genome.fa.s18.2.7.7.80.10.50.1000.117.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  117  of  208  ( 24943 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)
38253476--38253534	17	3.6	16	71	11	57	8	11	1	77	1.05
38258639--38258677	16	2.3	18	86	8	55	69	0	2	28	1.02
38259010--38259066	20	2.8	21	73	10	55	26	21	15	36	1.93
38259868--38259913	22	2.0	23	84	12	60	34	2	8	54	1.43
38260200--38260294	46	2.1	46	97	0	181	21	6	24	48	1.73
38265425--38265542	43	2.8	41	81	8	121	28	23	20	27	1.99
38272933--38273144	40	5.3	39	79	5	237	27	27	20	24	1.99
38272933--38273144	80	2.7	79	88	0	316	27	27	20	24	1.99
38280985--38281196	40	5.3	39	81	6	248	27	27	20	24	1.99
38280985--38281196	80	2.7	79	90	2	327	27	27	20	24	1.99
38284855--38284895	21	2.0	21	85	4	57	63	7	9	19	1.48
38286760--38287199	224	2.0	225	98	0	846	28	13	20	37	1.91
38290497--38290550	26	2.2	24	80	12	56	42	3	9	44	1.54
38292691--38292803	56	2.0	56	92	0	190	52	12	8	26	1.68
38295667--38295786	41	2.9	42	82	4	138	29	19	22	29	1.98
38298553--38298627	34	2.2	34	100	0	150	38	8	13	40	1.74
38302053--38302077	2	12.5	2	100	0	50	52	48	0	0	1.00
38305268--38305293	7	3.7	7	100	0	52	84	0	0	15	0.62
38305433--38305463	16	2.0	15	93	6	53	45	0	0	54	0.99
38305429--38305472	14	3.1	14	81	9	54	38	0	0	61	0.96
38307341--38307491	76	2.0	75	93	1	257	45	19	9	25	1.80
38321538--38321576	17	2.3	17	100	0	78	38	20	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38325145--38325196	20	2.6	19	74	17	52	36	19	26	17	1.94
38325187--38325246	19	3.1	19	75	4	57	43	21	25	10	1.83
38326914--38327025	42	2.6	42	81	1	125	19	25	34	20	1.96
38334654--38334773	20	6.1	20	73	4	100	39	21	24	15	1.91
38335850--38335950	43	2.3	43	91	0	157	33	26	16	22	1.96
38338792--38338816	8	3.1	8	100	0	50	40	24	0	36	1.55
38339236--38339282	19	2.5	19	92	0	85	38	8	10	42	1.70
38340573--38340915	149	2.3	149	84	5	433	30	11	15	43	1.81
38340783--38341084	115	2.7	108	88	6	460	33	11	15	39	1.83
38341756--38341805	21	2.4	20	76	6	55	38	46	0	16	1.47
38341861--38341911	7	7.7	7	84	8	54	35	50	0	13	1.42
38342006--38342059	7	7.7	7	97	0	81	29	48	0	22	1.51
38341996--38342071	21	3.6	20	79	10	80	31	44	0	23	1.54
38341996--38342059	14	4.6	14	90	3	85	28	48	0	23	1.51
38341996--38342060	7	9.3	7	89	0	76	27	49	0	23	1.50
38342155--38342212	29	2.0	29	100	0	116	41	24	3	31	1.71
38342156--38342220	29	2.2	29	94	0	112	43	24	1	30	1.64
38342560--38342673	41	2.8	40	77	7	140	27	29	21	21	1.98
38357854--38357899	16	3.1	15	79	17	51	50	2	23	23	1.61
38358792--38358816	6	4.2	6	100	0	50	16	16	16	52	1.76
38364452--38364684	123	1.9	124	87	4	346	33	13	6	47	1.68
38369225--38369258	15	2.3	15	94	0	59	44	0	14	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38392414--38392480	21	3.1	21	78	2	80	37	28	22	11	1.90
38393298--38393339	7	5.9	7	83	8	50	73	0	2	23	0.94
38393299--38393339	16	2.5	17	82	17	52	73	0	2	24	0.96
38405686--38405816	50	2.6	51	84	8	185	40	12	13	33	1.82
38410298--38410334	17	2.2	17	90	9	58	75	0	5	18	0.99
38417372--38417397	13	2.0	13	100	0	52	23	38	15	23	1.92
38419197--38419246	26	1.9	26	84	8	66	54	20	12	14	1.71
38420749--38420836	29	3.1	29	72	9	72	35	20	19	25	1.96
38425135--38425181	24	2.0	24	100	0	94	46	19	4	29	1.68
38425141--38425193	24	2.2	24	86	6	72	45	22	5	26	1.74
38427450--38427516	25	2.7	25	83	0	80	25	19	25	29	1.98
38430443--38430593	33	4.6	32	71	24	125	30	29	20	19	1.97
38430468--38430520	26	2.0	26	100	0	106	26	33	22	16	1.96
38430395--38430723	103	3.2	102	87	1	464	30	29	21	18	1.97
38430642--38430723	27	2.8	27	80	10	83	32	31	21	13	1.92
38433615--38433658	22	2.0	22	90	0	70	27	31	11	29	1.91
38437978--38438312	102	3.3	103	88	1	494	31	28	20	20	1.97
38445878--38445970	29	3.2	29	71	14	84	36	21	17	24	1.94
38446826--38446851	12	2.2	12	100	0	52	0	7	7	84	0.77
38449438--38449615	27	6.6	27	84	6	207	27	15	27	29	1.96
38449435--38449615	82	2.2	81	84	4	231	27	16	27	29	1.97
38457643--38457810	26	6.5	26	80	10	175	27	15	28	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38457643--38457810	50	3.2	54	81	9	179	27	15	28	27	1.96
38473890--38474067	27	6.6	27	83	6	198	26	15	28	29	1.96
38473887--38474067	82	2.2	81	82	4	222	27	16	27	29	1.97
38480902--38480955	26	2.1	26	96	0	99	18	12	3	64	1.41
38481330--38481392	29	2.2	29	97	0	117	47	6	4	41	1.50
38481426--38481459	16	2.1	16	88	5	50	50	0	0	50	1.00
38512456--38512757	40	7.6	40	88	3	378	27	28	20	24	1.99
38512456--38512757	79	3.8	79	88	2	365	27	28	20	24	1.99
38512454--38512757	119	2.5	119	84	3	378	27	28	20	24	1.99
38528926--38529105	47	3.8	47	86	5	240	34	9	29	26	1.88
38532805--38532912	26	4.2	26	93	0	189	32	7	24	36	1.83
38538290--38538588	120	2.5	120	85	4	372	23	26	23	26	2.00
38538277--38538513	40	5.9	40	95	0	393	24	26	23	26	2.00
38538298--38538588	40	7.3	40	88	3	311	24	26	23	25	2.00
38538897--38538975	29	2.7	29	86	5	106	27	32	15	24	1.95
38538958--38539102	43	3.4	43	98	0	272	28	35	12	22	1.91
38541156--38541516	47	7.6	47	90	4	544	29	29	8	32	1.86
38545094--38545393	120	2.5	120	86	5	380	24	26	23	26	2.00
38545081--38545314	40	5.9	40	94	2	402	24	26	23	26	2.00
38545697--38545774	29	2.7	29	84	7	97	28	32	15	24	1.95
38545758--38545944	43	4.4	43	97	0	340	29	35	11	22	1.90
38547649--38547951	40	7.6	40	89	2	396	27	27	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38551277--38551687	25	16.3	25	69	16	152	30	2	19	46	1.65
38551330--38551502	59	2.9	58	88	6	222	33	3	19	43	1.67
38551298--38551733	16	25.5	17	68	16	155	30	2	20	46	1.65
38551455--38551493	19	2.1	19	85	9	53	30	0	17	51	1.46
38551473--38551654	43	4.3	41	75	14	145	28	2	19	48	1.63
38551490--38551707	52	4.2	50	80	11	251	27	2	21	48	1.63
38551455--38551707	52	4.9	49	79	12	219	28	2	20	48	1.62
38551638--38551723	19	4.8	17	76	17	77	26	1	22	50	1.56
38551726--38551754	12	2.5	12	94	5	51	41	0	10	48	1.37
38551288--38551733	9	52.0	9	69	15	252	30	2	20	46	1.65
38551842--38551900	21	2.9	19	83	16	66	52	1	1	44	1.21
38551855--38551901	20	2.3	20	86	10	69	55	0	2	42	1.12
38551851--38551903	21	2.5	22	87	9	83	56	0	1	41	1.10
38554472--38554523	27	1.9	27	88	7	79	44	11	0	44	1.40
38555833--38555892	30	2.0	31	90	3	95	43	11	0	45	1.40
38555833--38555889	27	2.0	29	86	10	82	45	12	0	42	1.41
38556580--38556734	41	3.8	41	80	8	165	32	28	21	18	1.96
38556779--38556879	40	2.5	40	83	1	123	23	22	22	30	1.99
38556779--38556912	40	3.3	40	81	4	110	22	23	22	31	1.98
38557497--38557532	9	4.0	9	96	0	63	41	0	0	58	0.98
38576685--38576977	50	5.7	51	77	10	226	23	27	21	27	1.99
38581824--38581971	25	6.0	25	76	7	131	18	28	19	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38581837--38581977	74	1.9	74	80	2	167	20	28	19	31	1.97
38581827--38581990	25	6.6	26	76	8	126	20	28	20	31	1.97
38583941--38584316	179	2.1	179	92	2	630	36	16	4	42	1.69
38609018--38609065	17	3.1	16	82	11	55	62	0	0	37	0.95
38610282--38610315	15	2.3	15	89	0	50	23	2	2	70	1.15
38610321--38610403	23	3.6	23	77	4	87	33	9	13	43	1.76
38612313--38612347	10	3.2	11	88	12	54	17	37	0	45	1.48
38612328--38612451	51	2.3	53	84	9	164	29	24	0	45	1.59
38614774--38614862	23	3.2	29	87	12	118	46	26	0	26	1.53
38614774--38614879	52	2.0	50	85	10	142	48	25	0	26	1.52

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