genome.fa.s12.2.7.7.80.10.50.1000.127.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  127  of  320  ( 38372 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)
41456204--41456337	43	3.2	43	77	11	152	31	29	15	23	1.96
41471139--41471316	27	6.6	26	83	6	178	26	15	28	29	1.96
41471140--41471295	82	1.9	81	88	3	233	26	15	28	29	1.96
41471136--41471316	82	2.2	81	83	2	229	26	15	28	29	1.96
41475459--41475490	15	2.1	15	94	0	55	59	6	9	25	1.52
41479359--41479484	44	3.0	42	75	12	114	27	18	24	29	1.98
41484837--41484915	37	2.1	37	88	4	115	26	29	17	26	1.98
41485034--41485622	47	12.4	47	93	1	928	29	30	8	32	1.87
41485034--41485622	288	2.1	284	92	3	986	29	30	8	32	1.87
41502827--41502926	41	2.5	40	88	1	137	25	16	25	34	1.95
41503699--41503760	27	2.5	24	80	19	81	30	1	14	53	1.51
41503710--41503766	27	2.1	27	100	0	114	28	3	10	57	1.48
41507500--41507556	28	2.0	28	100	0	114	42	3	7	47	1.47
41509919--41510118	27	7.4	27	88	1	276	34	20	20	25	1.96
41510750--41510962	71	3.1	69	84	5	259	22	26	19	31	1.97
41516888--41517059	27	6.4	27	81	3	186	36	19	19	25	1.94
41517801--41517859	27	2.2	26	84	3	73	22	22	18	37	1.94
41522835--41523012	27	6.6	27	82	6	189	30	28	15	25	1.96
41522856--41523011	82	1.9	81	86	3	224	30	28	15	25	1.96
41530885--41531062	27	6.6	27	84	3	205	29	28	15	26	1.96
41530906--41531061	82	1.9	81	88	3	233	29	28	15	26	1.96
41534296--41534464	39	4.3	40	87	4	220	25	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41534296--41534464	79	2.2	77	84	2	221	25	28	20	24	1.99
41534449--41534526	40	1.9	41	82	10	97	26	28	20	24	1.99
41542152--41542319	40	4.3	39	87	5	205	25	28	21	25	1.99
41542150--41542319	79	2.2	78	83	3	216	25	28	21	24	1.99
41542150--41542333	78	2.3	79	82	4	221	25	28	21	25	1.99
41542304--41542380	40	1.9	41	84	7	104	27	28	19	24	1.99
41556037--41556252	40	5.4	40	88	4	278	23	23	28	25	2.00
41569769--41569856	34	2.6	34	88	0	122	26	23	25	25	2.00
41572133--41572285	27	5.7	27	87	0	207	32	20	5	40	1.77
41572133--41572286	54	2.9	54	88	1	229	32	20	5	40	1.76
41572112--41572282	81	2.1	81	82	4	202	34	21	5	39	1.76
41572238--41572430	81	2.4	81	81	4	219	39	20	6	32	1.79
41572089--41572430	27	12.7	27	78	5	181	37	20	6	34	1.79
41572422--41572662	27	8.9	27	85	2	299	36	18	20	24	1.95
41572306--41572484	80	2.2	80	82	10	206	41	19	10	27	1.84
41572418--41572646	54	4.2	54	89	3	336	35	20	19	24	1.95
41576144--41576399	40	6.4	40	91	2	376	23	21	27	27	1.99
41584945--41585126	40	4.6	40	91	2	278	21	26	23	28	1.99
41591331--41591528	43	4.6	43	85	0	216	24	15	29	30	1.95
41597022--41597160	47	3.0	47	77	15	144	27	30	20	21	1.98
41597594--41597653	30	2.0	30	86	0	84	31	25	8	35	1.85
41608490--41608542	25	2.2	25	83	10	65	26	18	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41614594--41614635	17	2.5	17	96	0	75	33	16	11	38	1.86
41617802--41617901	33	3.2	33	63	23	88	30	23	5	42	1.75
41617805--41617930	61	2.1	61	100	0	252	33	23	4	38	1.76
41618052--41618154	43	2.4	42	82	9	118	32	24	16	27	1.96
41618052--41618206	44	3.6	43	77	11	120	32	25	16	25	1.96
41630707--41630855	67	2.2	66	82	9	167	32	18	28	20	1.96
41654117--41654191	29	2.6	29	86	0	96	25	28	20	26	1.99
41654415--41654466	8	6.5	8	76	8	52	7	21	19	51	1.71
41654415--41654466	24	2.2	24	86	6	70	7	21	19	51	1.71
41654439--41654481	16	2.7	16	85	0	59	9	20	16	53	1.70
41655690--41655723	16	2.1	16	94	0	59	17	8	29	44	1.79
41665894--41666011	57	2.1	56	82	4	139	33	26	11	28	1.90
41665894--41666011	29	4.2	29	82	3	134	33	26	11	28	1.90
41666223--41666265	8	5.4	8	82	0	50	9	23	16	51	1.73
41680622--41680774	76	2.0	76	96	0	279	34	18	9	37	1.82
41691024--41691201	27	6.6	27	83	3	205	26	15	28	29	1.96
41691025--41691180	82	1.9	81	88	3	233	26	15	28	29	1.96
41691021--41691201	82	2.2	81	83	2	229	27	15	27	29	1.96
41698938--41699115	27	6.6	27	83	3	205	26	15	28	29	1.96
41698939--41699094	82	1.9	81	88	3	233	26	15	28	29	1.96
41698935--41699115	82	2.2	81	83	2	229	27	15	27	29	1.96
41701412--41701481	33	2.1	33	91	0	113	31	7	14	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41703160--41703377	117	1.9	116	88	0	328	34	12	23	28	1.92
41708141--41708180	20	2.0	20	100	0	80	40	5	15	40	1.68
41719448--41719709	39	6.7	40	84	7	301	26	21	27	24	2.00
41719500--41719734	78	3.0	79	83	6	221	27	21	26	24	1.99
41727470--41727731	39	6.6	39	86	5	311	25	22	27	24	2.00
41727522--41727762	78	3.1	79	84	6	233	27	21	26	24	1.99
41740823--41741009	67	2.8	67	86	0	248	35	16	22	25	1.95
41746376--41746408	16	2.1	16	94	0	57	33	6	18	42	1.75
41755796--41755870	38	2.0	38	86	5	107	30	18	26	24	1.98
41755924--41756145	40	5.6	40	92	0	365	24	22	27	25	1.99
41756130--41756161	16	2.0	16	100	0	64	25	31	25	18	1.98
41756146--41756247	40	2.5	40	88	0	150	23	22	28	25	1.99
41756050--41756229	96	1.9	96	94	0	315	23	22	26	27	2.00
41756146--41756260	40	2.9	40	86	0	149	23	21	28	26	1.99
41761329--41761359	11	2.8	11	95	0	53	41	19	16	22	1.89
41773452--41773500	14	3.6	14	71	17	50	67	0	28	4	1.09
41803043--41803074	3	10.7	3	93	0	55	65	0	3	31	1.08
41803047--41803087	12	3.4	12	82	0	55	63	2	4	29	1.28
41803517--41803567	25	2.0	26	88	7	77	56	5	3	33	1.42
41803923--41803976	24	2.4	22	84	9	65	57	5	3	33	1.40
41803923--41803978	22	2.6	23	83	13	66	57	7	3	32	1.43
41804200--41804257	3	19.3	3	100	0	116	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41804963--41804997	18	1.9	18	88	11	54	77	0	5	17	0.96
41807525--41807567	21	2.0	21	100	0	86	48	13	9	27	1.73
41831919--41831951	3	11.0	3	100	0	66	66	0	0	33	0.92
41833448--41833491	19	2.3	19	84	7	54	72	6	0	20	1.07
41833448--41833490	20	2.2	19	83	4	50	74	6	0	18	1.04
41842112--41842225	35	3.2	35	88	1	156	38	30	15	14	1.88
41844059--41844192	35	3.8	35	81	3	126	35	20	12	31	1.90
41846001--41846036	16	2.2	16	95	0	63	25	19	5	50	1.69
41848003--41848227	30	7.5	30	76	9	183	23	23	14	38	1.92
41848029--41848098	29	2.4	30	85	2	88	20	31	10	38	1.85
41850672--41850724	26	2.0	27	85	7	74	24	15	22	37	1.92
41852206--41852270	32	2.0	32	100	0	130	38	24	6	30	1.80
41854300--41854509	28	7.5	28	92	0	314	32	28	12	26	1.93
41862010--41862179	40	4.3	40	88	0	207	24	21	28	25	1.99
41861957--41862179	80	2.8	79	82	3	232	24	21	28	25	1.99
41862032--41862214	79	2.3	80	82	1	226	25	21	28	24	1.99
41865659--41865896	28	8.5	28	96	0	379	32	28	13	25	1.93
41875181--41875241	32	1.9	32	100	0	122	39	22	4	32	1.76
41878785--41878871	44	2.0	44	100	0	174	57	10	2	29	1.44
41879956--41880029	30	2.5	30	93	0	121	27	21	9	41	1.84
41890570--41890621	23	2.3	22	75	21	54	9	23	1	65	1.32
41896569--41896613	21	2.2	20	84	4	54	53	4	13	28	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41896576--41896616	20	2.0	21	90	4	66	51	4	9	34	1.56
41896596--41896643	25	1.9	25	86	0	69	50	8	10	31	1.66
41896624--41896730	24	4.3	24	75	13	76	57	3	4	34	1.38
41896678--41896767	41	2.4	37	83	9	101	56	2	4	36	1.32
41896747--41896809	24	2.6	24	83	11	76	52	4	4	38	1.44
41896850--41896903	23	2.5	20	80	13	54	55	7	1	35	1.39
41896904--41896994	3	30.0	3	68	14	53	61	0	3	35	1.12
41896867--41896970	18	5.8	18	67	23	51	59	2	3	33	1.30
41896929--41896993	34	1.9	34	84	6	87	61	0	1	36	1.05
41898548--41898693	44	3.3	44	80	7	154	28	26	19	26	1.99

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