	4	37	1.72
4991844--4991917	20	3.7	20	87	0	112	32	20	16	31	1.94
4992097--4992121	12	2.1	12	100	0	50	20	16	24	40	1.91
5000323--5000449	46	2.7	48	83	4	168	29	19	26	23	1.98
5000469--5000599	49	2.7	49	82	7	158	29	22	27	20	1.98
5000331--5000589	142	1.8	138	82	8	326	27	19	28	24	1.99
5008064--5008088	13	1.9	13	100	0	50	52	16	0	32	1.44
5014132--5014186	22	2.5	22	93	0	92	14	21	27	36	1.93
5031045--5031207	35	4.6	35	77	0	164	30	7	19	42	1.80
5038974--5039247	6	45.3	6	72	20	207	49	14	16	20	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5039052--5039251	60	3.3	60	92	3	323	49	15	15	20	1.80
5039880--5040362	108	4.5	108	88	1	655	41	9	22	27	1.83
5039880--5040355	27	17.6	27	84	3	591	41	9	22	27	1.84
5041557--5041715	35	4.5	35	75	3	167	30	9	18	41	1.82
5043263--5043303	20	2.0	20	85	0	55	24	24	21	29	1.99
5043408--5043455	20	2.3	21	78	7	53	39	12	18	29	1.88
5046569--5046738	42	4.0	42	82	3	207	21	17	27	33	1.96
5046572--5046727	84	1.9	84	87	0	231	21	17	27	32	1.96
5046803--5046869	32	2.1	32	94	0	116	34	8	26	29	1.87
5056046--5056303	73	3.5	72	89	1	381	27	16	28	28	1.97
5056056--5056303	37	6.8	37	84	2	322	27	16	27	28	1.97
5056275--5056398	48	2.6	48	84	0	149	26	17	26	29	1.98
5063673--5063824	42	3.6	42	85	0	187	23	18	26	31	1.97
5063668--5063824	84	1.9	84	83	0	206	24	17	27	30	1.97
5063900--5063966	32	2.1	32	100	0	134	34	8	29	26	1.87
5064395--5064555	55	2.9	55	89	4	238	34	19	24	21	1.97
5064809--5064839	16	1.9	16	93	0	53	41	0	22	35	1.54
5071765--5071918	53	2.8	55	82	7	199	35	17	24	22	1.95
5086990--5087257	40	6.7	40	95	2	477	25	27	22	24	2.00
5096390--5096614	116	1.9	116	99	0	441	35	22	11	31	1.90
5096987--5097715	365	2.0	366	98	0	1415	31	13	15	39	1.87
5099167--5099506	170	2.0	170	100	0	680	34	12	22	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5103911--5103972	29	2.1	29	82	11	74	66	12	6	14	1.44
5105434--5105489	24	2.4	24	81	3	69	30	21	28	19	1.98
5109707--5109834	43	3.0	42	82	7	143	28	25	18	27	1.98
5120651--5120882	56	4.1	56	98	0	446	45	9	21	22	1.81
5135777--5136211	214	2.0	215	99	0	863	39	14	17	28	1.89
5136322--5136527	53	3.8	54	78	3	209	20	23	17	37	1.94
5149439--5149475	20	1.9	20	88	5	58	18	0	5	75	0.99
5167522--5167739	46	4.7	46	80	7	199	22	31	19	26	1.98
5167475--5167739	140	1.9	141	84	2	354	23	30	18	27	1.98
5184976--5185050	31	2.4	31	84	0	96	26	22	17	33	1.96
5185074--5185165	42	2.2	42	88	3	132	35	20	13	30	1.91
5185310--5185459	26	5.8	26	92	0	248	25	22	24	27	2.00
5186262--5186345	27	3.1	27	93	3	134	20	26	22	30	1.98
5186397--5186449	27	2.0	27	88	0	79	37	16	13	32	1.88
5186404--5186728	27	12.0	27	76	4	145	30	8	19	40	1.82
5186498--5186740	54	4.5	53	77	10	217	29	7	22	40	1.81
5186496--5186701	81	2.6	81	88	0	288	28	7	22	41	1.80
5186684--5186733	26	1.9	26	91	0	82	32	4	22	42	1.72
5186720--5186824	27	3.9	27	85	9	142	40	8	21	28	1.83
5186721--5186824	55	1.9	55	90	4	165	40	8	22	28	1.83
5188391--5188518	27	4.7	27	90	1	168	39	22	7	29	1.82
5188417--5188531	27	4.3	27	86	4	72	40	19	10	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5191266--5191434	90	1.9	90	83	2	223	28	23	17	30	1.97
5198434--5199241	46	17.5	46	96	2	1507	30	28	19	21	1.98
5211309--5211367	30	2.0	30	82	0	73	32	11	25	30	1.92
5211708--5211875	46	3.6	45	75	15	155	27	20	27	23	1.99
5213042--5213069	13	2.2	13	100	0	56	32	32	21	14	1.93
5221997--5222030	17	2.1	17	88	5	52	41	32	5	20	1.76
5222477--5222648	75	2.3	75	91	2	283	44	9	13	31	1.76
5222665--5222947	137	2.1	138	89	0	433	41	8	4	45	1.54
5225844--5225976	54	2.5	54	92	0	212	27	20	21	30	1.98
5226819--5226846	14	2.0	14	100	0	56	35	14	7	42	1.73
5231458--5231582	46	2.7	48	85	9	170	28	17	29	24	1.97
5233600--5233644	22	2.0	22	95	0	81	40	15	13	31	1.86
5240972--5240996	13	1.9	13	100	0	50	20	32	32	16	1.94
5241603--5241971	59	6.1	59	95	3	621	42	8	16	32	1.79
5241856--5241999	71	2.0	71	89	2	218	43	7	15	33	1.75
5258982--5259064	43	1.9	44	87	2	123	54	1	21	22	1.52
5271076--5271113	18	2.1	18	90	0	58	28	34	18	18	1.95
5274308--5274469	43	3.8	42	82	4	182	25	18	24	31	1.98
5288152--5288300	74	2.0	74	97	0	280	41	15	18	24	1.89
5288999--5289062	20	3.1	20	82	8	83	43	17	26	12	1.84
5294129--5294196	32	2.2	31	81	2	73	25	17	19	38	1.93
5294328--5294360	16	2.0	17	94	5	59	66	18	6	9	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5296060--5296108	17	2.9	17	73	11	55	46	2	8	42	1.45
5296465--5296517	27	2.0	27	100	0	106	35	15	15	33	1.88
5306359--5306412	26	2.1	26	100	0	108	37	27	0	35	1.57
5312320--5312502	50	3.7	49	78	5	188	30	24	17	27	1.97
5312749--5312802	27	2.0	27	85	0	72	37	12	9	40	1.76
5321418--5321460	21	2.0	21	100	0	86	72	0	9	18	1.11
5327121--5327188	18	3.8	17	75	14	66	42	4	14	38	1.66
5327953--5327991	20	2.0	20	94	0	69	48	0	7	43	1.31
5328018--5328069	3	17.0	3	76	11	52	30	5	1	61	1.30
5335142--5335207	22	3.2	22	62	29	54	36	10	0	53	1.36
5337063--5337339	140	2.0	140	82	2	333	30	24	15	29	1.95
5339841--5339911	36	2.0	36	86	5	99	28	19	11	40	1.86
5344178--5344228	18	2.7	19	79	14	61	31	1	3	62	1.24
5344186--5344227	17	2.5	17	85	11	59	30	2	4	61	1.29
5344181--5344227	17	2.8	16	84	9	58	31	2	4	61	1.27
5346161--5346198	19	2.0	19	100	0	76	10	21	26	42	1.85
5348514--5348688	45	3.9	45	86	3	226	20	23	21	34	1.96
5349416--5349511	47	2.0	48	88	8	142	43	13	12	30	1.81
5351382--5351574	94	2.1	94	95	0	350	41	16	17	24	1.89
5353702--5353756	22	2.5	22	85	5	76	56	10	1	30	1.44
5354224--5354270	6	8.0	6	86	9	62	14	2	0	82	0.75
5354225--5354271	14	3.3	15	82	8	62	12	2	0	85	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5354843--5354950	45	2.4	45	89	3	164	42	19	17	20	1.89
5356051--5356081	3	10.3	3	100	0	62	67	0	0	32	0.91
5356326--5356382	20	2.8	20	82	15	71	54	1	1	42	1.21
5357669--5357708	2	20.0	2	100	0	80	0	0	50	50	1.00
5357726--5357754	3	9.7	3	100	0	58	0	31	0	68	0.89
5360892--5360945	26	2.1	26	86	6	74	44	22	20	12	1.85
5360979--5361055	26	3.0	24	72	9	64	38	20	19	20	1.93
5363916--5363955	14	2.7	16	74	18	50	45	0	0	55	0.99
5364075--5364104	9	3.2	9	90	9	51	50	0	0	50	1.00
5365638--5365679	18	2.4	18	80	15	52	61	11	0	26	1.30

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