genome.fa.s5.2.7.7.80.10.50.1000.167.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  167  of  318  ( 38109 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)
52742779--52742849	23	3.0	23	95	4	133	33	8	29	28	1.86
52742779--52742852	24	3.1	24	98	1	141	35	8	28	28	1.86
52743594--52743652	30	1.9	30	82	3	73	49	1	22	27	1.59
52743905--52743936	8	4.1	8	92	8	57	25	0	0	75	0.81
52747522--52747562	20	2.0	20	85	0	55	43	14	19	21	1.87
52754718--52754794	28	2.8	28	89	0	109	32	12	28	25	1.93
52755184--52755234	25	2.0	25	81	7	59	35	1	25	37	1.67
52759745--52759791	20	2.2	20	85	7	58	34	4	6	55	1.45
52761264--52761465	104	1.9	104	86	0	287	21	30	24	23	1.99
52762691--52762735	22	2.0	22	100	0	90	35	0	4	60	1.17
52765106--52765225	43	2.8	42	83	2	150	30	16	24	29	1.97
52767004--52767058	28	1.9	29	85	3	76	20	36	21	21	1.95
52773829--52774083	55	4.8	54	78	10	242	35	17	25	21	1.95
52774275--52774305	16	1.9	16	93	0	53	41	0	22	35	1.54
52776030--52776174	42	3.5	42	81	0	146	19	35	22	23	1.96
52777703--52777756	22	2.4	23	75	9	58	38	1	0	59	1.08
52777707--52777746	19	2.2	18	86	4	53	40	2	0	57	1.12
52778108--52778149	21	2.0	21	90	9	68	38	2	0	59	1.10
52779339--52779378	18	2.2	18	86	8	55	27	30	2	40	1.70
52781446--52781483	20	1.9	20	94	0	67	18	15	31	34	1.92
52784298--52784356	28	2.1	28	93	0	100	40	10	10	38	1.73
52788458--52788504	21	2.4	19	82	10	58	46	23	2	27	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52792236--52792281	13	3.4	14	76	8	51	50	0	4	45	1.21
52802467--52802528	29	2.1	29	90	0	97	37	3	14	45	1.61
52803231--52803401	35	4.9	34	75	11	123	42	18	17	21	1.89
52803232--52803376	70	2.1	70	83	7	179	42	18	17	21	1.89
52803239--52803401	70	2.3	70	79	10	172	41	19	17	22	1.90
52804269--52804302	15	2.3	15	94	0	59	58	5	14	20	1.57
52804297--52804344	16	3.0	16	90	0	78	64	4	4	27	1.30
52816751--52816944	50	3.9	49	77	8	169	27	28	18	25	1.98
52820293--52820320	12	2.3	12	100	0	56	32	7	10	50	1.64
52838171--52838201	13	2.4	13	100	0	62	48	9	16	25	1.76
52839945--52840346	140	2.9	140	87	0	579	31	22	20	25	1.98
52840213--52840473	126	2.1	126	83	0	342	31	22	20	25	1.98
52840727--52840797	23	2.8	24	83	10	72	30	0	5	63	1.17
52841270--52841294	13	1.9	13	100	0	50	0	8	4	88	0.64
52841259--52841301	14	3.1	14	83	6	52	0	13	2	83	0.74
52844623--52844654	3	10.7	3	100	0	64	31	0	0	68	0.90
52848895--52848937	22	1.9	22	85	4	59	37	0	0	62	0.95
52849027--52849068	17	2.4	18	76	11	52	66	0	2	30	1.04
52852629--52852663	11	3.1	11	91	4	52	11	8	11	68	1.39
52854304--52854390	45	1.9	45	90	0	138	24	14	25	35	1.94
52863348--52863394	20	2.4	20	89	3	69	19	8	2	70	1.24
52868529--52868565	18	2.1	18	94	0	65	45	24	2	27	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52869248--52869277	15	1.9	16	93	6	53	6	6	33	53	1.53
52871925--52872033	37	2.9	37	91	0	173	27	32	18	22	1.97
52872236--52872455	47	4.7	47	94	0	386	26	28	12	32	1.92
52876522--52876770	40	6.2	40	95	0	428	24	27	22	25	2.00
52878056--52878237	37	4.9	37	96	0	319	24	31	20	23	1.98
52878384--52878519	48	2.8	48	93	2	218	30	27	6	35	1.82
52878496--52878707	47	4.5	47	93	0	361	26	27	12	33	1.93
52886882--52886983	33	3.1	32	81	2	105	33	13	22	30	1.93
52887484--52887550	26	2.6	26	93	6	111	67	25	2	4	1.24
52887484--52887560	26	3.0	27	88	7	99	67	25	2	3	1.21
52890104--52890139	12	3.0	12	95	0	63	27	25	5	41	1.77
52898618--52898783	72	2.3	71	87	4	235	22	15	20	41	1.89
52898716--52899343	140	4.5	140	97	1	1150	24	17	21	37	1.94
52899041--52899074	13	2.5	13	90	4	50	20	11	8	58	1.59
52899369--52899464	49	2.0	49	95	0	174	31	15	20	32	1.94
52899418--52900376	72	13.2	72	85	6	1157	31	16	19	32	1.94
52899418--52900376	221	4.4	219	85	4	1292	31	16	19	32	1.94
52899421--52900381	293	3.3	292	86	4	1304	30	16	19	32	1.94
52901236--52901318	28	2.8	30	85	7	100	65	26	4	3	1.30
52901260--52901326	28	2.4	28	90	2	91	62	28	5	2	1.33
52905455--52905565	39	2.8	39	84	0	150	22	20	30	26	1.98
52913711--52913821	37	2.9	37	82	6	141	33	9	11	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52913711--52913837	39	3.3	39	81	8	145	33	8	11	46	1.71
52915578--52915886	162	1.9	162	87	0	447	25	18	18	38	1.93
52915967--52916019	25	2.1	26	85	3	72	37	13	7	41	1.72
52924135--52924165	16	1.9	16	93	0	53	67	6	9	16	1.39
52940283--52940324	19	2.2	20	86	4	59	50	4	0	45	1.23
52940378--52940449	35	2.1	35	97	0	135	26	12	13	47	1.79
52940613--52940692	19	4.1	19	78	9	72	48	7	10	33	1.65
52940613--52940692	39	2.1	39	83	4	99	48	7	10	33	1.65
52940703--52940890	103	1.8	103	82	4	245	31	14	12	40	1.84
52944908--52945254	40	8.7	40	94	0	604	29	20	28	21	1.98
52961636--52961675	15	2.7	15	100	0	80	17	12	5	65	1.44
52961712--52961761	12	4.2	12	92	0	82	22	2	6	70	1.20
52961714--52961758	13	3.5	13	90	3	65	15	2	4	77	1.02
52962352--52962448	30	3.2	30	75	2	106	27	26	16	28	1.97
52964175--52964224	10	4.9	10	81	13	66	78	2	12	8	1.05
52964155--52964224	20	3.5	20	80	5	70	75	2	12	8	1.13
52965136--52965206	37	1.9	37	86	11	101	77	2	18	1	0.97
52965135--52965206	16	4.5	16	77	10	67	77	2	18	1	0.96
52965146--52965195	6	8.2	6	85	14	59	78	2	20	0	0.86
52965146--52965206	21	2.8	21	80	5	77	78	1	18	1	0.91
52965256--52965286	12	2.6	12	100	0	62	45	12	16	25	1.83
52967464--52967560	30	3.2	30	75	2	106	27	26	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52970415--52970584	40	4.3	40	88	2	209	25	21	28	24	1.99
52970442--52970619	79	2.2	80	80	3	191	25	21	28	24	1.99
52977582--52977751	40	4.3	40	88	2	209	25	21	28	24	1.99
52977609--52977786	79	2.2	80	80	3	191	25	21	28	24	1.99
52983569--52983615	20	2.4	19	75	10	58	36	4	19	40	1.71
52986281--52986480	95	2.1	95	85	0	274	24	13	21	41	1.88
52990126--52990337	49	4.6	46	77	11	143	29	26	14	29	1.95
52990167--52990337	47	3.6	48	80	7	163	30	27	14	27	1.95
52990359--52990507	31	4.8	31	89	0	217	25	26	20	27	1.99
52990483--52990611	50	2.5	51	88	2	197	26	23	15	34	1.94
52997163--52997196	12	2.8	12	81	0	50	67	0	0	32	0.91
52998827--52998868	13	3.2	13	90	6	50	71	4	0	23	1.05
52999349--52999556	115	1.8	114	91	1	344	30	20	9	39	1.85
53000105--53000139	9	3.9	9	100	0	70	22	0	0	77	0.78
53003335--53003521	96	1.9	96	91	2	304	24	27	18	29	1.98
53003338--53003521	48	3.8	48	80	5	219	23	27	19	29	1.98
53004556--53004683	32	4.0	32	91	0	211	45	9	10	35	1.70
53007338--53007377	20	2.1	19	95	4	71	22	12	5	60	1.52
53007454--53007497	5	8.8	5	94	0	79	43	0	18	38	1.50
53009340--53009428	29	2.8	31	80	19	112	41	21	14	22	1.89
53009598--53009704	35	3.1	35	94	0	187	22	25	18	33	1.97
53017462--53017492	13	2.4	13	94	0	53	25	19	12	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53020149--53020202	21	2.6	21	75	0	63	68	1	0	29	1.00
53020679--53020765	3	29.7	3	76	9	54	64	1	29	4	1.21
53021762--53021811	21	2.4	21	86	0	64	22	12	32	34	1.90
53026504--53026546	19	2.2	19	84	12	52	55	9	4	30	1.52
53029030--53029077	7	6.9	7	86	9	71	25	0	2	72	0.95
53034256--53034409	33	4.6	33	71	9	105	28	24	14	32	1.94
53034221--53034448	101	2.3	100	85	0	303	28	24	14	32	1.95
53037741--53037912	86	2.0	86	97	0	326	32	16	13	37	1.88
53046791--53047013	119	1.9	120	85	6	310	24	27	23	24	2.00
53046770--53047013	40	6.1	40	85	6	300	24	27	22	24	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