genome.fa.s4.2.7.7.80.10.50.1000.189.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  189  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)
58122190--58122270	14	5.8	14	75	5	65	41	32	2	23	1.67
58122189--58122256	21	3.2	21	78	15	86	42	33	2	20	1.67
58123879--58124062	40	4.6	40	84	6	239	25	23	26	24	2.00
58123879--58124062	80	2.3	80	88	3	264	25	23	26	24	2.00
58131819--58132002	40	4.6	40	83	6	230	25	23	26	25	2.00
58131819--58132002	80	2.3	80	87	3	255	25	23	26	25	2.00
58133906--58134178	148	1.8	149	80	9	333	29	15	19	35	1.93
58133843--58134644	328	2.4	333	85	4	1017	28	16	20	34	1.95
58134219--58134503	146	1.9	148	81	4	346	27	16	19	36	1.93
58136163--58136209	24	2.0	24	86	0	67	29	19	6	44	1.75
58136821--58136977	9	18.0	9	75	11	105	49	18	0	31	1.53
58136804--58136967	52	3.2	52	79	13	194	50	15	0	33	1.49
58136829--58136934	43	2.5	43	96	0	194	49	17	0	32	1.54
58138681--58138708	13	2.2	13	100	0	56	28	0	14	57	1.38
58140131--58140334	40	5.1	40	93	1	340	23	21	27	28	1.99
58147374--58147408	14	2.6	14	90	4	54	37	2	14	45	1.59
58148125--58148327	43	4.7	43	84	3	248	24	18	26	30	1.98
58154121--58154249	44	2.9	44	84	0	168	29	13	12	44	1.81
58156549--58156580	14	2.3	14	94	0	55	68	0	3	28	1.04
58156953--58156989	17	2.2	17	90	9	58	56	21	5	16	1.59
58158249--58158287	20	1.9	19	85	10	51	48	15	0	35	1.45
58158935--58158988	25	2.2	24	87	6	81	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58159205--58159246	20	2.1	20	86	0	57	40	0	4	54	1.21
58159946--58159983	20	2.0	19	90	10	60	21	0	2	76	0.91
58163924--58164002	39	2.0	39	82	4	97	51	12	8	26	1.69
58175099--58175307	29	7.3	29	76	3	174	26	13	19	40	1.89
58175064--58175258	86	2.3	86	81	4	214	28	14	17	38	1.90
58192493--58192539	10	4.7	10	76	7	51	68	2	2	27	1.13
58192451--58192557	19	5.7	18	70	13	56	62	1	1	33	1.17
58192432--58192558	18	6.8	19	67	12	66	64	2	1	31	1.15
58193856--58193899	22	2.0	22	86	0	61	52	0	0	47	1.00
58193985--58194036	15	3.2	15	73	19	50	51	3	0	44	1.19
58197331--58197517	41	4.7	41	83	5	224	33	26	16	24	1.95
58199760--58199944	40	4.6	40	81	4	176	27	25	21	25	1.99
58202624--58202790	40	4.2	40	79	6	169	26	22	26	24	2.00
58210986--58211110	39	3.2	39	90	4	182	26	25	21	26	2.00
58210948--58211163	40	5.5	40	79	10	180	26	26	20	25	1.99
58213320--58213417	40	2.4	40	94	1	169	26	20	25	27	1.99
58213396--58213435	18	2.2	18	91	8	64	22	15	30	32	1.94
58213356--58213474	57	2.1	58	82	7	145	24	19	28	27	1.98
58213429--58213534	40	2.7	40	86	1	133	27	23	29	19	1.98
58221503--58221611	39	2.8	40	83	5	132	29	24	25	20	1.99
58221425--58221632	79	2.6	79	77	6	206	27	21	25	25	1.99
58221425--58221631	40	5.2	40	81	5	206	27	21	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58223282--58223595	46	6.7	46	78	10	270	23	28	21	26	1.99
58223285--58223595	94	3.3	93	78	12	293	23	28	21	26	1.99
58223290--58223595	140	2.2	140	81	7	345	23	28	20	26	1.99
58231562--58231616	18	3.0	18	80	19	69	76	1	16	5	1.06
58232774--58232865	29	3.2	28	85	3	112	32	16	28	22	1.96
58232776--58232855	28	2.8	28	88	1	106	33	15	27	23	1.94
58232774--58232878	29	3.7	29	79	7	106	29	16	31	22	1.96
58239473--58239525	18	2.9	18	80	20	65	77	1	15	5	1.04
58240684--58240776	29	3.2	29	87	0	123	33	16	27	22	1.95
58240684--58240789	29	3.7	29	82	5	115	30	16	31	22	1.95
58243578--58243647	27	2.6	27	95	2	122	30	27	14	28	1.95
58251574--58251643	27	2.6	27	95	2	122	30	27	14	28	1.95
58257585--58257618	15	2.3	15	94	0	59	35	20	17	26	1.95
58260629--58260668	19	2.0	20	95	4	73	35	5	10	50	1.58
58299068--58299155	45	2.0	45	95	0	158	38	25	11	25	1.89
58302885--58302923	18	2.1	19	90	4	62	5	33	2	58	1.33
58311865--58311956	47	2.0	47	82	0	112	32	8	29	29	1.87
58312119--58312226	37	2.9	37	97	0	198	22	19	33	25	1.97
58313165--58313216	24	2.1	24	85	3	68	36	7	1	53	1.41
58313165--58313224	25	2.4	25	83	5	68	38	6	1	53	1.37
58318380--58318471	20	4.6	20	93	0	139	13	18	26	42	1.86
58318380--58318507	40	3.2	40	80	1	139	15	19	24	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58318379--58318507	60	2.1	61	81	1	152	16	19	24	40	1.91
58321200--58321311	29	3.9	29	74	5	93	25	31	16	26	1.96
58321399--58321446	19	2.6	19	83	3	53	18	33	16	31	1.94
58321541--58321617	24	3.3	23	79	12	75	15	20	14	49	1.79
58321549--58321617	16	4.3	16	70	7	50	14	21	14	49	1.79
58323719--58323882	71	2.3	71	97	0	310	34	18	28	18	1.95
58331245--58331407	70	2.3	71	97	1	310	34	18	28	19	1.95
58333090--58333128	16	2.4	16	86	4	51	10	7	35	46	1.67
58338759--58338822	32	2.0	32	96	0	119	50	20	9	20	1.75
58344991--58345144	23	6.5	24	96	3	269	35	24	18	21	1.95
58344991--58345144	47	3.3	47	97	2	283	35	24	18	21	1.95
58344991--58345144	70	2.2	71	96	2	283	35	24	18	21	1.95
58345569--58345594	2	13.0	2	100	0	52	50	0	0	50	1.00
58352649--58352854	24	8.6	24	97	1	342	34	25	18	20	1.96
58352649--58352854	95	2.2	96	92	0	342	34	25	18	20	1.96
58360338--58360585	24	10.7	24	92	6	354	35	25	17	21	1.95
58360979--58361009	2	15.5	2	100	0	62	51	0	0	48	1.00
58368064--58368274	24	8.8	24	92	0	314	34	24	19	21	1.97
58368671--58368700	2	15.0	2	100	0	60	50	0	0	50	1.00
58374669--58374732	32	2.0	32	100	0	128	50	21	9	18	1.75
58378897--58378959	16	4.0	15	80	10	72	19	22	11	47	1.80
58378895--58378958	32	2.0	31	88	8	94	20	23	9	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58378921--58378973	24	2.2	23	80	9	61	15	22	13	49	1.79
58393119--58393168	21	2.4	21	96	0	91	30	10	16	44	1.80
58394058--58394137	27	3.0	27	84	0	97	40	13	16	30	1.87
58402634--58402891	40	6.5	40	88	4	337	25	28	22	23	1.99
58404252--58404300	24	2.0	24	100	0	98	28	8	20	42	1.80
58406220--58406289	28	2.5	28	88	6	99	27	30	14	28	1.95
58412970--58413071	28	3.5	29	81	6	109	28	27	14	29	1.95
58413927--58414027	28	3.5	30	82	6	118	29	14	26	28	1.95
58413956--58414031	29	2.7	28	76	13	75	30	14	26	28	1.95
58418999--58419161	39	4.2	39	91	0	254	23	19	31	25	1.98
58418999--58419191	39	4.9	39	88	0	242	23	20	31	24	1.98
58426173--58426463	24	12.1	24	97	0	528	36	25	17	20	1.94
58430117--58430422	43	7.1	43	96	0	542	32	32	22	13	1.92
58430117--58430421	128	2.4	128	95	0	538	32	31	22	13	1.92
58430405--58430616	40	5.2	42	82	4	211	25	27	22	24	2.00
58432543--58432946	47	8.7	47	85	9	533	30	30	6	32	1.84
58439353--58439419	25	2.6	25	79	13	75	31	20	22	25	1.98
58441202--58441246	21	2.1	21	91	0	72	57	17	13	11	1.64
58445050--58445085	2	18.0	2	100	0	72	50	0	0	50	1.00
58445118--58445169	27	2.0	26	84	3	68	34	17	26	21	1.95
58445822--58445939	27	4.4	27	84	0	146	24	20	18	36	1.95
58447106--58447184	6	12.8	6	77	15	81	48	15	18	17	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58447101--58447184	31	2.7	31	90	1	132	47	15	17	19	1.83
58447111--58447157	25	1.9	24	95	4	85	44	17	21	17	1.86
58447581--58447748	81	2.1	81	88	0	246	27	19	15	37	1.92
58447579--58447747	27	6.3	27	85	0	212	27	19	16	36	1.93
58447730--58447855	27	4.7	27	75	7	105	26	7	22	42	1.81
58447732--58447869	27	5.2	25	77	6	89	27	7	23	41	1.82
58447732--58447869	54	2.6	53	82	2	143	27	7	23	41	1.82
58447848--58447986	27	5.1	27	90	0	215	38	7	24	28	1.83
58447822--58448078	81	3.3	81	82	8	278	38	8	24	29	1.84
58447848--58448090	54	4.6	54	84	8	295	38	7	24	29	1.83

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