genome.fa.s2.2.7.7.80.10.50.1000.152.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  152  of  322  ( 38559 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)
49787203--49787469	47	5.7	45	78	9	193	27	18	28	24	1.98
49787203--49787469	140	1.9	141	82	8	339	27	18	28	24	1.98
49788880--49788973	48	2.0	48	93	0	161	12	22	41	23	1.88
49789502--49789575	37	2.0	37	82	15	91	41	24	8	25	1.82
49794306--49794334	13	2.2	13	100	0	58	68	17	0	13	1.20
49795197--49795237	15	2.6	16	88	7	57	80	0	0	19	0.71
49796659--49796690	13	2.4	14	90	10	50	50	0	3	46	1.17
49796824--49796874	23	2.3	22	77	16	52	23	1	9	64	1.34
49797404--49797442	13	3.0	13	76	0	51	76	2	0	20	0.90
49797924--49797948	13	1.9	13	100	0	50	48	4	0	48	1.20
49804603--49804710	26	4.2	26	90	0	171	36	24	6	33	1.81
49807844--49807877	16	2.1	16	94	0	59	67	0	0	32	0.91
49807891--49807930	5	8.4	5	83	10	57	77	2	0	20	0.88
49807891--49807935	13	3.3	14	84	12	58	77	2	0	20	0.87
49807892--49807935	9	4.9	9	91	5	63	77	2	0	20	0.88
49809556--49810257	44	15.8	44	73	5	469	30	21	16	31	1.95
49809552--49810346	89	8.8	88	70	11	330	30	21	16	31	1.95
49809497--49810346	177	4.7	184	76	7	546	30	20	16	32	1.94
49809719--49810346	133	4.7	133	86	3	731	30	21	15	32	1.94
49812874--49812971	34	2.9	34	95	0	178	15	30	18	35	1.92
49822450--49822484	16	2.2	16	94	0	61	68	0	0	31	0.90
49835862--49835974	21	5.4	21	86	0	145	46	15	22	16	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49837068--49837110	16	2.8	16	82	3	52	16	13	6	62	1.51
49848289--49848333	22	2.0	22	95	0	81	46	11	4	37	1.60
49858121--49858199	25	3.2	25	79	0	95	32	17	11	37	1.86
49867984--49868019	17	2.1	17	94	0	63	47	5	27	19	1.72
49868480--49868512	15	2.2	15	94	0	57	12	18	36	33	1.88
49869859--49869910	23	2.2	23	86	6	68	51	13	1	32	1.52
49870133--49870279	72	2.0	72	98	0	285	35	19	2	42	1.66
49880209--49880286	33	2.4	33	83	10	90	24	24	16	34	1.95
49880189--49880421	103	2.3	101	82	3	270	25	24	17	33	1.96
49886565--49886594	13	2.3	13	100	0	60	26	26	26	20	1.99
49887208--49887254	17	2.8	17	90	3	69	17	0	8	74	1.05
49890485--49890526	16	2.7	16	81	3	50	52	2	0	45	1.13
49892039--49892088	24	2.1	24	100	0	100	50	8	8	34	1.61
49894717--49894756	18	2.2	18	86	0	53	42	17	12	27	1.85
49894923--49894975	16	3.4	16	75	12	56	50	26	0	22	1.49
49900099--49900150	23	2.3	22	75	21	54	9	23	1	65	1.32
49905156--49905288	43	3.1	43	86	0	185	21	18	29	30	1.97
49905156--49905318	86	1.9	86	85	2	229	26	19	26	27	1.99
49905156--49905318	43	3.8	42	80	4	164	26	19	26	27	1.99
49908307--49908363	28	2.0	28	96	0	105	28	19	17	35	1.94
49911546--49911574	9	3.3	9	90	9	51	24	0	0	75	0.80
49912168--49912207	20	2.0	20	95	0	71	10	0	42	47	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49915388--49915419	13	2.5	13	100	0	64	81	0	6	12	0.87
49925413--49925439	5	5.4	5	100	0	54	81	18	0	0	0.69
49926894--49927059	20	8.2	20	73	6	131	37	18	30	12	1.88
49926893--49926983	41	2.2	41	84	3	112	38	19	32	8	1.83
49926905--49927059	40	3.8	41	79	4	145	37	18	30	13	1.90
49928381--49928506	28	4.5	28	89	0	189	30	11	26	32	1.91
49929224--49929420	23	8.5	23	73	4	171	25	16	16	42	1.88
49929210--49929426	70	3.1	70	84	2	265	25	15	15	43	1.86
49929224--49929420	47	4.2	45	75	7	153	25	16	16	42	1.88
49929305--49929471	23	7.0	25	68	19	83	26	13	19	41	1.88
49929222--49929478	70	3.7	70	83	2	257	26	14	17	41	1.88
49932629--49932657	5	5.8	5	100	0	58	41	0	58	0	0.98
49934377--49934419	22	2.0	22	95	4	79	51	4	4	39	1.44
49935762--49935827	31	2.1	31	88	0	96	40	10	13	34	1.79
49936071--49936108	6	6.3	6	100	0	76	31	0	15	52	1.43
49942573--49942720	73	2.0	73	96	0	269	29	14	14	41	1.86
49948218--49948414	75	2.6	75	85	1	252	14	15	8	61	1.56
49948398--49948436	5	7.6	5	86	13	53	17	0	2	79	0.84
49958739--49958772	7	5.0	7	89	3	52	73	0	11	14	1.10
49965711--49965749	17	2.3	17	86	8	53	46	0	0	53	1.00
49969007--49969144	66	2.1	66	88	6	201	36	4	24	34	1.75
49978557--49978656	39	2.6	38	85	4	130	50	6	5	39	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50005790--50005831	16	2.6	16	88	7	59	38	7	30	23	1.82
50006042--50006468	120	3.5	120	96	2	802	52	3	0	43	1.25
50006276--50006355	28	2.9	27	76	12	81	55	1	0	43	1.08
50010906--50010940	7	5.0	7	100	0	70	28	0	28	42	1.56
50010897--50010940	21	2.1	21	91	0	70	31	0	27	40	1.56
50016267--50016381	43	2.6	44	81	9	137	26	16	27	29	1.97
50017403--50017529	68	1.9	68	100	0	254	36	7	14	41	1.75
50017734--50017857	63	2.0	63	91	0	203	33	14	18	33	1.91
50028825--50028888	28	2.2	28	88	2	92	29	21	6	42	1.78
50028997--50029034	19	2.1	18	85	14	51	65	10	0	23	1.23
50029015--50029100	22	4.0	22	78	17	81	50	23	1	25	1.57
50028980--50029100	42	2.9	42	83	3	129	52	21	0	25	1.53
50029505--50029550	19	2.4	19	92	7	76	50	0	2	47	1.13
50029513--50029555	16	2.8	16	79	6	54	53	0	2	44	1.13
50029784--50029812	2	15.0	2	92	7	51	51	0	0	48	1.00
50031447--50031483	19	2.0	18	89	5	56	59	5	8	27	1.48
50041826--50041884	31	1.9	31	85	0	82	28	6	5	59	1.45
50042864--50042900	19	1.9	19	94	0	65	64	0	0	35	0.94
50044334--50044378	23	1.9	24	86	13	67	51	11	11	26	1.71
50048060--50048204	50	2.9	49	73	6	139	26	24	16	31	1.96
50052968--50053054	45	1.9	45	88	0	129	34	21	16	27	1.95
50053065--50053200	50	2.7	52	86	5	206	30	28	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50057101--50057153	23	2.3	23	90	0	88	33	26	18	20	1.96
50058247--50058368	51	2.4	52	85	9	171	26	12	29	31	1.92
50058368--50058466	46	2.2	43	81	12	110	24	19	23	33	1.97
50058590--50058621	16	2.0	16	93	0	55	59	0	15	25	1.36
50063313--50063436	46	2.7	46	92	0	203	44	3	12	40	1.58
50071161--50071218	26	2.2	26	87	3	80	29	17	10	43	1.82
50071176--50071234	26	2.3	26	93	0	100	28	11	15	44	1.82
50074750--50074789	18	2.2	17	83	12	53	5	17	2	75	1.10
50079853--50079894	13	3.2	13	80	12	50	40	0	0	59	0.97
50079853--50079903	23	2.1	26	89	10	81	43	0	0	56	0.99
50081150--50081185	17	2.1	17	100	0	72	38	11	27	22	1.88
50098729--50098827	41	2.4	41	94	0	171	46	7	26	20	1.76
50100522--50100563	20	2.0	21	86	13	61	28	11	4	54	1.57
50107068--50107107	17	2.4	17	86	0	53	40	15	17	27	1.89
50109899--50110130	40	5.8	40	86	3	315	25	28	21	24	1.99
50109899--50110130	80	2.9	80	90	1	358	25	28	21	24	1.99
50109870--50110129	120	2.2	120	90	2	407	26	28	20	24	1.99
50122285--50122336	27	1.9	27	88	0	77	63	1	26	7	1.32
50130890--50130998	33	3.3	32	77	14	116	35	2	4	56	1.34
50135267--50135312	23	2.0	23	83	8	58	39	4	0	56	1.19
50139496--50139543	21	2.3	21	88	0	69	6	8	12	72	1.26
50141092--50141156	33	2.0	33	96	0	121	49	0	7	43	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50141108--50141156	9	5.8	9	72	13	50	48	0	4	46	1.20
50141096--50141151	16	3.4	16	69	13	51	48	0	8	42	1.34
50142070--50142116	23	2.0	22	84	15	60	61	2	2	34	1.20
50145141--50145235	44	2.1	44	83	9	113	31	4	28	35	1.76
50145410--50145629	102	2.2	102	95	0	395	50	5	1	42	1.34
50145477--50145629	26	6.0	26	68	15	77	51	4	1	41	1.33
50146583--50146643	18	3.4	17	76	17	61	27	37	6	27	1.82
50148225--50148254	13	2.3	13	94	0	51	66	16	10	6	1.41
50151629--50151664	18	2.1	18	89	5	56	50	0	0	50	1.00
50151679--50151739	28	2.1	29	82	8	72	42	1	4	50	1.33

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   311   312   313   314   315   316   317   318   319   320   
          321   322