genome.fa.s2.2.7.7.80.10.50.1000.187.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  187  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)
61578870--61578937	31	2.2	31	91	0	118	26	26	25	22	2.00
61585590--61585639	26	1.9	26	92	8	84	20	20	30	30	1.97
61585619--61585764	42	3.5	42	75	6	125	26	17	22	33	1.96
61585646--61585768	43	2.9	43	76	8	135	26	17	23	32	1.96
61602440--61602475	16	2.1	18	90	10	58	38	0	2	58	1.13
61603166--61603230	27	2.4	28	80	12	73	35	0	1	63	1.04
61603781--61603971	30	6.4	30	83	4	199	36	19	3	41	1.67
61603781--61604004	59	3.8	60	81	2	245	34	19	4	41	1.72
61604145--61604186	16	2.6	16	82	17	52	78	11	9	0	0.96
61604158--61604201	20	2.1	22	83	8	56	75	11	11	2	1.15
61604435--61604529	18	5.8	17	71	21	69	72	1	26	0	0.91
61604442--61604529	6	14.2	6	69	14	54	73	1	25	0	0.90
61604659--61604726	18	3.6	19	77	13	61	82	1	14	1	0.82
61604657--61604699	9	4.9	9	80	2	52	79	0	20	0	0.74
61604671--61604727	9	6.3	9	78	10	55	82	1	14	1	0.83
61604657--61604726	12	5.9	11	75	12	59	81	1	15	1	0.84
61604831--61604887	17	3.7	15	80	17	55	26	1	3	68	1.15
61605257--61605326	17	3.9	18	72	7	63	32	14	8	44	1.75
61605288--61605365	18	4.2	18	75	10	68	44	7	11	35	1.69
61605289--61605364	39	2.0	39	84	2	100	43	7	11	36	1.71
61605482--61605618	37	3.7	35	70	17	98	33	14	8	43	1.75
61605408--61605632	18	12.2	18	74	10	161	31	14	9	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61616743--61616799	10	5.7	10	82	0	69	85	5	3	5	0.80
61616743--61616806	20	3.2	20	84	2	74	84	4	4	6	0.87
61616743--61616799	30	1.9	30	92	0	96	85	5	3	5	0.80
61617697--61617759	29	2.2	29	100	0	126	20	22	36	20	1.95
61617726--61618272	157	3.5	151	83	8	690	26	17	21	34	1.95
61617726--61618272	78	7.1	76	85	6	690	26	17	21	34	1.95
61618239--61618307	35	2.0	35	100	0	138	28	15	17	37	1.91
61618084--61618463	188	2.0	189	88	3	568	25	16	20	36	1.94
61618016--61618495	266	1.8	267	87	5	729	25	17	21	35	1.95
61618272--61618498	78	2.9	79	85	3	318	22	18	22	36	1.95
61618650--61618805	30	5.2	29	86	6	197	36	21	1	41	1.61
61618650--61618805	59	2.6	60	85	6	219	36	21	1	41	1.61
61619270--61619321	18	3.2	17	82	17	67	69	0	30	0	0.89
61619297--61619346	13	3.9	13	76	5	57	74	0	26	0	0.83
61619277--61619346	6	11.3	6	71	10	52	72	0	27	0	0.84
61619485--61619555	10	7.0	10	83	14	76	83	0	16	0	0.66
61619471--61619555	36	2.5	34	88	9	120	81	0	18	0	0.70
61619473--61619555	34	2.4	33	88	9	114	81	0	18	0	0.68
61619476--61619555	22	3.7	21	79	15	92	81	0	18	0	0.70
61619709--61620079	18	20.5	17	71	13	156	34	13	9	42	1.77
61619700--61620079	35	10.5	35	71	13	227	33	13	9	43	1.77
61619989--61620079	17	5.3	17	84	6	112	31	10	10	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61621010--61621043	6	5.3	6	93	6	50	82	0	0	17	0.67
61621011--61621041	7	4.6	7	92	8	55	87	0	0	12	0.55
61621011--61621041	13	2.3	14	94	5	55	87	0	0	12	0.55
61623307--61623359	16	3.3	16	83	0	79	35	5	32	26	1.80
61623341--61623430	44	2.0	44	86	4	126	28	5	30	35	1.80
61623600--61623753	18	7.9	18	67	22	71	54	2	0	42	1.19
61623580--61623831	120	2.1	121	96	0	461	52	3	0	42	1.25
61623723--61623777	18	3.2	17	84	7	58	52	3	0	43	1.18
61623829--61623867	20	2.0	20	84	0	51	43	2	12	41	1.56
61627151--61627196	17	2.6	18	82	10	58	69	0	23	6	1.11
61640203--61640522	41	7.8	40	82	5	329	17	24	24	34	1.96
61641030--61641067	15	2.5	15	86	0	58	21	0	42	36	1.53
61642316--61642387	37	1.9	38	86	8	103	22	1	40	36	1.63
61642558--61642627	35	2.0	36	86	8	99	55	7	0	37	1.27
61650455--61650616	43	3.8	42	79	7	175	24	17	30	27	1.98
61650455--61650685	86	2.7	85	81	7	261	25	17	29	28	1.97
61650455--61650704	43	5.9	42	73	10	159	27	17	28	26	1.98
61650455--61650717	86	3.1	86	80	7	232	26	18	28	27	1.98
61651315--61651439	60	2.1	60	98	0	241	29	20	8	41	1.81
61651734--61651772	4	9.8	4	82	0	51	23	23	2	51	1.61
61651989--61652263	50	5.4	49	83	5	205	23	28	21	26	1.99
61652021--61652263	50	4.7	50	84	4	245	23	30	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61652029--61652263	100	2.3	104	83	4	280	22	30	21	24	1.99
61654266--61654292	3	9.0	3	100	0	54	33	33	0	33	1.58
61654460--61654489	14	2.1	14	93	0	51	40	10	0	50	1.36
61654350--61654594	104	2.4	102	76	10	228	37	8	2	50	1.47
61654559--61654593	10	3.5	10	100	0	70	48	8	0	42	1.33
61654550--61654603	20	2.7	21	77	8	67	40	7	0	51	1.30
61654968--61655112	74	2.0	73	90	1	227	26	18	17	37	1.93
61666977--61667143	50	3.3	50	76	0	172	28	23	22	24	1.99
61666978--61667158	100	1.8	100	87	0	272	30	22	22	24	1.99
61669115--61669201	33	2.6	33	76	14	88	45	9	2	42	1.48
61669175--61669365	45	4.2	44	72	22	146	37	6	1	54	1.35
61669254--61669366	51	2.3	48	80	6	118	36	6	0	56	1.30
61669720--61669864	74	2.0	73	97	1	272	26	21	17	34	1.95
61672248--61672423	37	4.8	37	96	0	298	39	13	21	26	1.90
61672386--61672509	46	2.8	46	91	3	200	33	16	22	27	1.96
61674916--61674999	25	3.4	25	71	0	69	30	17	27	23	1.97
61675015--61675152	26	5.6	24	70	14	59	34	22	25	18	1.96
61675084--61675143	26	2.3	26	85	0	84	36	21	21	20	1.95
61677903--61677941	16	2.4	16	86	0	60	33	5	30	30	1.79
61679155--61679526	105	3.6	104	91	1	593	19	20	28	30	1.97
61679977--61680017	21	2.0	21	95	0	73	56	14	7	21	1.63
61680958--61681014	20	2.8	20	100	0	114	54	5	0	40	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61684275--61684319	13	3.5	13	90	0	72	2	20	44	33	1.63
61693218--61693250	15	2.1	16	88	5	50	72	3	18	6	1.18
61696564--61696662	43	2.3	43	89	0	162	40	3	2	54	1.27
61699603--61699634	13	2.5	13	95	5	57	28	0	18	53	1.45
61706475--61706819	180	1.9	180	88	1	521	35	10	31	22	1.88
61717532--61717575	16	2.9	14	76	23	52	45	0	9	45	1.35
61730008--61730032	11	2.3	11	100	0	50	16	24	0	60	1.36
61730903--61731207	43	7.1	43	90	1	445	30	32	17	19	1.95
61737941--61737966	13	2.0	13	100	0	52	46	7	7	38	1.61
61741765--61741791	13	2.1	13	100	0	54	37	7	14	40	1.74
61742619--61742661	19	2.3	18	80	11	52	34	18	18	27	1.95
61743978--61744016	20	2.0	20	94	0	69	25	0	0	74	0.82
61748278--61748475	45	4.5	45	80	5	188	34	25	15	24	1.94
61748317--61748480	89	1.8	90	85	1	231	34	23	14	26	1.94
61750081--61750134	20	2.5	21	76	11	56	12	11	5	70	1.32
61750081--61750141	21	2.9	20	70	18	52	13	9	6	70	1.33
61751817--61751871	27	2.0	27	82	6	67	50	1	3	43	1.30
61755635--61755772	43	3.2	42	73	10	136	30	28	17	23	1.97
61759716--61759804	39	2.3	39	96	0	160	30	29	21	19	1.97
61760157--61760197	19	2.2	19	90	0	64	39	9	0	51	1.35
61760947--61761029	15	5.7	15	80	8	91	59	16	14	9	1.61
61762099--61762136	14	2.7	14	95	0	67	26	10	0	63	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61767535--61767559	13	1.9	13	100	0	50	32	20	16	32	1.94
61768105--61768282	27	6.6	27	81	3	178	25	15	29	29	1.96
61768109--61768261	82	1.9	81	87	4	227	25	15	29	30	1.95
61770871--61771059	50	3.7	51	82	2	200	31	25	16	25	1.96
61773559--61773688	65	2.0	65	92	0	215	26	10	21	42	1.84
61778801--61778855	27	2.0	27	86	6	76	30	16	20	32	1.94
61778838--61779130	27	10.9	27	75	8	116	40	19	8	31	1.81
61778863--61779058	54	3.6	54	81	2	207	41	20	8	29	1.81
61778838--61779015	81	2.2	81	81	4	198	41	22	7	29	1.81
61778944--61779095	81	1.9	81	81	2	189	45	18	6	29	1.74

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