genome.fa.s17.2.7.7.80.10.50.1000.125.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  125  of  185  ( 22116 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)
39098259--39098293	6	5.8	6	86	0	52	17	22	17	42	1.88
39110444--39110742	45	6.6	45	72	11	182	30	20	22	26	1.98
39110849--39110932	44	1.9	44	87	0	123	28	22	22	26	1.99
39110859--39110961	44	2.3	44	83	3	118	28	22	25	24	1.99
39110626--39111106	181	2.6	180	88	4	657	31	21	20	26	1.98
39110991--39111161	89	1.9	89	85	2	236	30	19	21	28	1.97
39115968--39116046	22	3.5	22	81	11	81	34	7	2	55	1.42
39115968--39116060	22	4.2	21	78	14	80	32	6	4	56	1.44
39116039--39116122	41	2.0	41	95	0	150	33	2	7	57	1.39
39120168--39120307	42	3.3	42	78	5	129	29	24	19	27	1.98
39120151--39120307	43	3.7	42	79	4	145	28	25	19	26	1.99
39124448--39124770	155	2.1	157	85	4	440	34	15	12	37	1.85
39124448--39124770	77	4.1	78	83	4	402	34	15	12	37	1.85
39124767--39125012	85	2.9	84	85	5	329	30	10	11	46	1.74
39124769--39125049	85	3.4	83	80	7	311	32	9	12	46	1.73
39125088--39125185	46	2.1	47	79	9	112	30	13	13	42	1.82
39131381--39131426	22	2.0	22	83	4	56	41	28	0	30	1.56
39134912--39134971	20	2.8	20	85	7	66	76	1	21	0	0.87
39134912--39134971	6	9.7	6	74	18	52	76	1	21	0	0.87
39134932--39134971	13	3.3	13	80	20	59	82	0	17	0	0.67
39134935--39134966	17	1.9	17	93	6	57	84	0	15	0	0.63
39134950--39135050	41	2.6	38	76	11	98	61	0	34	2	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39135031--39135060	14	2.1	14	93	0	51	76	0	16	6	0.99
39135058--39135096	20	2.0	19	95	5	69	20	0	7	71	1.10
39135280--39136806	158	9.7	159	90	4	2271	54	8	8	28	1.60
39135280--39136806	320	4.9	317	89	4	2241	54	8	8	28	1.60
39139100--39139141	8	5.4	8	80	5	50	50	23	0	26	1.50
39140588--39140651	32	2.0	32	100	0	128	28	37	18	15	1.92
39141130--39141192	29	2.2	29	97	0	117	28	26	12	31	1.93
39142773--39142809	3	12.3	3	100	0	74	32	0	0	67	0.91
39143249--39143337	25	3.4	25	66	14	70	30	3	7	58	1.43
39143236--39143345	55	2.0	55	98	0	211	30	3	8	58	1.45
39145054--39145114	14	3.9	15	72	12	52	68	4	3	22	1.23
39145205--39145255	15	3.4	15	86	5	59	64	11	0	23	1.26
39145218--39145257	3	13.3	3	94	0	53	67	7	0	25	1.16
39145236--39145336	40	2.7	37	77	16	109	51	6	6	34	1.56
39145642--39145695	21	2.4	21	84	9	63	5	27	0	66	1.13
39145708--39145748	3	13.7	3	94	0	73	0	63	0	36	0.95
39145810--39145906	40	2.4	40	81	6	108	39	19	18	22	1.93
39146363--39146409	14	3.3	15	82	8	62	27	0	31	40	1.57
39146396--39146451	21	2.6	21	83	8	60	21	0	41	37	1.53
39146426--39146491	15	4.5	15	76	14	50	25	1	39	33	1.65
39146456--39146494	15	2.7	15	88	4	53	28	0	35	35	1.58
39146726--39146773	7	6.9	7	78	0	51	22	2	45	29	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39146726--39146771	21	2.2	21	88	0	65	23	2	43	30	1.66
39147019--39147104	23	3.6	24	76	14	97	53	0	4	41	1.21
39147055--39147116	12	5.5	11	76	17	56	51	0	4	43	1.23
39152094--39152210	43	2.8	40	80	11	119	26	17	26	29	1.98
39152990--39153028	19	2.1	19	85	9	53	64	0	2	33	1.08
39154816--39154843	3	9.3	3	100	0	56	67	0	32	0	0.91
39156650--39156674	13	1.9	13	100	0	50	40	24	4	32	1.73
39159578--39159631	23	2.2	24	75	15	58	48	11	25	14	1.77
39159621--39159659	20	2.0	20	84	0	51	58	15	17	7	1.59
39159952--39160137	95	2.0	94	84	4	241	41	6	15	36	1.74
39160215--39160398	94	2.0	94	85	4	255	41	6	14	36	1.72
39161172--39161223	21	2.5	22	81	9	56	34	1	5	57	1.33
39161159--39161234	31	2.6	29	77	8	82	35	1	3	59	1.24
39161304--39161332	15	2.0	15	93	6	51	27	0	0	72	0.85
39164530--39164573	13	3.5	13	84	9	56	45	2	0	52	1.13
39174069--39174107	19	2.1	19	85	0	51	43	0	5	51	1.24
39175007--39175054	21	2.3	21	77	0	51	35	2	16	45	1.59
39185435--39185473	19	2.1	19	85	9	53	33	5	15	46	1.68
39187830--39187867	18	2.1	18	100	0	76	10	13	26	50	1.73
39188199--39188270	36	2.0	36	100	0	144	36	13	5	44	1.68
39188525--39188575	20	2.6	20	81	9	61	19	5	5	68	1.31
39188831--39188881	21	2.3	23	80	12	63	37	0	5	56	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39189984--39190066	27	3.0	27	73	15	80	45	1	4	48	1.31
39197823--39197849	11	2.5	11	100	0	54	44	11	7	37	1.68
39198100--39198131	15	2.1	15	94	0	55	68	9	6	15	1.36
39201478--39201504	13	2.1	13	100	0	54	40	29	14	14	1.86
39209577--39209621	22	2.0	22	83	8	56	44	4	0	51	1.21
39217144--39217237	46	2.0	46	100	0	188	31	10	20	37	1.87
39217797--39217855	18	3.3	18	81	6	59	69	0	0	30	0.89
39218341--39218467	19	6.5	19	81	6	155	40	7	12	40	1.70
39218335--39218444	38	2.9	38	97	0	202	41	8	10	39	1.70
39218347--39218501	19	7.7	21	84	4	101	38	5	13	41	1.68
39218436--39218501	21	3.0	21	91	4	96	34	4	15	45	1.66
39221587--39221613	3	9.0	3	100	0	54	33	0	33	33	1.58
39234223--39234250	7	4.0	7	100	0	56	28	28	0	42	1.56
39243570--39243694	45	2.8	46	80	9	125	44	13	20	20	1.85
39243617--39243723	45	2.4	45	80	3	126	43	13	21	21	1.86
39249528--39249604	33	2.3	33	97	0	145	44	32	11	11	1.77
39250853--39251031	29	6.1	29	80	7	112	25	27	12	34	1.92
39250853--39250937	30	2.9	30	86	8	104	20	28	15	36	1.92
39250926--39251053	29	4.4	29	87	0	175	29	27	8	34	1.87
39251538--39251575	19	2.1	18	85	14	51	52	10	0	36	1.36
39258903--39258946	23	1.9	23	90	0	70	61	4	2	31	1.28
39258907--39258949	11	3.8	11	80	17	52	65	2	2	30	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39259562--39259594	17	1.9	17	100	0	66	9	6	24	60	1.49
39270087--39270190	52	2.0	52	100	0	208	26	30	9	32	1.89
39272570--39272671	2	51.5	2	98	1	197	50	0	49	0	1.00
39273929--39273980	26	2.0	26	100	0	104	42	19	11	26	1.85
39276264--39276304	14	3.1	13	83	16	57	34	0	4	60	1.18
39288480--39288740	129	2.0	129	86	1	362	36	13	20	29	1.91
39291020--39291048	14	2.1	14	100	0	58	20	6	13	58	1.58
39299089--39299138	9	5.3	9	85	7	64	20	6	0	74	1.03
39299133--39299176	21	2.0	22	91	4	72	38	2	0	59	1.10
39301251--39301291	21	2.0	20	90	4	64	17	0	4	78	0.93
39301274--39301334	23	2.7	22	81	18	72	18	3	8	70	1.26
39316354--39316430	33	2.3	33	84	0	91	63	9	14	12	1.51
39316371--39316421	22	2.3	22	83	6	59	64	5	15	13	1.46
39317695--39317731	18	2.1	18	89	0	56	59	10	5	24	1.52
39318709--39318750	11	3.9	11	81	6	59	50	0	0	50	1.00
39318925--39318998	19	3.8	19	80	3	76	33	4	1	60	1.24
39318909--39319042	9	14.4	9	69	12	74	29	2	2	64	1.23
39321468--39321586	40	3.1	39	75	14	120	33	21	15	29	1.94
39321465--39321600	40	3.4	41	72	16	117	33	22	15	28	1.95
39321736--39321785	15	3.2	15	76	20	57	50	14	0	36	1.43
39321763--39321809	24	2.0	24	84	16	62	51	17	0	31	1.46
39323846--39323898	7	7.1	7	78	16	54	28	5	0	66	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39324040--39324073	16	2.1	16	88	0	50	41	2	11	44	1.56
39325324--39325375	21	2.3	23	87	6	72	57	3	0	38	1.17
39325828--39325867	21	1.9	21	85	10	55	37	0	2	60	1.11
39326584--39326641	25	2.2	25	78	6	62	39	0	0	60	0.97
39326595--39326656	26	2.4	25	81	10	70	32	0	0	67	0.91
39331455--39331532	22	3.5	22	69	19	61	34	12	19	33	1.90
39331544--39331620	39	2.0	39	84	5	102	41	15	23	19	1.89
39331553--39331650	39	2.5	39	79	0	97	40	16	21	21	1.91
39331583--39331882	93	3.2	93	86	1	379	39	16	21	23	1.92
39331807--39332051	54	4.5	54	81	0	265	39	16	19	24	1.92

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