genome.fa.s26.2.7.7.80.10.50.1000.168.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  168  of  221  ( 26413 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)
50363259--50363292	17	2.0	17	94	0	59	11	14	35	38	1.83
50378642--50378685	7	6.3	7	89	0	70	40	27	0	31	1.56
50384463--50384505	15	2.8	15	78	3	50	18	32	0	48	1.48
50384587--50384627	19	2.0	21	86	9	59	14	29	2	53	1.54
50391373--50391482	50	2.2	50	90	1	168	30	10	29	30	1.91
50391663--50391841	39	4.6	39	83	4	209	31	5	20	41	1.75
50396577--50396663	42	2.1	40	93	4	147	21	21	18	37	1.94
50400481--50400510	15	2.0	15	100	0	60	80	0	20	0	0.72
50400497--50400858	106	3.4	105	84	5	492	39	14	16	29	1.88
50401066--50401440	107	3.4	109	83	9	473	29	17	14	38	1.90
50401066--50401440	108	3.4	107	84	7	463	29	17	14	38	1.90
50401426--50401458	17	1.9	17	100	0	66	0	18	0	81	0.68
50403462--50403513	18	2.9	17	83	13	61	65	3	0	30	1.10
50403452--50403527	36	2.1	37	87	2	109	68	2	0	28	1.03
50404857--50405181	106	3.1	106	91	1	508	36	12	12	38	1.81
50406432--50406472	11	3.7	11	90	0	64	24	19	2	53	1.57
50409299--50409422	62	2.0	62	95	0	221	38	19	7	34	1.79
50415321--50415345	12	2.1	12	100	0	50	40	16	0	44	1.47
50416136--50416186	21	2.5	20	76	14	59	29	1	1	66	1.13
50416890--50417032	71	2.0	71	88	0	214	34	23	23	17	1.96
50419766--50419806	18	2.2	19	83	12	50	17	2	4	75	1.08
50421637--50421672	16	2.2	17	95	5	65	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50423431--50423469	20	2.1	19	85	9	53	69	7	0	23	1.14
50424692--50424742	15	3.5	15	78	2	50	47	5	1	45	1.38
50430466--50430511	20	2.2	21	84	3	58	45	13	0	41	1.43
50431573--50431666	42	2.2	42	79	3	109	31	18	20	29	1.96
50434798--50434872	36	2.1	37	97	2	143	46	9	13	30	1.74
50434798--50434855	12	4.8	12	78	18	66	46	8	13	31	1.74
50435794--50436185	195	2.0	194	93	0	676	31	19	14	34	1.92
50440236--50440288	7	7.4	7	89	10	81	13	15	0	71	1.14
50441173--50441248	6	12.7	6	80	5	55	10	9	10	69	1.36
50441192--50441255	30	2.1	30	88	0	92	7	6	12	73	1.24
50449489--50449526	19	2.0	20	89	5	60	52	5	0	42	1.24
50449464--50449598	59	2.3	59	96	0	243	45	2	5	45	1.43
50453268--50453360	18	5.2	18	90	0	150	26	23	17	32	1.96
50453268--50453360	36	2.6	36	94	0	168	26	23	17	32	1.96
50458378--50458495	41	2.9	41	91	1	175	25	22	13	38	1.91
50458481--50458565	41	2.1	41	84	4	109	24	12	22	40	1.89
50464963--50464994	13	2.6	13	90	9	50	68	9	3	18	1.30
50464958--50464994	11	3.2	12	85	14	51	67	8	2	21	1.29
50469784--50469826	3	14.3	3	85	9	61	34	2	0	62	1.08
50469970--50470019	26	1.9	26	87	0	73	34	14	0	52	1.42
50470366--50470407	19	2.2	20	82	4	50	30	2	16	50	1.58
50472019--50472063	19	2.3	20	75	20	51	26	22	8	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50474845--50474874	7	4.3	7	100	0	60	86	0	13	0	0.57
50476179--50476981	89	9.0	89	88	2	1139	30	17	24	27	1.97
50477215--50477406	44	4.4	44	66	10	104	28	20	23	27	1.99
50477214--50477491	132	2.1	132	84	1	351	30	20	21	27	1.98
50479437--50479478	19	2.2	20	82	4	50	30	2	16	50	1.58
50480844--50480908	32	2.1	32	94	2	114	32	9	12	46	1.73
50484890--50484954	32	2.1	32	97	2	123	30	9	12	47	1.72
50490535--50490569	15	2.4	15	95	4	63	0	25	0	74	0.82
50492081--50492108	6	4.7	6	100	0	56	17	17	32	32	1.94
50503681--50503713	16	2.1	16	94	0	57	39	6	33	21	1.78
50503927--50503968	15	2.7	16	82	14	52	52	2	0	45	1.13
50503936--50503977	15	2.9	15	82	10	52	52	0	0	47	1.00
50504042--50504088	16	3.0	16	78	12	53	51	2	0	46	1.13
50504163--50504208	16	2.9	16	78	12	51	52	2	0	45	1.13
50504163--50504217	15	3.7	15	79	13	53	52	1	0	45	1.11
50503925--50504321	120	3.3	120	95	1	706	49	5	2	42	1.37
50508970--50509119	49	3.0	49	79	7	167	34	25	15	24	1.94
50510732--50510760	8	3.6	8	100	0	58	24	0	0	75	0.80
50519396--50519488	45	2.1	45	100	0	186	50	4	6	38	1.48
50527486--50527513	6	4.7	6	100	0	56	53	28	17	0	1.44
50529018--50529061	21	2.2	20	83	4	52	47	31	2	18	1.61
50529066--50529095	11	2.8	11	95	5	53	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50529066--50529111	9	5.0	9	82	17	51	67	0	0	32	0.91
50548685--50548788	49	2.1	49	85	3	138	29	5	13	50	1.64
50550152--50550194	21	2.0	21	86	8	61	34	0	6	58	1.25
50550159--50550377	101	2.1	107	82	13	271	42	0	3	52	1.25
50550352--50550409	13	4.3	13	79	16	64	41	0	1	56	1.09
50550498--50550544	23	2.0	24	84	15	64	42	2	2	53	1.25
50550224--50550618	120	3.3	120	96	0	729	43	0	2	52	1.20
50551459--50551488	13	2.3	13	100	0	60	40	43	0	16	1.48
50551469--50551543	39	1.9	39	94	0	132	53	26	0	20	1.46
50554153--50554248	34	2.9	34	85	10	121	41	1	14	42	1.52
50554313--50554945	125	5.1	126	79	7	661	38	17	15	28	1.91
50554607--50554977	120	3.0	120	73	10	390	38	17	16	27	1.92
50554485--50554973	246	2.0	244	91	1	791	38	17	16	27	1.91
50558420--50558692	139	2.0	139	87	1	395	45	12	24	17	1.83
50560822--50560886	30	2.2	30	97	0	121	41	3	27	27	1.71
50565820--50565858	19	2.0	20	85	9	55	25	17	23	33	1.96
50569277--50569332	29	2.0	29	96	3	105	55	7	0	37	1.27
50569380--50569458	27	2.9	27	88	0	122	29	22	31	16	1.96
50569765--50569830	19	3.5	19	79	4	89	37	10	1	50	1.47
50570056--50570114	19	3.2	19	82	4	84	49	0	13	37	1.43
50570204--50570231	12	2.3	12	100	0	56	75	0	0	25	0.81
50570419--50570522	27	3.9	27	96	0	181	18	32	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50572172--50572449	107	2.6	107	89	5	418	29	21	16	32	1.95
50575236--50575512	46	6.0	46	91	0	446	35	9	26	29	1.87
50579395--50579673	92	2.8	93	82	11	299	36	18	12	31	1.89
50579469--50579722	109	2.4	107	90	4	404	32	21	13	32	1.92
50580890--50580938	22	2.2	21	79	10	53	22	26	0	51	1.49
50582615--50582687	30	2.4	30	77	4	76	30	41	16	12	1.85
50583234--50583452	49	4.5	49	92	0	366	45	2	8	43	1.47
50583276--50583408	29	5.2	29	60	29	86	45	2	9	43	1.48
50586675--50587061	125	3.1	125	89	1	573	29	19	17	33	1.94
50589396--50589480	40	2.1	40	86	4	118	54	4	3	37	1.39
50603631--50603695	32	2.1	32	94	2	114	30	10	10	47	1.73
50611499--50611560	30	2.1	30	93	0	106	45	3	11	40	1.56
50629224--50629277	5	11.4	5	77	18	62	44	0	0	55	0.99
50629229--50629277	19	2.5	20	90	6	82	44	0	0	55	0.99
50629224--50629268	24	1.9	23	90	4	72	44	0	0	55	0.99
50629867--50629911	23	1.9	24	86	13	67	55	2	22	20	1.54
50632528--50632618	23	4.0	23	88	2	130	32	25	19	21	1.97
50632706--50632734	8	3.6	8	100	0	58	34	27	13	24	1.93
50635293--50635348	23	2.4	23	84	3	67	35	21	16	26	1.94
50635306--50635352	23	2.0	23	91	4	76	29	23	17	29	1.97
50639794--50639884	23	4.0	23	88	2	130	32	25	19	21	1.97
50647479--50647530	22	2.5	21	82	14	63	38	3	0	57	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50647489--50647524	11	3.3	11	84	0	54	44	5	0	50	1.25
50647489--50647530	22	2.0	21	90	4	66	40	4	0	54	1.21
50648013--50649349	228	5.9	228	87	1	1453	21	24	23	29	1.99
50648013--50649349	684	2.0	684	83	1	1714	21	24	23	29	1.99
50652569--50652664	27	3.6	27	85	2	77	31	21	31	15	1.95
50652587--50652670	27	3.1	27	86	3	116	32	21	30	15	1.94
50653094--50653156	19	3.3	19	68	0	63	46	3	9	41	1.52
50654639--50654736	23	4.3	23	90	2	162	31	26	21	20	1.98
50654646--50654734	45	2.0	45	95	0	160	31	26	22	19	1.97
50662008--50662105	23	4.3	23	90	2	162	31	26	21	20	1.98

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