genome.fa.s17.2.7.7.80.10.50.1000.18.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  18  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)
4818314--4818417	52	2.0	52	90	0	163	51	12	0	34	1.46
4818282--4818552	83	3.2	84	78	13	211	54	12	0	32	1.41
4818722--4818799	3	26.3	3	94	2	140	0	34	0	65	0.93
4820485--4820553	34	2.1	34	83	8	88	40	18	4	36	1.71
4824850--4824906	25	2.3	25	85	11	73	36	0	1	61	1.07
4824864--4824904	8	4.7	9	80	14	50	34	0	0	65	0.93
4830888--4830943	29	1.9	29	82	7	69	33	16	12	37	1.86
4831807--4831906	42	2.4	42	96	0	182	21	31	29	19	1.97
4831914--4831973	29	2.1	28	84	6	77	45	18	13	23	1.84
4855127--4855156	2	15.5	2	93	6	53	50	0	0	50	1.00
4856050--4856081	5	6.4	5	100	0	64	43	0	0	56	0.99
4859149--4859174	6	4.3	6	100	0	52	53	15	0	30	1.42
4862301--4862336	18	2.0	18	100	0	72	33	22	5	38	1.77
4862520--4862572	25	2.1	25	89	0	79	37	13	9	39	1.77
4862753--4862817	23	2.8	24	90	4	91	32	20	29	18	1.96
4863961--4864030	8	9.0	8	68	6	54	57	2	4	35	1.33
4863959--4864030	24	3.1	23	84	9	85	56	2	4	36	1.33
4865149--4865194	18	2.3	20	78	14	51	76	2	15	6	1.09
4871865--4871913	5	9.4	5	80	6	53	71	4	4	20	1.19
4872291--4872316	12	2.2	12	100	0	52	38	0	15	46	1.46
4880386--4880433	20	2.5	20	78	21	57	68	0	4	27	1.07
4883268--4883307	20	2.0	20	90	0	62	30	10	10	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4883253--4883319	34	1.9	35	90	3	109	32	7	11	47	1.68
4883247--4883323	14	5.0	15	72	20	52	35	7	12	44	1.72
4883477--4883527	26	2.2	24	78	21	56	60	5	0	33	1.21
4885403--4885448	20	2.2	21	81	14	60	63	19	6	10	1.48
4887520--4887552	16	2.1	16	88	5	50	63	12	0	24	1.28
4892033--4892070	16	2.4	16	86	4	51	60	0	2	36	1.11
4893726--4893773	21	2.3	20	80	16	53	31	2	4	62	1.26
4893736--4893776	20	2.0	20	90	9	66	36	2	2	58	1.24
4895571--4895596	6	4.3	6	100	0	52	15	0	0	84	0.62
4905004--4905074	24	2.9	24	81	8	81	11	16	14	57	1.64
4913671--4913702	14	2.3	14	100	0	64	37	21	6	34	1.79
4919149--4919212	15	4.1	15	78	11	65	29	45	1	23	1.62
4919149--4919226	6	13.0	6	78	5	50	28	42	1	28	1.64
4919149--4919226	9	8.7	9	73	5	50	28	42	1	28	1.64
4923455--4923598	72	2.0	72	97	0	270	32	13	22	31	1.92
4931417--4931450	16	2.2	16	89	5	52	50	2	0	47	1.16
4934023--4934136	44	2.6	44	94	0	201	33	15	21	29	1.94
4934118--4934143	7	3.7	7	100	0	52	42	11	30	15	1.82
4934074--4934187	58	2.0	58	89	3	176	36	14	19	28	1.92
4934030--4934238	102	2.0	102	91	0	337	33	15	22	29	1.94
4934132--4934231	44	2.3	44	87	0	137	32	15	22	31	1.94
4934763--4934825	17	3.5	17	68	16	54	33	3	19	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4934758--4934834	38	2.0	38	100	0	154	31	5	20	42	1.74
4935480--4935551	30	2.4	31	84	11	103	29	18	13	38	1.89
4936364--4936393	7	4.3	7	95	0	51	43	40	0	16	1.48
4945278--4945302	13	1.9	13	100	0	50	32	0	4	64	1.12
4959391--4959438	24	2.0	24	95	0	87	41	18	12	27	1.86
4959917--4959950	17	2.0	18	88	11	54	26	0	17	55	1.42
4977641--4977677	13	2.8	13	87	0	56	45	21	0	32	1.52
4983414--4983609	96	2.0	96	100	0	392	33	22	15	28	1.94
4989137--4989180	22	1.9	24	86	9	65	43	2	13	40	1.57
4989269--4989460	97	2.0	97	95	0	348	43	13	11	31	1.80
4989548--4989591	20	2.2	20	84	8	54	27	11	15	45	1.81
4991119--4991209	27	3.4	27	85	0	110	25	21	28	24	1.99
4991508--4991545	20	1.9	20	88	0	58	36	7	10	44	1.68
4996514--4996633	61	2.0	60	91	1	195	52	11	0	35	1.44
4996886--4996957	27	2.7	27	82	0	81	18	29	26	26	1.98
4997810--4997858	3	16.3	3	100	0	98	65	0	34	0	0.93
5025814--5025956	60	2.4	59	88	2	196	47	13	15	23	1.81
5030079--5030127	25	2.0	24	88	4	71	36	4	14	44	1.64
5038233--5038258	6	4.3	6	100	0	52	34	0	0	65	0.93
5044835--5044964	57	2.3	56	80	15	142	33	17	10	39	1.83
5045634--5045676	4	9.8	4	85	9	50	72	4	2	20	1.14
5063730--5063924	97	2.0	97	96	0	363	36	17	15	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5065520--5065643	28	4.4	27	79	8	99	24	22	18	34	1.96
5065675--5065739	24	2.9	22	73	8	67	26	29	21	23	1.99
5082212--5082253	21	2.0	21	85	0	57	26	9	14	50	1.73
5085918--5085949	15	2.2	14	94	5	55	25	31	0	43	1.55
5088637--5088687	23	2.1	25	82	7	61	52	3	1	41	1.31
5095759--5095796	19	2.1	19	90	5	60	57	0	2	39	1.12
5102105--5102135	2	15.5	2	100	0	62	48	0	51	0	1.00
5102259--5102309	23	2.2	23	89	0	75	25	13	29	31	1.94
5121413--5121555	71	2.0	69	94	2	250	35	18	6	39	1.77
5123058--5123092	15	2.4	15	90	4	54	48	0	8	42	1.33
5126201--5126377	64	2.8	64	87	10	249	31	8	17	42	1.79
5126496--5126859	41	8.9	41	87	1	518	20	17	26	34	1.95
5126496--5126859	122	3.0	122	87	2	534	20	17	26	34	1.95
5126496--5126859	81	4.5	82	96	1	644	20	17	26	34	1.95
5127564--5127598	15	2.3	15	90	9	54	25	0	22	51	1.48
5132860--5133036	64	2.8	64	87	10	249	31	8	17	42	1.79
5133155--5133556	41	9.9	41	85	2	508	20	17	27	34	1.95
5133155--5133517	82	4.5	82	96	1	635	20	17	26	34	1.95
5134222--5134256	15	2.3	15	90	9	54	25	0	22	51	1.48
5134686--5134744	25	2.3	26	80	14	68	32	22	25	20	1.98
5134881--5134955	26	2.9	26	78	2	89	34	22	25	17	1.96
5135975--5136002	13	2.2	13	100	0	56	21	14	0	64	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5149795--5149878	34	2.5	33	81	11	89	44	4	4	46	1.45
5153744--5153937	43	4.5	42	82	4	192	30	32	14	21	1.94
5155231--5155279	3	16.3	3	100	0	98	34	32	0	32	1.58
5157584--5157680	41	2.4	40	86	5	140	41	34	1	23	1.62
5157685--5157711	14	1.9	14	100	0	54	33	37	0	29	1.58
5157707--5157747	21	2.0	20	90	4	64	39	39	0	21	1.54
5158009--5158136	14	9.1	14	72	11	91	42	34	2	20	1.65
5158010--5158135	7	17.9	7	74	12	62	43	33	2	20	1.65
5158008--5158080	29	2.6	27	85	8	92	42	34	0	23	1.54
5158039--5158155	21	5.5	21	75	9	85	44	33	2	19	1.65
5158368--5158444	40	1.9	40	86	0	109	36	22	19	22	1.95
5158359--5158617	41	6.3	41	83	3	297	31	30	18	19	1.96
5158629--5158731	40	2.6	40	84	1	145	23	23	17	35	1.95
5164855--5165001	33	4.4	32	70	20	88	31	28	20	19	1.97
5164878--5165077	102	2.0	102	92	0	337	33	27	19	20	1.97
5166337--5166418	28	2.9	28	78	7	103	31	17	14	36	1.90
5166345--5166518	56	3.1	54	81	8	172	35	20	10	33	1.87
5166371--5166520	28	5.4	28	74	3	131	36	20	10	32	1.87
5171665--5171693	14	2.1	14	93	6	51	79	6	0	13	0.93
5180781--5180842	31	2.0	32	83	3	81	30	9	14	45	1.77
5182122--5182686	305	1.9	301	84	5	764	41	6	6	45	1.57
5189092--5189152	27	2.2	28	82	5	72	40	3	3	52	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5190024--5190061	20	1.9	20	89	10	60	34	2	5	57	1.35
5190067--5190110	16	2.6	17	78	7	54	38	2	0	59	1.10
5190609--5190645	15	2.3	17	86	9	51	37	8	0	54	1.30
5190916--5190959	20	2.1	21	84	12	56	18	6	11	63	1.48
5198085--5198139	11	4.8	11	82	8	56	29	0	5	65	1.15
5199768--5199816	26	1.9	25	95	4	89	20	26	18	34	1.95
5216199--5216249	6	8.5	6	76	6	50	80	0	17	1	0.81
5247338--5247381	22	2.0	22	100	0	88	54	13	9	22	1.67
5251595--5251735	44	3.2	43	83	3	165	31	6	23	38	1.80
5255660--5255694	16	2.2	16	94	0	61	42	0	2	54	1.15

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