genome.fa.s4.2.7.7.80.10.50.1000.102.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: Chr04 98600468 
Parameters: 2 7 7 80 10 50 1000
Length:  98600468

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   323   324   325   

This is table  102  of  325  ( 38914 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)
29993234--29993335	20	5.1	20	67	9	64	18	33	17	30	1.94
29997646--29997848	53	3.8	53	76	3	190	20	23	18	38	1.93
30004263--30004308	22	2.1	22	100	0	92	36	13	8	41	1.75
30007361--30007536	46	3.8	46	81	10	232	20	21	29	28	1.98
30007357--30007528	93	1.8	93	96	0	317	20	22	30	27	1.98
30010309--30010679	48	7.7	48	75	8	272	26	19	27	26	1.99
30024361--30024454	29	3.2	29	98	0	179	26	27	15	29	1.96
30032203--30032296	29	3.2	29	98	0	179	26	27	15	29	1.96
30032166--30032296	58	2.3	58	86	2	174	25	32	16	25	1.96
30037064--30037133	27	2.5	28	95	2	124	28	14	27	30	1.95
30037064--30037145	27	3.0	27	85	8	78	29	15	24	30	1.96
30044874--30044943	27	2.5	28	95	2	124	28	14	27	30	1.95
30044874--30044955	27	3.0	27	85	8	78	29	15	24	30	1.96
30049727--30049871	40	3.6	40	97	0	272	26	25	22	25	2.00
30057763--30057919	40	3.9	40	93	0	260	26	25	22	26	2.00
30064390--30064570	48	3.8	48	83	2	238	37	27	17	18	1.93
30075255--30075296	7	6.1	7	88	5	50	78	0	0	21	0.75
30075255--30075293	14	2.9	14	88	3	62	79	0	0	20	0.73
30075262--30075293	7	4.6	7	96	0	55	78	0	0	21	0.76
30081050--30081171	41	3.0	41	83	2	140	21	27	17	33	1.95
30085402--30085561	29	5.5	30	88	8	222	33	13	25	27	1.94
30085402--30085561	59	2.8	57	89	4	223	33	13	25	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30093148--30093307	29	5.5	30	87	9	215	33	13	25	28	1.94
30093177--30093307	59	2.3	57	93	5	219	34	13	25	26	1.93
30099055--30099190	41	3.3	41	80	0	119	22	27	17	32	1.96
30099112--30099260	41	3.6	41	84	0	181	20	28	17	33	1.95
30108818--30108880	32	2.0	31	84	6	81	20	6	6	66	1.36
30111468--30111501	12	2.7	13	86	9	52	88	0	11	0	0.52
30115182--30115219	19	2.0	19	94	0	67	26	34	5	34	1.79
30117740--30117922	39	4.6	39	87	0	240	24	22	30	22	1.99
30121660--30121880	40	5.6	41	76	10	194	25	23	26	24	2.00
30121660--30121844	80	2.3	81	82	6	216	25	23	27	23	2.00
30124440--30124535	43	2.3	42	78	8	106	32	27	18	21	1.97
30129693--30129739	18	2.5	20	82	6	62	48	10	8	31	1.68
30134715--30134747	2	16.5	2	93	0	57	3	0	45	51	1.16
30135892--30135927	18	2.0	18	94	0	63	19	16	13	50	1.79
30139888--30139928	22	1.9	21	95	5	73	19	26	43	9	1.82
30141046--30141263	46	4.7	45	76	12	176	22	30	19	27	1.98
30147430--30147470	22	1.9	22	90	5	66	17	29	41	12	1.85
30148613--30148711	46	2.2	47	85	8	134	23	27	19	30	1.98
30149524--30149666	37	3.9	37	93	0	223	25	32	18	23	1.97
30149874--30150161	47	6.1	47	89	0	432	27	29	11	31	1.91
30149874--30150162	141	2.0	141	94	0	506	27	29	11	31	1.91
30152918--30153040	48	2.6	45	78	13	124	21	31	17	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30153361--30153420	30	2.0	30	90	0	93	26	26	15	31	1.95
30166274--30166449	47	3.8	45	78	15	173	26	19	31	22	1.98
30166276--30166493	94	2.3	94	83	7	259	26	19	31	23	1.98
30168511--30168560	25	2.0	25	100	0	100	32	28	4	36	1.76
30175962--30176014	21	2.5	21	78	9	54	39	11	1	47	1.50
30180604--30180733	40	3.3	39	76	8	136	23	27	23	24	2.00
30180620--30180771	40	3.8	40	78	6	148	22	26	23	27	1.99
30180620--30180769	80	1.9	80	83	8	198	22	26	24	27	1.99
30192121--30192283	39	4.2	39	93	0	263	23	20	31	24	1.98
30192121--30192313	39	4.9	39	90	0	251	23	21	31	23	1.98
30200065--30200227	39	4.2	39	93	0	263	23	20	31	24	1.98
30200065--30200257	39	4.9	39	90	0	251	23	21	31	23	1.98
30202258--30202449	53	3.7	53	83	5	205	35	18	23	21	1.95
30202989--30203063	22	3.2	26	60	39	62	29	8	26	36	1.85
30202983--30203070	44	2.0	44	100	0	176	29	9	25	36	1.86
30204341--30206250	640	3.0	640	97	0	3498	32	26	15	25	1.95
30206649--30207067	48	8.8	49	77	11	304	25	29	18	26	1.98
30206699--30206927	98	2.3	99	92	1	388	26	30	18	25	1.98
30206650--30207067	98	4.4	96	79	10	355	25	29	18	26	1.98
30208319--30208369	24	2.1	24	85	0	66	33	5	7	52	1.54
30210359--30210396	18	2.2	18	90	9	62	21	5	2	71	1.19
30212131--30212228	28	3.5	29	80	9	105	30	27	14	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30212344--30212370	2	13.5	2	100	0	54	48	0	0	51	1.00
30212695--30212720	2	13.0	2	100	0	52	50	0	0	50	1.00
30221414--30221562	40	3.7	40	86	3	167	28	26	18	26	1.98
30221433--30221616	80	2.3	81	83	5	223	28	26	19	25	1.99
30221433--30221565	40	3.3	39	87	4	185	28	26	19	25	1.99
30226919--30227128	40	5.2	40	88	2	305	21	28	24	25	1.99
30230793--30230914	47	2.6	47	90	0	199	36	13	22	27	1.92
30230887--30231100	54	4.0	54	78	6	200	36	16	23	22	1.94
30230896--30231089	55	3.6	53	79	4	192	36	18	23	22	1.95
30230896--30231101	53	3.8	53	78	5	189	35	17	23	22	1.95
30234313--30234420	26	4.2	26	92	0	171	36	23	7	33	1.83
30234313--30234420	52	2.1	52	94	3	191	36	23	7	33	1.83
30238476--30238545	27	2.5	28	90	2	106	28	14	28	28	1.95
30238477--30238585	55	2.0	55	81	3	130	28	14	25	31	1.95
30244622--30244729	26	4.2	26	91	2	173	36	23	7	33	1.83
30261363--30261533	93	1.8	93	92	0	288	29	28	19	22	1.98
30261358--30261530	46	3.7	46	76	10	181	30	27	19	22	1.98
30261408--30261549	46	3.1	45	72	18	123	29	28	19	23	1.98
30262020--30262058	20	2.0	20	85	10	53	25	0	5	69	1.09
30264704--30264887	78	2.3	81	86	6	252	24	22	27	26	2.00
30264705--30264887	40	4.6	39	85	8	228	24	22	27	25	2.00
30272882--30273065	40	4.7	40	83	8	234	24	21	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30272883--30273065	79	2.3	80	85	6	239	24	21	26	26	2.00
30272883--30273072	39	4.8	40	80	11	187	25	21	26	26	1.99
30275616--30275846	43	5.4	42	87	2	318	30	29	17	22	1.96
30279260--30279303	22	2.0	22	100	0	88	50	9	27	13	1.72
30281223--30281273	17	3.2	15	79	17	59	13	0	37	49	1.43
30281201--30281317	54	2.1	55	80	1	137	17	0	34	48	1.47
30281327--30281423	41	2.4	40	82	5	106	20	19	19	40	1.92
30283189--30283275	28	3.1	28	89	0	120	32	20	18	28	1.96
30283209--30283323	28	4.1	28	80	4	117	33	21	18	26	1.96
30283209--30283338	28	4.6	27	80	7	109	33	20	19	26	1.96
30290461--30290504	20	2.3	19	84	4	52	29	6	22	40	1.80
30291123--30291195	33	2.2	33	90	0	110	41	4	15	39	1.66
30293572--30293670	28	3.5	29	83	6	114	30	27	15	27	1.96
30297992--30298052	27	2.3	27	88	5	88	50	11	3	34	1.55
30298003--30298057	27	2.0	27	100	0	110	49	10	3	36	1.56
30298052--30298152	38	2.7	38	78	6	114	39	2	4	52	1.38
30298130--30298166	15	2.3	17	86	9	51	37	0	10	51	1.37
30298052--30298169	38	3.1	37	75	9	112	38	2	5	53	1.39
30299889--30299944	24	2.5	22	83	11	76	30	23	14	32	1.94
30299900--30299971	24	2.9	24	83	4	90	26	23	19	30	1.98
30304118--30304366	51	4.9	51	90	2	378	28	24	13	33	1.93
30304118--30304366	101	2.5	102	89	4	371	28	24	13	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30304390--30304533	28	5.4	27	79	15	158	26	22	13	36	1.92
30304402--30304533	52	2.5	52	90	2	203	25	21	15	37	1.92
30308758--30308821	32	2.0	32	93	0	110	39	14	14	32	1.85
30314459--30314627	45	3.7	46	78	12	186	22	19	28	29	1.98
30314454--30314622	92	1.8	92	91	2	277	21	20	28	28	1.98
30314852--30314889	19	2.0	20	85	15	53	36	0	23	39	1.55
30321555--30321727	46	3.7	46	79	10	208	21	20	27	29	1.98
30321552--30321722	93	1.8	93	93	0	297	21	21	28	28	1.98
30321951--30321988	19	2.0	20	85	15	53	36	0	23	39	1.55
30330140--30330183	22	2.0	22	86	0	61	68	2	0	29	1.02

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   323   324   325