genome.fa.s16.2.7.7.80.10.50.1000.160.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  160  of  175  ( 20966 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)
48086198--48086258	10	5.8	10	80	7	59	80	0	19	0	0.72
48086425--48086456	16	2.0	16	93	0	55	34	0	0	65	0.93
48086871--48086912	20	2.0	22	90	9	70	42	11	2	42	1.54
48086903--48087449	18	30.7	18	73	11	396	30	13	11	43	1.80
48086917--48087446	109	4.9	107	76	10	396	30	14	12	43	1.81
48086903--48087448	35	15.3	35	74	12	384	30	13	11	43	1.80
48089067--48089175	45	2.4	44	78	12	107	50	9	20	20	1.75
48089147--48089185	19	2.0	20	90	5	62	41	15	28	15	1.87
48089303--48089359	20	2.9	19	73	17	53	52	10	19	17	1.73
48090132--48090190	20	2.9	21	77	12	59	50	10	18	20	1.75
48090949--48091013	31	2.1	31	88	5	96	47	3	12	36	1.57
48098213--48098245	17	2.0	17	88	5	50	27	6	12	54	1.60
48098721--48098773	6	8.8	6	95	0	88	62	0	0	37	0.96
48098777--48098817	12	3.2	13	80	13	50	34	0	0	65	0.93
48101885--48101927	3	14.3	3	100	0	86	32	34	0	32	1.58
48105196--48105269	26	2.8	26	71	15	64	66	0	8	25	1.19
48106411--48106467	23	2.5	23	86	8	73	14	7	40	38	1.73
48115505--48115559	27	2.0	28	85	3	76	10	30	23	34	1.89
48123949--48124056	51	2.1	51	85	0	153	28	23	19	28	1.98
48124566--48125237	114	5.9	114	90	2	1014	25	22	26	25	2.00
48125485--48125515	15	2.1	15	93	0	53	19	0	45	35	1.51
48125755--48125796	14	2.9	15	82	7	50	28	2	35	33	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48125795--48125839	21	2.1	22	91	4	74	22	0	42	35	1.54
48125816--48125844	15	1.9	15	100	0	58	20	0	44	34	1.52
48125825--48125864	20	1.9	21	85	10	55	25	0	42	32	1.55
48126636--48126847	106	2.0	107	91	0	345	46	12	11	29	1.77
48126895--48127623	154	4.8	153	88	4	1033	52	7	10	29	1.64
48126895--48127623	307	2.4	307	91	0	1192	52	7	10	29	1.64
48130882--48130928	21	2.4	19	77	16	51	31	0	2	65	1.04
48130887--48130928	21	2.0	21	90	4	68	33	0	0	66	0.92
48131191--48131247	25	2.2	26	87	3	80	52	1	1	43	1.21
48133157--48133321	83	2.0	83	100	0	330	37	18	9	33	1.84
48143288--48143319	16	2.0	16	100	0	64	43	0	12	43	1.42
48144259--48144313	27	2.3	23	80	20	60	41	0	3	54	1.18
48144572--48144654	33	2.5	34	84	7	107	44	8	4	42	1.56
48144636--48144677	16	2.6	16	92	0	66	42	7	2	47	1.43
48145895--48145944	21	2.4	22	80	10	59	62	0	12	26	1.30
48150103--48150439	44	7.7	44	69	6	150	23	25	20	30	1.99
48150079--48150524	217	2.1	217	88	3	657	25	23	20	30	1.99
48150440--48151071	141	4.5	142	87	3	877	27	20	18	33	1.96
48152556--48152616	7	9.0	7	79	13	74	14	14	0	70	1.17
48152556--48152616	13	4.5	14	83	8	74	14	14	0	70	1.17
48152563--48152616	20	2.7	20	82	2	72	14	14	0	70	1.17
48157732--48157781	21	2.4	22	80	10	59	62	0	12	26	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48168103--48168142	6	7.0	6	88	11	66	65	0	0	35	0.93
48168110--48168145	10	3.4	10	85	14	54	61	0	0	38	0.96
48168103--48168145	22	2.0	22	100	0	86	62	0	0	37	0.95
48168104--48168136	16	2.1	16	100	0	66	63	0	0	36	0.95
48169937--48169981	22	2.0	23	86	8	65	44	2	4	48	1.35
48174693--48174734	7	6.1	7	80	5	50	14	50	0	35	1.43
48183842--48183866	12	2.1	12	100	0	50	16	0	36	48	1.46
48184009--48184045	15	2.5	15	95	0	65	54	5	21	18	1.64
48184994--48185082	32	2.8	31	84	3	115	52	6	10	30	1.61
48185080--48185131	23	2.4	22	90	6	79	57	15	11	15	1.65
48201510--48201538	6	5.0	6	91	8	51	0	13	0	86	0.58
48201510--48201540	11	2.7	11	95	5	53	0	12	0	87	0.55
48208042--48208084	21	2.0	21	82	8	52	23	18	27	30	1.98
48216785--48216842	30	2.0	28	83	9	73	44	1	5	48	1.35
48238877--48238909	17	2.0	16	94	5	57	51	0	0	48	1.00
48242570--48242596	2	13.5	2	100	0	54	48	0	51	0	1.00
48245639--48245672	18	1.9	17	94	5	59	55	0	0	44	0.99
48250302--48250353	20	2.6	21	78	6	63	38	23	3	34	1.73
48254110--48254218	57	1.9	57	88	3	166	30	19	26	23	1.98
48255145--48255203	9	6.4	9	79	11	57	23	10	23	42	1.85
48257132--48257164	16	2.1	16	100	0	66	0	27	12	60	1.32
48273933--48273962	15	2.0	15	93	0	51	40	3	13	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48289744--48289795	22	2.5	22	78	15	56	48	0	3	48	1.20
48291411--48291621	105	2.0	105	98	0	404	38	9	6	45	1.64
48293068--48293108	20	2.0	21	90	4	66	56	0	4	39	1.21
48295886--48295977	19	4.8	19	91	0	139	40	8	13	38	1.75
48295886--48296003	19	5.9	21	87	5	99	38	7	14	38	1.75
48299571--48299602	8	3.8	9	92	8	50	81	0	6	12	0.87
48299599--48299641	9	4.9	9	86	8	54	48	2	0	48	1.14
48308491--48308578	20	4.4	20	75	9	74	44	5	5	44	1.51
48308798--48308854	20	2.9	20	76	2	53	42	5	12	40	1.65
48308832--48308919	20	4.4	19	73	12	70	32	6	15	44	1.73
48308833--48308920	39	2.2	41	82	8	101	32	6	15	44	1.73
48308966--48309012	20	2.3	20	92	0	76	44	10	10	34	1.74
48308960--48309017	20	2.9	19	84	5	71	41	12	10	36	1.76
48310661--48310732	31	2.3	30	77	11	74	29	23	11	36	1.89
48326969--48327008	20	2.0	20	90	0	62	30	10	10	50	1.69
48326954--48327020	34	1.9	35	84	3	91	34	8	10	46	1.70
48327981--48328026	23	2.0	24	82	4	58	32	26	0	41	1.56
48329067--48329101	5	7.0	5	87	12	54	60	0	0	40	0.97
48329067--48329101	14	2.4	14	90	9	52	60	0	0	40	0.97
48331075--48331131	25	2.3	25	79	8	64	14	10	12	63	1.53
48333428--48333485	21	2.7	22	78	7	66	15	15	10	58	1.62
48342171--48342196	12	2.2	12	100	0	52	30	7	19	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48344969--48345014	21	2.2	21	88	7	67	30	43	2	23	1.66
48348888--48348944	3	19.0	3	87	0	51	33	8	1	56	1.41
48358982--48359139	74	2.1	74	91	1	255	22	12	10	54	1.68
48359412--48359972	114	4.9	111	77	10	463	30	18	24	26	1.98
48360078--48360113	18	2.0	18	89	10	56	25	0	5	69	1.10
48360220--48360257	20	1.9	20	89	10	60	47	2	0	50	1.15
48360423--48360449	14	1.9	14	100	0	54	29	0	25	44	1.54
48363429--48363567	67	2.1	67	95	2	253	36	5	12	45	1.65
48363702--48363826	36	3.3	35	70	23	110	40	6	3	50	1.44
48363609--48363849	78	3.0	79	86	7	276	39	6	3	51	1.44
48363700--48363848	78	1.9	78	100	0	298	39	6	4	49	1.48
48363780--48363848	34	2.0	36	82	5	88	39	7	4	49	1.50
48363879--48363927	13	3.8	12	82	15	53	44	10	2	42	1.49
48364175--48364376	16	12.1	16	64	24	71	47	18	2	31	1.62
48364268--48364489	9	25.4	9	68	14	135	45	20	2	31	1.65
48364310--48364360	25	2.0	25	88	0	75	52	19	0	27	1.46
48364309--48364435	62	2.0	62	82	7	150	47	22	0	29	1.57
48364412--48364467	25	2.2	25	83	0	67	44	21	1	32	1.63
48370014--48370063	21	2.4	21	82	0	64	36	16	44	4	1.66
48370483--48370586	43	2.4	43	79	4	122	26	19	20	33	1.96
48370570--48370604	18	1.9	18	94	0	61	37	28	22	11	1.89
48370528--48370647	60	2.0	61	88	1	179	26	22	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48370380--48370668	103	2.7	106	82	5	338	25	21	22	30	1.99
48370587--48370670	43	2.0	43	97	0	159	21	22	23	32	1.98
48378252--48378339	44	2.0	44	100	0	176	38	11	20	29	1.87
48380820--48380849	15	2.0	15	93	0	51	46	3	16	33	1.64
48392940--48393028	44	2.0	43	89	2	133	42	6	6	43	1.57
48392942--48393014	21	3.4	21	72	7	74	39	6	5	47	1.53
48392942--48393012	23	3.2	22	67	16	65	40	7	5	46	1.54
48395202--48395260	29	2.0	30	83	6	77	55	1	6	35	1.36
48397726--48397786	31	2.0	31	86	0	86	42	8	9	39	1.68
48409687--48409782	49	2.0	49	83	6	124	34	4	15	45	1.65

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