genome.fa.s11.2.7.7.80.10.50.1000.327.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: A11
Parameters: 2 7 7 80 10 50 1000
Length:  114316535

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   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356   

This is table  327  of  356  ( 42641 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)
105534339--105534401	20	3.0	21	86	9	83	41	7	7	42	1.63
105534316--105534538	17	12.7	16	70	18	92	43	9	13	32	1.77
105534381--105534450	32	2.1	34	87	10	101	42	8	14	34	1.76
105534380--105534568	18	10.9	18	70	16	87	43	11	14	30	1.80
105534381--105534472	34	2.8	34	85	6	109	43	8	16	31	1.78
105535104--105535165	15	4.1	15	83	8	72	0	19	0	80	0.71
105535102--105535152	7	6.4	8	88	9	61	0	19	0	80	0.71
105535295--105535319	12	2.1	12	100	0	50	0	8	8	84	0.79
105535300--105535332	17	1.9	17	93	0	57	3	6	12	78	1.04
105535305--105535352	18	2.6	17	77	9	51	2	6	14	77	1.06
105535452--105535497	3	15.0	3	82	13	58	0	36	0	63	0.95
105535466--105535494	10	2.9	10	100	0	58	0	37	0	62	0.96
105535452--105535497	13	3.7	13	81	18	62	0	36	0	63	0.95
105535553--105535602	10	5.2	10	80	7	59	0	30	0	70	0.88
105535557--105535599	19	2.3	19	88	11	63	0	30	0	69	0.88
105535857--105535958	30	3.4	30	83	2	125	44	3	21	30	1.70
105535954--105535990	15	2.4	16	90	4	58	21	0	2	75	0.92
105536230--105536475	52	4.7	53	88	7	353	34	18	15	30	1.93
105536230--105536475	102	2.4	104	87	6	349	34	18	15	30	1.93
105536487--105536513	14	1.9	14	100	0	54	70	7	7	14	1.32
105536602--105537031	72	6.0	72	93	3	726	32	18	17	30	1.94
105536602--105537031	142	3.0	144	95	2	744	32	18	17	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105536599--105537026	214	2.0	218	94	2	758	32	18	17	31	1.95
105537028--105537052	1	25.0	1	100	0	50	100	0	0	0	0.00
105537073--105537662	72	8.2	72	94	2	959	33	18	16	30	1.93
105537073--105537666	145	4.1	144	93	1	951	34	18	16	30	1.93
105537073--105537666	217	2.7	217	94	1	996	34	18	16	30	1.93
105545960--105546006	21	2.3	19	80	20	51	34	6	8	51	1.58
105545985--105546393	17	23.3	17	70	15	140	45	9	11	33	1.74
105546154--105546428	17	15.4	17	73	9	156	45	10	12	31	1.75
105546174--105546254	20	4.1	20	83	10	87	44	8	7	39	1.63
105546372--105546428	18	3.1	18	77	7	60	40	14	10	35	1.80
105546372--105546413	20	2.1	21	86	8	61	35	14	7	42	1.73
105546423--105546473	18	2.9	17	77	8	57	47	7	9	35	1.66
105546976--105547024	7	6.9	7	92	2	80	0	16	0	83	0.64
105546966--105547041	20	3.9	19	76	13	68	0	18	0	81	0.69
105546966--105547041	14	5.5	13	73	20	57	0	18	0	81	0.69
105547172--105547207	13	2.6	14	91	8	56	2	5	8	83	0.89
105547177--105547211	18	1.9	18	88	0	52	2	5	14	77	1.07
105547331--105547376	3	15.0	3	82	13	58	0	36	0	63	0.95
105547345--105547373	10	2.9	10	100	0	58	0	37	0	62	0.96
105547331--105547376	13	3.7	13	81	18	62	0	36	0	63	0.95
105547716--105547832	30	3.9	29	77	11	94	44	3	21	30	1.69
105547731--105547832	30	3.4	30	83	2	125	44	3	21	30	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105548941--105548998	30	1.9	30	96	0	107	15	18	27	37	1.92
105554980--105555042	30	2.0	32	85	11	87	46	0	3	50	1.17
105558155--105558229	39	1.9	39	83	0	96	68	9	1	21	1.26
105560702--105560734	17	2.0	17	94	5	59	36	15	0	48	1.45
105561015--105561288	46	6.0	46	89	0	361	21	23	13	41	1.89
105565932--105565965	17	2.1	17	94	5	61	35	14	0	50	1.44
105566245--105566702	46	10.0	46	90	0	603	22	22	13	41	1.89
105568543--105568590	11	4.2	11	79	10	51	60	2	0	37	1.09
105572254--105572356	48	2.1	48	87	0	143	38	12	28	20	1.89
105581620--105581687	36	1.9	35	93	3	118	32	0	23	44	1.54
105585452--105585503	16	3.2	16	88	0	68	44	5	21	28	1.75
105585485--105585578	44	2.1	46	86	7	131	32	5	25	36	1.79
105588133--105588178	23	2.0	23	95	0	83	45	13	13	28	1.80
105591764--105591803	14	2.9	14	80	0	53	35	0	0	65	0.93
105601723--105601796	29	2.6	27	78	19	80	63	1	1	33	1.11
105602039--105602085	20	2.4	20	92	3	78	40	0	0	59	0.97
105605482--105605521	20	2.1	19	86	13	55	30	0	5	65	1.14
105605484--105605521	19	2.0	19	85	10	51	28	0	5	65	1.14
105605482--105605527	20	2.3	21	81	7	51	30	0	4	65	1.12
105610589--105610835	30	8.0	30	73	19	179	40	9	24	25	1.85
105610648--105610710	21	3.3	21	62	25	57	41	9	23	25	1.85
105610648--105610813	57	2.8	58	84	11	171	40	9	24	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105610686--105610806	27	4.4	27	85	10	172	41	9	23	25	1.85
105610642--105610721	36	2.2	36	90	0	142	41	10	23	25	1.85
105610604--105610835	93	2.5	93	83	11	280	41	8	24	25	1.83
105610869--105610907	21	1.9	20	89	5	60	38	0	33	28	1.57
105612334--105612378	9	4.9	9	79	15	56	26	0	2	71	0.98
105614446--105614476	16	1.9	16	93	0	53	41	12	32	12	1.81
105617875--105617927	26	2.0	27	85	7	74	28	11	22	37	1.89
105619415--105619498	26	3.2	26	96	0	150	36	25	4	33	1.77
105625218--105625275	26	2.2	26	93	0	98	36	24	5	34	1.78
105627197--105627237	22	1.9	20	85	14	55	70	2	4	21	1.18
105629460--105629541	26	3.2	26	94	0	146	31	7	24	36	1.83
105638682--105638746	32	2.0	32	93	0	112	38	24	4	32	1.76
105639534--105639606	28	2.7	27	79	10	69	58	10	4	26	1.49
105640222--105640275	21	2.6	21	81	0	72	55	7	5	31	1.51
105640364--105640417	3	18.0	3	84	0	72	62	0	5	31	1.18
105642295--105642515	54	4.0	54	91	3	352	37	17	15	29	1.91
105642298--105642515	110	2.0	110	91	3	359	37	17	14	29	1.90
105643494--105643714	54	4.0	54	91	3	352	37	17	15	29	1.91
105643497--105643714	110	2.0	110	91	3	359	37	17	14	29	1.90
105643772--105643801	14	2.1	14	93	0	51	66	6	10	16	1.41
105643694--105644238	87	6.3	87	92	1	869	37	18	15	28	1.92
105643942--105643976	14	2.5	14	95	0	61	60	5	17	17	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105643694--105644359	262	2.6	259	88	4	995	36	18	16	28	1.93
105644121--105644150	14	2.1	14	93	0	51	66	6	10	16	1.41
105644169--105644308	70	2.0	70	95	0	253	40	14	15	30	1.86
105647770--105647906	27	5.1	27	85	7	163	35	21	23	18	1.96
105647752--105647906	54	2.9	54	87	2	215	35	20	23	20	1.96
105649529--105649612	26	3.2	26	91	0	132	38	25	4	32	1.77
105655988--105656051	32	2.0	32	93	0	110	26	17	29	26	1.97
105663576--105663625	24	2.1	24	100	0	100	46	4	12	38	1.60
105664972--105665007	15	2.4	15	95	0	63	55	5	0	38	1.23
105665307--105665359	3	17.7	3	96	0	88	64	0	3	32	1.12
105666966--105667019	21	2.6	21	81	0	72	55	7	5	31	1.51
105667111--105667167	3	19.0	3	77	0	60	59	1	3	35	1.25
105667650--105667723	26	2.9	25	94	6	130	31	9	24	35	1.87
105669166--105669218	26	2.0	26	85	7	72	37	22	15	24	1.92
105671982--105672032	12	3.9	13	73	16	52	62	17	0	19	1.32
105671980--105672036	27	2.1	27	96	0	105	57	15	0	26	1.38
105676727--105676762	3	12.0	3	100	0	72	66	0	0	33	0.92
105676800--105676838	18	2.0	20	85	9	55	58	7	2	30	1.39
105677010--105677052	18	2.4	18	80	0	50	60	6	4	27	1.43
105679221--105679549	43	7.6	43	72	6	218	19	23	21	34	1.96
105679320--105679549	86	2.7	84	85	7	302	20	23	20	34	1.96
105679231--105679469	129	1.9	129	89	3	374	20	22	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105679221--105679512	129	2.2	129	82	9	360	19	23	21	35	1.96
105679646--105679743	51	1.9	51	89	0	151	34	12	21	31	1.90
105684326--105684373	24	2.0	24	95	0	87	37	27	12	22	1.90
105690111--105690142	3	10.7	3	100	0	64	34	31	0	34	1.58
105701767--105701822	23	2.4	23	93	0	94	28	1	30	39	1.67
105701769--105701836	23	2.8	25	82	15	88	26	1	32	39	1.65
105708369--105708405	18	2.0	19	89	5	58	48	13	5	32	1.65
105710118--105710215	43	2.3	42	85	5	133	31	5	14	48	1.65
105714806--105714853	19	2.6	19	83	3	62	33	2	16	47	1.58
105714862--105714959	43	2.3	43	89	3	144	31	6	13	48	1.66

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   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356