genome.fa.s16.2.7.7.80.10.50.1000.167.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  167  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)
50297163--50297243	38	2.2	38	93	2	137	40	2	3	53	1.32
50297439--50297728	27	11.8	25	76	18	281	53	12	1	32	1.47
50297386--50297730	49	7.1	49	86	4	452	53	13	1	31	1.47
50297383--50297731	145	2.4	145	89	1	522	53	13	1	31	1.47
50297386--50297732	96	3.6	98	88	3	481	53	13	1	31	1.47
50297772--50297854	19	4.2	19	75	13	78	54	13	1	31	1.47
50297384--50297845	27	20.0	20	66	25	108	53	13	1	31	1.47
50297767--50297852	20	4.2	21	78	13	81	56	12	1	29	1.43
50298176--50298241	27	2.4	27	92	0	114	12	37	22	27	1.90
50303283--50303308	13	2.0	13	100	0	52	53	7	7	30	1.57
50306229--50306257	13	2.3	13	94	5	51	24	0	3	72	1.00
50308333--50308374	14	3.1	14	76	13	52	23	2	0	73	0.94
50308333--50308388	23	2.3	26	84	9	73	26	1	0	71	0.96
50308333--50308388	13	4.6	12	75	18	53	26	1	0	71	0.96
50313319--50313365	23	2.0	23	91	0	76	29	0	4	65	1.11
50314066--50314131	33	2.0	33	88	5	98	42	24	10	22	1.85
50315405--50315434	15	1.9	16	93	6	53	63	0	0	36	0.95
50319067--50319092	11	2.4	11	100	0	52	50	7	42	0	1.31
50319748--50319784	6	6.2	6	87	0	56	37	0	10	51	1.37
50319748--50319784	18	2.1	18	94	0	65	37	0	10	51	1.37
50319939--50319987	23	2.0	26	88	11	77	48	0	20	30	1.50
50324327--50324389	33	1.9	33	87	6	92	41	23	11	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50325614--50325670	29	2.0	29	82	0	69	40	7	7	45	1.58
50335582--50335617	2	18.0	2	100	0	72	50	0	50	0	1.00
50337059--50337089	6	5.2	6	100	0	62	0	0	16	83	0.64
50338036--50338075	16	2.3	18	91	8	66	42	5	0	52	1.23
50338281--50338347	30	2.3	29	79	7	73	52	1	2	43	1.25
50338339--50338404	19	3.3	19	77	10	53	62	1	4	31	1.25
50339425--50339629	10	21.3	9	70	17	76	33	1	4	60	1.25
50339416--50339614	19	10.4	18	66	16	62	33	1	4	61	1.23
50339503--50339621	48	2.5	47	81	10	134	36	0	2	60	1.10
50339584--50339658	18	3.9	18	69	20	53	29	4	1	65	1.19
50340784--50340831	13	3.7	13	100	0	96	20	8	29	41	1.81
50342845--50342996	75	2.1	72	86	6	207	57	13	4	23	1.55
50343448--50343513	18	3.7	18	97	0	123	37	12	13	36	1.82
50345386--50345415	7	4.3	7	95	0	51	53	13	33	0	1.40
50345933--50345959	5	5.4	5	100	0	54	81	0	0	18	0.69
50346632--50346693	26	2.3	27	81	10	74	59	1	1	37	1.17
50350351--50350459	54	2.0	54	100	0	218	28	25	5	40	1.78
50362045--50362109	32	2.0	32	100	0	130	24	24	13	36	1.92
50363680--50363747	32	2.1	32	94	5	120	30	17	19	32	1.95
50365067--50365110	21	2.2	20	84	8	54	54	11	22	11	1.68
50365386--50367232	76	24.1	74	81	7	1688	28	16	20	34	1.95
50365385--50367232	154	12.1	153	83	6	2040	28	16	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50367356--50367392	16	2.2	17	90	9	67	54	13	5	27	1.61
50368587--50368631	13	3.5	13	84	0	54	60	2	2	35	1.22
50368656--50368709	28	1.9	29	82	14	69	46	3	3	46	1.38
50372652--50372685	17	2.0	17	88	0	50	58	0	2	38	1.13
50372929--50372954	10	2.6	10	100	0	52	34	0	0	65	0.93
50373373--50373425	26	2.0	27	96	3	99	30	18	3	47	1.67
50375398--50375486	26	3.4	26	81	7	92	32	2	3	61	1.24
50375642--50375688	14	3.1	15	72	27	53	29	4	2	63	1.25
50380126--50380162	15	2.4	15	95	4	65	83	2	13	0	0.74
50381268--50381556	50	5.8	50	72	4	242	31	22	21	23	1.98
50381271--50381604	100	3.3	100	84	1	445	33	22	20	23	1.97
50381271--50381621	50	7.0	50	72	0	225	33	21	20	24	1.97
50381639--50381975	44	7.8	44	76	9	262	30	19	21	27	1.98
50381637--50381976	88	3.9	88	79	8	322	30	20	21	27	1.98
50383377--50383465	26	3.4	26	81	7	92	32	2	3	61	1.24
50386883--50386941	26	2.2	26	82	8	66	38	3	0	57	1.15
50387700--50387744	13	3.5	13	84	0	54	60	2	2	35	1.22
50387769--50387822	28	1.9	29	82	14	69	46	3	3	46	1.38
50388433--50388466	5	6.8	5	100	0	68	38	0	0	61	0.96
50389555--50389594	13	3.0	13	86	13	55	25	0	30	45	1.54
50389551--50389585	13	2.6	14	86	13	56	28	0	25	45	1.54
50389781--50389810	14	2.1	14	100	0	60	50	0	16	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50392064--50392108	22	2.0	23	95	4	83	26	22	4	46	1.70
50393589--50393637	3	16.3	3	91	0	80	61	0	38	0	0.96
50393978--50394064	40	2.3	38	84	11	108	32	4	10	52	1.56
50399093--50399830	149	4.9	147	78	9	739	30	10	6	52	1.62
50399100--50399830	300	2.4	296	88	4	1096	30	10	6	52	1.62
50400184--50400228	20	2.2	21	88	11	67	0	28	0	71	0.87
50400176--50400238	24	2.5	25	84	5	83	0	33	0	66	0.92
50400177--50400248	24	3.2	24	71	11	64	0	36	0	63	0.94
50401665--50401709	22	2.1	21	95	4	81	22	8	6	62	1.48
50402983--50403034	22	2.3	23	87	9	72	42	1	3	51	1.31
50408175--50408220	23	2.0	23	87	8	67	65	13	6	15	1.46
50409975--50410518	88	6.1	88	81	4	567	29	25	16	27	1.97
50410067--50410528	132	3.5	131	88	2	606	29	25	16	27	1.97
50409969--50410528	44	12.7	44	77	6	495	29	25	16	27	1.97
50422874--50422919	23	2.0	23	87	8	67	65	13	6	15	1.46
50426835--50426887	27	1.9	28	85	11	74	47	3	3	45	1.39
50427757--50427818	31	2.0	31	100	0	124	35	9	19	35	1.85
50431381--50431425	22	2.0	23	95	4	83	26	22	4	46	1.70
50440120--50440160	17	2.4	17	87	0	55	60	2	7	29	1.36
50440413--50440465	23	2.3	23	83	6	63	41	1	3	52	1.30
50440429--50440473	23	2.0	23	81	0	54	37	2	4	55	1.32
50444274--50444299	5	5.2	5	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50453387--50453903	9	60.4	9	63	19	110	35	2	18	43	1.63
50453392--50453791	25	15.8	25	71	11	190	36	2	17	44	1.62
50453400--50453710	16	19.0	16	63	18	70	35	2	17	44	1.63
50453492--50453541	26	1.9	26	83	0	64	34	4	18	44	1.68
50453801--50453868	22	3.0	22	82	8	75	30	0	23	45	1.53
50453808--50453896	22	4.0	22	81	10	92	34	1	21	42	1.60
50453810--50453903	31	3.0	31	81	9	93	35	1	22	41	1.61
50453931--50455534	366	4.4	366	97	0	2967	43	8	8	39	1.66
50453931--50455534	733	2.2	731	96	0	2965	43	8	8	39	1.66
50456306--50456382	19	4.4	18	83	12	90	45	15	5	33	1.69
50457470--50457757	94	3.1	91	90	4	445	43	5	4	46	1.47
50457626--50457755	30	4.4	28	68	14	73	42	4	5	47	1.47
50457757--50457819	16	3.9	16	78	12	74	49	9	0	41	1.35
50458615--50458650	15	2.3	16	90	4	56	36	2	0	61	1.11
50460067--50460121	23	2.4	23	81	6	67	21	0	5	72	1.04
50460803--50460840	14	2.7	14	88	8	51	52	26	0	21	1.47
50460937--50460990	21	2.5	22	87	3	74	51	27	1	18	1.56
50464813--50464861	25	2.0	25	88	8	73	51	2	0	46	1.12
50466211--50466257	21	2.2	21	85	7	60	10	19	34	36	1.86
50466499--50466541	18	2.4	18	92	0	68	44	6	25	23	1.78
50470611--50470694	3	27.0	3	85	9	107	29	3	1	65	1.17
50470843--50470868	12	2.2	12	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50472599--50472639	15	2.9	14	77	22	50	63	0	2	34	1.08
50473886--50473934	23	2.1	23	96	0	89	26	18	26	28	1.98
50474566--50474599	5	6.8	5	96	0	50	32	0	0	67	0.91
50478615--50478660	22	2.1	22	88	8	67	23	10	17	47	1.79
50488227--50488353	43	3.0	42	87	7	168	25	24	18	31	1.97
50488227--50488370	43	3.4	42	81	12	152	28	24	18	29	1.98
50490646--50490700	27	2.0	27	100	0	110	29	25	7	38	1.83
50493163--50493339	96	1.9	94	85	2	246	38	9	14	37	1.78
50495975--50496135	55	3.0	55	87	1	236	49	16	9	23	1.76
50497200--50497417	35	6.2	34	78	9	183	42	11	12	33	1.79

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