genome.fa.s4.2.7.7.80.10.50.1000.18.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: Chr04 98600468 
Parameters: 2 7 7 80 10 50 1000
Length:  98600468

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   
          321   322   323   324   325   

This is table  18  of  325  ( 38914 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)
4196836--4196863	12	2.3	12	100	0	56	71	0	0	28	0.86
4196847--4196912	30	2.2	28	84	12	80	60	1	4	33	1.26
4197217--4197254	20	1.9	20	94	0	67	39	0	5	55	1.23
4197654--4197715	32	1.9	32	81	12	74	37	1	1	59	1.17
4197929--4197967	19	2.1	19	85	9	53	35	17	0	46	1.49
4203427--4203491	15	4.1	15	74	16	60	80	0	13	6	0.90
4203426--4203496	34	2.1	35	94	2	126	76	0	14	9	1.03
4212487--4212513	14	1.9	14	100	0	54	74	0	0	25	0.83
4212486--4212520	14	2.5	14	85	0	52	71	0	2	25	1.00
4216077--4216102	12	2.2	12	100	0	52	65	7	0	26	1.20
4234617--4234665	9	5.0	9	77	18	53	46	2	0	51	1.12
4237281--4237331	25	2.0	25	100	0	102	31	11	15	41	1.83
4240876--4240919	22	2.0	22	82	8	54	6	15	13	63	1.49
4244064--4244102	2	19.5	2	94	0	69	48	0	2	48	1.15
4248469--4248553	42	2.0	42	100	0	170	28	11	37	22	1.89
4249375--4249465	43	2.1	43	97	0	173	39	8	6	45	1.61
4250874--4250961	27	3.2	27	80	15	83	54	0	7	37	1.30
4257452--4257549	43	2.3	43	87	3	135	37	23	17	21	1.94
4261302--4261344	23	1.9	23	90	4	70	44	4	2	48	1.36
4273524--4273557	14	2.2	16	90	10	54	35	0	0	64	0.94
4274692--4274767	10	7.5	10	76	14	59	71	2	0	26	1.00
4274683--4274767	22	4.2	20	76	20	70	69	2	0	28	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4274670--4274776	32	3.5	30	76	19	96	65	1	1	30	1.14
4274691--4274766	18	3.7	19	81	13	73	69	2	0	27	1.01
4274824--4274904	9	8.8	9	72	10	56	67	2	3	25	1.19
4275293--4275409	9	12.6	9	70	15	69	29	2	2	65	1.19
4275289--4275350	30	2.0	32	84	6	83	32	3	4	59	1.34
4277164--4277226	24	2.5	24	92	5	99	44	7	1	46	1.42
4277261--4277311	19	2.7	20	84	9	70	39	1	5	52	1.37
4279485--4279520	17	2.1	17	100	0	72	36	22	13	27	1.92
4280952--4280998	17	2.6	19	83	13	71	0	29	0	70	0.88
4285223--4285287	29	2.2	29	94	0	121	27	9	27	35	1.87
4287728--4287809	42	2.0	42	97	0	155	40	18	20	20	1.92
4290418--4290464	23	2.0	23	84	8	60	72	6	2	19	1.17
4305605--4306150	281	1.9	280	99	0	1083	31	18	20	30	1.96
4308253--4308446	47	4.1	47	89	0	280	32	11	29	26	1.91
4308282--4308353	22	3.1	22	68	24	67	33	15	29	22	1.94
4308327--4308402	23	3.2	25	62	24	63	28	13	34	23	1.92
4308417--4308600	98	1.9	96	92	4	307	35	7	26	29	1.84
4308416--4308600	48	3.8	48	89	5	300	35	7	26	30	1.84
4308747--4308854	37	2.9	37	92	0	180	23	18	31	26	1.97
4313159--4313228	3	23.3	3	76	11	54	0	60	7	32	1.24
4313160--4313228	24	2.8	24	88	6	93	0	60	7	31	1.24
4313159--4313228	30	2.3	30	85	4	88	0	60	7	32	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4313212--4313320	48	2.3	48	74	3	112	10	42	18	29	1.83
4320115--4320181	29	2.3	28	75	14	73	56	5	0	37	1.24
4320685--4320777	42	2.2	42	88	3	134	10	34	22	32	1.89
4323941--4323965	3	8.3	3	100	0	50	68	0	32	0	0.90
4326034--4326101	9	7.6	9	88	0	82	45	20	7	26	1.77
4326186--4326210	13	1.9	13	100	0	50	12	0	48	40	1.40
4326187--4326224	18	2.1	18	95	0	67	7	2	47	42	1.46
4326517--4326558	20	2.0	21	86	4	59	33	26	16	23	1.96
4326782--4326864	9	10.2	8	70	25	52	57	2	4	34	1.33
4327443--4327511	31	2.2	31	82	5	77	46	10	5	37	1.62
4327798--4327847	20	2.5	20	73	3	55	42	2	0	56	1.11
4340897--4340927	14	2.2	14	94	0	53	41	6	16	35	1.74
4346333--4346357	7	3.6	7	100	0	50	88	0	0	12	0.53
4349127--4349277	53	2.8	53	89	4	214	25	16	27	29	1.97
4356642--4356792	53	2.8	53	89	4	214	25	16	27	29	1.97
4358423--4358463	21	2.0	21	85	0	55	82	2	9	4	0.89
4359384--4359443	23	2.7	23	78	17	56	31	3	1	63	1.20
4359446--4359494	21	2.3	21	79	6	55	32	12	4	51	1.58
4359490--4359514	2	12.5	2	100	0	50	48	0	0	52	1.00
4369844--4369891	14	3.4	14	77	5	51	60	4	2	33	1.27
4372500--4372575	22	3.4	21	79	15	73	17	3	1	77	0.99
4372618--4372654	12	2.7	14	84	16	51	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4372641--4372684	23	2.0	22	86	4	61	47	0	0	52	1.00
4372637--4372684	22	2.3	21	80	16	55	50	0	0	50	1.00
4372613--4372692	33	2.4	34	80	14	87	47	0	0	52	1.00
4372707--4372772	29	2.3	30	87	7	93	34	1	0	63	1.04
4372764--4372788	13	1.9	13	100	0	50	40	0	4	56	1.18
4373232--4373267	16	2.3	15	95	4	63	36	5	0	58	1.22
4373543--4373575	14	2.3	15	94	5	59	57	0	0	42	0.98
4373540--4373615	29	2.9	27	80	17	81	63	1	0	35	1.03
4373566--4373603	19	2.0	20	89	5	60	63	0	0	36	0.95
4373648--4373719	21	3.4	21	81	11	76	55	1	0	43	1.08
4373677--4373746	33	2.1	34	84	5	90	58	1	0	40	1.07
4373715--4373797	23	3.7	22	70	9	62	48	3	0	48	1.19
4373818--4373864	24	1.9	25	95	4	87	72	0	4	23	1.02
4374238--4374289	20	2.5	20	75	3	59	30	13	5	50	1.65
4380140--4380262	29	4.1	28	68	24	74	52	8	5	32	1.56
4380075--4380294	90	2.4	90	87	5	293	52	9	6	31	1.58
4385200--4385259	22	2.8	22	75	12	61	28	1	18	51	1.55
4385264--4385324	22	2.9	21	74	13	54	18	1	27	52	1.54
4385525--4385582	30	1.9	30	85	0	80	31	3	24	41	1.71
4386085--4386416	114	3.0	110	84	4	330	30	17	21	29	1.97
4386154--4386420	114	2.4	113	89	1	401	27	18	23	30	1.97
4387436--4387463	3	9.3	3	100	0	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4388408--4388452	23	2.0	23	90	0	72	31	2	0	66	1.04
4388416--4388470	29	2.0	27	85	7	74	30	1	0	67	1.01
4388468--4388552	39	2.2	40	82	2	100	25	1	8	64	1.28
4389061--4389279	9	24.6	9	75	6	151	44	18	1	35	1.61
4389037--4389087	23	2.2	23	79	6	59	45	23	0	31	1.53
4389079--4389292	45	5.0	44	72	17	173	45	16	1	35	1.59
4389048--4389241	106	1.8	106	82	4	248	45	18	1	35	1.56
4389035--4389279	27	9.0	27	71	9	131	44	18	1	35	1.60
4390939--4390964	12	2.2	12	100	0	52	34	7	26	30	1.85
4392473--4392507	18	1.9	18	94	0	61	45	20	20	14	1.85
4392860--4392924	27	2.4	27	84	0	85	40	13	13	32	1.85
4395414--4395447	2	17.0	2	87	0	50	44	0	5	50	1.26
4396395--4396463	20	3.4	20	89	2	111	36	24	2	36	1.71
4396461--4396517	17	3.2	17	71	28	55	36	21	0	42	1.53
4404319--4404349	7	4.3	7	92	8	53	41	45	0	12	1.42
4404319--4404349	15	2.1	14	94	5	53	41	45	0	12	1.42
4407508--4407707	19	10.9	19	91	7	335	37	11	15	36	1.83
4407508--4407714	91	2.3	91	92	5	350	37	10	15	36	1.83
4407508--4407714	109	1.9	109	95	4	373	37	10	15	36	1.83
4407508--4407730	19	11.8	22	89	8	144	36	10	15	37	1.82
4411117--4411144	8	3.5	8	100	0	56	64	0	35	0	0.94
4417331--4417370	8	5.0	8	87	0	62	52	22	22	2	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4417997--4418135	60	2.3	60	81	8	158	28	17	25	28	1.98
4422276--4422307	8	4.0	8	91	0	55	50	21	25	3	1.64
4422934--4423068	60	2.2	60	78	12	143	28	17	26	27	1.97
4423813--4424402	220	2.7	220	91	0	937	32	19	21	27	1.97
4424373--4424635	78	3.4	77	87	4	402	33	19	22	24	1.97
4424578--4424851	45	6.1	45	78	5	293	30	15	27	26	1.96
4424578--4424851	89	3.0	90	82	4	302	30	15	27	26	1.96
4425205--4425302	35	2.7	38	84	12	143	37	8	18	35	1.81
4425205--4425295	19	4.9	19	88	8	143	37	8	17	36	1.81
4427186--4427228	3	14.3	3	100	0	86	67	0	0	32	0.91

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   
          321   322   323   324   325