genome.fa.s2.2.7.7.80.10.50.1000.15.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: Chr02 99090824 
Parameters: 2 7 7 80 10 50 1000
Length:  99090824

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  15  of  318  ( 38146 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)
3935654--3935762	51	2.1	52	93	1	184	36	24	4	33	1.76
3936227--3936279	28	1.9	27	85	11	72	35	5	5	52	1.49
3936236--3936291	28	2.0	28	82	6	69	39	7	5	48	1.54
3936267--3936327	23	2.6	22	82	12	61	40	3	4	50	1.40
3936100--3936333	25	9.4	25	71	18	125	35	5	5	53	1.48
3936359--3936395	3	12.3	3	94	0	65	32	0	2	64	1.07
3937560--3937589	4	7.5	4	92	0	51	73	0	3	23	0.98
3937628--3937687	24	2.4	27	78	13	74	66	0	13	20	1.24
3938469--3938503	15	2.3	15	90	9	54	60	2	2	34	1.26
3943069--3943250	46	4.0	46	86	5	235	40	14	23	21	1.90
3948767--3948792	2	13.0	2	100	0	52	50	0	0	50	1.00
3957645--3957723	18	4.3	18	85	1	95	40	13	7	37	1.74
3957630--3957730	36	2.8	36	81	4	114	42	13	8	34	1.76
3957851--3957954	47	2.2	47	91	0	163	42	25	17	15	1.88
3957841--3957957	47	2.3	50	81	12	159	41	24	17	15	1.88
3957862--3957957	47	2.0	47	93	0	165	40	25	17	16	1.90
3957998--3958022	12	2.1	12	100	0	50	40	20	24	16	1.91
3959664--3959697	2	17.5	2	93	6	61	50	0	0	50	1.00
3959693--3959724	15	2.0	17	88	11	50	50	3	3	43	1.33
3959773--3959835	31	2.0	32	84	9	85	49	4	0	46	1.23
3963122--3963169	25	1.9	25	86	0	69	33	25	16	25	1.96
3963213--3963271	20	3.0	20	92	0	100	37	11	20	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3963321--3963413	23	4.0	24	84	10	122	29	20	23	26	1.99
3963322--3963413	47	2.0	47	85	12	127	28	20	23	27	1.99
3963605--3963698	38	2.4	38	92	1	152	37	18	23	21	1.94
3969798--3969845	25	1.9	25	86	0	69	33	25	16	25	1.96
3969889--3969947	20	3.0	20	92	0	100	37	11	20	30	1.89
3969997--3970091	24	4.0	24	85	10	124	28	21	24	26	1.99
3969998--3970091	47	2.0	49	85	12	133	27	21	24	26	1.99
3970283--3970376	38	2.4	38	92	1	152	37	18	23	21	1.94
3974546--3974629	26	3.2	26	96	0	150	36	23	4	34	1.76
3975211--3975250	14	2.9	14	88	0	53	47	22	0	30	1.52
3975407--3975589	41	4.5	41	94	0	312	15	25	24	34	1.95
3977240--3977325	18	4.7	18	80	7	102	40	12	10	36	1.78
3977240--3977327	36	2.4	37	80	1	115	39	12	11	36	1.79
3977453--3977559	47	2.3	47	90	3	162	42	24	16	15	1.87
3977447--3977565	47	2.4	52	76	17	142	44	23	15	15	1.86
3977545--3977574	12	2.5	12	88	0	51	56	16	16	10	1.66
3979370--3979432	31	2.0	32	84	9	85	49	4	0	46	1.23
3989327--3989398	33	2.2	33	97	2	137	37	27	12	22	1.90
3996434--3996510	40	1.9	40	91	0	127	36	33	15	14	1.88
3996437--3996525	40	2.2	40	82	4	99	39	30	13	16	1.87
4003466--4003557	40	2.4	39	78	8	98	39	34	13	13	1.83
4007251--4007275	7	3.6	7	100	0	50	84	0	0	16	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4012032--4012454	3	138.7	3	72	19	224	31	4	2	60	1.31
4012545--4012603	20	3.0	20	75	7	57	32	8	10	49	1.67
4012840--4012889	22	2.3	23	79	10	68	36	4	6	54	1.44
4012961--4013034	3	25.0	3	97	2	141	33	0	0	66	0.92
4015928--4016048	59	2.0	60	95	4	219	35	19	17	28	1.94
4024228--4024276	3	16.7	3	87	12	75	69	0	2	28	1.00
4028380--4028439	20	3.3	20	63	36	55	36	13	21	28	1.91
4028375--4028442	33	2.1	33	100	0	136	35	11	20	32	1.89
4031897--4031930	2	17.0	2	100	0	68	50	0	0	50	1.00
4033392--4033732	41	8.3	41	91	2	506	37	24	18	19	1.94
4036251--4036306	11	4.9	11	80	8	58	33	1	1	62	1.16
4038431--4038699	46	5.8	46	91	0	369	41	14	23	20	1.89
4039944--4039983	20	2.1	18	90	9	62	27	10	7	55	1.60
4039944--4039983	9	4.2	9	84	12	53	27	10	7	55	1.60
4042317--4042362	24	2.0	23	86	4	65	28	8	23	39	1.84
4044382--4044475	47	2.0	47	91	4	154	36	5	14	43	1.69
4047277--4047330	21	2.6	20	82	5	63	37	5	5	51	1.49
4052851--4052919	36	1.9	36	100	0	138	43	34	5	15	1.71
4053514--4053655	70	2.0	70	97	0	266	42	10	9	38	1.71
4058258--4058386	44	3.0	43	82	11	183	30	28	17	23	1.97
4058668--4058735	9	7.6	9	79	0	82	45	19	7	27	1.76
4058766--4058806	14	2.9	14	88	0	64	24	0	9	65	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4058755--4058829	20	3.7	20	77	10	71	24	0	6	69	1.12
4060157--4060181	13	1.9	13	100	0	50	40	24	4	32	1.73
4061201--4061241	16	2.4	17	84	8	57	53	4	0	41	1.22
4063894--4063934	16	2.4	16	88	8	55	36	19	17	26	1.94
4064791--4064857	30	2.2	31	83	2	82	31	8	11	47	1.71
4066434--4066469	18	1.9	19	88	5	56	55	19	0	25	1.43
4070064--4070103	18	2.2	18	86	8	55	75	15	5	5	1.15
4070325--4070384	30	2.0	30	90	0	93	15	26	35	23	1.94
4071818--4071877	27	2.2	28	81	3	68	28	3	13	55	1.54
4073394--4073445	23	2.2	24	83	12	65	51	0	0	48	1.00
4075467--4075514	15	3.0	16	77	20	55	35	2	0	62	1.07
4076047--4076114	3	22.7	3	100	0	136	0	32	0	67	0.91
4076680--4076734	29	1.9	29	81	3	67	54	0	1	43	1.10
4076729--4076849	29	4.2	29	73	12	106	59	2	8	29	1.40
4076719--4076782	19	3.3	19	77	12	67	56	3	6	34	1.40
4076720--4076887	10	17.2	10	65	14	57	61	2	7	28	1.37
4078629--4078689	32	1.9	32	89	0	95	44	8	4	42	1.55
4081426--4081547	43	2.9	42	80	7	156	29	26	13	30	1.94
4085416--4085512	36	2.8	34	80	10	97	56	1	2	40	1.18
4085460--4085490	16	1.9	16	93	0	53	51	3	0	45	1.17
4085549--4085591	21	2.1	21	82	4	52	41	2	0	55	1.12
4085639--4085690	25	2.1	25	85	7	70	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4086609--4086639	6	5.2	6	100	0	62	16	67	16	0	1.23
4090509--4090537	15	2.0	15	93	6	51	20	6	0	72	1.07
4092623--4092760	3	48.0	3	80	13	139	0	32	2	64	1.11
4105164--4105243	40	2.0	40	95	0	142	36	8	16	38	1.79
4109004--4109073	30	2.3	30	82	0	77	50	7	4	38	1.50
4109316--4109343	2	14.0	2	100	0	56	50	0	0	50	1.00
4109604--4109636	2	16.5	2	100	0	66	0	48	0	51	1.00
4111002--4111089	38	2.2	40	92	4	144	53	6	1	38	1.35
4112558--4112616	29	2.0	29	86	0	82	44	0	3	52	1.17
4112971--4113007	8	4.6	8	100	0	74	37	0	0	62	0.96
4113030--4113071	5	8.4	5	100	0	84	40	0	0	59	0.97
4114340--4114396	15	3.9	15	88	2	89	35	0	12	52	1.39
4114765--4114828	21	2.9	22	79	6	67	15	18	25	40	1.90
4114764--4114828	23	2.9	23	79	6	89	15	20	24	40	1.91
4117427--4117514	38	2.3	39	88	4	124	39	4	5	50	1.47
4121503--4121538	17	2.1	17	89	0	54	50	22	8	19	1.74
4121491--4121586	48	2.0	48	91	0	156	45	25	8	20	1.79
4122633--4122665	16	2.1	16	94	0	57	39	36	6	18	1.75
4124923--4124953	14	2.2	14	94	0	53	54	0	3	41	1.16
4138474--4138505	4	8.0	4	100	0	64	50	25	0	25	1.50
4145173--4145217	22	2.0	22	100	0	90	60	8	8	22	1.55
4145375--4145408	18	1.9	18	88	5	52	47	14	0	38	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145571--4145601	11	2.8	11	95	0	53	9	25	3	61	1.42
4145944--4146005	13	4.7	13	81	2	79	33	9	6	50	1.61
4146156--4146194	14	2.7	15	80	11	55	20	0	7	71	1.10
4150954--4150994	21	2.0	21	90	0	64	41	0	0	58	0.98
4161580--4162554	485	2.0	485	98	0	1878	34	12	14	39	1.83
4166083--4166117	2	17.5	2	100	0	70	51	48	0	0	1.00
4171945--4172041	31	3.1	31	74	4	88	50	10	7	31	1.64
4172950--4172978	1	29.0	1	100	0	58	100	0	0	0	0.00
4178209--4178237	14	2.0	15	93	6	51	41	0	3	55	1.17
4180867--4180892	6	4.3	6	100	0	52	30	15	34	19	1.93

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