genome.fa.s12.2.7.7.80.10.50.1000.17.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: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Length:  102106374

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   

This is table  17  of  311  ( 37258 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)
4647323--4647387	20	3.3	19	73	16	51	38	16	21	23	1.93
4649157--4649219	33	1.9	33	84	12	85	12	26	6	53	1.62
4649217--4649272	21	2.7	21	72	5	51	8	17	1	71	1.21
4649216--4649272	14	4.1	14	75	16	57	8	17	1	71	1.19
4649279--4649339	11	5.4	11	77	14	61	4	13	6	75	1.16
4649279--4649335	17	3.3	17	81	13	71	5	12	7	75	1.17
4649234--4649339	6	17.7	6	66	9	56	6	16	3	72	1.21
4652056--4652120	20	3.3	19	73	16	51	38	16	21	23	1.93
4652472--4652535	33	1.9	33	87	0	92	26	15	29	28	1.96
4659088--4659265	27	6.6	27	84	3	205	29	28	15	26	1.96
4659109--4659264	82	1.9	81	88	3	233	29	28	15	26	1.96
4667056--4667233	27	6.6	27	84	3	205	29	28	15	26	1.96
4667077--4667232	82	1.9	81	88	3	233	29	28	15	26	1.96
4669185--4669219	10	3.5	10	88	0	52	37	22	25	14	1.92
4669182--4669229	20	2.4	20	75	0	60	31	18	29	20	1.97
4671018--4671063	12	3.8	12	82	5	56	76	2	6	15	1.09
4671029--4671075	14	3.5	13	88	11	69	74	0	6	19	1.03
4671028--4671077	13	3.8	13	82	10	66	70	0	8	22	1.13
4671018--4671075	26	2.3	25	90	3	89	74	1	6	17	1.12
4674467--4674522	18	2.8	19	77	22	53	16	25	1	57	1.49
4692880--4692906	11	2.5	11	100	0	54	55	7	7	29	1.55
4703657--4703687	15	2.1	15	94	5	55	64	6	6	22	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4713807--4713915	54	2.0	54	96	0	200	25	16	13	44	1.85
4720172--4720233	21	2.9	22	72	15	67	74	8	6	11	1.22
4722030--4722094	31	2.1	30	86	8	87	35	6	4	53	1.46
4725642--4725722	36	2.2	36	85	12	112	39	1	2	56	1.20
4728024--4728144	43	2.8	44	88	5	183	47	3	24	24	1.67
4729649--4729728	39	2.1	39	95	0	142	40	31	12	16	1.85
4732953--4733053	36	2.8	36	79	11	116	36	25	12	24	1.91
4733545--4733571	9	3.0	9	100	0	54	22	11	0	66	1.22
4734198--4734243	17	2.6	18	86	6	58	54	0	4	41	1.20
4735465--4735708	123	2.0	123	90	1	382	25	23	14	36	1.93
4737181--4737213	11	2.9	12	86	13	52	66	0	0	33	0.92
4745172--4745219	6	8.0	6	97	0	87	35	0	64	0	0.94
4746621--4746679	22	2.8	20	79	18	59	71	0	10	18	1.14
4746920--4746995	27	2.8	26	78	9	71	51	3	18	26	1.63
4747147--4747182	17	2.1	17	100	0	72	19	0	47	33	1.50
4756691--4756723	17	1.9	17	93	0	57	39	18	18	24	1.92
4758202--4758358	43	3.7	43	78	9	153	24	16	25	33	1.96
4765985--4766024	3	13.3	3	100	0	80	32	0	0	67	0.91
4768535--4768590	28	2.1	26	86	6	76	51	1	1	44	1.22
4770210--4770240	16	1.9	16	93	0	53	74	6	9	9	1.23
4776399--4776536	40	3.5	40	75	4	127	31	11	19	37	1.88
4776501--4776652	78	1.9	78	97	0	286	32	14	21	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4777454--4777526	29	2.5	29	77	6	76	32	13	17	35	1.89
4778909--4778980	27	2.6	27	79	14	69	38	2	4	54	1.34
4780006--4780062	4	14.2	4	100	0	114	24	0	24	50	1.49
4782843--4782897	27	2.0	27	82	10	67	41	0	7	50	1.30
4785602--4785706	52	2.0	52	98	0	201	49	14	9	26	1.73
4793026--4793145	48	2.5	48	98	0	231	39	18	0	42	1.50
4794738--4794765	5	5.6	5	100	0	56	60	0	0	39	0.97
4802562--4802620	30	2.0	30	89	0	91	27	1	11	59	1.42
4811027--4811136	26	4.2	26	94	2	177	34	4	24	36	1.76
4812756--4812876	27	4.4	27	90	1	179	18	24	23	33	1.96
4812756--4812895	54	2.6	55	88	4	196	17	25	22	35	1.96
4812756--4812895	27	5.2	28	88	9	168	17	25	22	35	1.96
4814813--4814914	49	2.1	49	83	3	125	29	26	16	27	1.97
4815848--4815912	32	2.0	32	100	0	130	21	9	12	56	1.63
4827560--4827611	2	26.0	2	96	0	95	0	48	1	50	1.12
4832849--4832992	55	2.5	57	84	5	202	27	7	11	54	1.63
4832880--4833074	55	3.7	52	81	8	225	22	7	13	55	1.63
4843422--4843470	15	3.3	15	88	5	82	34	0	14	51	1.43
4843861--4843977	21	5.5	21	86	2	144	15	23	26	34	1.95
4847204--4847268	21	3.2	21	73	20	75	40	23	26	10	1.87
4847186--4847286	39	2.6	39	93	0	166	36	23	26	12	1.91
4854980--4855004	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4861585--4861637	22	2.5	22	85	11	67	64	13	0	22	1.28
4861828--4861861	17	2.0	17	100	0	68	29	29	5	35	1.81
4862706--4862753	20	2.5	19	90	6	71	68	10	8	12	1.39
4870289--4870349	30	2.0	30	83	0	77	31	22	8	37	1.84
4871399--4871430	16	2.0	16	93	0	55	59	9	0	31	1.29
4880151--4880189	19	2.1	19	100	0	78	38	20	15	25	1.92
4880315--4880368	26	2.1	26	100	0	108	25	11	18	44	1.83
4882545--4882595	19	2.7	18	85	11	66	9	9	1	78	1.04
4899088--4899319	49	4.7	49	79	5	250	30	27	16	25	1.97
4899566--4899619	27	2.0	27	85	0	72	38	14	5	40	1.70
4905041--4905082	22	1.9	22	100	0	84	38	4	14	42	1.66
4914315--4914341	2	13.5	2	100	0	54	51	0	48	0	1.00
4919222--4919284	28	2.2	28	91	0	99	31	6	30	31	1.83
4923554--4923584	12	2.6	12	94	0	53	19	54	25	0	1.44
4924638--4924696	28	2.1	28	90	0	91	32	6	28	32	1.83
4924814--4924860	24	1.9	25	82	4	60	65	6	21	6	1.38
4933429--4933477	2	24.5	2	100	0	98	0	48	0	51	1.00
4940776--4940846	35	2.0	35	100	0	142	26	22	14	36	1.92
4943127--4943181	27	2.0	27	100	0	110	18	3	27	50	1.63
4944880--4944928	22	2.3	22	85	3	64	38	24	12	24	1.90
4946995--4947044	25	1.9	25	88	8	73	66	4	2	28	1.21
4946995--4947059	25	2.5	26	78	9	71	67	3	1	27	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4948381--4948464	14	5.5	14	70	18	53	59	2	1	36	1.18
4952300--4952332	3	11.0	3	100	0	66	66	0	0	33	0.92
4956152--4956189	18	2.1	18	100	0	76	44	0	34	21	1.52
4971327--4971855	131	4.0	131	77	7	448	27	20	17	34	1.95
4977632--4977670	2	19.5	2	100	0	78	48	0	0	51	1.00
4978256--4978289	15	2.1	17	89	10	54	23	5	0	70	1.09
4980414--4980447	17	2.0	17	88	0	50	29	0	2	67	1.05
4984147--4984220	29	2.4	32	82	11	100	63	1	4	31	1.21
4984365--4984413	25	1.9	26	87	4	73	57	2	8	32	1.40
4984375--4984450	27	2.9	26	78	5	82	57	1	9	31	1.38
4984474--4984592	24	4.8	24	71	13	89	57	3	8	31	1.45
4984474--4984592	51	2.4	50	82	9	145	57	3	8	31	1.45
4985531--4985629	48	2.1	48	96	0	180	37	18	6	38	1.75
4987597--4987761	46	3.6	46	74	15	160	30	29	18	21	1.97
4991150--4991353	46	4.5	44	79	11	146	24	29	20	26	1.99
4991186--4991401	46	4.7	44	77	11	159	22	29	19	28	1.98
4991186--4991409	92	2.4	91	78	4	218	23	29	19	27	1.98
4994163--4994337	46	3.8	46	72	15	153	31	28	18	22	1.97
4995913--4995941	13	2.1	14	93	6	51	0	24	20	55	1.44
5022250--5022795	173	3.2	171	86	5	724	39	10	12	38	1.76
5031360--5031421	29	2.2	29	85	2	81	33	4	12	48	1.63
5031359--5031413	29	1.9	28	92	3	92	38	5	12	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5033463--5033506	23	1.9	23	86	9	63	38	9	4	47	1.56
5034582--5034642	9	7.0	9	76	16	58	63	1	0	34	1.04
5034594--5034647	26	2.1	24	86	10	72	68	3	0	27	1.06
5034594--5034641	16	2.9	16	77	17	53	68	2	0	29	1.01
5034755--5034800	24	1.9	24	82	8	58	45	6	4	43	1.49
5035450--5035513	33	1.9	33	87	6	94	31	4	10	53	1.57
5037391--5037455	33	2.0	33	90	0	103	52	18	4	24	1.64
5042152--5042488	74	4.6	74	90	4	529	30	21	16	30	1.96
5042152--5042482	146	2.2	147	91	3	531	30	22	16	30	1.96
5050534--5050565	16	1.9	17	93	6	57	40	6	28	25	1.79

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