genome.fa.s5.2.7.7.80.10.50.1000.98.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  98  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)
32351358--32351434	40	1.9	40	91	0	127	25	25	24	23	2.00
32353712--32353838	59	2.2	59	88	0	182	34	6	6	52	1.52
32353727--32353851	59	2.1	59	81	0	142	38	8	6	47	1.59
32354871--32354939	28	2.6	27	78	15	72	42	18	0	39	1.51
32355048--32355112	29	2.2	29	86	0	85	33	12	4	49	1.61
32355734--32355775	13	3.2	13	82	3	57	42	0	2	54	1.13
32356127--32356219	44	2.1	44	95	0	168	58	7	12	21	1.59
32359031--32359060	11	2.7	11	94	0	51	36	0	3	60	1.14
32359641--32359704	30	2.2	29	91	8	103	59	9	3	28	1.44
32359764--32359789	11	2.4	11	100	0	52	61	0	30	7	1.24
32361047--32361096	23	2.1	24	96	3	93	44	4	32	20	1.70
32363710--32363737	12	2.3	12	100	0	56	46	21	25	7	1.76
32363806--32363870	25	2.6	25	90	4	96	18	21	33	26	1.96
32364086--32364281	62	3.2	60	74	16	181	42	3	3	50	1.37
32368474--32368751	114	2.4	113	90	5	418	32	14	18	34	1.91
32368715--32368751	18	2.1	18	89	0	56	24	16	27	32	1.96
32370516--32370719	95	2.1	95	88	0	300	37	20	18	23	1.94
32372162--32372242	36	2.3	36	95	2	146	46	3	29	19	1.67
32378693--32378763	35	2.0	35	100	0	142	30	5	35	28	1.80
32381539--32381580	6	7.0	6	97	0	66	38	45	0	16	1.48
32383710--32383743	17	2.0	17	88	11	52	52	17	17	11	1.73
32384963--32385025	31	2.0	31	90	0	99	41	3	0	55	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32384963--32385049	31	2.8	31	81	8	90	41	2	1	55	1.20
32394982--32395035	26	2.1	25	83	13	65	68	0	1	29	1.00
32396002--32396414	41	10.1	41	86	4	471	34	23	22	19	1.96
32396073--32396414	122	2.8	123	88	1	517	33	23	22	19	1.97
32396577--32396679	7	14.1	7	72	8	53	28	0	28	42	1.62
32396585--32396664	21	3.6	21	69	12	70	28	1	26	43	1.62
32396572--32396676	14	7.2	14	68	8	66	28	0	25	44	1.60
32396768--32396816	21	2.3	22	86	6	66	20	0	38	40	1.53
32401377--32401417	19	2.2	19	86	4	57	21	2	4	70	1.18
32401667--32401770	43	2.4	43	91	0	163	20	19	32	27	1.96
32401929--32401975	22	2.1	22	100	0	94	38	21	4	36	1.73
32403799--32403844	17	2.6	17	86	10	58	58	10	0	30	1.32
32404685--32404717	3	11.0	3	100	0	66	66	0	0	33	0.92
32406656--32407112	74	6.2	74	84	6	500	32	19	17	30	1.95
32407052--32407171	60	2.0	59	90	1	186	26	21	21	30	1.99
32419382--32419427	17	2.6	17	86	10	58	58	10	0	30	1.32
32420029--32420097	28	2.4	30	78	9	79	57	2	7	31	1.40
32420253--32420296	3	15.3	3	86	9	65	65	2	0	31	1.05
32420251--32420296	17	2.8	16	90	6	65	65	2	0	32	1.05
32420256--32420301	14	3.3	14	96	0	83	65	4	0	30	1.12
32420253--32420293	11	4.0	10	87	12	57	65	2	0	31	1.05
32420837--32420861	10	2.5	10	100	0	50	32	0	16	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32422549--32422643	47	2.0	47	97	0	181	14	10	11	63	1.53
32428328--32428414	26	3.1	26	72	23	86	39	10	5	44	1.62
32431093--32431264	86	2.0	86	94	0	299	33	17	19	29	1.95
32436322--32436483	42	3.8	43	74	11	145	23	20	22	33	1.97
32437445--32437603	27	5.9	27	82	10	191	33	21	26	18	1.97
32437445--32437606	54	3.0	54	90	2	247	33	21	26	18	1.96
32437707--32437782	26	2.8	27	82	7	84	31	11	19	36	1.88
32439224--32439331	26	4.2	26	93	0	189	36	24	7	32	1.83
32444602--32444759	27	5.9	27	77	10	153	33	20	25	20	1.97
32444602--32444759	54	2.9	54	84	2	203	33	20	25	20	1.97
32444864--32444928	26	2.4	28	84	7	89	32	10	20	36	1.87
32446382--32446489	26	4.2	26	95	0	180	36	23	7	33	1.83
32449604--32449670	16	3.8	16	70	21	53	17	1	20	59	1.45
32449598--32449688	38	2.4	38	94	3	157	18	2	21	57	1.51
32467323--32468093	385	2.0	385	100	0	1542	32	18	16	32	1.93
32476388--32476452	32	2.0	32	100	0	130	60	0	3	36	1.13
32476688--32476724	19	1.9	19	100	0	74	64	0	0	35	0.94
32481258--32481287	15	2.0	15	93	0	51	6	23	20	50	1.71
32485689--32485896	91	2.3	91	92	0	335	45	3	4	46	1.39
32485811--32485871	28	2.2	28	85	5	81	45	0	3	50	1.17
32485729--32485871	44	3.2	43	69	20	121	46	2	3	48	1.31
32485923--32486111	59	3.2	57	68	19	152	41	3	4	50	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32485950--32486148	66	3.2	64	68	19	186	41	3	6	49	1.44
32485912--32486209	120	2.5	120	93	1	517	42	2	5	49	1.37
32485985--32486172	61	3.1	61	69	17	192	42	1	6	48	1.39
32486037--32486088	15	3.6	15	80	12	56	44	0	1	53	1.11
32486153--32486187	18	2.0	17	88	5	52	45	0	0	54	0.99
32486349--32486439	45	2.0	45	82	2	112	37	27	6	28	1.82
32486420--32486488	16	4.2	16	96	3	129	37	37	0	24	1.56
32486420--32486488	33	2.1	32	97	2	129	37	37	0	24	1.56
32489710--32489761	26	2.0	26	81	3	61	38	0	7	53	1.30
32491961--32492072	17	6.4	18	73	13	90	43	12	15	28	1.83
32491973--32492035	16	3.8	16	81	6	63	49	11	12	26	1.74
32491938--32492073	17	7.9	17	71	11	80	41	11	13	33	1.80
32491938--32492078	18	8.3	16	70	17	72	40	10	13	35	1.79
32492022--32492108	19	4.7	19	71	13	74	34	12	12	40	1.81
32491978--32492119	36	4.1	35	76	11	114	39	11	11	36	1.79
32492685--32492711	11	2.5	11	100	0	54	22	7	0	70	1.12
32492709--32492762	10	5.2	10	80	14	56	0	22	0	77	0.76
32492707--32492759	14	3.8	13	85	14	63	0	20	0	79	0.74
32493326--32493426	30	3.4	30	83	4	134	46	2	21	28	1.66
32493697--32494012	54	5.9	54	91	4	509	37	17	15	29	1.91
32493697--32494012	107	3.0	106	91	4	505	37	17	15	29	1.91
32494100--32494132	13	2.4	14	95	5	59	69	9	9	12	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32494093--32494140	14	3.5	14	85	5	62	62	8	10	18	1.52
32494128--32494292	87	1.9	87	83	7	219	34	18	20	26	1.96
32494211--32494588	73	5.2	73	91	3	606	35	17	17	29	1.93
32494215--32494588	72	5.2	72	91	3	594	34	18	17	29	1.93
32494215--32494588	145	2.6	145	92	3	630	34	18	17	29	1.93
32494463--32494702	122	1.9	125	87	4	353	37	18	14	30	1.90
32494588--32494927	72	4.8	72	89	4	494	35	17	15	30	1.92
32494220--32496680	557	4.5	550	90	5	3371	35	18	15	30	1.93
32494636--32494911	145	1.9	144	96	2	509	32	17	17	32	1.94
32494927--32495480	72	7.7	72	94	2	918	34	18	16	31	1.93
32494975--32495480	145	3.5	144	96	1	933	33	17	16	31	1.93
32494927--32495480	217	2.6	217	93	2	929	34	18	16	31	1.93
32495357--32495602	123	2.0	126	88	4	374	37	17	14	30	1.90
32495484--32496037	72	7.7	72	93	2	909	34	18	16	31	1.93
32495484--32496037	145	3.8	144	93	2	918	34	18	16	31	1.93
32495914--32496159	123	2.0	126	87	4	365	36	17	15	30	1.91
32496041--32496236	72	2.8	72	87	3	263	37	18	14	30	1.90
32495842--32496345	195	2.6	196	92	2	816	35	19	15	29	1.92
32496444--32496723	122	2.2	126	85	6	356	35	22	15	27	1.94
32496779--32497010	122	1.9	126	85	4	328	33	23	14	28	1.94
32498669--32498706	12	3.2	12	85	7	51	0	15	2	81	0.80
32499281--32499336	14	4.1	14	86	2	78	0	12	3	83	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32500164--32500250	43	2.0	43	100	0	174	32	11	17	39	1.85
32503072--32503183	17	6.4	18	73	13	90	43	12	15	28	1.83
32503084--32503146	16	3.8	16	81	6	63	49	11	12	26	1.74
32503049--32503184	17	7.9	17	71	11	80	41	11	13	33	1.80
32503049--32503189	18	8.3	16	70	17	72	40	10	13	35	1.79
32503133--32503219	19	4.7	19	71	13	74	34	12	12	40	1.81
32503089--32503230	36	4.1	35	76	11	114	39	11	11	36	1.79
32503798--32503824	11	2.5	11	100	0	54	22	7	0	70	1.12
32503822--32503875	10	5.2	10	80	14	56	0	22	0	77	0.76
32503820--32503872	14	3.8	13	85	14	63	0	20	0	79	0.74

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