genome.fa.s4.2.7.7.80.10.50.1000.109.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  109  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)
32355483--32355609	66	1.9	66	85	3	175	32	20	22	24	1.98
32365680--32365804	48	2.7	46	81	15	159	28	17	28	25	1.98
32365680--32365939	47	5.5	47	74	8	185	26	20	28	25	1.99
32366929--32366953	13	1.9	13	100	0	50	32	24	40	4	1.73
32368085--32368130	24	1.9	24	95	0	83	32	15	15	36	1.88
32370292--32370406	49	2.3	49	83	2	133	40	17	13	28	1.88
32370653--32370712	31	1.9	31	86	0	84	33	18	21	26	1.96
32370820--32370874	25	2.1	26	86	6	76	52	12	7	27	1.65
32377861--32378202	30	11.5	30	88	6	464	34	14	24	26	1.94
32377862--32377953	28	3.2	28	90	3	103	30	14	23	31	1.94
32377861--32378202	59	5.7	59	88	4	458	34	14	24	26	1.94
32377861--32378202	89	3.8	89	90	4	478	34	14	24	26	1.94
32379876--32380047	45	3.7	45	78	11	172	23	29	18	28	1.97
32381470--32381568	28	3.5	29	91	5	159	32	27	11	29	1.91
32382659--32382696	19	2.1	18	85	9	51	13	18	2	65	1.37
32391554--32391617	30	2.2	29	94	2	110	34	21	17	26	1.95
32397696--32397796	28	3.5	28	86	6	114	29	13	26	29	1.94
32405650--32405750	28	3.5	28	86	6	114	29	13	26	29	1.94
32413490--32413633	39	3.7	39	95	0	243	25	22	30	22	1.99
32415316--32415375	30	2.0	30	87	6	86	28	26	8	36	1.85
32417119--32417216	40	2.3	43	84	6	121	22	15	29	32	1.95
32423025--32423097	34	2.1	34	87	5	103	24	21	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32425059--32425172	54	2.1	54	81	0	129	29	23	8	37	1.85
32425086--32425205	27	4.4	27	93	0	195	25	21	10	43	1.83
32425194--32425440	27	9.2	27	78	6	232	40	21	8	29	1.83
32425113--32425228	54	2.1	54	85	0	160	29	22	8	39	1.84
32425113--32425243	54	2.4	54	81	0	127	30	22	8	38	1.84
32425086--32425242	81	1.9	81	80	0	179	29	22	8	38	1.85
32425208--32425471	54	4.9	51	76	10	138	42	20	9	28	1.82
32425260--32425442	81	2.3	81	91	2	289	40	20	8	29	1.83
32425235--32425481	27	9.1	27	77	12	197	42	19	8	29	1.82
32425260--32425466	81	2.6	81	87	6	271	42	19	9	28	1.82
32425479--32425530	27	1.9	27	88	7	79	38	13	13	34	1.84
32425583--32425671	27	3.3	27	87	3	108	37	20	24	17	1.94
32425602--32425685	27	3.1	27	78	10	75	33	25	22	19	1.97
32426476--32426663	26	7.3	26	84	2	236	26	25	23	25	2.00
32426476--32426675	77	2.6	77	95	1	348	25	25	23	26	2.00
32426476--32426675	51	3.9	52	90	2	289	25	25	23	26	2.00
32426821--32426912	42	2.2	42	94	0	157	28	14	22	34	1.93
32426936--32426999	31	2.1	31	94	5	112	31	17	23	28	1.97
32427826--32427874	17	2.8	18	74	22	50	24	18	22	34	1.96
32428694--32428860	40	4.2	40	79	6	169	25	21	27	25	1.99
32434861--32434909	17	2.8	18	74	22	50	24	18	22	34	1.96
32435730--32435896	40	4.2	40	79	6	169	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32445659--32445709	16	2.9	17	82	11	59	52	0	1	45	1.12
32445658--32445693	8	4.4	8	89	3	54	58	0	0	41	0.98
32445657--32445713	22	2.4	23	80	16	64	56	0	1	42	1.10
32449716--32449913	108	1.8	110	87	4	303	22	25	17	34	1.96
32449669--32449923	55	4.8	53	80	10	233	21	25	17	35	1.95
32457484--32457530	20	2.3	20	88	0	67	21	36	31	10	1.88
32459216--32459265	20	2.5	20	86	3	64	50	2	12	36	1.51
32462075--32462215	43	3.3	42	71	11	128	27	27	17	26	1.98
32466097--32466166	27	2.5	28	95	2	124	30	27	14	28	1.95
32468552--32468578	14	1.9	14	100	0	54	44	22	3	29	1.70
32470928--32470989	30	2.1	30	96	0	115	40	14	16	29	1.88
32472325--32472462	37	3.7	37	90	0	222	26	31	17	23	1.97
32472605--32473003	48	8.3	48	96	0	690	31	26	6	35	1.83
32478193--32478274	23	3.6	23	78	1	94	32	20	20	25	1.97
32481160--32481344	79	2.3	82	83	7	229	24	24	27	23	2.00
32481161--32481352	40	4.8	40	79	7	151	24	24	28	22	2.00
32481160--32481377	79	2.7	79	79	6	183	24	23	27	24	2.00
32489116--32489300	79	2.3	82	83	7	229	24	24	27	23	2.00
32489117--32489308	40	4.8	40	79	7	151	24	24	28	22	2.00
32489116--32489333	79	2.7	79	79	6	183	24	23	27	24	2.00
32494300--32494451	80	1.9	80	93	2	261	25	19	29	26	1.98
32494300--32494430	40	3.3	40	100	0	262	25	19	27	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32495194--32495334	40	3.5	40	81	8	144	26	22	24	26	2.00
32495277--32495360	40	2.1	40	82	4	98	27	27	25	20	1.99
32498077--32498631	49	11.5	49	91	1	788	32	9	29	29	1.88
32498077--32498619	143	3.8	143	92	2	865	32	8	29	29	1.87
32498492--32498617	25	5.3	25	61	14	77	33	7	28	30	1.84
32500467--32500569	29	3.6	29	78	2	100	20	17	33	28	1.95
32509745--32509895	40	3.8	40	77	11	141	26	24	27	21	2.00
32509782--32509911	40	3.2	40	79	2	154	23	23	28	23	2.00
32509744--32509911	80	2.1	80	82	6	207	26	23	27	22	2.00
32514553--32514670	41	3.1	41	60	28	98	32	17	28	21	1.96
32514521--32514684	71	2.3	71	100	0	328	35	17	28	18	1.94
32520508--32520658	40	3.8	40	77	11	141	26	24	27	21	2.00
32520545--32520674	40	3.2	40	79	2	154	23	23	28	23	2.00
32520507--32520674	80	2.1	80	82	6	207	26	23	27	22	2.00
32534983--32535068	26	3.2	26	88	5	118	36	23	23	17	1.95
32537400--32537714	49	6.4	49	95	1	549	34	9	26	29	1.88
32537797--32537869	37	2.0	37	97	0	137	21	21	32	23	1.98
32539930--32539967	19	2.0	19	85	10	51	21	44	23	10	1.83
32544935--32545038	52	2.0	52	94	0	181	32	25	11	29	1.91
32549578--32549708	29	4.5	29	88	0	163	29	15	31	23	1.95
32552774--32552872	49	2.0	49	100	0	198	49	6	28	16	1.69
32555068--32555098	12	2.6	12	94	0	53	32	29	19	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32565720--32565886	43	3.9	43	92	0	273	29	33	23	13	1.92
32565884--32565958	38	2.0	38	83	0	96	32	24	20	24	1.98
32580090--32580145	27	2.0	28	96	3	105	17	10	23	48	1.79
32580767--32580828	27	2.3	27	91	0	97	27	16	16	40	1.89
32580784--32580934	54	2.8	54	85	2	151	29	8	19	41	1.81
32580782--32580934	81	1.9	81	86	5	220	30	8	19	41	1.81
32580811--32580934	27	4.6	27	84	2	160	30	6	20	42	1.77
32580811--32580936	54	2.3	54	90	0	180	30	7	19	42	1.78
32582137--32582180	23	1.9	23	86	9	63	45	6	13	34	1.70
32585216--32585398	40	4.6	39	75	7	138	26	24	26	22	2.00
32585255--32585443	80	2.4	81	77	4	186	23	24	29	22	1.99
32587699--32587871	49	3.5	49	86	2	231	24	16	28	31	1.96
32587692--32587884	49	3.9	49	84	2	217	24	17	28	30	1.97
32591260--32591306	16	2.9	16	81	6	51	68	4	8	19	1.33
32591841--32591889	21	2.2	22	79	17	57	40	14	2	42	1.57
32592811--32592838	14	2.0	14	100	0	56	50	7	0	42	1.30
32598371--32598441	32	2.3	31	95	2	124	43	16	4	35	1.68
32598952--32599170	46	4.7	47	79	10	200	21	29	19	29	1.98
32604422--32604482	24	2.5	24	86	5	79	34	29	16	19	1.94
32612535--32612595	24	2.5	24	86	5	79	34	29	16	19	1.94
32618622--32619209	47	12.3	47	90	2	845	31	8	30	29	1.88
32619034--32619112	25	3.3	25	66	16	76	32	5	30	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32621335--32621483	40	3.8	40	93	2	241	25	18	28	26	1.98
32622226--32622366	40	3.5	40	81	8	144	26	22	24	26	2.00
32622309--32622392	40	2.1	40	82	4	98	27	27	25	20	1.99
32625105--32625659	49	11.5	49	91	1	788	32	9	29	29	1.88
32625105--32625647	143	3.8	143	92	2	865	32	8	29	29	1.87
32625520--32625645	25	5.3	25	61	14	77	33	7	28	30	1.84
32627495--32627597	29	3.6	29	78	2	100	20	17	33	28	1.95
32633477--32633579	29	3.6	29	78	2	100	20	17	33	28	1.95
32636965--32637544	93	6.1	93	90	4	826	31	8	30	28	1.88
32636965--32637544	47	12.3	47	89	4	819	31	8	30	28	1.88

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