genome.fa.s3.2.7.7.80.10.50.1000.168.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_A03
Parameters: 2 7 7 80 10 50 1000
Length:  105315579

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  168  of  325  ( 38900 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)
54423091--54423247	24	6.4	24	65	10	77	31	28	14	25	1.94
54446206--54446234	14	2.0	15	93	6	51	27	0	20	51	1.47
54448560--54448636	35	2.2	35	88	2	111	38	3	18	38	1.69
54463293--54463359	27	2.5	26	83	4	80	38	17	20	22	1.93
54463343--54463408	28	2.4	27	75	5	69	39	21	15	24	1.91
54464483--54464523	17	2.4	17	88	8	57	58	2	31	7	1.38
54478289--54478378	28	3.3	28	82	4	112	37	20	21	21	1.94
54484274--54484458	79	2.3	82	83	7	229	25	27	22	24	2.00
54484274--54484458	40	4.7	40	82	7	225	25	27	22	24	2.00
54494871--54495012	38	3.7	39	78	10	132	25	19	28	26	1.99
54502599--54502782	39	4.6	41	82	11	206	24	22	27	25	2.00
54502599--54502782	79	2.3	80	83	8	225	24	22	27	25	2.00
54502652--54502815	78	2.1	79	83	7	201	26	21	27	25	1.99
54504309--54504347	21	1.9	20	84	5	51	56	15	2	25	1.52
54505362--54505464	29	3.6	28	84	8	127	29	27	16	27	1.97
54508693--54508762	34	2.1	34	100	0	140	35	27	14	22	1.93
54509279--54509338	30	2.0	30	90	0	93	28	25	8	38	1.84
54527888--54527992	28	3.8	28	85	0	129	35	20	24	19	1.96
54527877--54527992	56	2.1	55	85	3	153	37	21	23	18	1.94
54543447--54543618	40	4.3	40	89	5	260	27	20	26	24	1.99
54545887--54545929	22	2.0	22	81	9	52	48	9	30	11	1.71
54546456--54546626	56	3.1	56	91	7	298	43	9	23	23	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54547752--54547933	78	2.3	81	83	8	223	24	23	28	24	2.00
54547752--54547935	40	4.7	40	83	8	225	23	22	28	25	2.00
54547804--54547968	79	2.1	78	82	7	201	25	21	27	25	1.99
54552066--54552208	38	3.5	41	80	15	140	25	21	27	25	1.99
54560041--54560269	39	5.8	40	91	3	331	23	23	29	23	1.99
54560080--54560295	79	2.8	80	85	6	282	25	21	28	25	1.99
54561803--54561954	40	3.8	40	84	1	153	22	22	29	25	1.99
54563484--54563701	40	5.5	40	90	2	298	22	23	28	25	1.99
54577898--54577930	16	1.9	18	88	11	52	48	12	15	24	1.78
54578479--54578611	45	3.0	45	89	1	205	27	25	21	24	1.99
54581067--54581119	26	2.0	26	82	7	63	37	20	15	26	1.92
54581430--54581510	32	2.4	34	75	8	85	28	19	23	28	1.98
54589005--54589057	26	2.0	26	82	7	63	39	20	13	26	1.89
54590203--54590297	47	2.0	46	86	6	129	42	15	12	29	1.84
54597153--54597204	27	2.0	26	84	3	68	25	23	21	30	1.99
54613278--54613364	31	2.7	31	79	13	81	14	8	74	2	1.14
54613464--54613502	19	2.0	21	90	10	64	15	5	79	0	0.90
54613465--54613519	19	2.7	19	83	11	56	14	10	74	0	1.07
54613456--54613521	28	2.4	28	76	5	71	13	12	74	0	1.08
54613514--54613565	24	2.2	24	89	0	77	23	5	69	1	1.20
54613601--54613648	24	2.0	25	84	12	64	27	0	70	2	0.98
54613732--54613777	15	2.7	18	77	19	53	21	2	76	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54613736--54613777	17	2.4	18	80	11	52	23	2	73	0	0.94
54613845--54613912	22	3.1	22	72	8	68	17	11	70	0	1.16
54614039--54614121	24	4.0	20	80	16	73	16	8	74	0	1.05
54614070--54614114	18	2.5	18	85	7	65	13	4	82	0	0.82
54614070--54614119	20	2.7	20	87	9	70	12	6	82	0	0.85
54614156--54614220	24	2.7	24	77	15	71	24	4	70	0	1.06
54614350--54614427	18	4.3	18	78	12	63	14	5	80	0	0.87
54614350--54614415	21	3.3	20	85	10	82	13	6	80	0	0.89
54614521--54614582	18	3.4	18	71	6	54	22	4	72	0	1.03
54614623--54614678	25	2.3	25	82	14	73	21	7	71	0	1.09
54614737--54614811	19	4.1	18	73	16	64	29	2	68	0	1.04
54615231--54615274	16	2.6	17	79	13	56	18	6	72	2	1.17
54615293--54615377	37	2.3	36	76	11	84	18	7	71	2	1.19
54615648--54615701	22	2.5	23	80	17	62	22	5	72	0	1.05
54615792--54615920	26	4.9	26	69	23	76	23	3	73	0	0.97
54615805--54615922	23	5.1	21	69	19	67	24	2	72	0	0.96
54615792--54615853	16	3.8	16	73	12	54	22	1	75	0	0.88
54615792--54615924	25	5.1	26	68	15	78	23	3	73	0	0.97
54615891--54615971	17	4.7	17	73	17	60	19	6	74	0	1.03
54615933--54615984	21	2.5	21	82	14	63	17	9	73	0	1.09
54615875--54615966	36	2.5	36	77	12	89	20	6	72	0	1.06
54618112--54618331	40	5.6	40	83	4	259	24	23	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54620008--54620345	27	12.6	27	83	2	340	39	20	8	31	1.83
54620017--54620345	54	6.1	54	81	3	378	38	20	9	31	1.84
54620273--54620387	27	4.3	27	80	4	81	39	17	12	31	1.86
54620021--54620387	81	4.6	81	81	3	249	38	19	10	32	1.85
54634465--54634633	46	3.7	47	78	12	156	24	29	18	27	1.98
54637289--54637396	26	4.2	26	89	0	171	36	25	7	30	1.84
54641896--54642208	45	7.0	45	80	5	300	24	15	24	35	1.94
54641896--54642153	135	1.9	135	84	3	349	24	14	24	36	1.93
54649389--54649488	29	3.5	29	81	1	121	27	17	29	27	1.97
54652072--54652132	27	2.3	27	91	0	104	39	21	9	29	1.85
54652081--54652141	27	2.3	27	85	5	79	39	24	9	26	1.86
54652145--54652348	27	7.6	27	88	0	300	30	20	7	40	1.81
54652111--54652348	54	4.4	55	85	2	277	31	21	7	39	1.82
54652111--54652349	81	3.0	81	86	0	334	30	21	7	39	1.82
54652327--54652439	27	4.2	27	81	2	93	41	24	6	27	1.79
54652327--54652469	54	2.6	54	78	2	171	39	23	7	29	1.82
54652341--54652496	27	5.8	27	77	5	118	41	21	9	28	1.84
54652420--54652538	54	2.2	53	82	4	141	36	17	17	27	1.93
54652394--54652538	27	5.4	27	77	5	107	37	18	15	28	1.92
54652964--54653028	22	3.0	22	76	13	62	20	23	21	35	1.96
54653194--54653287	27	3.5	26	85	5	98	21	23	18	37	1.94
54653209--54653288	27	3.0	26	88	3	106	22	23	18	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54653448--54653519	6	11.8	6	76	19	69	19	15	16	48	1.81
54653425--54653505	31	2.6	31	92	2	126	18	14	14	51	1.76
54656933--54657189	40	6.5	40	91	3	378	22	23	28	25	1.99
54656933--54657189	79	3.2	80	90	3	378	22	23	28	25	1.99
54656933--54657189	119	2.2	119	88	4	367	22	23	28	25	1.99
54665080--54665337	40	6.5	40	89	2	351	22	22	28	26	1.99
54690544--54690691	63	2.3	63	80	12	165	24	28	16	31	1.96
54692049--54692409	46	7.9	47	77	4	299	33	20	19	26	1.97
54692025--54692409	92	4.2	91	82	2	349	32	20	19	27	1.97
54692137--54692429	92	3.2	92	85	0	363	31	20	20	26	1.98
54701208--54701340	49	2.8	47	88	6	196	34	27	15	21	1.94
54701985--54702027	18	2.5	17	80	3	50	46	6	6	39	1.58
54711857--54711926	27	2.6	27	95	2	113	31	28	12	27	1.93
54711857--54711954	28	3.5	28	88	2	126	32	28	11	27	1.91
54719924--54719993	27	2.6	26	95	2	95	31	28	12	27	1.93
54719924--54720021	28	3.5	28	90	2	135	31	28	13	26	1.94
54724919--54725016	27	3.5	28	88	2	126	26	14	28	30	1.95
54724947--54725030	27	3.0	27	87	5	96	29	11	25	33	1.91
54726857--54727112	27	9.5	27	88	0	316	34	17	20	27	1.95
54726854--54727096	81	3.0	81	88	0	360	34	18	19	27	1.95
54727337--54727415	27	3.0	26	83	3	77	21	21	20	36	1.95
54727722--54727829	27	4.0	27	80	5	121	19	23	21	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54727724--54727829	54	2.0	53	84	1	140	19	23	20	35	1.96
54727998--54728072	6	12.3	6	78	13	82	17	18	14	49	1.80
54727970--54728051	31	2.6	31	94	0	137	18	20	14	46	1.84
54727953--54728046	25	3.5	25	77	16	98	19	20	14	45	1.85
54744289--54744321	17	2.0	16	94	5	57	51	0	24	24	1.48
54747272--54747341	26	2.7	26	79	2	77	40	11	24	24	1.88
54747424--54747490	27	2.5	27	87	0	89	37	10	28	23	1.88
54747827--54747863	15	2.6	15	87	8	51	16	16	35	32	1.91
54749241--54749302	22	2.8	22	87	0	88	12	27	27	32	1.93
54757176--54757354	39	4.6	39	80	7	193	25	27	21	25	2.00

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