genome.fa.s5.2.7.7.80.10.50.1000.129.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: Chr05 97880472 
Parameters: 2 7 7 80 10 50 1000
Length:  97880472

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   326   327   328   329   330   331   332   333   334   335   

This is table  129  of  335  ( 40112 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)
38539766--38539817	27	1.9	27	84	0	68	61	11	0	26	1.30
38544763--38544859	32	3.0	32	96	0	185	38	23	6	31	1.80
38559920--38560027	26	4.2	26	93	0	189	36	24	7	32	1.83
38566938--38567045	26	4.2	26	93	0	189	36	24	7	32	1.83
38573534--38573576	20	2.2	20	83	8	52	39	0	9	51	1.34
38573955--38573988	12	2.8	12	83	16	52	41	0	5	52	1.25
38574979--38575016	21	1.9	20	89	10	60	39	0	15	44	1.47
38575047--38575080	16	2.1	16	89	10	52	55	0	8	35	1.31
38576555--38576607	26	2.0	27	85	7	74	24	15	22	37	1.92
38578091--38578225	26	5.2	26	95	0	236	37	23	5	34	1.77
38578564--38578615	18	2.8	19	70	5	52	34	7	7	50	1.60
38578641--38578755	18	6.3	18	74	4	88	33	7	15	42	1.76
38580028--38580078	24	2.0	25	85	7	68	25	13	23	37	1.92
38581552--38581687	26	5.2	26	95	0	218	36	23	5	34	1.77
38585087--38585196	26	4.2	26	97	0	184	33	5	24	36	1.79
38588218--38588297	39	2.1	39	100	0	160	23	5	20	51	1.67
38589283--38589388	3	36.3	3	89	5	164	33	0	1	65	1.04
38589648--38589711	14	4.8	13	88	11	62	48	0	3	48	1.17
38589671--38589710	2	20.0	2	100	0	80	50	0	0	50	1.00
38590488--38590531	22	2.0	23	82	13	56	47	0	9	43	1.35
38590488--38590531	23	2.0	23	86	13	65	47	0	9	43	1.35
38590604--38590657	21	2.5	22	80	17	60	48	0	11	40	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38590631--38590664	16	2.1	16	89	10	52	55	0	8	35	1.31
38591110--38591192	36	2.3	36	82	0	94	40	8	10	39	1.70
38591120--38591183	18	3.6	18	73	0	65	42	10	9	37	1.73
38593931--38593967	2	18.5	2	100	0	74	51	0	0	48	1.00
38596244--38596316	37	2.0	37	83	0	92	46	21	13	17	1.83
38596916--38596985	25	2.8	26	69	26	60	51	11	4	32	1.57
38597378--38597414	2	19.0	2	94	5	67	48	0	0	51	1.00
38598350--38598408	2	29.5	2	100	0	118	49	0	0	50	1.00
38602389--38602562	47	3.7	46	84	6	192	32	27	18	21	1.97
38607027--38607156	66	2.0	67	95	1	235	27	33	19	20	1.96
38607128--38607265	58	2.5	54	83	7	161	31	24	17	26	1.97
38609022--38609055	18	1.9	18	88	5	52	32	14	8	44	1.76
38610281--38610382	28	3.7	28	88	2	152	29	34	12	23	1.92
38618262--38618301	21	2.0	20	85	5	53	35	2	25	37	1.69
38618894--38618942	23	2.2	23	88	3	73	24	18	22	34	1.96
38618936--38618992	24	2.4	24	81	0	69	31	26	8	33	1.87
38621277--38621333	30	1.9	30	92	0	96	19	28	29	22	1.98
38624558--38624605	11	4.6	11	80	12	57	35	12	18	33	1.89
38624652--38624747	26	3.8	26	87	5	119	28	25	20	26	1.99
38624662--38624760	26	3.9	26	81	16	86	28	24	20	27	1.99
38624962--38625046	31	2.7	33	83	9	122	31	18	25	23	1.97
38626459--38626673	27	7.9	27	85	2	232	32	23	6	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38626459--38626671	54	3.9	54	88	1	264	32	23	7	37	1.81
38626623--38626955	27	12.3	27	77	5	190	40	20	9	30	1.83
38626569--38626953	54	7.1	54	75	8	217	38	20	8	32	1.83
38626623--38626925	80	3.7	78	76	7	234	41	20	8	29	1.82
38626637--38626843	80	2.6	80	85	3	256	42	21	7	28	1.80
38626849--38626932	29	3.0	29	79	15	104	39	13	11	35	1.81
38626973--38627046	27	2.7	27	78	12	80	36	21	20	21	1.95
38627859--38627978	25	4.8	25	96	0	195	26	25	22	25	2.00
38627859--38628003	75	1.9	75	84	5	195	27	24	22	24	2.00
38628126--38628217	42	2.2	42	96	0	166	27	11	21	39	1.89
38629026--38629176	27	5.6	26	84	3	176	26	21	8	43	1.82
38629028--38629176	54	2.8	54	86	6	196	26	21	8	43	1.80
38629168--38629310	27	5.3	26	73	10	110	37	22	11	28	1.90
38629166--38629309	54	2.7	54	76	9	143	37	22	11	28	1.89
38629208--38629414	27	7.6	27	77	7	143	40	20	8	30	1.82
38629175--38629330	81	1.9	81	83	7	201	40	20	10	28	1.86
38629208--38629388	54	3.3	55	81	6	172	41	20	7	30	1.79
38644961--38644993	16	2.0	17	88	5	50	36	0	18	45	1.49
38645116--38645219	24	4.4	23	82	11	106	26	21	20	31	1.98
38647180--38647301	59	2.1	59	88	0	181	22	16	31	28	1.96
38653008--38653139	29	4.6	29	88	0	165	29	15	31	24	1.95
38658346--38658632	137	2.1	137	97	0	538	31	24	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38660409--38660544	26	5.2	26	94	0	236	36	25	5	33	1.78
38661741--38661906	27	6.1	27	88	3	210	34	20	24	20	1.96
38661741--38661908	54	3.1	54	89	1	248	34	20	24	20	1.96
38663521--38663656	26	5.2	26	96	1	229	36	25	4	33	1.76
38664393--38664446	23	2.3	24	78	9	58	29	1	16	51	1.55
38667183--38667405	69	3.2	68	84	3	277	34	9	35	20	1.85
38673987--38674028	18	2.4	18	92	4	68	38	0	19	42	1.51
38673945--38674111	82	2.0	85	84	8	223	38	1	17	41	1.61
38674071--38674122	22	2.4	22	90	0	77	42	0	17	40	1.49
38674108--38674156	21	2.3	21	92	0	80	28	0	22	48	1.50
38674131--38674199	34	2.0	34	83	5	86	37	1	18	42	1.60
38674043--38674422	107	3.6	107	93	2	602	37	0	18	44	1.54
38674178--38674229	22	2.4	22	90	0	77	42	0	17	40	1.49
38674215--38674264	22	2.3	22	86	3	66	28	0	18	54	1.44
38674239--38674307	34	2.0	34	86	5	95	37	0	17	44	1.49
38674289--38674338	21	2.3	22	86	3	75	44	0	14	42	1.44
38674322--38674372	21	2.4	21	86	3	66	31	0	15	52	1.43
38674346--38674412	34	2.0	34	82	5	82	35	0	17	46	1.49
38674407--38674463	22	2.5	24	80	8	73	36	0	17	45	1.49
38674043--38674451	215	1.9	214	88	1	613	35	0	18	44	1.54
38674531--38674904	126	3.0	125	89	1	516	39	17	15	27	1.90
38675323--38675353	12	2.6	12	94	0	53	0	25	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38680017--38680192	46	3.8	46	78	12	207	21	21	28	28	1.98
38680014--38680185	93	1.8	93	94	0	308	21	21	29	27	1.99
38687571--38687746	46	3.8	46	79	12	216	20	21	29	28	1.98
38687568--38687739	93	1.8	93	96	0	317	20	21	29	27	1.98
38691121--38691158	19	2.0	19	100	0	76	26	26	15	31	1.96
38691603--38691633	12	2.6	12	94	0	53	0	25	0	74	0.82
38694241--38694284	18	2.4	18	80	0	52	45	9	22	22	1.80
38695597--38695630	9	3.4	10	92	8	52	76	2	0	20	0.92
38696228--38696260	3	11.3	3	87	6	50	39	0	0	60	0.97
38696354--38696507	24	6.8	24	74	21	102	35	2	4	57	1.33
38696417--38696449	15	2.2	15	89	10	50	33	0	0	66	0.92
38696924--38696993	23	3.0	22	80	17	65	35	1	5	57	1.32
38696967--38697005	17	2.4	17	87	8	55	35	2	2	58	1.25
38696921--38697033	12	9.3	12	70	19	67	34	2	3	59	1.29
38698628--38698703	24	3.3	24	67	22	72	64	3	2	28	1.25
38698633--38698704	23	3.2	24	67	20	73	63	4	2	29	1.27
38698628--38698723	43	2.2	44	94	1	167	61	4	2	32	1.27
38700564--38700608	21	2.1	21	95	0	81	53	17	4	24	1.62
38701869--38701901	17	1.9	17	88	11	50	27	0	3	69	1.03
38701878--38701939	30	2.1	30	93	0	106	30	1	8	59	1.36
38709471--38709666	69	2.8	69	94	0	329	33	9	37	19	1.84
38715861--38715920	30	2.0	30	96	0	111	30	31	3	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38718555--38718611	29	2.0	29	82	6	71	45	1	10	42	1.49
38718822--38718882	9	6.6	9	72	7	50	26	34	1	37	1.66
38721284--38721342	19	3.1	18	71	9	55	62	0	1	35	1.05
38721612--38721743	10	13.7	10	67	21	50	31	3	2	62	1.25
38721682--38721760	27	2.8	27	83	11	95	27	2	2	67	1.17
38721682--38721784	29	3.6	28	81	10	109	30	2	1	65	1.18
38721683--38721744	10	6.3	10	81	9	56	27	1	0	70	0.96
38723424--38723450	2	13.5	2	100	0	54	48	0	0	51	1.00
38726499--38726558	19	3.3	18	79	9	59	70	1	3	25	1.12
38727238--38727353	26	4.5	26	87	1	153	36	5	22	36	1.77

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   326   327   328   329   330   331   332   333   334   335