genome.fa.s12.2.7.7.80.10.50.1000.14.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_A12
Parameters: 2 7 7 80 10 50 1000
Length:  102106374

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   

This is table  14  of  311  ( 37258 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)
3947994--3948019	9	2.9	9	100	0	52	7	0	0	92	0.39
3950701--3950803	24	4.5	24	78	17	80	14	11	56	17	1.67
3950728--3950792	18	3.4	18	91	6	94	12	13	58	15	1.64
3952946--3953060	30	3.8	30	94	0	203	26	49	3	20	1.65
3953548--3953677	23	5.5	23	69	17	72	35	4	3	56	1.35
3953562--3953764	25	8.2	25	71	14	100	34	5	4	55	1.44
3953915--3953962	16	3.1	15	90	6	69	31	2	2	64	1.16
3953915--3953966	8	6.5	8	82	8	61	30	1	1	65	1.14
3962218--3962393	71	2.5	70	85	1	219	28	14	22	34	1.94
3962218--3962588	195	1.9	191	84	4	485	29	15	20	34	1.93
3962410--3962743	77	4.5	74	85	6	428	31	15	20	32	1.94
3963043--3963301	75	3.5	75	88	6	352	31	15	21	31	1.95
3963450--3963582	70	1.9	69	95	1	239	33	16	18	30	1.94
3963361--3963707	155	2.2	154	82	10	406	30	16	18	34	1.93
3963587--3963821	78	3.1	75	86	7	311	25	15	20	37	1.93
3963097--3964245	238	4.7	233	74	18	784	27	16	19	36	1.93
3963654--3964162	177	2.9	181	81	11	548	26	16	20	36	1.93
3963987--3964014	14	2.0	14	100	0	56	14	21	7	57	1.61
3963914--3964164	90	3.0	85	78	15	220	27	17	20	34	1.95
3964004--3964245	76	3.2	74	83	7	285	28	16	20	33	1.95
3963857--3964164	166	1.9	160	86	6	431	28	17	21	32	1.96
3963446--3964306	416	2.1	407	85	7	1150	27	16	19	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3964347--3964831	77	6.3	75	74	14	351	28	15	21	34	1.94
3964480--3964642	89	1.9	86	90	3	263	30	14	19	35	1.92
3964987--3965124	71	1.9	71	94	0	240	34	16	18	31	1.93
3964896--3965248	155	2.2	156	83	8	441	30	16	18	34	1.93
3965129--3965367	78	3.2	75	85	6	310	25	16	20	37	1.93
3965380--3965541	73	2.2	73	86	2	216	26	16	20	36	1.94
3965196--3965704	177	2.9	181	84	9	623	26	16	20	36	1.93
3965529--3965556	14	2.0	14	100	0	56	14	21	7	57	1.61
3965061--3966134	417	2.7	396	83	9	1261	27	16	20	36	1.94
3965562--3965787	76	3.0	73	85	3	299	27	17	21	32	1.96
3965767--3965816	14	3.6	14	81	7	57	22	12	2	64	1.37
3965781--3965813	15	2.2	15	94	0	57	21	9	0	69	1.15
3965888--3966138	77	3.3	75	88	3	353	26	17	21	35	1.95
3966848--3966962	30	3.8	30	94	0	203	26	49	3	20	1.65
3967455--3967582	23	5.5	23	67	19	70	35	4	3	57	1.36
3967469--3967670	25	8.2	25	69	17	84	33	5	4	55	1.44
3967825--3967872	16	3.1	15	90	6	69	31	2	2	64	1.16
3967825--3967876	8	6.5	8	82	8	61	30	1	1	65	1.14
3973106--3973150	17	2.6	18	89	10	76	51	8	8	31	1.64
3975060--3975117	27	2.1	27	96	0	107	25	20	36	17	1.94
3977549--3977609	15	3.9	15	82	6	68	52	34	3	9	1.51
3977549--3977587	16	2.4	16	95	0	69	56	28	2	12	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3977693--3977778	13	7.2	13	67	19	62	38	48	0	12	1.41
3977706--3977770	22	3.0	21	84	8	85	36	50	0	12	1.40
3978164--3978205	19	2.3	18	87	4	57	26	2	2	69	1.13
3981250--3981500	55	4.8	54	74	14	219	35	17	25	21	1.95
3984960--3985009	26	2.0	26	88	4	75	32	2	0	66	1.03
3987705--3987758	25	2.2	24	84	12	67	72	1	16	9	1.19
3992172--3992209	19	2.0	19	85	10	51	47	0	15	36	1.46
3995464--3995518	23	2.5	23	82	8	62	61	0	0	38	0.96
4002064--4002154	17	5.1	17	72	16	76	49	10	9	29	1.70
4002808--4002835	3	9.3	3	100	0	56	67	0	0	32	0.91
4004022--4004079	27	2.1	27	96	0	107	25	20	36	17	1.94
4006514--4006574	15	3.9	15	82	6	68	52	34	3	9	1.51
4006514--4006552	16	2.4	16	95	0	69	56	28	2	12	1.50
4006658--4006743	13	7.2	13	67	19	62	38	48	0	12	1.41
4006671--4006735	22	3.0	21	84	8	85	36	50	0	12	1.40
4007130--4007171	19	2.3	18	87	4	57	26	2	2	69	1.13
4010216--4010466	55	4.8	54	74	14	219	35	17	25	21	1.95
4014882--4014924	23	2.0	21	86	9	59	32	2	0	65	1.06
4017617--4017669	25	2.2	23	81	15	63	73	1	15	9	1.17
4019213--4019249	18	2.1	18	89	0	56	51	2	0	45	1.15
4020256--4020282	2	13.5	2	100	0	54	51	0	0	48	1.00
4022131--4022168	19	2.0	19	85	10	51	47	0	15	36	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4025427--4025481	23	2.5	23	82	8	62	61	0	0	38	0.96
4030541--4030580	18	2.3	18	95	4	73	32	15	32	20	1.93
4030558--4030818	50	5.3	49	75	12	158	29	20	19	29	1.97
4030623--4030718	43	2.2	44	85	7	133	27	18	20	33	1.96
4035609--4035664	29	1.9	29	88	0	85	55	7	1	35	1.38
4036999--4037023	7	3.6	7	100	0	50	44	32	0	24	1.54
4040216--4040266	24	2.1	24	82	7	59	43	45	0	11	1.40
4041546--4041643	39	2.6	37	77	4	99	54	4	6	35	1.45
4042849--4044426	88	18.8	83	70	18	333	35	19	17	27	1.95
4043018--4043076	30	2.0	30	90	6	93	42	25	10	22	1.84
4043229--4043512	77	3.7	77	84	6	314	35	18	16	29	1.93
4043228--4043512	79	3.8	73	82	7	304	35	18	17	29	1.93
4043421--4044453	88	12.1	85	77	14	702	34	19	18	27	1.95
4043667--4043701	14	2.5	14	90	0	52	57	5	20	17	1.60
4043424--4043778	91	4.0	89	84	6	449	37	16	18	28	1.92
4043681--4043857	77	2.3	78	87	2	239	33	18	20	27	1.96
4043862--4044023	74	2.1	76	84	6	213	30	21	19	27	1.98
4043345--4044426	336	3.2	330	83	7	1265	34	19	18	26	1.96
4043345--4044422	166	6.4	164	84	7	1199	34	20	18	26	1.96
4043937--4044112	90	2.0	89	86	6	248	33	19	19	27	1.96
4044017--4044189	76	2.3	77	85	5	244	32	19	19	28	1.96
4044169--4044203	14	2.5	14	90	0	52	57	5	20	17	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4044099--4044422	180	1.8	176	87	4	479	35	22	17	24	1.95
4044457--4044645	72	2.6	73	81	9	215	36	23	15	24	1.93
4044680--4044813	71	1.9	71	90	3	216	34	22	14	28	1.94
4053945--4054008	18	3.7	18	72	16	62	4	4	15	75	1.14
4054335--4054377	16	2.8	15	79	6	50	67	6	0	25	1.15
4054426--4054463	16	2.4	16	95	0	67	0	55	0	44	0.99
4055045--4055107	24	2.6	25	82	7	76	33	0	6	60	1.22
4056362--4056427	35	1.9	34	87	9	98	28	3	7	60	1.39
4056411--4056442	16	2.0	16	93	0	55	28	6	6	59	1.46
4058735--4059175	137	3.3	131	79	8	415	34	18	19	27	1.96
4058707--4059175	131	3.5	132	78	7	410	33	18	20	27	1.95
4062214--4062749	44	12.2	44	92	1	860	24	33	15	27	1.95
4062982--4063471	132	3.8	132	84	6	581	27	24	17	30	1.97
4068154--4068256	22	4.7	22	80	0	98	6	5	28	59	1.46
4068130--4068256	44	2.8	43	79	4	119	6	4	29	59	1.43
4068155--4068245	11	8.4	11	70	10	62	5	5	29	59	1.43
4072460--4072494	16	2.2	16	94	0	61	45	28	8	17	1.77
4073256--4073327	36	2.0	36	100	0	144	44	8	27	19	1.79
4076058--4076091	16	2.1	16	88	0	50	17	8	2	70	1.25
4076147--4076181	17	2.1	17	88	0	52	17	8	2	71	1.23
4076237--4076272	18	2.0	18	88	0	54	16	8	2	72	1.21
4075991--4076345	90	3.9	90	94	2	599	26	14	19	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4076254--4076457	73	2.8	73	85	5	252	29	15	19	35	1.93
4077597--4077650	27	2.0	27	85	7	74	66	14	3	14	1.38
4077946--4077992	16	2.9	16	80	0	58	0	42	0	57	0.98
4079220--4079251	16	2.0	16	93	0	55	28	6	6	59	1.46
4079236--4079283	21	2.2	22	81	7	53	35	6	6	52	1.52
4082273--4082303	15	2.0	16	93	6	55	61	0	0	38	0.96
4083347--4083375	13	2.3	13	94	5	51	62	20	13	3	1.46
4086255--4086384	27	5.1	27	80	17	170	48	10	7	33	1.67
4086291--4086384	47	2.0	46	89	8	145	51	8	8	31	1.63
4086318--4086360	20	2.2	20	100	0	86	58	0	9	32	1.30

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