genome.fa.s3.2.7.7.80.10.50.1000.140.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  140  of  150  ( 17918 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)
42137338--42137382	18	2.4	19	79	17	58	33	2	2	62	1.20
42143619--42143687	2	34.5	2	100	0	138	0	0	49	50	1.00
42144724--42144856	59	2.2	60	90	1	223	36	9	15	38	1.79
42157583--42157607	13	1.9	13	100	0	50	24	32	12	32	1.91
42158728--42158776	21	2.4	21	96	3	91	44	28	4	22	1.71
42160957--42161001	20	2.2	20	88	0	63	31	11	17	40	1.85
42166615--42166647	16	2.0	17	88	5	50	63	6	3	27	1.32
42166739--42166796	30	2.0	29	96	3	107	34	10	17	37	1.84
42170568--42170625	30	2.0	29	96	3	107	34	10	17	37	1.84
42179626--42179684	30	2.0	31	87	12	88	30	6	22	40	1.79
42180946--42180997	25	2.1	25	82	7	61	40	0	1	57	1.10
42181438--42181483	24	1.9	24	90	0	74	39	6	0	54	1.26
42182904--42182937	14	2.5	13	86	9	50	58	5	2	32	1.37
42183282--42183320	17	2.4	16	91	4	60	56	0	2	41	1.13
42186802--42186848	3	15.7	3	100	0	94	68	0	0	31	0.90
42201284--42201345	21	2.9	21	85	2	79	32	3	30	33	1.74
42203669--42203814	79	1.8	79	94	0	256	29	10	15	43	1.81
42205855--42205906	24	2.2	24	86	13	72	28	32	26	11	1.91
42206846--42206922	37	2.1	36	92	2	127	28	12	9	49	1.72
42223826--42223986	33	4.8	32	70	8	115	30	18	24	26	1.98
42223760--42223998	101	2.4	101	91	2	390	31	17	24	26	1.97
42223992--42224043	26	2.0	26	88	0	77	53	1	23	21	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42240462--42240510	21	2.3	21	85	0	62	32	2	2	63	1.17
42241820--42241861	21	2.0	21	90	4	68	61	0	2	35	1.09
42253719--42253795	39	2.0	39	97	0	145	28	10	20	40	1.86
42270798--42270840	20	2.2	19	84	12	52	65	4	2	27	1.25
42271429--42271481	28	1.9	28	92	3	90	47	1	0	50	1.12
42273599--42273763	51	3.3	51	91	0	251	27	23	14	34	1.94
42287890--42287951	23	2.7	24	87	9	85	48	20	4	25	1.70
42289689--42289723	16	2.1	17	89	5	54	42	0	11	45	1.40
42301378--42301409	2	16.0	2	100	0	64	50	0	0	50	1.00
42305000--42305656	348	1.9	347	96	0	1206	35	13	18	32	1.90
42310475--42310565	45	2.0	45	85	8	123	39	6	6	47	1.56
42319096--42319127	6	5.3	6	100	0	64	15	50	0	34	1.45
42320975--42321001	2	13.5	2	100	0	54	51	0	0	48	1.00
42323575--42323605	8	3.9	8	95	0	53	41	9	0	48	1.36
42329560--42329590	6	5.2	6	100	0	62	32	51	0	16	1.44
42334253--42334286	2	17.0	2	100	0	68	50	0	0	50	1.00
42335645--42335846	43	4.7	43	82	3	185	30	25	17	26	1.97
42335645--42335852	86	2.4	85	75	7	206	31	25	17	25	1.97
42336289--42336338	23	2.2	23	100	0	100	26	30	14	30	1.94
42346572--42346600	14	2.0	15	93	6	51	37	6	0	55	1.27
42347681--42347731	27	2.0	27	88	11	81	27	15	56	0	1.39
42350227--42350529	153	2.0	150	91	3	491	42	14	16	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42358222--42358261	21	1.9	21	85	10	55	32	5	0	62	1.17
42358715--42358795	40	2.0	40	100	0	162	34	14	19	30	1.92
42363060--42363114	25	2.2	26	83	9	69	52	0	5	41	1.24
42366885--42366916	16	2.0	16	100	0	64	43	6	0	50	1.27
42367292--42367334	22	2.0	22	85	0	59	16	11	13	58	1.64
42370861--42370890	10	2.8	11	90	10	53	66	6	0	26	1.16
42378059--42379987	89	21.3	89	77	6	1565	24	23	17	29	1.95
42378059--42379397	181	7.4	182	87	5	1598	25	24	18	31	1.97
42378059--42379987	270	7.1	271	78	3	1809	24	23	17	29	1.95
42379168--42379204	14	2.6	14	100	0	74	8	21	16	54	1.68
42379093--42379289	103	1.9	103	93	0	340	24	24	17	32	1.97
42379219--42379365	44	3.3	42	75	10	150	29	22	19	28	1.98
42379182--42379397	45	4.8	45	72	8	179	24	25	18	31	1.98
42378987--42379385	195	2.0	194	90	4	626	24	24	18	32	1.97
42379498--42379987	181	2.7	178	92	2	829	25	24	19	30	1.98
42391016--42391055	18	2.3	18	82	4	55	70	2	0	27	1.01
42401299--42401341	22	2.0	22	90	0	68	32	11	16	39	1.84
42406495--42406593	43	2.3	43	85	1	137	20	20	31	28	1.97
42406601--42406699	43	2.3	42	79	10	103	38	23	15	23	1.92
42407006--42407065	21	2.9	21	82	0	75	8	43	13	35	1.74
42407067--42407217	66	2.3	65	88	5	223	15	23	19	41	1.90
42412614--42412923	9	36.8	9	70	16	209	30	1	20	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42412636--42412917	16	16.8	16	74	13	141	30	1	20	47	1.59
42412620--42412923	25	12.0	25	73	13	134	30	1	20	47	1.61
42412636--42412904	34	8.6	33	69	20	152	30	1	20	47	1.59
42412619--42412898	118	2.4	115	92	3	465	31	1	20	47	1.60
42413176--42413435	40	6.7	38	79	11	210	41	1	11	45	1.47
42413198--42413286	18	4.8	18	79	14	101	41	0	12	46	1.41
42413200--42413304	31	3.5	31	71	21	100	42	0	13	43	1.43
42413327--42413418	13	6.9	13	73	22	84	42	1	10	45	1.46
42414558--42414609	22	2.4	22	78	12	63	71	3	25	0	1.03
42414700--42414782	10	7.4	10	75	19	58	69	1	28	0	0.96
42414700--42414750	14	3.8	14	78	17	54	68	1	29	0	1.00
42415089--42415134	18	2.5	19	82	10	69	82	0	17	0	0.67
42415290--42415338	10	4.6	11	73	19	50	36	2	0	61	1.08
42416514--42416592	14	5.4	14	79	8	77	29	44	1	25	1.62
42416520--42416564	16	2.9	16	86	3	65	28	40	2	28	1.69
42416553--42416592	7	5.7	7	87	0	62	30	50	0	20	1.49
42416543--42416592	21	2.3	21	86	3	73	30	48	0	22	1.51
42417211--42417246	16	2.2	16	90	9	56	52	2	0	44	1.15
42417649--42417860	41	5.1	41	70	10	130	33	27	18	21	1.96
42417662--42417844	82	2.2	82	80	12	214	35	25	16	22	1.95
42418365--42418402	18	2.1	18	100	0	76	21	5	15	57	1.57
42420326--42420367	19	2.2	19	83	8	50	42	4	23	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42420828--42420857	14	2.1	15	93	6	53	66	0	0	33	0.92
42420826--42420875	25	2.0	24	85	11	66	68	0	0	32	0.90
42420829--42420880	21	2.6	19	78	6	59	69	0	0	30	0.89
42424575--42424609	18	1.9	18	94	0	61	11	48	0	40	1.39
42424573--42424612	18	2.2	17	82	8	53	15	47	0	37	1.45
42427178--42427213	18	2.0	18	100	0	72	38	0	11	50	1.38
42448495--42448526	2	16.0	2	100	0	64	50	0	50	0	1.00
42449848--42449976	63	2.1	62	85	1	168	36	5	17	41	1.72
42459088--42459130	2	21.5	2	100	0	86	48	0	0	51	1.00
42469904--42469975	31	2.4	30	79	4	81	37	12	9	40	1.76
42482409--42482437	9	3.2	9	100	0	58	58	0	0	41	0.98
42489250--42489282	16	2.1	16	88	11	50	36	18	9	36	1.82
42492506--42492553	17	2.9	17	87	3	62	27	0	16	56	1.41
42493294--42493322	14	2.1	14	100	0	58	27	6	31	34	1.83
42493701--42493770	35	2.0	35	100	0	140	37	11	22	28	1.89
42493830--42493919	46	2.0	46	90	0	144	37	11	23	27	1.89
42502807--42503017	92	2.3	92	90	1	316	35	19	16	28	1.94
42502807--42503045	92	2.6	92	86	1	264	35	20	15	28	1.93
42503326--42503355	13	2.3	13	100	0	60	53	23	0	23	1.46
42508470--42508521	4	13.0	4	81	0	50	26	7	23	42	1.81
42516676--42516701	5	5.2	5	100	0	52	42	19	19	19	1.90
42517726--42517762	9	4.1	9	92	0	65	29	10	13	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42517817--42517847	9	3.4	9	90	0	53	38	22	12	25	1.90
42518369--42518408	21	1.9	21	90	10	64	40	25	7	27	1.82
42520344--42520389	20	2.3	20	88	0	65	15	19	28	36	1.92
42520352--42520398	20	2.3	20	96	0	85	14	19	29	36	1.92
42521389--42521461	3	24.3	3	88	0	92	58	1	4	35	1.25
42535178--42535208	2	15.5	2	100	0	62	48	0	0	51	1.00
42539403--42539573	85	2.0	85	95	0	306	38	10	19	31	1.86
42543767--42543798	3	10.7	3	100	0	64	68	0	0	31	0.90
42546597--42546648	24	2.2	24	85	0	68	50	7	3	38	1.50
42546812--42546879	31	2.2	31	84	5	84	35	13	11	39	1.81

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