genome.fa.s12.2.7.7.80.10.50.1000.38.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  38  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)
10862186--10862218	17	1.9	17	100	0	66	87	0	0	12	0.53
10874857--10875017	41	4.0	41	89	2	155	34	21	24	19	1.97
10874880--10875017	41	3.4	41	93	3	217	34	21	23	19	1.96
10875633--10875681	24	2.0	24	96	0	89	53	2	4	40	1.32
10875963--10876025	14	4.4	14	86	4	81	22	1	28	47	1.60
10875963--10876025	29	2.2	28	85	2	81	22	1	28	47	1.60
10875958--10876110	7	21.6	7	75	7	67	21	0	33	44	1.57
10876232--10876298	14	4.7	14	87	3	98	38	5	16	38	1.73
10876845--10876908	22	2.9	23	77	15	71	64	3	3	29	1.24
10876900--10877021	40	3.1	40	83	9	162	44	17	19	18	1.87
10876913--10877021	38	2.8	40	88	5	177	41	18	21	19	1.91
10877241--10877324	35	2.4	34	78	9	98	32	35	4	27	1.78
10880951--10881082	69	1.9	67	84	6	176	43	12	11	31	1.78
10889304--10889345	21	2.1	19	86	8	57	14	4	4	76	1.12
10895302--10895374	37	2.0	36	89	5	110	30	26	15	28	1.96
10897331--10897409	40	2.0	40	89	0	122	18	13	30	36	1.90
10899222--10899253	15	2.1	15	100	0	64	21	12	6	59	1.55
10902253--10902291	10	3.9	10	80	12	53	69	2	10	17	1.28
10904238--10904298	4	15.8	4	75	21	51	73	0	1	24	0.92
10904247--10904308	28	2.2	28	88	5	90	75	0	1	22	0.88
10904238--10904308	11	6.3	11	82	12	74	74	0	2	22	0.94
10909728--10909863	46	3.0	46	86	2	175	41	15	22	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10916505--10916534	4	7.5	4	100	0	60	26	0	23	50	1.50
10921843--10921928	20	4.4	19	75	8	66	47	1	4	46	1.30
10923863--10923887	12	2.1	12	100	0	50	48	20	16	16	1.82
10924534--10924575	19	2.2	20	86	4	59	47	0	26	26	1.52
10929105--10929174	35	2.0	35	100	0	140	37	11	22	28	1.89
10931541--10931589	19	2.6	19	78	12	57	57	12	2	28	1.46
10935228--10935273	23	2.0	23	82	0	56	30	8	17	43	1.79
10943352--10943399	23	2.1	23	84	0	60	37	22	22	16	1.94
10948142--10948189	25	2.0	24	83	4	60	56	14	10	18	1.66
10951939--10951994	28	2.0	28	93	3	96	39	21	23	16	1.92
10967603--10967692	45	2.0	45	89	4	137	38	4	21	35	1.73
10967832--10967870	21	1.9	20	85	15	53	58	5	2	33	1.33
10970477--10970890	223	1.9	224	85	3	584	32	15	16	35	1.91
10970960--10971167	54	4.0	53	81	7	246	34	19	20	26	1.96
10970970--10971168	105	1.9	103	88	2	299	33	19	20	26	1.96
10970973--10971168	51	3.7	53	83	5	247	34	19	20	25	1.96
10971353--10971451	11	9.3	11	78	7	89	20	18	0	61	1.34
10971353--10971451	5	18.6	5	73	15	74	20	18	0	61	1.34
10971368--10971446	16	4.8	16	78	9	88	21	18	0	59	1.38
10971444--10971486	20	2.2	20	87	4	61	27	9	0	62	1.25
10971505--10971532	6	4.7	6	100	0	56	28	0	0	71	0.86
10971441--10971584	49	3.0	47	74	17	143	27	9	0	61	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10971648--10971773	53	2.3	54	89	5	184	26	23	19	30	1.98
10973968--10974121	37	4.3	37	86	8	228	22	18	33	25	1.97
10975024--10975059	16	2.2	17	90	5	56	11	8	0	80	0.90
10975047--10975108	5	11.6	5	80	13	70	19	20	0	59	1.38
10975067--10975108	12	3.8	11	90	9	68	19	23	0	57	1.41
10975047--10975108	21	2.9	21	81	13	72	19	20	0	59	1.38
10975101--10975141	19	2.2	19	91	8	66	29	4	0	65	1.13
10975101--10975183	21	4.0	20	72	20	64	31	6	0	62	1.19
10975705--10975950	51	4.8	51	82	2	280	32	17	22	27	1.96
10976131--10976215	11	7.8	11	74	6	66	21	18	0	60	1.37
10976132--10976210	16	4.8	16	81	9	88	21	18	0	59	1.38
10976132--10976215	5	15.6	5	75	14	69	21	19	0	59	1.38
10976208--10976292	20	4.1	21	78	15	88	30	5	0	63	1.18
10976219--10976312	44	2.2	42	85	7	127	28	8	0	62	1.24
10976327--10976483	53	3.0	53	84	0	199	28	21	18	31	1.97
10976347--10976483	53	2.6	53	86	0	202	26	24	21	28	1.99
10976932--10977035	52	2.0	53	83	5	131	31	15	22	30	1.95
10977058--10977148	22	4.2	21	72	17	62	62	0	8	28	1.25
10977029--10977164	43	2.9	47	77	12	145	61	0	8	29	1.32
10977098--10977165	22	3.0	22	77	16	68	64	0	7	27	1.20
10977158--10977241	5	15.6	5	78	9	60	61	0	19	19	1.34
10977180--10977232	16	3.2	16	83	5	61	64	0	15	20	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10977180--10977242	27	2.3	27	83	0	81	66	0	14	19	1.25
10977158--10977242	6	15.5	6	76	15	51	62	0	18	18	1.33
10980617--10980773	59	2.8	57	73	12	153	33	8	30	27	1.87
10988266--10988478	107	2.0	107	90	0	336	34	18	15	30	1.93
10995335--10995462	39	3.3	39	86	0	184	21	25	20	32	1.98
10999866--10999935	29	2.3	30	78	11	72	40	1	12	45	1.51
11003129--11003451	169	2.0	165	85	5	447	36	13	14	35	1.85
11004349--11004393	22	2.0	22	91	0	72	33	2	15	48	1.57
11008124--11008168	22	2.0	22	91	0	72	37	2	11	48	1.51
11012538--11012577	16	2.5	16	95	0	71	57	0	5	37	1.21
11015908--11015972	30	2.2	30	88	0	94	43	7	7	41	1.62
11021379--11021421	18	2.4	19	80	11	54	34	6	11	46	1.67
11022696--11022733	20	2.1	19	85	14	53	26	5	15	52	1.64
11023794--11023834	21	2.0	21	85	9	57	43	0	34	21	1.53
11023770--11023829	30	2.0	30	84	9	79	46	0	33	20	1.51
11023950--11023984	18	1.9	18	94	0	61	40	22	8	28	1.84
11024175--11024232	28	2.1	28	96	0	107	25	27	20	25	1.99
11024184--11024243	28	2.1	28	81	6	68	23	25	28	23	2.00
11024322--11024352	12	2.6	12	94	0	53	22	41	29	6	1.78
11025193--11025350	43	3.7	42	82	2	163	44	21	14	18	1.86
11025194--11025350	85	1.8	85	82	5	201	45	21	14	19	1.85
11025177--11025375	43	4.6	43	79	7	122	43	21	16	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11029097--11029123	14	1.9	14	100	0	54	29	18	14	37	1.91
11029267--11029311	6	7.3	6	87	2	63	2	57	2	37	1.23
11029343--11029381	20	1.9	21	89	5	62	33	15	20	30	1.94
11034721--11034777	30	1.9	30	92	0	96	21	17	24	36	1.94
11040943--11041011	26	2.7	26	90	0	102	24	28	23	23	1.99
11045353--11045381	3	9.7	3	100	0	58	34	0	0	65	0.93
11045673--11045729	24	2.4	24	93	0	96	36	5	17	40	1.72
11047005--11047090	45	1.9	45	90	0	136	17	24	22	36	1.95
11047247--11047352	18	5.9	18	79	3	106	35	16	13	34	1.87
11051845--11051954	35	3.1	35	73	10	107	24	22	26	26	2.00
11051812--11051930	36	3.3	35	76	6	114	23	26	25	25	2.00
11051812--11051954	71	2.0	71	84	2	189	24	24	25	25	2.00
11055009--11055076	19	3.4	19	74	18	75	55	29	4	10	1.52
11055003--11055086	41	2.0	41	100	0	168	54	26	4	14	1.59
11055024--11055086	19	3.0	23	71	22	73	57	25	4	12	1.55
11063458--11063535	41	1.9	41	89	0	120	47	16	7	28	1.74
11065623--11065729	49	2.2	49	94	0	187	35	17	23	23	1.95
11065652--11065729	24	3.2	24	70	10	77	35	16	25	21	1.94
11065627--11065707	25	3.3	25	71	13	78	34	18	22	24	1.96
11065733--11065789	23	2.4	23	77	8	62	45	24	15	14	1.83
11070993--11071024	8	4.0	8	100	0	64	50	0	12	37	1.41
11074042--11074501	228	2.0	229	87	1	672	23	16	19	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11075027--11075802	387	2.0	387	95	0	1381	29	15	17	38	1.90
11080047--11080099	24	2.3	21	77	20	61	43	3	1	50	1.30
11081651--11081707	24	2.4	25	79	8	73	47	1	0	50	1.11
11081748--11081795	20	2.4	20	77	19	55	41	2	2	54	1.24
11088494--11088597	52	2.0	50	88	3	154	35	12	13	38	1.83
11091224--11091296	36	2.0	36	100	0	146	50	19	2	27	1.61
11094238--11094285	21	2.3	20	79	10	51	16	2	14	66	1.34
11094814--11094841	3	9.3	3	100	0	56	67	0	32	0	0.91
11094973--11095006	2	17.0	2	100	0	68	0	50	0	50	1.00
11103421--11104861	480	3.0	480	99	0	2819	25	12	16	45	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   319   320