genome.fa.s26.2.7.7.80.10.50.1000.13.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: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  96304692

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   

This is table  13  of  313  ( 37448 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)
4078275--4078435	42	3.8	42	86	2	189	47	14	19	17	1.82
4078267--4078435	63	2.7	63	81	2	196	47	15	18	17	1.82
4078259--4078435	21	8.4	21	83	0	165	48	15	19	16	1.81
4079939--4079970	6	5.3	6	100	0	64	15	0	46	37	1.46
4079957--4080032	28	2.7	28	87	4	109	31	0	23	44	1.54
4080098--4080527	126	3.4	126	85	2	596	40	13	17	28	1.88
4080595--4080667	25	2.9	25	77	4	85	53	1	23	21	1.54
4083698--4083825	60	2.2	59	84	7	161	50	8	3	36	1.51
4087362--4087403	21	2.0	20	90	4	66	33	21	21	23	1.97
4094155--4094217	32	2.0	32	93	0	108	31	22	11	34	1.89
4094436--4094503	33	2.1	33	94	0	118	22	10	22	45	1.82
4096370--4096731	41	8.9	41	88	2	455	33	20	24	21	1.97
4096370--4096723	120	2.9	119	84	3	422	33	20	24	21	1.97
4096773--4096820	22	2.1	22	84	3	60	50	25	0	25	1.50
4097143--4097190	14	3.4	14	80	5	60	25	2	25	47	1.62
4097148--4097190	15	2.9	15	82	3	61	23	2	27	46	1.64
4097224--4097273	21	2.4	20	80	16	57	20	0	48	32	1.50
4097278--4097330	14	3.7	14	82	7	54	24	0	28	47	1.52
4097473--4097515	22	2.0	22	86	9	61	20	0	30	48	1.50
4097893--4097949	15	3.8	14	93	6	78	68	3	1	26	1.15
4097893--4097949	8	7.6	7	92	4	78	68	3	1	26	1.15
4097983--4098028	23	2.0	24	86	4	67	65	8	0	26	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4100627--4100663	17	2.2	17	100	0	74	43	0	13	43	1.44
4100629--4100675	10	4.9	10	82	17	64	46	0	10	42	1.38
4100664--4100693	16	1.9	15	93	6	51	46	3	6	43	1.46
4100629--4100675	17	2.5	20	86	13	64	46	0	10	42	1.38
4103365--4103463	43	2.3	43	89	5	155	22	22	30	25	1.99
4105481--4105508	2	14.0	2	100	0	56	50	0	0	50	1.00
4113717--4113747	15	2.1	14	94	5	53	38	19	6	35	1.77
4115725--4115751	12	2.2	12	100	0	54	51	0	7	40	1.30
4115833--4115903	37	1.9	37	83	11	92	53	4	2	39	1.35
4122037--4122094	30	1.9	30	89	0	89	15	32	32	18	1.93
4125150--4125201	20	2.8	18	78	21	63	51	5	1	40	1.37
4136442--4136619	27	6.6	27	84	3	205	29	28	15	26	1.96
4136463--4136618	82	1.9	81	88	3	233	29	28	15	26	1.96
4144630--4144807	27	6.6	27	84	3	205	29	28	15	26	1.96
4144651--4144806	82	1.9	81	88	3	233	29	28	15	26	1.96
4151712--4151843	45	2.9	45	89	2	194	30	26	18	25	1.98
4161069--4161363	148	2.0	148	95	0	527	27	21	17	32	1.96
4162652--4162687	18	2.0	18	100	0	72	16	11	22	50	1.77
4166409--4166433	12	2.1	12	100	0	50	52	0	0	48	1.00
4169040--4169074	18	1.9	19	88	11	56	54	11	28	5	1.59
4170464--4170503	20	2.0	21	90	5	64	42	0	17	40	1.49
4171259--4171437	97	1.8	97	84	2	241	25	19	30	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4171167--4171435	48	5.6	49	71	9	182	25	19	29	24	1.99
4172803--4172891	39	2.3	39	96	2	160	19	10	23	47	1.79
4174479--4174599	51	2.4	50	82	10	149	53	2	0	42	1.19
4208100--4208139	20	2.0	21	90	5	64	30	5	12	52	1.60
4208878--4208912	17	2.1	17	100	0	70	28	42	0	28	1.56
4209522--4209554	11	2.9	11	95	4	57	0	9	0	90	0.44
4209516--4209555	18	2.3	17	91	4	62	0	7	2	90	0.55
4210343--4210376	18	1.9	18	88	5	52	61	20	0	17	1.34
4211658--4211687	15	2.0	15	100	0	60	33	0	0	66	0.92
4212815--4212863	22	2.2	21	82	10	62	22	0	22	55	1.44
4212846--4212903	8	7.4	8	74	18	50	15	1	29	53	1.52
4212828--4212924	30	3.2	31	77	12	96	18	1	27	52	1.52
4216541--4216569	7	4.3	7	95	4	51	34	27	13	24	1.93
4219591--4219620	15	2.0	15	93	0	51	73	10	6	10	1.25
4226645--4226682	14	2.4	17	87	12	55	47	0	0	52	1.00
4229780--4229806	12	2.2	12	100	0	54	74	0	7	18	1.05
4230103--4230161	28	2.1	27	81	6	64	35	11	5	47	1.62
4249258--4249294	18	2.1	18	89	0	56	51	13	5	29	1.63
4249347--4249413	31	2.2	31	83	5	82	19	53	0	26	1.45
4252548--4252885	50	6.7	50	73	8	249	29	25	18	26	1.98
4252658--4252835	51	3.5	51	76	4	207	30	23	19	26	1.98
4252609--4252890	101	2.8	101	87	3	383	30	24	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4255415--4255500	42	2.0	42	100	0	172	33	25	13	26	1.94
4271788--4271965	27	6.6	27	85	3	214	30	28	14	26	1.95
4271809--4271964	82	1.9	81	89	3	242	30	28	14	26	1.95
4272775--4272814	20	2.0	21	85	5	55	40	5	5	50	1.46
4276191--4276343	38	4.0	38	86	1	198	30	24	22	22	1.99
4285526--4285748	49	4.7	48	75	10	215	23	28	18	29	1.98
4285521--4285699	93	1.9	94	85	7	249	25	29	18	26	1.98
4292515--4292622	54	2.0	54	88	0	162	37	18	23	21	1.95
4307050--4307266	40	5.5	40	88	3	289	25	22	26	24	2.00
4314720--4314748	12	2.4	12	100	0	58	27	24	0	48	1.51
4318469--4318554	43	2.0	43	97	0	163	32	15	18	33	1.92
4329006--4329388	194	2.0	194	99	0	757	40	19	13	27	1.88
4332127--4332182	21	2.7	21	72	5	51	8	17	1	71	1.21
4332126--4332182	14	4.1	14	75	16	57	8	17	1	71	1.19
4332189--4332247	18	3.3	18	80	0	73	5	16	6	71	1.26
4332144--4332251	6	17.7	6	68	5	65	6	19	3	70	1.25
4334797--4334843	20	2.3	20	85	0	67	21	12	36	29	1.91
4335952--4336082	66	2.0	66	98	0	253	37	19	14	29	1.91
4337106--4337188	30	2.7	31	83	9	100	12	21	2	63	1.39
4337139--4337194	18	3.1	18	76	5	51	7	19	1	71	1.18
4337164--4337188	12	2.1	12	100	0	50	8	16	0	76	1.02
4337191--4337221	12	2.6	12	100	0	62	25	16	12	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4337269--4337325	5	11.0	5	75	20	55	1	17	3	77	1.00
4337269--4337325	16	3.7	14	82	15	60	1	17	3	77	1.00
4337267--4337336	20	3.3	20	73	18	54	2	18	2	75	1.05
4343021--4343090	35	2.0	35	97	0	131	25	15	40	18	1.90
4346984--4347024	21	2.0	21	90	0	64	31	26	12	29	1.92
4348856--4348920	33	1.9	34	87	3	96	33	0	4	61	1.16
4349999--4350029	16	1.9	16	93	0	53	32	6	0	61	1.21
4352163--4352193	12	2.6	12	89	0	53	70	0	12	16	1.16
4354374--4354440	14	4.7	14	87	3	98	38	16	5	38	1.73
4355054--4355120	14	4.7	14	87	3	98	38	16	5	38	1.73
4354253--4355613	680	2.0	680	100	0	2722	42	14	11	32	1.81
4356070--4356097	10	2.8	10	100	0	56	60	0	0	39	0.97
4377433--4377527	28	3.5	26	81	7	91	18	10	13	56	1.65
4378214--4378346	69	1.9	68	83	1	167	21	15	16	46	1.84
4383568--4383604	18	2.0	19	89	5	58	35	0	2	62	1.10
4389905--4389980	11	6.8	11	68	24	52	52	3	1	42	1.28
4389873--4389977	20	5.7	18	69	21	58	53	2	2	40	1.30
4397009--4397083	38	2.0	38	97	0	141	22	6	14	56	1.62
4398550--4398623	31	2.4	32	77	6	80	29	12	8	50	1.68
4398910--4398968	31	1.9	32	86	6	86	59	6	5	28	1.45
4401214--4401282	33	2.1	33	94	0	120	34	8	4	52	1.52
4404542--4404608	25	2.7	24	77	9	64	58	5	1	34	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4413966--4414003	13	2.9	14	80	11	53	21	10	15	52	1.72
4414355--4414380	13	2.0	13	100	0	52	38	7	15	38	1.76
4416873--4417029	42	3.7	41	76	7	136	35	15	17	31	1.91
4416922--4417014	43	2.2	41	79	7	96	36	17	17	29	1.92
4417252--4417355	40	2.5	40	86	4	129	33	19	16	30	1.94
4417719--4417765	14	3.6	14	72	21	57	44	0	10	44	1.38
4417715--4417764	24	2.1	24	100	0	100	46	0	12	42	1.41
4417774--4417818	14	3.2	14	83	0	63	26	0	24	48	1.51
4417852--4418011	14	11.2	14	70	11	74	23	0	36	39	1.60
4417852--4417948	21	4.5	21	68	15	56	22	0	35	42	1.54

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