genome.fa.s5.2.7.7.80.10.50.1000.100.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  100  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)
32707176--32707221	20	2.2	22	80	11	60	6	13	0	80	0.89
32708000--32708063	3	21.0	3	87	9	94	29	3	0	67	1.06
32708170--32708200	16	1.9	16	93	0	53	19	3	3	74	1.10
32708354--32708380	3	9.0	3	100	0	54	33	0	0	66	0.92
32710626--32710666	19	2.2	18	87	12	57	21	21	12	43	1.85
32714962--32715090	66	2.0	66	90	3	206	31	19	10	38	1.86
32715144--32715228	43	2.0	44	86	6	120	34	24	18	22	1.96
32715202--32715405	88	2.3	87	84	2	257	37	18	21	23	1.94
32715604--32715709	42	2.5	43	83	4	117	35	22	19	21	1.96
32715629--32715709	43	1.9	42	87	2	117	35	22	18	23	1.95
32715639--32715883	86	2.8	84	83	5	337	34	22	22	20	1.97
32715812--32716098	43	6.7	42	69	12	188	33	22	22	20	1.97
32715732--32716003	129	2.1	129	89	2	411	33	22	22	21	1.97
32715560--32716099	216	2.5	216	86	3	698	34	22	22	20	1.97
32715681--32716136	44	10.5	42	68	16	181	33	22	23	19	1.97
32715854--32716138	87	3.3	86	90	2	401	33	22	23	20	1.97
32717147--32717189	20	2.2	20	87	4	61	6	13	0	79	0.93
32717625--32717688	3	21.0	3	87	9	94	29	3	0	67	1.06
32717785--32717815	16	1.9	16	93	0	53	19	3	3	74	1.10
32717969--32718004	3	12.0	3	100	0	72	33	0	0	66	0.92
32723347--32723428	31	2.6	31	94	0	137	24	29	36	9	1.87
32725750--32725783	17	1.9	18	88	5	52	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32725889--32725920	15	2.1	15	94	0	55	50	0	0	50	1.00
32730026--32730072	22	2.1	22	92	0	76	27	10	17	44	1.81
32730318--32730405	46	1.9	46	83	4	115	21	20	19	38	1.93
32730365--32730451	45	1.9	45	82	13	108	26	18	18	36	1.94
32746148--32746175	12	2.3	12	100	0	56	7	14	32	46	1.71
32746204--32746456	114	2.2	113	80	7	278	31	20	24	23	1.98
32747126--32747197	28	2.6	28	80	10	76	18	1	36	44	1.58
32747182--32747248	29	2.3	30	84	5	93	17	1	43	37	1.59
32747126--32747260	22	6.3	21	69	12	78	17	2	38	41	1.62
32747129--32747260	7	18.6	7	69	12	63	18	2	37	41	1.63
32747206--32747259	15	3.7	15	85	2	65	18	1	40	38	1.61
32747463--32747506	21	2.1	21	95	0	79	29	0	34	36	1.58
32747470--32747537	28	2.4	28	85	11	86	29	0	29	41	1.57
32749313--32749366	22	2.5	22	87	6	74	11	38	22	27	1.88
32750681--32751220	105	5.2	105	92	1	879	34	5	4	55	1.45
32750834--32751109	48	5.2	56	63	17	149	34	6	4	55	1.46
32756890--32756951	21	3.0	21	87	0	88	27	17	51	3	1.61
32762420--32762644	49	4.5	49	82	3	288	29	27	17	25	1.98
32762420--32762651	100	2.3	99	85	2	304	29	27	18	25	1.98
32765099--32765143	20	2.2	20	88	0	63	37	13	2	46	1.55
32765208--32765246	20	2.0	19	85	5	51	38	15	2	43	1.60
32775199--32775243	20	2.2	20	88	0	63	35	13	2	48	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32778017--32778122	6	17.3	6	75	14	101	49	15	16	18	1.80
32778031--32778119	31	2.9	31	89	0	133	48	15	17	17	1.82
32778549--32779176	27	23.3	27	84	5	702	25	18	18	36	1.94
32779164--32779257	27	3.5	27	80	7	86	28	7	21	42	1.80
32778553--32779176	54	11.6	54	88	2	801	25	18	18	36	1.94
32778586--32779256	108	6.2	107	83	6	524	26	17	19	37	1.93
32779105--32779266	27	6.0	25	77	11	76	27	10	22	38	1.87
32782272--32782301	15	1.9	16	93	6	53	60	0	20	20	1.37
32790193--32790228	17	2.1	18	89	5	56	47	0	2	50	1.15
32790195--32790237	17	2.5	17	84	3	50	46	0	6	46	1.30
32791119--32791144	9	2.9	9	100	0	52	34	7	0	57	1.27
32793104--32793137	9	3.8	9	88	0	50	55	5	0	38	1.24
32793103--32793137	18	1.9	18	94	0	61	54	8	0	37	1.31
32794367--32794552	50	3.7	50	82	2	201	24	17	26	31	1.97
32794367--32794601	51	4.6	51	81	1	211	25	16	27	31	1.97
32794369--32794646	51	5.5	51	81	4	188	25	16	28	29	1.97
32797766--32797866	33	3.1	33	89	1	150	34	13	24	26	1.93
32797871--32798018	31	4.8	31	89	0	179	27	20	26	25	1.99
32798108--32798172	27	2.4	27	92	0	103	36	15	27	20	1.92
32798161--32798285	56	2.2	56	94	2	216	31	13	28	26	1.94
32802086--32802186	53	1.9	53	91	0	166	26	18	26	27	1.98
32808987--32809087	53	1.9	53	91	0	166	26	18	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32812321--32812380	30	2.0	30	90	0	93	38	8	25	28	1.84
32836208--32836261	27	2.0	27	100	0	108	44	11	7	37	1.68
32846432--32846643	45	4.8	45	74	7	157	28	18	25	27	1.98
32846432--32846602	44	3.9	44	78	4	148	27	19	25	27	1.99
32846478--32846643	89	1.9	89	82	5	210	27	19	25	27	1.99
32846514--32847119	143	4.3	143	84	2	731	30	19	22	27	1.98
32846803--32847119	44	6.7	49	70	18	163	29	19	22	28	1.98
32847006--32847256	95	2.6	94	72	8	229	32	16	22	28	1.96
32847452--32847485	14	2.4	14	90	5	50	52	41	2	2	1.31
32847802--32847894	45	2.1	45	97	0	177	24	11	7	55	1.61
32848583--32848649	3	22.7	3	80	3	73	34	4	0	61	1.16
32848586--32848645	24	2.5	24	86	2	86	35	5	0	60	1.19
32850285--32850309	13	1.9	13	100	0	50	36	0	0	64	0.94
32853266--32853319	27	2.0	27	85	0	72	33	20	31	14	1.93
32853385--32853435	18	2.8	18	67	8	50	43	17	25	13	1.86
32862549--32862583	12	2.9	12	95	0	61	37	25	28	8	1.85
32863904--32863976	20	3.7	20	78	14	71	54	9	1	34	1.41
32863945--32863982	20	1.9	19	89	5	58	52	7	0	39	1.31
32863973--32864010	19	2.0	19	89	0	58	42	0	0	57	0.98
32866025--32866115	40	2.3	40	86	0	128	25	37	19	17	1.94
32868714--32868762	24	2.0	25	84	4	64	67	2	2	28	1.13
32868861--32868926	33	2.0	33	97	2	125	43	15	6	34	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32879270--32879296	11	2.5	11	100	0	54	22	7	0	70	1.12
32879294--32879347	10	5.2	10	80	14	56	0	22	0	77	0.76
32879292--32879344	14	3.8	13	85	14	63	0	20	0	79	0.74
32879502--32879541	21	1.9	21	84	0	53	2	20	0	77	0.88
32879949--32880044	28	3.4	28	81	5	104	41	4	22	31	1.73
32880123--32880304	102	1.8	100	89	9	291	37	14	9	38	1.79
32880463--32880513	19	2.6	20	84	3	68	27	21	19	31	1.97
32880467--32880513	20	2.4	19	82	3	58	27	23	19	29	1.98
32882611--32882672	29	2.1	30	81	3	72	43	4	3	48	1.40
32882791--32882816	3	8.7	3	100	0	52	65	0	0	34	0.93
32883112--32883155	14	3.1	14	77	6	52	25	0	2	72	0.96
32887247--32887300	27	2.0	28	85	10	76	61	1	0	37	1.07
32890861--32890910	26	2.0	24	88	7	73	64	6	0	30	1.18
32890889--32890939	21	2.4	21	83	6	59	70	7	1	19	1.21
32908185--32908229	15	3.1	15	76	17	51	60	0	8	31	1.28
32908673--32908710	20	1.9	19	89	5	58	34	0	0	65	0.93
32908802--32908838	10	3.8	10	83	16	51	29	0	0	70	0.88
32908802--32908838	19	1.9	19	89	10	58	29	0	0	70	0.88
32909964--32910005	22	1.9	22	85	0	57	54	16	11	16	1.70
32910871--32910970	21	4.8	21	87	0	119	45	18	21	16	1.86
32910939--32910987	21	2.3	21	85	0	62	51	18	20	10	1.75
32915082--32915286	3	67.3	3	65	19	61	30	5	3	60	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32915096--32915162	30	2.2	29	82	10	73	29	8	1	59	1.37
32915816--32915870	17	3.2	18	84	7	78	30	12	9	47	1.73
32934010--32934355	76	4.7	73	87	4	473	29	16	22	31	1.95
32934010--32934355	148	2.3	146	86	6	500	29	16	22	31	1.95
32936261--32936303	12	3.7	11	87	3	50	30	9	0	60	1.28
32936425--32936650	3	73.3	3	65	21	60	29	5	4	60	1.40
32937135--32937168	18	1.9	18	88	5	52	23	11	11	52	1.70
32937186--32937255	17	4.1	17	89	5	106	28	11	10	50	1.71
32939089--32939118	15	2.0	15	100	0	60	20	6	26	46	1.75
32953646--32953691	22	2.1	22	87	0	65	15	0	32	52	1.43

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