genome.fa.s5.2.7.7.80.10.50.1000.110.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  110  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)
35258373--35258424	6	8.3	6	85	8	59	21	3	19	55	1.58
35260397--35260808	208	2.0	206	96	1	763	35	16	19	28	1.93
35262997--35263049	16	3.4	16	80	12	56	33	1	1	62	1.17
35262997--35263044	17	3.0	17	82	11	57	33	2	0	64	1.05
35266580--35266642	31	2.0	31	87	6	92	38	17	6	38	1.75
35267286--35267323	16	2.3	17	86	4	51	44	2	2	50	1.30
35268459--35268526	34	2.0	34	100	0	136	44	23	23	8	1.81
35274915--35275003	30	3.0	29	81	8	81	32	8	11	47	1.71
35278422--35278465	21	2.1	21	91	0	70	38	11	4	45	1.61
35280918--35280988	35	2.0	35	97	0	133	25	16	23	33	1.96
35282559--35282682	39	3.2	38	90	2	194	14	25	22	37	1.92
35282575--35282697	39	3.2	39	83	4	160	14	24	23	37	1.92
35283697--35283721	13	1.9	13	100	0	50	36	8	24	32	1.84
35284027--35284140	62	1.9	59	83	8	149	40	4	3	51	1.39
35294825--35294862	6	6.3	6	85	11	51	47	2	0	50	1.15
35294870--35294912	13	3.5	13	75	18	56	39	0	11	48	1.40
35294863--35294913	23	2.2	24	86	10	79	39	0	9	50	1.35
35295071--35295102	16	2.0	16	93	0	55	15	6	0	78	0.95
35295255--35295308	20	2.8	18	78	15	54	20	0	5	74	1.02
35298872--35298912	21	1.9	22	85	5	57	29	9	19	41	1.83
35304588--35304625	18	2.2	18	90	9	62	71	2	5	21	1.19
35306662--35306820	43	3.7	43	77	7	162	33	24	14	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35310198--35310365	6	27.3	6	69	15	94	47	16	17	19	1.83
35310225--35310365	31	4.5	31	88	0	183	47	16	17	18	1.83
35310501--35310574	27	2.8	27	87	2	96	36	20	24	18	1.95
35310733--35310797	22	3.0	22	77	8	69	35	23	21	20	1.96
35311224--35311553	27	12.3	27	88	0	448	24	22	20	33	1.97
35311603--35311680	27	2.9	27	80	3	77	34	11	16	37	1.85
35311618--35311821	27	7.6	26	78	9	151	32	10	18	37	1.86
35311646--35311815	81	2.1	81	81	4	191	32	11	18	38	1.86
35311618--35311819	54	3.7	54	79	2	190	32	10	18	38	1.86
35313766--35313933	6	27.3	6	70	15	103	48	16	16	19	1.81
35313804--35313933	31	4.2	31	91	0	206	48	16	16	18	1.82
35314066--35314138	26	2.7	27	89	2	103	38	17	24	19	1.93
35314297--35314361	22	3.0	22	77	8	69	35	23	21	20	1.96
35314788--35315090	27	11.3	27	87	2	371	24	21	19	34	1.96
35315075--35315231	27	5.8	26	78	7	100	31	9	21	37	1.86
35314869--35315119	81	3.1	80	81	10	237	24	18	21	35	1.95
35315128--35315275	27	5.6	26	76	7	102	31	9	21	37	1.85
35327167--35327228	25	2.5	24	87	10	81	25	20	20	32	1.98
35329045--35329126	40	2.1	40	90	2	130	48	13	15	21	1.80
35330994--35331601	159	3.9	159	91	2	953	30	18	23	26	1.98
35332267--35332352	43	2.0	43	93	0	145	40	18	20	19	1.91
35336670--35336705	18	2.1	18	89	5	56	41	0	25	33	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35337002--35337038	18	2.1	18	89	0	56	48	0	27	24	1.51
35338613--35339009	198	2.0	198	93	0	677	30	14	20	33	1.93
35339879--35339972	47	2.0	47	97	0	179	37	10	4	47	1.58
35341997--35342047	25	2.0	25	100	0	102	39	21	7	31	1.82
35343754--35343863	26	4.2	26	97	0	184	33	5	24	36	1.79
35351403--35351427	13	1.9	13	100	0	50	48	0	12	40	1.40
35353052--35353078	11	2.5	11	100	0	54	48	7	0	44	1.31
35353468--35353506	16	2.5	16	83	4	53	61	0	2	35	1.10
35358140--35358182	11	3.7	11	76	11	50	34	4	13	46	1.65
35358141--35358188	24	2.0	24	100	0	96	37	4	16	41	1.68
35358341--35358390	16	3.1	17	80	8	59	42	0	0	58	0.98
35359257--35359379	51	2.4	51	86	2	167	41	8	21	28	1.83
35359985--35360034	23	2.2	23	92	0	82	10	6	36	48	1.61
35360196--35360224	7	4.1	7	100	0	58	44	0	13	41	1.44
35364552--35364603	20	2.6	20	90	0	77	9	30	42	17	1.81
35364592--35364621	13	2.3	13	94	0	51	6	36	53	3	1.44
35366339--35366377	19	2.2	17	90	9	60	0	33	0	66	0.92
35366395--35366436	14	3.1	14	86	3	50	7	11	2	78	1.04
35369960--35370000	22	2.0	20	90	9	64	73	12	9	4	1.24
35370030--35370062	16	2.1	16	88	11	50	72	0	27	0	0.85
35370437--35370470	17	1.9	18	88	5	52	41	0	23	35	1.55
35370950--35371010	21	3.0	21	87	2	88	14	22	27	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35384188--35384302	22	5.0	23	69	21	73	57	6	5	31	1.45
35384204--35384290	22	3.8	22	72	18	79	57	6	4	31	1.45
35384207--35384315	48	2.3	47	85	7	141	57	6	4	31	1.44
35384298--35384372	24	2.9	25	81	13	89	60	2	5	32	1.33
35384393--35384465	9	8.4	9	72	18	57	57	1	2	38	1.22
35384387--35384453	34	1.9	35	84	3	91	58	1	2	37	1.23
35384340--35384462	53	2.2	58	82	15	154	57	4	3	34	1.34
35384384--35384499	52	2.2	53	82	11	134	56	6	3	34	1.41
35386134--35386233	45	2.2	44	78	5	110	27	28	19	26	1.98
35386300--35386329	12	2.5	12	94	0	51	63	10	6	20	1.47
35386433--35386740	87	3.5	87	86	4	404	37	19	15	27	1.92
35386557--35386591	14	2.5	14	90	0	52	62	5	11	20	1.48
35386647--35386679	15	2.2	15	94	0	57	69	0	9	21	1.15
35395026--35395053	4	7.0	4	100	0	56	50	0	25	25	1.50
35399190--35399305	48	2.4	48	82	12	141	56	6	6	31	1.48
35399176--35399293	22	5.1	23	71	19	77	56	5	5	31	1.47
35399176--35399281	24	4.6	22	71	19	74	57	5	5	31	1.45
35399308--35399362	24	2.2	25	90	6	85	58	3	5	32	1.38
35399319--35399383	21	2.9	22	84	6	69	60	7	1	30	1.34
35399386--35399452	9	7.6	9	74	15	59	56	1	2	38	1.24
35399324--35399447	55	2.2	60	84	11	163	58	4	2	34	1.30
35401066--35401108	22	2.0	22	86	4	61	34	0	11	53	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35404999--35405080	41	2.0	42	85	2	112	47	28	21	2	1.64
35411025--35411080	11	4.9	11	77	14	51	78	1	12	7	1.02
35411036--35411089	17	3.1	17	78	2	63	77	3	11	7	1.09
35411025--35411079	6	9.5	6	77	15	53	80	1	12	5	0.97
35413214--35413247	15	2.2	16	94	5	61	64	0	0	35	0.94
35413561--35413619	31	1.9	31	89	0	91	23	13	10	52	1.71
35414179--35414212	3	11.3	3	93	0	59	67	2	0	29	1.05
35415237--35415299	15	4.0	15	75	16	65	44	1	1	52	1.20
35415825--35415910	44	2.0	44	92	0	145	39	17	15	27	1.89
35424210--35425294	164	6.6	164	94	0	1904	32	24	19	23	1.98
35423936--35425294	492	2.8	491	93	2	2216	32	24	18	24	1.97
35426116--35426319	100	2.0	101	82	3	250	29	12	18	39	1.87
35433297--35433346	8	6.2	8	100	0	100	38	0	50	12	1.40
35435334--35435373	21	1.9	21	90	10	64	25	10	10	55	1.64
35448715--35448748	17	2.0	17	88	0	50	41	0	0	58	0.98
35448712--35448751	16	2.4	17	83	4	55	37	0	0	62	0.95
35453056--35453096	3	13.7	3	94	0	73	0	36	0	63	0.95
35460568--35460605	19	2.0	20	89	5	60	50	0	0	50	1.00
35465765--35465808	12	3.7	12	100	0	88	40	0	0	59	0.98
35468744--35468788	23	2.0	23	100	0	90	48	11	22	17	1.78
35472755--35472832	40	2.0	40	87	2	113	33	24	15	26	1.95
35493410--35493461	19	2.9	17	78	10	59	46	17	15	21	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35497576--35497600	7	3.6	7	100	0	50	12	44	12	32	1.78
35498416--35498482	22	3.0	23	71	20	68	46	11	5	35	1.65
35498416--35498486	23	3.1	23	73	18	76	46	11	5	36	1.63
35504654--35504880	43	5.3	43	78	7	221	35	23	16	25	1.95
35504654--35504877	86	2.6	84	81	6	281	34	23	16	25	1.95
35505026--35505193	43	4.0	43	75	6	164	36	25	14	23	1.93
35505032--35505198	84	2.0	85	84	4	221	34	25	15	24	1.95
35505504--35505568	26	2.8	23	77	20	64	63	1	3	32	1.19
35515143--35515205	21	2.9	22	83	9	85	36	26	22	14	1.92
35516405--35516512	26	4.2	26	95	0	198	31	6	25	36	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