genome.fa.s5.2.7.7.80.10.50.1000.157.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  157  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)
49369820--49370174	120	3.0	119	83	3	430	25	28	21	24	1.99
49372108--49372186	37	2.1	37	88	0	122	25	30	17	26	1.97
49372305--49372808	47	10.7	47	96	0	893	29	29	7	32	1.86
49372356--49372433	25	3.2	25	64	10	72	32	28	5	34	1.79
49377265--49377301	15	2.5	15	95	0	65	45	0	13	40	1.43
49379511--49379536	13	2.0	13	100	0	52	30	38	7	23	1.83
49379824--49379866	18	2.4	18	84	0	59	37	11	9	41	1.74
49409676--49409713	20	2.0	20	89	5	60	23	10	26	39	1.87
49411232--49411312	42	1.9	42	85	5	110	22	23	34	19	1.96
49422733--49422765	17	1.9	17	93	0	57	15	27	36	21	1.93
49424831--49424884	22	2.5	22	81	6	65	68	3	5	22	1.26
49434136--49434167	12	2.7	12	95	0	55	6	15	50	28	1.68
49438869--49439127	130	2.0	130	91	1	421	26	16	19	37	1.93
49438873--49439206	130	2.6	129	85	5	356	26	17	20	36	1.94
49442260--49442306	23	2.0	23	88	8	69	42	10	19	27	1.84
49445518--49445560	16	2.7	16	85	0	59	48	16	23	11	1.78
49445769--49445864	29	3.3	29	91	1	149	26	13	29	31	1.94
49452922--49452959	19	2.0	20	85	15	53	39	23	0	36	1.55
49453734--49453792	29	2.0	30	83	3	75	32	25	3	38	1.72
49460438--49460475	19	2.0	20	85	15	53	39	23	0	36	1.55
49460748--49460871	47	2.7	45	81	15	148	29	28	20	22	1.98
49460736--49460868	45	2.9	47	78	16	152	30	27	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49461287--49461345	30	2.0	29	83	3	73	32	25	3	38	1.72
49467784--49467821	19	2.0	20	85	15	53	39	23	0	36	1.55
49468082--49468213	44	2.9	47	79	15	159	31	28	18	21	1.97
49475148--49475185	19	2.0	20	85	15	53	39	23	0	36	1.55
49475999--49476058	30	2.0	30	86	0	84	31	25	5	38	1.77
49477121--49477199	39	2.0	39	92	0	131	34	12	8	44	1.74
49481522--49481694	46	3.7	46	76	10	181	23	20	26	30	1.98
49481519--49481689	93	1.8	93	89	0	270	22	20	27	29	1.99
49481918--49481955	19	2.0	20	85	15	53	36	0	23	39	1.55
49489091--49489263	46	3.7	46	79	10	199	22	19	27	30	1.98
49489088--49489258	93	1.8	93	92	0	288	22	19	28	29	1.98
49489487--49489524	19	2.0	20	85	15	53	36	0	23	39	1.55
49490130--49490173	21	2.2	20	83	4	52	54	0	4	40	1.21
49491279--49491313	18	1.9	18	94	0	61	51	11	14	22	1.74
49491309--49491391	40	2.1	40	100	0	166	50	20	4	24	1.67
49491490--49491638	50	2.9	50	75	11	142	40	12	13	33	1.82
49502468--49502500	6	5.7	6	89	7	50	84	0	3	12	0.72
49502468--49502500	11	2.8	12	90	4	50	84	0	3	12	0.72
49506669--49506895	48	4.8	48	73	7	187	25	19	24	29	1.98
49515947--49516132	40	4.7	40	85	4	216	25	27	20	25	1.99
49523131--49523355	40	5.7	40	82	6	233	26	27	20	25	1.99
49523287--49523364	40	1.9	41	82	10	97	26	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49532105--49532226	46	2.6	45	84	8	156	24	29	18	27	1.98
49532008--49532267	94	2.8	93	75	12	248	25	28	18	27	1.98
49538534--49538647	52	2.2	52	95	0	201	20	34	26	19	1.96
49557243--49557282	18	2.3	18	86	4	55	10	35	30	25	1.88
49571350--49571619	44	5.8	47	74	17	219	23	31	18	27	1.97
49571399--49571611	44	4.7	44	80	11	234	23	30	18	26	1.97
49571350--49571611	92	2.8	92	87	4	352	23	30	17	27	1.97
49584334--49584364	3	10.3	3	100	0	62	32	0	0	67	0.91
49584525--49584600	5	14.8	5	72	20	59	73	3	19	2	1.11
49584525--49584598	22	3.3	21	73	21	62	72	4	20	2	1.13
49589579--49589661	40	2.1	40	100	0	166	25	9	27	37	1.87
49592344--49592390	3	15.7	3	100	0	94	68	0	0	31	0.90
49595239--49595304	24	2.8	23	72	9	62	37	0	6	56	1.24
49617760--49617829	8	8.2	8	71	22	54	60	1	1	37	1.15
49617762--49617816	25	2.1	26	90	6	85	60	1	1	36	1.18
49617761--49617826	25	2.5	26	79	16	82	59	1	1	37	1.16
49617761--49617822	18	3.5	18	76	10	65	59	1	1	37	1.17
49624900--49625114	48	4.5	48	88	1	306	28	31	16	24	1.96
49643575--49643731	42	3.7	42	76	3	145	28	15	26	29	1.96
49648623--49648675	18	3.3	18	66	33	57	26	11	26	35	1.90
49648605--49648680	29	2.6	29	97	0	143	28	11	26	32	1.92
49649011--49649104	47	2.0	47	95	0	170	21	23	17	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49649920--49649944	12	2.1	12	100	0	50	48	0	0	52	1.00
49653232--49653396	43	3.8	43	74	12	158	29	24	18	27	1.98
49653232--49653396	44	3.8	42	74	10	154	29	24	18	27	1.98
49681246--49681470	40	5.7	40	84	5	278	24	21	28	25	1.99
49681246--49681503	80	3.2	80	81	7	215	25	21	27	24	1.99
49701355--49701406	23	2.3	22	75	21	54	9	23	1	65	1.32
49706835--49706985	35	4.3	35	78	5	144	37	31	11	18	1.87
49708664--49708762	49	2.0	49	100	0	198	38	6	16	39	1.73
49723274--49723316	7	6.0	7	91	2	68	30	0	2	67	1.03
49725019--49725293	47	5.8	46	72	11	168	29	18	29	22	1.98
49724982--49725198	94	2.3	94	87	3	303	29	18	27	23	1.98
49724982--49725288	94	3.2	94	81	7	275	29	19	28	23	1.98
49730420--49730794	178	2.1	178	93	1	642	37	16	4	41	1.70
49742879--49743048	40	4.2	40	87	0	169	40	14	24	21	1.90
49743115--49743145	15	2.0	16	93	6	55	12	12	9	64	1.50
49743132--49743252	46	2.5	47	82	6	136	21	28	8	42	1.81
49745853--49745919	20	3.3	20	68	12	64	25	40	14	19	1.90
49745853--49745934	41	2.0	41	100	0	164	29	34	14	21	1.93
49745871--49745934	20	3.0	22	64	13	62	31	31	12	25	1.92
49747543--49747718	50	3.6	50	78	8	166	25	30	17	26	1.97
49747540--49747948	48	8.6	49	71	12	232	25	28	18	27	1.98
49747768--49747950	46	3.9	46	77	7	183	24	28	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49747540--49747910	46	7.8	47	70	15	178	25	29	17	28	1.98
49758284--49758532	50	4.8	50	83	4	266	20	28	24	26	1.99
49758283--49758532	100	2.4	104	86	6	339	20	28	24	26	1.99
49758627--49758658	13	2.5	13	94	0	55	56	12	0	31	1.37
49758870--49758927	30	1.9	30	89	0	89	31	24	3	41	1.71
49761440--49761467	13	2.2	13	100	0	56	46	25	7	21	1.76
49763907--49764155	50	4.8	50	84	4	275	20	29	24	26	1.99
49763906--49764155	100	2.4	104	87	6	348	20	29	24	26	1.99
49764250--49764281	13	2.5	13	94	0	55	56	12	0	31	1.37
49764493--49764550	30	1.9	30	89	0	89	31	24	3	41	1.71
49766561--49766613	26	2.0	26	82	7	63	26	15	20	37	1.92
49768089--49768172	26	3.2	26	96	0	150	36	25	4	33	1.77
49769496--49769521	13	2.0	13	100	0	52	30	15	15	38	1.88
49777541--49777567	13	2.1	13	100	0	54	40	22	14	22	1.90
49778162--49778249	23	3.8	23	80	4	88	30	12	17	39	1.86
49778162--49778250	47	1.9	46	84	6	117	30	12	16	40	1.86
49785426--49785482	9	5.9	10	76	17	50	73	3	0	22	0.98
49796231--49796362	70	1.9	71	80	4	160	30	14	25	30	1.95
49796463--49796541	26	3.1	25	82	12	97	26	22	18	31	1.97
49799075--49799124	25	1.9	27	84	8	68	36	2	18	44	1.61
49799264--49799391	48	2.7	48	81	0	157	29	16	28	25	1.97
49800167--49800226	17	3.5	17	90	0	84	21	23	35	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49813169--49813391	47	4.7	47	90	2	324	32	8	30	27	1.87
49813510--49813588	37	2.1	37	92	0	131	25	18	30	25	1.98
49815442--49815625	40	4.6	40	82	9	216	25	22	27	25	2.00
49815522--49815756	40	5.9	40	84	1	233	24	22	28	24	2.00
49818635--49818857	47	4.7	47	90	2	324	32	8	30	27	1.87
49818976--49819054	37	2.1	37	90	0	122	24	18	31	25	1.98
49822675--49822725	25	2.0	25	96	0	93	37	25	7	29	1.84
49827972--49828005	18	1.9	18	88	5	52	20	44	23	11	1.84
49832076--49832145	27	2.6	26	90	2	86	31	27	12	28	1.93
49832076--49832170	28	3.4	28	86	2	120	32	27	12	27	1.93

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