genome.fa.s16.2.7.7.80.10.50.1000.42.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  42  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)
11896808--11896869	13	4.8	13	90	2	81	14	6	3	75	1.12
11896810--11896869	26	2.3	26	91	0	93	11	6	3	78	1.06
11902272--11902309	16	2.4	16	95	0	67	18	10	2	68	1.30
11902272--11902311	15	2.6	16	92	4	64	20	12	2	65	1.38
11902353--11902399	12	4.0	12	86	5	60	19	2	6	72	1.17
11909108--11909141	17	2.0	17	88	0	50	17	8	0	73	1.08
11909114--11909159	24	1.9	24	82	8	58	13	10	2	73	1.17
11916792--11916836	20	2.3	19	84	7	54	24	33	11	31	1.90
11917173--11917213	20	2.0	21	85	9	57	34	7	12	46	1.69
11921677--11921854	27	6.6	27	80	3	151	28	29	15	26	1.96
11921677--11921853	54	3.3	55	79	7	182	28	29	15	25	1.96
11921698--11921853	82	1.9	81	82	3	197	27	30	16	26	1.96
11923682--11923735	20	2.7	20	82	0	63	24	20	18	37	1.94
11923682--11923755	30	2.5	30	86	8	98	21	20	18	39	1.93
11923682--11923746	20	3.2	20	71	16	53	23	21	16	38	1.93
11925370--11925417	17	3.2	15	78	16	55	70	4	6	18	1.25
11925421--11925464	16	2.8	16	76	13	54	70	11	11	6	1.33
11926506--11926539	18	1.9	18	88	5	52	52	2	35	8	1.47
11927805--11927858	20	2.7	20	82	0	63	24	20	18	37	1.94
11927805--11927878	30	2.5	30	86	8	98	21	20	18	39	1.93
11927805--11927869	20	3.2	20	71	16	53	23	21	16	38	1.93
11935495--11935670	27	6.5	27	80	3	147	28	29	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11935518--11935669	54	2.8	55	81	4	182	26	30	16	26	1.97
11935514--11935669	82	1.9	81	82	3	197	27	30	16	26	1.96
11952955--11953017	21	3.0	21	88	2	90	30	3	33	33	1.74
11979562--11979608	24	1.9	25	91	4	78	38	0	36	25	1.56
11980272--11980379	26	4.1	26	78	4	74	42	19	18	19	1.89
11980291--11980569	27	10.4	27	83	2	312	33	19	23	23	1.97
11980693--11980956	32	8.3	32	74	10	166	20	18	21	39	1.93
11980767--11980931	64	2.6	64	83	3	190	20	18	22	39	1.92
11980754--11980956	96	2.1	95	80	3	221	20	19	20	39	1.92
11980948--11980994	22	2.1	22	84	7	60	21	14	14	48	1.80
11981013--11981064	26	2.0	26	84	0	68	28	23	13	34	1.92
11982394--11982454	31	2.0	31	100	0	122	32	27	6	32	1.83
11997805--11997982	27	6.6	27	84	3	205	29	28	15	26	1.96
11997826--11997981	82	1.9	81	88	3	233	29	28	15	26	1.96
12008722--12008822	48	2.1	47	89	7	150	43	8	23	23	1.82
12010117--12010194	39	2.0	39	94	0	138	29	16	26	26	1.97
12010453--12010749	152	1.9	153	97	0	569	28	13	24	32	1.93
12012876--12013051	51	3.5	50	77	8	169	26	17	25	30	1.97
12014849--12014876	14	2.0	14	100	0	56	35	7	14	42	1.73
12016951--12016986	14	2.7	13	91	4	54	75	2	22	0	0.94
12019018--12019123	54	2.0	54	84	3	142	29	20	31	18	1.97
12019453--12019549	48	2.0	48	87	0	140	46	7	22	23	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12020781--12020954	47	3.5	49	91	5	271	25	16	27	30	1.97
12020965--12021053	45	2.0	45	90	0	142	24	15	24	34	1.95
12026339--12026400	32	1.9	33	86	3	90	51	1	11	35	1.47
12026594--12026726	45	3.0	45	85	10	184	50	9	9	31	1.65
12026614--12026726	43	2.5	46	85	8	171	48	8	9	32	1.67
12026613--12026754	23	6.1	24	76	11	136	47	7	9	34	1.65
12026598--12026760	26	6.9	25	77	12	143	49	7	9	33	1.64
12026765--12026814	3	17.0	3	80	12	59	66	2	2	30	1.14
12027222--12027279	22	2.6	22	84	7	73	43	17	3	36	1.66
12027235--12027332	19	4.8	19	85	9	106	38	16	8	36	1.78
12027269--12027331	21	3.1	21	90	9	112	38	14	9	38	1.78
12027697--12028153	217	2.1	219	85	4	611	27	22	21	28	1.99
12027948--12028228	84	3.3	84	72	14	293	29	24	19	26	1.99
12027951--12028324	173	2.2	173	96	0	687	28	23	20	27	1.99
12027719--12028541	390	2.1	390	87	2	1163	27	22	20	28	1.99
12027951--12028492	173	3.1	172	86	5	591	28	23	20	28	1.99
12027862--12028660	390	2.0	389	85	3	1070	27	23	20	28	1.99
12028079--12028660	217	2.7	217	88	2	857	27	23	20	28	1.99
12028079--12028728	217	3.0	212	83	6	777	26	23	20	29	1.99
12027862--12028753	390	2.3	388	82	5	989	27	23	20	28	1.99
12028702--12029150	44	10.2	44	63	9	171	25	23	20	30	1.98
12028652--12029200	132	4.2	132	92	0	920	25	23	20	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12035079--12035140	32	1.9	33	86	3	90	51	1	11	35	1.47
12035334--12035468	44	3.0	45	84	11	177	51	8	8	31	1.64
12035338--12035501	25	6.9	25	74	15	109	49	7	9	33	1.63
12035330--12035501	23	7.3	24	75	12	137	48	7	9	33	1.65
12035506--12035564	3	20.0	3	83	10	77	66	1	0	32	1.02
12035973--12036046	19	3.5	21	78	10	62	43	16	4	36	1.67
12035973--12036030	22	2.6	22	81	7	64	43	17	1	37	1.59
12036009--12036062	19	2.8	19	91	0	81	37	16	9	37	1.81
12036019--12036072	19	2.9	18	86	5	56	35	18	12	33	1.89
12037319--12037374	10	5.6	10	79	10	62	41	1	0	57	1.09
12037280--12037374	11	9.5	10	75	12	63	37	3	0	58	1.14
12037357--12037412	22	2.5	21	80	11	58	37	1	3	57	1.27
12038071--12038128	28	2.1	28	86	0	80	27	8	10	53	1.64
12040603--12040632	3	10.0	3	100	0	60	66	0	0	33	0.92
12044892--12044917	11	2.4	11	100	0	52	46	0	0	53	1.00
12051532--12051605	37	2.0	37	100	0	148	45	13	8	32	1.73
12051956--12052026	35	2.0	35	100	0	142	40	16	11	30	1.84
12054038--12054143	54	2.0	54	84	3	142	24	23	24	27	2.00
12054039--12054155	54	2.2	54	82	3	137	23	25	24	25	2.00
12066808--12066846	17	2.2	18	86	13	55	51	7	0	41	1.31
12070253--12070304	20	2.5	20	79	14	61	42	9	5	42	1.61
12075182--12075215	17	2.0	17	94	0	59	41	26	5	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12085054--12085986	44	20.8	45	70	10	408	30	18	23	28	1.97
12085137--12085982	45	18.8	45	69	12	297	30	18	23	27	1.98
12085042--12085545	178	2.8	178	89	0	742	29	19	24	26	1.98
12085145--12085485	133	2.6	134	79	5	334	29	19	25	26	1.98
12085487--12085714	89	2.6	89	80	1	260	28	20	24	27	1.99
12085677--12085980	96	3.3	95	72	10	286	32	16	21	30	1.95
12086254--12086287	13	2.6	13	85	0	50	52	29	2	14	1.56
12094216--12094276	30	2.0	30	93	0	104	19	32	27	19	1.96
12095100--12095129	14	2.1	14	100	0	60	43	0	13	43	1.43
12100756--12100785	14	2.1	14	100	0	60	43	0	13	43	1.43
12117881--12117927	21	2.2	21	92	0	76	74	10	12	2	1.16
12130498--12130522	13	1.9	13	100	0	50	40	24	4	32	1.73
12136052--12136094	9	4.8	9	88	0	59	39	25	9	25	1.85
12136193--12136281	39	2.3	39	84	2	124	19	2	28	50	1.59
12136260--12136289	13	2.3	13	100	0	60	16	0	43	40	1.48
12136213--12136470	131	2.0	131	100	0	516	21	3	27	47	1.68
12136391--12136420	13	2.3	13	100	0	60	16	0	43	40	1.48
12138218--12138298	41	2.0	41	87	0	117	24	19	24	30	1.98
12138222--12138328	41	2.6	41	81	0	115	22	23	22	31	1.98
12153834--12153896	22	2.9	21	73	15	56	42	22	23	11	1.85
12154022--12154089	27	2.5	27	83	11	86	22	23	16	38	1.93
12154023--12154152	54	2.4	55	77	11	133	23	21	18	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12154039--12154168	27	4.8	27	76	9	131	23	20	18	38	1.93
12154052--12154169	54	2.2	54	84	3	148	23	20	16	38	1.92
12154106--12154176	27	2.6	27	74	12	65	21	18	21	39	1.93
12156117--12156417	152	2.0	152	94	1	523	26	32	12	28	1.93
12157895--12158037	27	5.3	27	85	0	169	23	20	18	38	1.93
12160517--12160552	18	2.0	18	88	0	54	19	8	0	72	1.10
12161246--12161290	19	2.4	19	82	14	58	51	0	0	48	1.00
12161778--12161825	21	2.2	22	92	3	80	41	0	4	54	1.20
12162635--12162678	23	2.0	23	81	4	54	59	4	4	31	1.38
12167496--12167698	91	2.3	89	83	3	237	34	15	20	29	1.93

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