genome.fa.s12.2.7.7.80.10.50.1000.161.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  161  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)
52431538--52431565	9	3.1	9	100	0	56	32	10	10	46	1.73
52440069--52440334	46	5.7	46	77	15	280	21	19	29	29	1.98
52440112--52440280	47	3.6	47	81	13	240	21	20	28	28	1.98
52440063--52440327	93	2.8	93	96	1	478	21	20	29	29	1.98
52446095--52446183	28	3.2	28	70	17	78	50	4	19	25	1.66
52446083--52446191	54	2.0	54	94	0	191	51	4	18	25	1.65
52449383--52449423	22	1.9	22	90	5	66	9	41	29	19	1.83
52457407--52457669	132	2.0	132	99	0	517	40	7	18	33	1.79
52459942--52460302	46	7.8	45	76	15	353	27	30	21	20	1.98
52459949--52460307	93	3.9	93	98	0	675	27	30	21	20	1.98
52459996--52460256	47	5.6	47	77	15	299	27	30	21	21	1.98
52463265--52463338	30	2.5	29	82	6	85	10	16	16	56	1.66
52463265--52463339	15	5.0	15	73	0	69	10	16	16	57	1.65
52463270--52463349	15	5.4	14	72	10	61	10	17	13	58	1.62
52470090--52470127	10	3.8	10	83	13	51	26	10	0	63	1.27
52476373--52476444	16	4.6	16	73	15	60	20	5	0	73	1.03
52476386--52476444	17	3.3	18	79	13	61	22	3	0	74	0.96
52476413--52476459	13	3.4	14	88	11	71	27	4	2	65	1.22
52476369--52476468	26	3.9	24	76	17	78	22	6	1	71	1.14
52479147--52479328	96	1.9	97	86	3	260	24	13	27	34	1.93
52479982--52480027	10	4.6	10	84	10	51	23	6	2	67	1.25
52484136--52484415	3	93.3	3	100	0	560	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52484784--52484808	6	4.2	6	100	0	50	52	0	32	16	1.44
52498586--52498901	46	6.7	47	75	11	215	24	28	19	27	1.99
52498910--52498951	22	1.9	22	100	0	84	30	23	23	21	1.99
52500534--52500795	39	6.7	40	88	7	337	24	27	22	25	2.00
52508768--52508841	29	2.6	29	86	4	96	25	31	16	27	1.96
52527291--52527335	18	2.4	18	82	13	56	8	26	0	64	1.23
52529867--52529992	50	2.5	50	90	0	198	38	14	15	32	1.87
52531793--52531842	18	2.7	19	75	25	61	10	30	0	60	1.30
52531910--52531956	21	2.3	20	82	10	51	4	23	4	68	1.26
52535366--52535413	20	2.3	20	96	3	87	39	25	27	8	1.84
52536527--52536606	40	2.0	40	95	2	135	23	20	32	22	1.97
52545228--52545351	49	2.5	49	92	0	194	30	27	16	25	1.96
52545523--52545576	27	2.0	27	85	0	72	38	14	7	38	1.75
52553880--52553965	39	2.2	39	89	0	136	27	25	22	24	1.99
52557042--52557097	28	2.0	28	96	0	103	28	12	17	41	1.86
52563869--52563967	29	3.4	29	90	1	146	27	15	27	30	1.96
52565876--52565980	52	2.0	52	96	0	192	34	19	20	26	1.96
52577853--52577894	21	2.0	21	85	0	57	69	2	14	14	1.30
52577940--52578064	66	1.9	66	100	0	250	27	9	36	27	1.88
52580116--52581022	27	33.6	27	97	0	1663	35	26	11	26	1.91
52593334--52593457	48	2.6	48	84	1	160	28	25	21	24	1.99
52596814--52596906	33	2.8	33	95	1	159	21	26	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52597101--52597154	27	2.0	27	85	0	72	38	20	22	18	1.93
52597313--52597399	27	3.2	27	74	9	79	25	22	17	34	1.96
52597334--52597424	27	3.4	27	74	19	91	24	20	17	37	1.94
52602760--52602874	29	4.0	28	79	2	113	28	14	29	26	1.95
52602773--52602882	57	1.9	58	84	1	150	28	15	30	25	1.96
52607205--52607319	29	4.0	29	86	2	153	26	15	29	28	1.96
52609120--52609157	20	1.9	20	88	0	58	55	31	0	13	1.38
52609114--52609161	7	6.9	7	85	7	53	47	37	0	14	1.44
52609414--52609454	20	2.0	20	86	9	57	19	7	26	46	1.76
52610858--52611016	42	3.7	42	75	9	153	29	25	16	27	1.97
52630578--52630726	42	3.5	43	76	11	153	26	26	20	26	1.99
52636201--52636372	93	1.8	93	88	0	263	28	28	20	22	1.99
52636194--52636369	46	3.8	46	76	10	169	29	28	19	22	1.98
52636245--52636388	46	3.1	45	72	18	127	29	27	19	22	1.98
52636802--52636876	30	2.5	30	93	0	123	24	28	4	44	1.72
52642618--52642838	48	4.6	48	88	0	289	28	28	16	26	1.97
52642619--52642887	96	2.8	95	79	5	290	27	28	17	27	1.97
52645472--52645673	43	4.7	43	85	2	262	25	18	28	28	1.98
52646940--52647079	29	4.9	29	81	2	122	27	32	15	25	1.95
52647026--52647086	29	2.1	28	90	3	95	29	27	14	27	1.95
52653026--52653058	11	3.2	11	87	12	52	45	0	0	54	0.99
52653163--52653197	14	2.6	14	90	4	54	71	0	17	11	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52653229--52653259	4	7.5	4	92	7	53	70	0	29	0	0.87
52654420--52654455	17	2.1	17	90	10	56	41	0	16	41	1.48
52654564--52654598	15	2.3	15	95	0	61	40	0	28	31	1.57
52655362--52655396	15	2.3	15	95	0	61	40	0	28	31	1.57
52654280--52655875	798	2.0	798	97	0	3003	33	10	21	34	1.88
52655805--52656089	45	6.3	45	90	0	374	21	20	18	40	1.92
52655805--52656089	90	3.2	90	89	0	417	21	20	18	40	1.92
52655816--52656083	135	2.0	135	90	0	419	22	19	18	39	1.92
52656263--52656515	18	13.6	18	70	17	124	33	12	16	37	1.86
52656317--52656436	54	2.2	55	80	5	138	33	13	15	38	1.86
52660834--52660876	13	3.3	13	83	9	52	72	0	11	16	1.13
52660830--52660876	17	2.7	18	86	6	69	72	0	10	17	1.12
52660842--52660876	9	4.0	9	88	7	54	71	0	11	17	1.14
52662246--52662281	5	7.0	5	96	3	63	38	0	19	41	1.52
52663721--52663799	37	2.1	37	88	4	115	25	30	18	25	1.98
52663918--52664030	47	2.4	47	95	0	208	30	30	7	31	1.86
52666467--52666694	45	5.1	45	89	1	332	19	19	19	40	1.91
52666467--52666684	89	2.4	90	87	1	303	19	19	20	40	1.92
52666881--52667064	18	10.2	18	74	13	92	35	11	15	36	1.85
52666862--52667064	36	5.6	36	73	10	155	35	11	15	37	1.84
52670114--52670229	59	2.0	59	98	0	223	31	7	19	40	1.80
52672004--52672073	33	2.1	33	97	0	131	42	20	12	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52686832--52686870	15	2.5	15	95	4	69	51	12	25	10	1.71
52689272--52690239	48	20.2	48	98	0	1855	34	5	28	31	1.81
52691508--52691679	46	3.7	46	94	0	299	21	22	27	29	1.99
52715068--52715185	45	2.6	44	81	9	141	30	17	27	24	1.97
52715906--52715965	29	2.1	29	87	6	86	13	26	35	25	1.93
52722912--52722958	18	2.4	20	82	13	62	46	12	8	31	1.72
52730356--52730451	40	2.4	40	89	5	142	23	29	21	25	1.99
52741483--52741654	43	4.0	43	75	13	174	31	24	18	26	1.97
52748434--52748499	29	2.3	29	91	0	105	25	15	28	30	1.96
52748434--52748531	29	3.4	29	78	4	92	26	13	29	30	1.94
52750674--52750832	43	3.7	43	80	5	187	32	25	14	28	1.95
52754061--52754232	93	1.8	93	94	0	308	27	30	21	20	1.98
52754053--52754228	46	3.8	46	81	10	214	28	29	21	21	1.98
52761738--52761864	49	2.6	49	84	8	145	25	24	18	31	1.98
52763877--52763983	43	2.5	42	87	6	144	23	18	25	32	1.97
52768535--52768712	27	6.6	27	84	3	205	29	28	15	26	1.96
52768556--52768711	82	1.9	81	88	3	233	29	28	15	26	1.96
52776725--52776902	27	6.6	27	84	3	205	29	28	15	26	1.96
52776746--52776901	82	1.9	81	88	3	233	29	28	15	26	1.96
52778714--52778789	37	2.1	36	83	11	93	39	2	3	53	1.33
52779288--52779363	37	2.1	36	83	11	93	39	2	3	53	1.33
52778400--52779549	574	2.0	574	100	0	2300	35	12	12	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52784240--52784327	20	4.4	20	70	0	59	14	25	19	40	1.89
52790244--52790402	40	4.0	40	88	1	212	36	25	15	23	1.93
52800344--52800397	28	1.9	28	85	7	74	33	27	12	25	1.93
52800387--52800522	40	3.4	40	86	0	182	35	26	16	22	1.94
52801945--52802167	79	2.8	78	83	7	272	24	27	22	25	2.00
52801945--52802167	39	5.7	40	87	6	280	24	27	22	25	2.00
52810503--52810545	20	2.2	20	83	8	52	55	2	20	20	1.54
52813111--52813156	3	15.3	3	100	0	92	32	0	0	67	0.91
52825125--52825414	61	4.8	61	79	0	222	28	26	12	32	1.93
52825125--52825414	122	2.4	122	79	4	300	28	26	12	32	1.93

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