genome.fa.s1.2.7.7.80.10.50.1000.125.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  125  of  316  ( 37835 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)
39628743--39628820	29	2.7	28	84	11	104	25	15	30	28	1.96
39628773--39629274	174	2.9	174	97	0	941	29	14	24	31	1.94
39631587--39631697	27	4.1	26	82	7	123	36	20	22	19	1.95
39631607--39631696	28	3.3	28	84	4	121	36	23	22	17	1.95
39633004--39633105	51	2.0	51	100	0	204	25	37	7	29	1.84
39644144--39644366	40	5.6	40	86	3	236	24	21	27	26	1.99
39644219--39644401	79	2.3	80	82	1	226	25	20	27	25	1.99
39652015--39652237	40	5.6	40	86	3	236	24	21	27	26	1.99
39652090--39652272	79	2.3	80	82	1	226	25	20	27	25	1.99
39663494--39663579	27	3.2	27	83	0	109	46	20	4	27	1.71
39663584--39663698	27	4.3	27	89	0	176	30	22	8	38	1.84
39663624--39663763	27	5.2	27	82	0	118	37	24	6	32	1.81
39663775--39663916	27	5.3	27	86	0	185	34	19	21	25	1.96
39663745--39663916	54	3.2	55	81	4	181	35	19	19	26	1.95
39663745--39663917	81	2.1	81	81	2	222	35	19	19	26	1.95
39664310--39664386	31	2.5	31	85	4	102	22	15	14	48	1.81
39664310--39664403	6	15.3	6	70	16	59	21	14	14	48	1.80
39666356--39666450	27	3.5	27	80	5	102	41	22	7	29	1.81
39666456--39666569	27	4.2	27	90	0	183	30	22	7	39	1.81
39666468--39666659	27	7.1	27	83	1	134	36	22	6	33	1.81
39666457--39666634	54	3.3	54	80	3	151	35	23	6	34	1.80
39666457--39666612	81	1.9	81	84	0	204	32	23	7	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39666590--39666691	27	3.8	28	82	7	104	43	21	7	27	1.80
39666673--39666814	27	5.3	26	87	5	185	33	19	21	26	1.96
39666642--39666815	81	2.1	81	81	2	224	35	17	19	27	1.94
39667209--39667287	31	2.5	31	85	0	104	20	16	13	49	1.79
39667209--39667287	6	12.8	6	70	15	54	20	16	13	49	1.79
39667266--39667311	24	1.9	24	86	0	65	19	8	13	58	1.60
39668584--39668757	76	2.3	76	80	4	172	35	27	22	14	1.94
39668599--39668765	38	4.4	38	70	7	115	36	26	21	15	1.93
39668779--39668812	16	2.1	16	94	0	59	20	35	32	11	1.89
39668735--39668845	54	2.1	54	82	0	132	33	28	23	14	1.94
39669089--39669144	28	2.0	28	100	0	112	32	7	10	50	1.64
39669383--39669422	21	2.0	20	85	5	53	47	17	0	35	1.48
39671362--39671395	17	1.9	18	88	5	52	11	26	41	20	1.87
39677023--39677295	38	7.2	37	80	4	260	35	29	21	12	1.91
39677020--39677295	151	1.8	152	84	3	378	35	28	22	12	1.91
39677023--39677292	113	2.4	113	84	0	333	36	28	21	12	1.91
39693092--39693215	46	2.7	47	83	7	164	25	19	31	23	1.98
39693090--39693215	47	2.7	46	84	7	166	25	19	31	23	1.98
39694029--39694161	55	2.4	55	84	0	158	24	18	28	27	1.98
39695968--39696018	25	2.0	25	96	0	93	29	3	5	60	1.38
39696776--39696859	32	2.5	33	76	7	89	28	27	17	26	1.98
39697170--39697222	26	2.0	26	82	7	63	22	13	20	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39698466--39698564	24	4.1	23	85	6	126	20	38	5	36	1.74
39701996--39702220	40	5.7	40	84	5	260	24	21	28	26	1.99
39702078--39702243	80	2.1	79	83	6	203	25	21	28	24	1.99
39710013--39710237	40	5.7	40	85	5	278	24	22	28	25	2.00
39710013--39710270	80	3.2	80	81	8	217	25	21	27	24	1.99
39710013--39710270	119	2.2	119	80	6	274	25	21	27	24	1.99
39711605--39711690	25	3.5	25	84	6	113	31	22	29	17	1.96
39713315--39713362	18	2.5	20	80	13	64	33	4	18	43	1.69
39713534--39713602	22	3.3	22	69	19	74	50	23	2	23	1.62
39713522--39713609	41	2.1	41	97	0	167	52	23	2	21	1.58
39715502--39715592	24	3.8	25	72	16	77	19	23	17	39	1.92
39715685--39715770	44	1.9	45	92	2	147	16	30	22	31	1.95
39717607--39717658	22	2.4	22	96	3	97	36	23	0	40	1.55
39717993--39718045	12	4.5	12	79	9	56	26	22	0	50	1.49
39733679--39733899	39	5.6	39	88	5	288	24	27	22	26	2.00
39744324--39744365	11	3.8	11	84	12	59	80	0	2	16	0.81
39744328--39744365	17	2.2	17	90	0	58	81	0	2	15	0.80
39744382--39744418	14	2.8	13	88	8	56	81	2	0	16	0.81
39744324--39744418	6	15.3	6	72	17	61	73	1	5	20	1.08
39744375--39744418	20	2.1	21	91	4	72	79	2	2	15	0.93
39751454--39751506	23	2.2	25	77	12	58	67	11	1	18	1.30
39758433--39758625	47	4.1	47	89	2	273	33	10	29	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39758506--39758581	23	3.2	25	62	24	63	28	13	34	23	1.92
39758600--39758779	98	1.9	96	94	4	317	36	7	26	29	1.85
39758595--39758776	48	3.8	48	89	5	294	36	7	25	30	1.84
39758934--39759107	37	4.7	37	93	0	285	22	18	33	25	1.97
39760938--39761034	42	2.3	42	92	0	158	29	24	15	29	1.96
39779059--39779088	3	10.0	3	100	0	60	66	0	0	33	0.92
39785330--39785582	40	6.3	40	75	5	136	28	22	15	33	1.94
39785589--39785693	37	2.8	39	82	7	119	41	12	16	29	1.84
39795210--39795352	26	5.5	26	88	0	214	31	14	24	29	1.95
39805481--39805663	40	4.6	40	83	8	221	25	22	26	25	2.00
39805481--39805663	79	2.3	80	84	5	237	25	22	26	25	2.00
39807880--39808057	27	6.6	27	83	3	205	26	15	28	29	1.96
39807881--39808036	82	1.9	81	88	3	233	26	15	28	29	1.96
39807877--39808057	82	2.2	81	83	2	229	27	15	27	29	1.96
39836247--39836424	27	6.6	27	84	3	205	29	28	15	26	1.96
39836268--39836423	82	1.9	81	88	3	233	29	28	15	26	1.96
39852771--39852956	67	2.8	67	79	8	175	32	16	29	22	1.95
39852795--39852966	67	2.7	64	77	7	186	30	16	29	23	1.97
39858029--39858058	11	2.7	11	94	0	51	50	0	20	30	1.49
39864816--39864872	26	2.2	26	80	3	60	28	17	17	36	1.93
39874972--39875028	26	2.2	26	80	3	60	29	19	15	35	1.93
39880838--39880929	46	2.0	46	97	0	175	32	7	23	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39882405--39882440	19	1.9	19	94	5	65	36	2	5	55	1.38
39884973--39885240	47	5.7	45	74	14	192	22	30	20	27	1.98
39884973--39885240	94	2.9	92	78	10	294	22	30	20	27	1.98
39885580--39885637	30	1.9	30	92	0	98	27	25	13	32	1.94
39888262--39888290	14	2.1	14	93	6	51	34	0	10	55	1.34
39888683--39888723	22	1.9	21	85	5	55	24	19	53	2	1.57
39888690--39888760	21	3.3	21	78	2	70	28	19	46	5	1.72
39888992--39889076	31	2.7	31	87	1	98	14	8	20	57	1.62
39889011--39889076	31	2.1	31	94	0	114	15	10	22	51	1.73
39893151--39893262	37	3.0	37	89	0	161	25	32	20	22	1.98
39893427--39893894	47	10.0	47	91	0	713	26	29	12	31	1.92
39893463--39893538	23	3.2	25	62	17	61	23	32	13	30	1.93
39893675--39893800	25	5.3	25	64	27	76	28	29	10	31	1.90
39919163--39919335	46	3.7	46	76	10	181	21	20	29	28	1.98
39919157--39919328	93	1.8	93	89	0	272	22	20	29	27	1.99
39925274--39925483	44	4.8	44	79	6	180	27	22	19	31	1.97
39925554--39925611	28	2.1	28	86	0	80	13	32	10	43	1.78
39925801--39926643	88	9.7	89	81	5	872	21	24	20	33	1.97
39925913--39926064	44	3.4	43	73	7	135	18	27	20	33	1.96
39925809--39926641	176	4.8	175	85	5	960	21	24	20	33	1.97
39925800--39926639	264	3.2	264	82	4	960	21	24	20	33	1.97
39926046--39926551	44	11.5	44	65	15	195	21	23	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39937483--39937546	18	3.4	18	73	12	65	14	25	25	35	1.93
39941415--39941447	12	2.6	13	90	4	50	63	6	3	27	1.32
39941528--39941632	17	5.9	17	73	18	81	56	1	5	36	1.34
39941573--39941624	23	2.3	22	80	9	59	55	1	5	36	1.35
39943819--39943891	32	2.2	32	85	7	94	31	2	5	60	1.34
39943805--39943915	53	2.1	50	80	12	118	35	3	3	57	1.33
39943864--39943934	24	3.2	22	75	13	56	36	5	2	54	1.38
39943888--39943939	24	2.2	24	82	0	59	40	9	0	50	1.35
39943898--39943988	26	3.3	26	77	13	85	37	7	3	51	1.47
39945322--39945354	12	2.6	13	90	4	50	63	6	3	27	1.32

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