genome.fa.s23.2.7.7.80.10.50.1000.55.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_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   

This is table  55  of  218  ( 26060 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)
16854249--16854397	76	1.9	77	86	4	212	53	12	4	30	1.56
16854621--16854661	13	3.3	13	76	13	50	2	34	0	63	1.08
16854630--16854677	21	2.3	20	85	3	60	2	29	0	68	1.01
16854669--16854715	19	2.5	19	89	0	67	6	38	10	44	1.65
16854707--16854742	3	12.0	3	100	0	72	0	33	0	66	0.92
16857049--16857074	8	3.2	8	100	0	52	34	0	11	53	1.37
16858475--16858515	20	2.1	20	82	13	50	34	19	4	41	1.73
16859304--16859328	8	3.1	8	100	0	50	36	36	0	28	1.58
16861265--16861306	19	2.3	19	84	16	61	26	16	11	45	1.82
16874769--16874880	25	4.5	25	68	4	91	39	25	13	21	1.90
16874823--16874902	25	3.2	25	72	0	88	35	22	20	22	1.96
16877522--16877547	8	3.2	8	100	0	52	0	34	0	65	0.93
16884999--16885052	9	5.9	9	75	12	56	22	11	27	38	1.88
16892877--16893037	43	3.7	43	87	0	223	21	18	28	31	1.97
16892881--16893119	43	5.6	44	79	5	104	24	17	26	31	1.97
16896645--16896748	49	2.2	47	83	13	126	8	52	1	36	1.43
16898646--16898702	30	2.0	30	83	13	75	47	0	5	47	1.24
16906167--16906207	21	2.0	21	85	0	55	43	31	4	19	1.72
16907024--16907165	10	14.4	10	70	16	84	65	2	0	32	1.04
16907053--16907117	22	3.2	20	78	18	62	61	0	0	38	0.96
16907102--16907166	28	2.4	27	94	2	112	63	3	0	33	1.10
16907116--16907165	19	2.7	18	81	6	64	66	4	0	30	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16907116--16907176	28	2.2	28	88	5	88	63	6	1	27	1.28
16907347--16907392	18	2.5	19	86	6	69	30	6	0	63	1.20
16907467--16907530	27	2.3	26	80	15	67	40	3	1	54	1.25
16907479--16907533	27	2.1	27	86	10	78	40	0	1	58	1.09
16907479--16907533	26	2.1	26	86	10	76	40	0	1	58	1.09
16907461--16907558	45	2.2	45	82	12	112	35	3	2	59	1.25
16918753--16918805	20	2.7	18	75	18	52	67	1	1	28	1.11
16919644--16919674	15	2.0	16	93	6	55	0	38	0	61	0.96
16922720--16922746	3	9.0	3	100	0	54	66	0	33	0	0.92
16924345--16924406	26	2.4	25	86	7	81	33	19	6	40	1.77
16924562--16924618	6	9.5	6	96	0	105	15	29	0	54	1.42
16926683--16926934	103	2.5	103	87	2	364	19	21	28	30	1.97
16934326--16934436	33	3.3	32	73	14	89	29	24	15	30	1.95
16938243--16938324	27	3.0	27	72	0	74	26	29	12	31	1.92
16940806--16940850	24	1.9	23	86	4	63	53	8	6	31	1.58
16940904--16940930	13	2.1	13	100	0	54	55	0	14	29	1.40
16947416--16947489	31	2.4	31	97	0	139	33	21	18	25	1.96
16947773--16947809	18	2.1	18	90	10	58	59	0	5	35	1.20
16949083--16949131	8	6.1	8	81	6	55	57	0	2	40	1.10
16955777--16955822	16	2.9	16	86	0	56	39	2	30	28	1.69
16963527--16963912	193	2.0	192	96	0	718	29	20	9	40	1.84
16964674--16964716	18	2.4	18	88	0	59	39	23	9	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16967404--16967455	21	2.5	21	93	0	86	57	11	21	9	1.62
16967404--16967475	21	3.3	21	82	9	74	56	13	18	11	1.66
16978121--16978183	30	2.1	30	96	0	117	26	3	12	57	1.51
16985796--16985840	22	2.0	22	91	0	72	42	17	11	28	1.84
16987381--16987423	14	2.9	14	86	6	50	11	6	0	81	0.87
16987399--16987425	14	1.9	14	100	0	54	7	11	0	81	0.87
16988386--16988424	16	2.5	15	87	4	51	46	10	5	38	1.60
16991247--16991490	47	5.2	47	91	3	373	31	9	30	27	1.88
16991247--16991490	95	2.6	93	91	2	371	31	9	30	27	1.88
16991609--16991688	37	2.2	37	88	0	115	23	17	31	27	1.97
16993050--16993402	111	3.2	110	87	4	480	30	16	17	35	1.92
17013328--17013365	15	2.6	15	84	16	53	81	0	0	18	0.69
17013328--17013365	8	5.1	8	90	9	55	81	0	0	18	0.69
17013332--17013365	12	2.8	13	86	13	54	82	0	0	17	0.67
17013717--17013806	36	2.5	36	96	0	162	25	25	28	20	1.99
17024867--17024930	27	2.4	27	82	10	71	20	17	28	34	1.95
17024883--17024944	27	2.3	27	91	5	99	17	14	22	45	1.85
17026172--17026266	47	2.0	47	95	0	172	35	35	5	23	1.77
17032871--17032949	37	2.1	37	88	4	115	25	30	18	25	1.98
17033065--17033441	47	8.1	47	93	1	625	28	29	9	32	1.88
17033065--17033441	139	2.7	140	92	1	623	28	29	9	32	1.88
17052102--17052160	31	1.9	31	82	0	73	40	11	18	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17053590--17053623	17	1.9	18	88	5	52	11	5	29	52	1.61
17062386--17062536	71	2.1	72	90	2	234	31	29	15	23	1.96
17062456--17062678	104	2.2	103	92	2	367	31	31	18	17	1.95
17063006--17063069	30	2.2	29	81	10	76	29	28	6	35	1.82
17063013--17063069	30	1.9	30	85	3	80	29	24	7	38	1.82
17074141--17074376	72	3.3	72	89	2	332	24	5	13	57	1.57
17082029--17082118	43	2.1	43	87	0	126	28	32	20	18	1.96
17084038--17084066	5	5.8	5	100	0	58	17	0	0	82	0.66
17087578--17087783	97	2.1	97	91	0	331	26	12	16	45	1.82
17087919--17088170	129	2.0	124	85	11	338	25	14	13	46	1.82
17088768--17088802	14	2.5	14	90	9	54	28	45	2	22	1.67
17088800--17088840	21	2.0	21	85	4	57	39	41	2	17	1.62
17088827--17088864	14	2.7	15	88	12	62	42	31	0	26	1.56
17088653--17089247	301	2.0	296	87	4	847	41	26	2	29	1.69
17089392--17089557	71	2.3	72	90	2	262	27	25	21	25	1.99
17089457--17089901	114	3.9	114	92	0	737	25	26	23	24	2.00
17090784--17090844	31	2.0	31	93	0	104	44	11	8	36	1.71
17092584--17092641	26	2.2	28	82	14	79	48	5	1	44	1.35
17095432--17095491	26	2.3	26	91	2	95	33	16	6	43	1.74
17095432--17095504	26	2.8	26	85	6	87	35	15	6	42	1.73
17098016--17098387	36	10.2	37	78	6	341	32	19	16	31	1.95
17098016--17098387	73	5.1	74	78	7	332	32	19	16	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17098016--17098374	109	3.3	109	81	7	381	32	19	17	30	1.95
17098321--17098396	39	1.9	39	86	0	107	32	18	15	32	1.93
17101536--17101907	36	10.2	37	78	6	341	32	19	16	31	1.95
17101536--17101907	73	5.1	74	78	7	332	32	19	16	31	1.95
17101536--17101894	109	3.3	109	81	7	381	32	19	17	30	1.95
17101841--17101916	39	1.9	39	86	0	107	32	18	15	32	1.93
17105055--17105426	36	10.2	37	78	6	341	32	19	16	31	1.95
17105055--17105426	73	5.1	74	78	7	332	32	19	16	31	1.95
17105055--17105413	109	3.3	109	81	7	381	32	19	17	30	1.95
17105360--17105435	39	1.9	39	86	0	107	32	18	15	32	1.93
17114713--17114761	19	2.6	19	83	0	62	14	34	26	24	1.94
17117044--17117091	20	2.5	20	83	9	57	43	2	4	50	1.33
17121172--17121205	15	2.2	16	94	5	61	0	23	0	76	0.79
17124065--17124139	30	2.5	30	91	0	123	45	9	20	25	1.80
17126047--17126142	25	3.7	26	71	13	90	34	7	0	58	1.26
17126058--17126139	17	4.6	17	70	14	67	36	7	0	56	1.27
17126058--17126167	54	2.0	57	96	3	192	35	9	0	55	1.32
17126253--17126308	20	2.8	21	73	10	55	26	5	0	67	1.11
17133152--17133206	27	2.0	27	82	6	67	43	3	1	50	1.30
17136238--17136281	22	1.9	24	86	9	65	43	2	13	40	1.57
17137756--17137792	9	4.1	9	86	13	58	45	10	10	32	1.74
17141110--17141140	13	2.4	13	94	0	53	54	19	9	16	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17143418--17143490	9	8.3	9	72	6	51	1	19	1	78	0.91
17144770--17144840	24	3.2	21	77	15	63	40	1	0	57	1.07
17144780--17144844	21	2.9	22	82	11	71	38	1	0	60	1.07
17144789--17144852	22	3.0	22	77	9	69	34	3	0	62	1.11
17145591--17145648	29	2.0	29	90	3	91	31	3	1	63	1.21
17146243--17146303	27	2.3	26	86	5	79	39	6	1	52	1.37
17146343--17146405	27	2.3	27	94	0	108	28	22	34	14	1.93
17146873--17146935	19	3.3	19	68	0	63	41	9	3	46	1.52
17146970--17147004	17	2.0	17	88	5	52	48	0	17	34	1.47
17148337--17148398	27	2.3	27	94	0	106	12	35	22	29	1.91

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