genome.fa.s5.2.7.7.80.10.50.1000.13.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: Chr05 97880472 
Parameters: 2 7 7 80 10 50 1000
Length:  97880472

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   326   327   328   329   330   331   332   333   334   335   

This is table  13  of  335  ( 40112 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)
4616987--4617069	18	4.4	18	79	13	87	30	3	1	65	1.17
4616986--4617073	27	3.3	26	73	12	81	30	3	1	64	1.17
4617431--4617460	2	15.0	2	100	0	60	50	0	0	50	1.00
4619892--4619938	19	2.5	19	82	6	60	27	19	8	44	1.79
4622723--4622754	6	5.3	6	100	0	64	46	15	37	0	1.46
4622757--4622803	19	2.4	20	89	3	69	80	14	0	4	0.85
4623921--4624046	66	1.9	65	95	1	225	32	19	11	35	1.89
4624108--4624602	43	11.4	44	73	11	319	35	22	21	20	1.96
4624147--4624313	85	2.0	85	84	2	219	37	22	22	17	1.94
4624098--4624569	129	3.6	131	85	7	615	36	22	21	19	1.95
4624325--4624655	175	1.9	173	87	3	486	35	22	21	21	1.96
4624103--4624657	132	4.3	132	82	7	505	35	21	22	20	1.96
4624108--4624657	87	6.3	86	74	7	425	35	21	22	20	1.96
4624674--4624869	68	2.9	68	88	2	279	28	22	20	28	1.99
4624987--4625792	44	18.3	44	75	9	624	31	19	22	25	1.98
4624925--4625767	132	6.4	132	96	0	1472	32	19	23	25	1.98
4624909--4625815	44	20.6	45	74	8	289	32	19	23	25	1.98
4626213--4626281	20	3.2	21	86	12	88	8	1	30	59	1.36
4626616--4626698	3	27.3	3	73	20	59	30	3	1	65	1.17
4626616--4626698	18	4.4	18	79	13	87	30	3	1	65	1.17
4626615--4626702	27	3.3	26	73	12	81	30	3	1	64	1.17
4626723--4626928	91	2.3	90	76	15	203	28	9	4	57	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4634799--4634839	21	2.0	21	90	0	64	29	21	29	19	1.98
4638192--4638228	3	12.3	3	100	0	74	67	0	0	32	0.91
4641863--4641970	44	2.4	44	87	3	144	29	23	13	33	1.93
4647882--4647989	44	2.4	44	87	3	144	29	23	13	33	1.93
4651483--4651569	21	4.0	23	77	10	83	39	24	21	14	1.91
4651940--4651997	15	3.8	15	88	2	89	51	12	0	36	1.39
4653180--4653219	18	2.2	18	86	0	53	0	40	5	55	1.22
4653262--4653293	5	6.2	5	96	3	55	56	0	0	43	0.99
4654905--4655145	43	5.6	43	94	0	392	29	32	25	12	1.92
4655138--4655221	38	2.2	38	89	0	132	30	25	21	22	1.98
4658490--4658583	16	5.8	16	72	16	59	61	0	18	20	1.34
4658507--4658584	16	4.8	16	80	4	68	65	0	14	20	1.27
4658896--4658943	24	2.0	24	83	0	60	68	2	6	22	1.23
4658965--4659011	24	2.0	24	87	8	69	63	0	8	27	1.23
4659263--4659294	17	1.9	17	93	6	57	71	0	0	28	0.86
4659352--4659437	25	3.5	25	77	14	81	61	0	11	26	1.30
4659439--4659472	10	3.3	10	88	8	50	55	0	0	44	0.99
4661554--4661914	116	3.3	109	80	9	435	37	13	15	33	1.86
4667158--4667206	13	3.7	14	74	20	52	55	0	0	44	0.99
4667158--4667200	13	3.4	13	84	9	54	58	0	0	41	0.98
4668706--4668739	11	3.2	11	87	4	52	35	0	0	64	0.94
4668960--4669000	11	3.7	11	83	0	55	51	9	19	19	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4668961--4669008	22	2.2	22	85	14	64	54	6	20	18	1.65
4676637--4676664	2	14.0	2	100	0	56	50	0	0	50	1.00
4681534--4681694	60	2.7	60	90	1	243	26	16	40	16	1.89
4683708--4683742	17	2.1	17	88	0	52	20	20	2	57	1.54
4686229--4686266	18	2.1	18	90	0	58	36	10	2	50	1.51
4691085--4691149	23	2.6	25	79	18	73	35	0	0	64	0.94
4691085--4691143	25	2.2	27	85	8	77	32	0	0	67	0.91
4691201--4691264	27	2.4	27	94	0	110	17	34	34	14	1.89
4695417--4695483	12	5.6	12	75	7	73	1	41	34	22	1.63
4697095--4697122	11	2.5	11	100	0	56	57	7	0	35	1.26
4698179--4698253	3	24.7	3	81	8	80	0	36	0	64	0.94
4698387--4698446	27	2.2	27	96	0	111	13	35	35	16	1.88
4698504--4698561	25	2.2	27	84	9	75	67	0	0	32	0.91
4700308--4700367	30	2.0	30	83	6	77	38	8	25	28	1.84
4700788--4700922	47	2.9	46	91	2	216	22	20	28	28	1.99
4706494--4706553	30	2.0	30	83	6	77	35	8	28	28	1.86
4706974--4707108	47	2.9	46	92	2	225	22	20	28	29	1.98
4708620--4708785	35	4.6	35	82	8	172	31	10	24	33	1.90
4708620--4708790	75	2.4	75	85	7	221	31	11	23	33	1.90
4716109--4716278	75	2.4	74	83	11	205	32	11	24	32	1.90
4716111--4716257	35	4.1	35	83	10	179	29	12	24	33	1.92
4719172--4719210	19	2.1	19	85	4	53	46	15	0	38	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4719720--4719782	31	2.0	31	90	0	99	28	20	0	50	1.48
4719909--4719966	25	2.3	25	90	0	89	43	18	18	18	1.89
4720890--4720922	7	4.7	7	85	14	50	57	3	0	39	1.14
4722312--4722377	24	2.6	25	79	11	64	46	4	0	48	1.22
4731548--4731590	18	2.4	18	84	0	59	55	0	39	4	1.20
4737059--4737142	41	2.0	41	97	0	159	33	13	9	44	1.76
4738021--4738055	16	2.1	18	89	10	56	37	17	0	45	1.48
4742023--4742099	31	2.4	32	78	12	86	45	7	5	41	1.55
4742032--4742094	31	2.0	31	87	6	92	47	9	3	39	1.52
4742208--4742250	19	2.2	20	87	4	61	25	23	0	51	1.49
4742361--4742391	15	2.1	15	100	0	62	45	12	12	29	1.80
4744911--4744969	29	2.0	29	96	0	109	27	22	6	44	1.78
4747780--4748116	35	9.6	35	84	0	404	31	11	24	32	1.90
4749228--4749258	3	10.3	3	100	0	62	32	0	0	67	0.91
4752137--4752307	47	3.6	47	80	4	175	30	28	16	25	1.97
4755005--4755061	30	1.9	30	85	0	78	17	35	35	12	1.87
4755770--4755809	19	2.0	20	85	4	55	55	0	0	45	0.99
4762340--4762415	38	2.0	38	100	0	152	52	13	7	26	1.67
4762346--4762407	19	3.3	19	64	8	54	56	11	8	24	1.61
4762446--4762679	122	1.9	123	93	0	407	41	16	14	27	1.87
4765913--4765939	2	13.5	2	100	0	54	51	0	0	48	1.00
4766739--4766775	18	2.1	18	100	0	74	51	16	10	21	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4788814--4788874	13	4.7	13	74	8	52	36	3	0	60	1.13
4788835--4788890	26	2.1	27	83	3	69	41	1	0	57	1.09
4789092--4789148	20	2.7	23	76	15	68	54	0	1	43	1.10
4791970--4792028	29	2.0	30	93	3	102	54	8	3	33	1.48
4795509--4795602	39	2.4	38	79	10	111	28	28	19	23	1.98
4795533--4795641	38	2.7	39	80	8	114	31	24	18	25	1.98
4795509--4795615	39	2.7	38	78	8	110	29	28	18	23	1.98
4795732--4795794	24	2.6	24	70	7	56	31	26	0	41	1.56
4796545--4796575	12	2.6	12	94	0	53	0	25	0	74	0.82
4801331--4801385	28	2.0	28	89	7	85	49	0	0	50	1.00
4807141--4807182	19	2.2	20	82	4	50	28	19	4	47	1.69
4807438--4807691	127	2.0	127	96	0	463	31	24	25	18	1.98
4811461--4811497	19	1.9	19	88	0	56	18	13	35	32	1.90
4811415--4811543	65	2.0	65	92	0	213	20	17	31	31	1.96
4818000--4818165	66	2.5	66	86	1	228	30	19	12	37	1.88
4818506--4818632	43	2.9	44	72	9	134	33	22	24	20	1.97
4818699--4818799	45	2.3	46	80	11	113	25	15	24	33	1.95
4835432--4835500	34	2.0	34	94	0	120	36	8	5	49	1.58
4847136--4847219	28	3.0	28	87	0	114	17	26	17	38	1.92
4851583--4851713	44	3.0	44	98	0	253	18	28	13	39	1.89
4863842--4863907	33	2.0	33	87	0	96	22	7	37	31	1.82
4865126--4865164	19	2.1	19	100	0	78	33	30	10	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4872911--4872955	22	2.0	23	95	4	83	42	22	17	17	1.89
4873145--4873239	28	3.6	24	81	13	93	46	33	4	15	1.66
4873159--4873242	28	3.0	28	91	1	132	46	30	3	19	1.66
4878894--4878918	11	2.3	11	100	0	50	0	24	0	76	0.80
4881115--4881273	27	5.9	27	82	11	184	33	21	25	19	1.97
4881133--4881276	54	2.7	54	94	2	245	34	22	25	18	1.96
4882870--4882973	26	4.0	26	91	0	172	36	24	6	32	1.81
4888049--4888088	18	2.2	19	86	13	57	20	10	0	70	1.16
4889158--4889282	44	2.8	45	82	4	144	35	13	23	28	1.92
4893522--4893561	19	2.2	19	95	4	73	25	12	10	52	1.70

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   326   327   328   329   330   331   332   333   334   335