genome.fa.s25.2.7.7.80.10.50.1000.71.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  71  of  214  ( 25680 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)
20293457--20293481	2	12.5	2	100	0	50	48	0	0	52	1.00
20300702--20301351	332	1.9	334	90	2	1043	24	12	22	39	1.89
20303082--20303119	18	2.1	18	90	0	58	21	26	13	39	1.89
20304143--20304241	3	33.0	3	100	0	198	0	33	0	66	0.92
20305737--20305795	17	3.4	17	71	17	57	57	3	3	35	1.32
20318735--20318819	18	4.6	17	76	20	64	38	1	3	56	1.24
20318971--20319064	46	2.1	44	84	11	120	38	24	3	34	1.72
20334705--20334738	16	2.1	16	88	0	50	26	8	0	64	1.22
20336105--20336214	22	5.0	22	70	8	89	38	25	12	23	1.90
20336105--20336217	44	2.6	44	84	2	147	38	24	12	23	1.90
20344119--20344330	29	7.3	29	77	10	177	36	13	25	24	1.92
20344170--20344362	87	2.2	87	81	5	212	37	12	25	23	1.91
20344141--20344419	116	2.4	116	87	1	371	36	13	26	23	1.92
20344203--20344419	29	7.4	29	79	5	179	36	12	27	22	1.91
20344223--20344418	87	2.2	88	78	6	202	37	14	26	22	1.92
20344351--20344435	30	2.9	30	85	1	100	36	15	28	20	1.92
20344315--20344435	59	2.1	58	81	7	138	36	15	26	21	1.93
20352857--20352891	16	2.2	16	94	0	61	17	0	17	65	1.27
20354856--20354897	20	2.2	19	87	8	59	57	2	11	28	1.47
20354865--20354911	20	2.3	20	88	0	67	59	2	8	29	1.39
20356705--20357031	44	7.5	44	70	11	120	23	24	22	29	1.99
20356883--20356990	43	2.5	44	77	13	107	22	22	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20356826--20357007	87	2.1	86	78	8	190	21	24	20	33	1.97
20357124--20357474	87	4.0	87	89	1	515	23	22	22	31	1.98
20357239--20357376	44	3.2	44	66	17	124	27	24	21	26	1.99
20365961--20366037	31	2.5	29	83	8	82	9	9	10	71	1.32
20365991--20366044	18	2.9	18	72	5	54	9	5	9	75	1.17
20370576--20370622	20	2.3	20	88	0	67	59	2	8	29	1.39
20372206--20372255	24	2.1	23	82	10	57	36	2	2	60	1.20
20372265--20372311	20	2.5	19	80	10	53	38	0	2	59	1.09
20372240--20372395	61	2.6	58	79	10	156	40	1	2	55	1.21
20375556--20375615	19	3.2	19	85	2	86	66	0	1	31	1.01
20375563--20375614	9	5.8	9	73	8	52	71	0	1	26	0.97
20375921--20375981	30	2.0	30	87	0	86	42	11	6	39	1.67
20377525--20377740	77	2.8	77	87	3	310	53	10	9	26	1.66
20378501--20378547	24	2.0	24	86	0	67	23	21	6	48	1.72
20380312--20380345	16	2.1	16	94	0	59	41	2	5	50	1.42
20381447--20381489	12	3.7	11	82	11	50	55	11	2	30	1.48
20382157--20382232	35	2.2	35	92	0	125	42	1	2	53	1.23
20382177--20382231	15	3.6	15	72	18	51	41	1	3	52	1.29
20383749--20383807	17	3.5	17	75	17	52	47	1	1	49	1.21
20386840--20386876	18	2.1	18	100	0	74	37	5	0	56	1.22
20395199--20395231	15	2.2	15	100	0	66	60	0	0	39	0.97
20395623--20395709	44	2.0	44	100	0	174	36	20	13	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20402337--20402732	33	11.2	35	64	21	123	57	0	7	34	1.30
20402253--20402749	72	7.0	71	88	4	716	57	0	7	34	1.31
20402291--20402740	18	25.4	16	68	18	102	58	0	7	33	1.29
20402253--20402749	141	3.5	142	90	4	761	57	0	7	34	1.31
20402668--20402708	16	2.4	18	84	15	61	53	0	12	34	1.38
20402751--20402795	5	8.8	5	90	9	65	77	0	22	0	0.76
20402751--20402791	8	5.2	8	83	16	59	78	0	21	0	0.76
20402756--20402795	13	3.1	13	86	13	64	77	0	22	0	0.77
20407207--20407429	40	5.6	39	80	5	198	27	27	20	24	1.99
20407207--20407353	79	1.9	80	89	1	233	27	27	19	24	1.99
20407205--20407429	80	2.8	79	82	6	240	27	28	20	24	1.99
20407207--20407429	120	1.9	119	82	4	279	27	27	20	24	1.99
20425737--20425921	40	4.7	40	79	7	191	24	22	27	25	2.00
20425737--20425921	79	2.3	81	81	7	209	24	22	27	25	2.00
20433657--20433898	39	6.1	39	85	8	230	26	21	26	25	2.00
20433657--20433879	118	1.9	119	80	10	269	25	21	26	25	2.00
20433657--20433898	79	3.1	78	79	11	260	26	21	26	25	2.00
20437643--20437668	13	2.0	13	100	0	52	69	15	0	15	1.20
20460334--20460385	27	1.9	27	88	0	77	30	17	15	36	1.91
20460345--20460541	27	7.3	27	83	2	218	26	16	15	41	1.88
20460345--20460541	107	1.8	108	85	5	283	26	16	15	41	1.88
20462039--20462092	25	2.2	25	93	0	90	20	48	9	22	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20462043--20462098	25	2.4	23	85	8	69	19	48	10	21	1.79
20464702--20465237	266	2.0	266	94	0	930	35	22	19	22	1.96
20469685--20469735	25	2.0	26	85	11	70	49	3	13	33	1.61
20469690--20469747	25	2.3	25	79	5	64	48	5	15	31	1.67
20474021--20474194	94	1.9	93	88	1	267	44	5	9	40	1.60
20477016--20477093	32	2.5	32	87	2	104	38	21	20	19	1.94
20477240--20477293	24	2.2	24	90	0	81	44	27	12	14	1.82
20477352--20477697	27	12.9	27	82	0	352	27	21	18	32	1.96
20480604--20480663	22	2.7	21	75	12	59	40	20	23	16	1.91
20480660--20480767	32	3.4	32	75	14	123	36	24	21	18	1.95
20480769--20480822	26	2.1	26	89	0	81	37	24	22	16	1.94
20480941--20480995	24	2.3	24	83	0	65	47	29	5	18	1.71
20480952--20481000	24	2.0	24	92	0	80	46	28	4	20	1.68
20481021--20481294	27	10.2	27	75	5	223	26	20	17	35	1.95
20481086--20481294	54	3.9	54	81	2	258	27	19	18	34	1.95
20481085--20481293	108	1.9	108	88	1	312	27	19	18	34	1.95
20483152--20483187	15	2.4	15	90	0	54	2	11	33	52	1.51
20494256--20494338	39	2.1	39	95	0	148	28	21	14	34	1.93
20495938--20495967	15	2.0	15	100	0	60	26	6	20	46	1.75
20501594--20501618	12	2.1	12	100	0	50	28	40	24	8	1.83
20503126--20503316	49	3.7	52	80	8	176	26	22	28	22	1.99
20507842--20508124	33	8.6	33	68	23	136	35	27	18	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20507797--20508129	102	3.3	101	92	2	533	34	27	18	20	1.95
20508075--20508126	26	2.0	26	96	0	95	28	30	21	19	1.97
20508152--20508281	51	2.5	51	93	0	215	31	24	20	23	1.98
20514346--20515104	376	2.0	375	97	0	1446	37	13	22	26	1.92
20521497--20521552	25	2.2	25	83	0	67	21	26	17	33	1.96
20521509--20521565	25	2.3	25	84	0	69	22	22	24	29	1.99
20532593--20532626	14	2.3	15	90	5	52	44	0	5	50	1.26
20534911--20534957	16	2.8	17	83	6	60	19	14	14	51	1.77
20540891--20540923	17	1.9	17	93	0	57	12	36	30	21	1.90
20542993--20543251	138	1.9	137	82	4	324	32	22	20	24	1.98
20549574--20549603	4	7.5	4	100	0	60	23	0	0	76	0.78
20551417--20551455	20	2.0	20	89	0	60	17	17	5	58	1.56
20551658--20551859	50	3.9	50	81	4	206	24	29	20	25	1.99
20551659--20551906	56	4.6	56	83	4	241	25	29	19	25	1.99
20555747--20555897	40	3.8	40	83	1	169	23	28	13	34	1.93
20562380--20562462	20	4.2	20	67	11	62	22	32	19	25	1.97
20562398--20562485	40	2.2	40	85	4	115	21	29	18	30	1.97
20578890--20578948	31	1.9	31	86	6	84	49	15	28	6	1.70
20585827--20585905	39	2.0	39	100	0	158	31	25	5	37	1.78
20589935--20590176	121	2.0	121	99	0	475	26	23	18	30	1.98
20592643--20592686	18	2.3	19	85	14	56	31	4	2	61	1.28
20598842--20599005	29	5.7	29	80	5	129	39	18	16	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20598865--20599025	29	5.6	29	77	5	123	37	20	15	26	1.92
20599048--20599124	29	2.8	28	78	20	81	40	22	14	23	1.90
20599059--20599124	29	2.4	27	85	12	82	39	25	15	19	1.91
20604729--20604906	25	7.2	25	73	9	107	34	21	25	18	1.96
20604706--20604846	73	1.9	73	84	8	189	31	21	26	19	1.98
20604785--20604886	26	4.2	23	78	8	78	35	20	24	19	1.96
20604832--20604881	26	1.9	26	95	0	91	38	20	22	20	1.94
20604682--20604906	25	9.1	26	69	14	93	35	21	24	19	1.96
20606762--20606819	25	2.3	26	79	8	66	20	34	0	44	1.52
20614098--20614136	17	2.2	17	86	4	51	56	5	0	38	1.22

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