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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  13  of  318  ( 38109 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)
4776368--4776864	107	4.6	105	80	10	526	35	14	16	33	1.89
4783600--4783633	11	3.2	11	87	4	52	35	0	0	64	0.94
4783847--4783888	22	1.9	22	85	0	57	57	11	11	19	1.65
4784311--4784353	15	2.8	15	83	13	52	60	0	4	34	1.17
4786076--4786213	29	4.5	29	73	16	134	57	2	0	39	1.16
4786109--4786160	15	3.5	15	75	12	54	63	0	0	36	0.95
4790715--4791067	46	7.3	46	80	11	391	34	14	22	28	1.93
4790761--4791067	52	6.1	51	82	10	373	34	14	22	28	1.93
4790708--4791068	98	3.7	98	95	0	623	34	14	22	28	1.93
4791031--4791213	37	5.0	37	93	1	298	36	16	22	24	1.94
4792467--4792634	58	3.0	58	87	10	237	22	13	30	33	1.92
4792486--4792576	28	3.2	28	66	22	80	25	15	31	27	1.95
4792527--4792669	49	2.9	49	93	0	232	23	13	30	32	1.94
4794362--4794714	46	7.3	46	80	11	391	34	14	22	28	1.93
4794408--4794714	52	6.1	51	82	10	373	34	14	22	28	1.93
4794355--4794715	98	3.7	98	95	0	623	34	14	22	28	1.93
4794678--4794860	37	5.0	37	93	1	298	36	16	22	24	1.94
4801694--4801854	60	2.7	60	91	1	252	27	16	40	15	1.89
4804628--4804720	18	5.2	18	92	0	150	27	22	16	33	1.95
4812065--4812098	17	1.9	17	88	5	50	79	2	2	14	0.97
4815749--4815773	10	2.5	10	100	0	50	24	0	0	76	0.80
4817915--4817974	30	2.0	30	87	6	86	36	8	26	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4818391--4818525	47	2.9	46	88	2	207	22	20	27	28	1.99
4820201--4820356	41	3.8	41	97	0	285	29	21	22	26	1.99
4834315--4834558	52	4.8	52	86	6	356	34	13	22	29	1.93
4834367--4834571	98	2.1	98	93	0	293	36	13	21	28	1.92
4834538--4834667	37	3.5	37	96	0	242	36	16	20	26	1.93
4834538--4834684	74	2.0	72	93	2	249	36	15	22	25	1.93
4838426--4838485	30	2.0	30	87	6	86	36	8	26	28	1.85
4838900--4839035	47	2.9	46	92	2	227	22	19	27	30	1.98
4840929--4840967	19	2.1	19	85	4	53	46	15	0	38	1.46
4841477--4841539	31	2.0	31	90	0	99	28	20	0	50	1.48
4841669--4841726	25	2.3	25	90	0	89	43	18	18	18	1.89
4842646--4842678	7	4.7	7	85	14	50	57	3	0	39	1.14
4842663--4842717	29	1.9	28	82	10	67	43	3	3	49	1.37
4861177--4861202	5	5.2	5	100	0	52	19	57	0	23	1.40
4863880--4863942	31	2.0	31	87	6	92	47	9	3	39	1.52
4864056--4864098	19	2.2	20	87	4	61	25	23	0	51	1.49
4864209--4864239	15	2.1	15	100	0	62	45	12	12	29	1.80
4866762--4866820	29	2.0	29	93	0	100	28	22	5	44	1.74
4869635--4869971	35	9.6	35	85	0	422	31	10	24	32	1.90
4871082--4871109	3	9.3	3	100	0	56	32	0	0	67	0.91
4872169--4872265	40	2.5	38	77	8	99	16	25	27	29	1.97
4873919--4873958	19	2.0	20	85	4	55	55	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4880489--4880564	38	2.0	38	100	0	152	52	13	7	26	1.67
4880495--4880556	19	3.3	19	64	8	54	56	11	8	24	1.61
4880595--4880828	122	1.9	123	93	0	407	41	16	14	27	1.87
4884864--4884900	18	2.1	18	100	0	74	51	16	10	21	1.74
4907203--4907259	20	2.7	23	76	15	68	54	0	1	43	1.10
4907273--4907320	20	2.5	19	80	6	51	45	4	8	41	1.53
4910359--4910438	28	2.8	29	86	3	117	16	3	32	47	1.64
4910623--4910730	21	5.1	21	84	5	128	14	21	25	37	1.92
4913080--4913154	35	2.2	35	85	7	100	18	18	10	52	1.74
4913096--4913167	35	2.1	35	100	0	144	16	16	8	58	1.61
4918513--4918625	39	2.9	39	75	9	122	30	26	19	23	1.98
4918513--4918625	38	2.9	38	76	9	111	30	26	19	23	1.98
4919527--4919557	12	2.6	12	94	0	53	0	25	0	74	0.82
4924286--4924340	28	2.0	28	89	7	85	49	0	0	50	1.00
4937820--4937854	18	1.9	18	94	0	61	37	2	14	45	1.59
4949322--4949405	28	3.0	28	85	0	114	19	26	16	38	1.92
4953761--4953891	44	3.0	44	97	0	253	19	27	12	40	1.88
4955867--4955894	14	2.0	14	100	0	56	21	21	21	35	1.96
4966024--4966089	33	2.0	33	90	0	105	21	7	39	31	1.81
4969799--4969891	39	2.5	37	80	7	98	27	29	22	20	1.98
4970246--4970278	3	11.0	3	100	0	66	66	0	0	33	0.92
4971563--4971597	16	2.2	16	89	0	52	2	14	8	74	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4971601--4971678	15	4.9	17	65	22	53	50	1	0	48	1.09
4971603--4971643	14	2.6	17	85	14	61	53	0	0	46	1.00
4971623--4971661	12	3.4	11	80	13	51	46	2	0	51	1.14
4971597--4971677	24	3.4	24	77	13	87	49	1	0	49	1.08
4978146--4978190	22	2.0	23	95	4	83	42	22	17	17	1.89
4978360--4978415	23	2.4	23	85	5	69	51	35	1	10	1.47
4978392--4978477	28	3.0	28	81	1	109	48	29	3	18	1.64
4987030--4987170	27	5.2	27	80	11	173	34	23	24	18	1.96
4987030--4987173	54	2.7	54	92	2	236	34	23	24	18	1.96
4987406--4987438	18	1.9	17	88	11	50	12	36	18	33	1.88
4988762--4988869	26	4.2	26	92	0	180	37	24	6	32	1.81
4993927--4993966	18	2.2	19	86	13	57	20	10	0	70	1.16
4996873--4996912	19	2.2	19	95	4	73	25	12	10	52	1.70
5005564--5005623	31	1.9	31	93	0	102	43	15	3	38	1.63
5008511--5008553	16	2.8	15	79	6	50	55	0	4	39	1.20
5008675--5008719	22	2.0	23	86	4	65	42	0	6	51	1.28
5031294--5031337	23	1.9	23	95	0	79	11	29	11	47	1.74
5031948--5031992	23	2.0	23	95	0	81	42	2	31	24	1.67
5039952--5040000	25	2.0	25	100	0	98	61	0	4	34	1.15
5049538--5049626	47	2.0	45	80	10	101	58	0	3	38	1.15
5068109--5068149	21	2.0	21	81	18	50	21	26	19	31	1.97
5086936--5086984	18	2.7	18	75	12	55	53	8	12	26	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5088330--5088372	19	2.3	19	84	15	54	41	2	0	55	1.12
5094998--5095049	27	1.9	27	92	0	86	38	0	13	48	1.43
5095277--5095342	21	3.2	21	73	2	62	19	19	16	43	1.88
5095272--5095385	41	2.7	42	76	2	122	18	21	17	42	1.89
5099392--5099511	49	2.4	50	86	4	163	30	28	15	25	1.96
5099493--5099528	17	2.1	17	89	0	54	22	22	22	33	1.97
5101085--5101182	23	4.3	23	90	2	162	31	26	21	20	1.98
5101092--5101180	45	2.0	45	95	0	160	31	26	22	19	1.97
5105192--5105393	102	2.0	102	99	0	395	35	25	9	29	1.88
5105853--5106032	47	3.8	49	79	15	200	28	29	20	21	1.98
5105861--5106032	94	1.8	93	93	1	299	28	29	20	20	1.98
5106451--5106510	30	2.0	30	83	6	77	30	26	6	36	1.82
5108661--5108690	13	2.3	13	94	0	51	30	20	6	43	1.77
5133007--5133051	22	2.0	22	95	0	81	26	20	8	44	1.80
5147867--5147907	21	2.0	21	90	0	64	29	21	29	19	1.98
5163133--5163177	18	2.6	16	83	13	54	64	11	0	24	1.26
5163193--5163234	21	2.0	20	86	13	57	64	0	0	35	0.94
5163755--5163780	13	2.0	13	100	0	52	15	0	46	38	1.46
5168321--5168386	23	3.0	22	74	12	73	39	22	21	16	1.92
5168578--5168647	28	2.8	23	75	19	68	47	31	4	17	1.67
5168591--5168674	28	3.0	28	89	1	123	47	29	3	19	1.66
5170231--5170479	50	4.8	51	83	6	265	21	29	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5170230--5170479	100	2.4	104	88	6	357	21	29	23	26	1.99
5170574--5170605	13	2.5	13	94	0	55	56	12	0	31	1.37
5170817--5170874	30	1.9	30	89	0	89	31	24	3	41	1.71
5179113--5179183	31	2.3	29	75	17	72	47	14	0	38	1.44
5181306--5181351	19	2.3	20	81	11	58	32	0	8	58	1.28
5183937--5184007	11	6.2	11	72	19	56	59	2	1	36	1.21
5183944--5184007	24	2.7	23	80	4	65	60	3	1	34	1.22
5183961--5184009	13	3.9	13	81	10	57	57	2	2	38	1.22
5191359--5191388	6	5.0	6	95	0	51	36	0	0	63	0.95
5205696--5205789	47	2.0	47	100	0	188	34	12	12	40	1.82

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