genome.fa.s17.2.7.7.80.10.50.1000.17.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  17  of  173  ( 20651 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)
4477800--4477851	20	2.6	19	80	14	52	44	0	1	53	1.11
4481393--4481819	222	1.9	222	95	0	773	31	17	20	30	1.95
4486186--4486213	3	9.3	3	100	0	56	0	32	0	67	0.91
4489675--4489717	21	2.0	21	81	4	50	48	2	2	46	1.27
4489810--4489844	2	18.0	2	94	5	63	51	0	0	48	1.00
4491246--4491300	17	3.2	18	79	7	69	60	0	0	40	0.97
4493621--4493651	2	16.0	2	93	6	55	51	0	0	48	1.00
4494342--4494398	24	2.4	24	82	5	71	52	5	1	40	1.34
4499355--4499396	22	1.9	22	90	0	66	52	40	4	2	1.35
4500512--4500563	3	17.3	3	100	0	104	0	0	32	67	0.91
4500688--4500744	23	2.5	24	80	5	64	40	3	0	56	1.17
4501140--4501289	74	2.0	75	94	1	266	32	14	16	38	1.88
4501214--4501588	110	3.4	111	92	1	599	30	16	19	34	1.93
4505034--4505071	20	1.9	20	88	0	58	65	10	5	18	1.41
4509571--4509640	27	2.7	26	89	6	106	42	4	0	52	1.20
4509628--4509664	11	3.4	11	88	0	56	45	0	0	54	1.00
4511276--4511335	28	2.1	28	93	0	102	38	5	15	41	1.68
4512593--4512627	18	1.9	18	94	0	61	40	5	25	28	1.78
4537629--4537675	21	2.2	22	92	3	78	21	19	38	21	1.94
4560529--4560566	18	2.1	18	90	0	58	39	0	34	26	1.57
4560539--4560574	18	2.0	18	88	0	54	33	0	38	27	1.57
4563846--4563940	41	2.3	41	85	7	122	24	17	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4566854--4566928	23	3.3	23	77	7	89	45	22	16	16	1.85
4599230--4599389	87	1.8	87	91	2	268	42	13	13	30	1.83
4599911--4599972	23	2.7	23	79	0	79	40	27	12	19	1.88
4603093--4603208	46	2.6	46	94	2	200	32	15	23	28	1.95
4614446--4614489	22	2.0	23	86	13	65	70	2	4	22	1.17
4615759--4615806	6	8.0	6	95	0	78	62	0	4	33	1.14
4623055--4623096	12	3.6	12	81	15	52	42	0	14	42	1.45
4624046--4624088	14	3.2	13	80	9	50	46	37	0	16	1.47
4625080--4625108	11	2.5	12	94	5	51	41	0	0	58	0.98
4625090--4625128	19	2.0	20	95	5	71	38	0	0	61	0.96
4625094--4625136	20	2.2	19	83	4	50	34	0	6	58	1.25
4635008--4635041	16	2.2	16	89	5	52	61	0	0	38	0.96
4635118--4635153	16	2.2	16	90	0	54	30	2	2	63	1.22
4636566--4636594	13	2.3	13	94	5	51	0	13	0	86	0.58
4641076--4641130	29	1.9	28	92	3	92	43	5	12	38	1.66
4644643--4644671	15	1.9	15	100	0	58	55	6	34	3	1.44
4644642--4644713	24	3.0	24	81	0	81	55	2	38	2	1.29
4644678--4644722	24	1.9	23	90	4	72	55	0	44	0	0.99
4647090--4647134	21	2.2	20	84	4	54	35	20	2	42	1.64
4651284--4651402	38	3.1	38	81	9	145	31	13	26	29	1.94
4655447--4655476	14	2.1	15	93	6	53	13	3	0	83	0.77
4656247--4656292	12	3.6	12	78	16	56	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4659903--4659948	6	7.8	6	87	7	60	82	13	0	4	0.81
4659891--4659950	13	4.7	12	75	19	50	81	11	3	3	0.93
4659958--4659995	14	2.8	14	84	4	51	81	0	18	0	0.69
4659944--4659998	26	2.1	26	82	0	65	78	1	16	3	0.98
4659944--4659998	25	2.2	26	83	3	67	78	1	16	3	0.98
4660808--4660844	8	4.6	8	90	10	58	75	0	13	10	1.04
4660798--4660844	15	3.3	15	86	13	64	78	0	10	10	0.96
4662061--4663008	88	10.8	88	93	0	1574	27	22	24	25	2.00
4663016--4663683	132	5.1	132	93	0	1113	32	18	23	26	1.97
4664460--4664489	14	2.1	15	93	6	53	13	3	0	83	0.77
4665259--4665304	12	3.6	12	78	16	56	34	0	0	65	0.93
4667277--4667319	20	2.2	20	87	8	61	37	9	0	53	1.33
4667260--4667314	24	2.3	25	81	12	62	36	10	0	52	1.37
4671668--4671705	18	2.1	18	90	0	58	15	13	18	52	1.74
4677539--4677591	23	2.4	21	75	12	52	18	20	24	35	1.95
4678356--4678395	19	2.2	18	95	4	71	42	15	2	40	1.60
4686078--4686145	25	2.7	25	82	13	86	30	22	25	22	1.99
4690580--4690619	19	2.2	18	95	4	71	42	15	2	40	1.60
4699677--4699730	27	2.0	27	82	7	65	31	14	7	46	1.73
4699890--4699930	21	1.9	22	85	14	59	41	4	0	53	1.22
4704496--4704521	13	2.0	13	100	0	52	15	15	7	61	1.55
4706963--4707029	24	2.9	24	80	8	77	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4718417--4718508	16	5.9	16	67	12	66	18	19	18	43	1.88
4718435--4718508	32	2.3	32	90	2	112	20	17	18	43	1.88
4727818--4727846	12	2.4	12	100	0	58	24	6	13	55	1.63
4733277--4733306	15	1.9	16	93	6	53	16	26	20	36	1.93
4735183--4735279	36	2.7	35	79	10	106	51	9	9	29	1.65
4735232--4735378	55	2.5	58	78	9	174	51	11	9	27	1.69
4735402--4735436	18	1.9	18	100	0	70	34	11	11	42	1.77
4738438--4738470	14	2.4	14	94	0	57	30	18	0	51	1.46
4742099--4742142	20	2.2	20	87	0	61	68	4	2	25	1.20
4748607--4748636	4	7.5	4	100	0	60	23	0	0	76	0.78
4756109--4756138	14	2.1	14	93	0	51	53	30	0	16	1.44
4756413--4756460	20	2.4	20	85	0	60	43	31	0	25	1.55
4758287--4758342	22	2.5	23	82	2	69	51	1	1	44	1.22
4758318--4758357	16	2.5	16	91	0	62	47	2	7	42	1.45
4758368--4758507	59	2.4	59	97	0	262	40	4	9	46	1.56
4758489--4758516	9	3.1	9	100	0	56	32	0	10	57	1.33
4758613--4758656	24	1.9	24	90	9	74	61	2	0	36	1.09
4759580--4759625	22	2.1	22	84	8	58	2	19	13	65	1.37
4764067--4764112	22	2.1	22	84	8	58	2	19	13	65	1.37
4765505--4765538	7	4.9	7	92	0	50	29	8	26	35	1.87
4765506--4765554	21	2.3	21	89	10	73	28	4	28	38	1.75
4765700--4765732	14	2.4	14	94	0	57	3	6	18	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4770211--4770244	7	4.9	7	92	0	50	29	8	26	35	1.87
4770212--4770260	21	2.3	22	89	10	75	30	4	26	38	1.75
4777878--4777944	31	2.2	31	89	5	100	22	20	11	44	1.84
4779481--4779556	30	2.5	31	82	2	91	35	9	13	42	1.76
4788588--4788679	27	3.4	27	86	3	123	20	18	38	22	1.94
4788577--4788679	54	1.9	54	86	7	147	20	18	36	24	1.94
4788741--4788787	18	2.5	20	79	10	62	63	2	34	0	1.06
4788737--4788790	22	2.4	23	84	12	76	64	1	33	0	1.04
4789586--4789643	22	2.9	19	73	14	53	53	10	1	34	1.45
4789580--4789759	27	7.2	26	73	21	145	54	13	1	31	1.46
4789580--4789789	48	4.3	48	85	4	262	53	12	0	32	1.46
4789592--4789633	22	2.0	21	85	4	57	57	11	2	28	1.47
4789745--4789916	21	7.8	20	70	23	89	55	12	0	31	1.37
4789855--4789916	22	3.0	21	90	4	90	58	9	0	32	1.31
4789831--4789918	20	4.2	20	76	12	79	56	10	0	32	1.33
4790081--4790118	14	2.5	15	87	12	60	0	39	0	60	0.97
4790350--4790392	17	2.6	16	85	3	50	37	0	0	62	0.95
4803314--4803338	3	8.3	3	100	0	50	68	0	0	32	0.90
4811110--4811165	29	1.9	29	88	0	85	50	7	21	21	1.72
4812338--4812377	3	13.3	3	89	0	62	62	0	37	0	0.95
4812548--4812732	22	8.9	21	73	15	161	32	0	12	55	1.37
4812571--4812627	19	2.9	19	86	2	78	33	0	14	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4812548--4812732	41	4.5	40	74	17	173	32	0	12	55	1.37
4812681--4812903	97	2.3	100	90	6	357	32	1	12	53	1.47
4812681--4812904	49	4.5	49	85	7	310	32	1	12	53	1.47
4813104--4813177	38	1.9	38	97	0	139	54	4	2	39	1.34
4813290--4813328	16	2.5	16	87	4	62	41	2	2	53	1.28
4814944--4815014	6	11.8	6	83	0	88	32	26	39	1	1.65
4818219--4818553	19	17.5	19	67	21	168	54	12	0	32	1.43
4818225--4818551	22	14.9	22	68	19	168	54	12	0	31	1.43
4818219--4818529	89	3.5	88	82	11	363	54	13	0	31	1.44
4818276--4818529	41	6.0	40	70	21	151	54	13	0	31	1.42

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