genome.fa.s6.2.7.7.80.10.50.1000.17.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: Dt_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  42799318

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   

This is table  17  of  141  ( 16820 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)
5125418--5125626	85	2.5	84	87	4	296	25	18	20	35	1.95
5125418--5125626	42	5.0	41	85	6	285	25	18	20	35	1.95
5130690--5130719	14	2.1	14	93	0	51	56	6	0	36	1.26
5133104--5133153	3	17.3	3	81	8	59	34	4	2	60	1.27
5133385--5133414	13	2.4	12	94	5	51	36	0	0	63	0.95
5135005--5135040	17	2.1	17	94	0	63	19	16	19	44	1.87
5135657--5135739	41	2.0	41	92	0	139	33	20	32	13	1.91
5137450--5137492	21	2.0	21	86	8	61	11	18	6	62	1.50
5138432--5138464	7	4.7	7	85	14	50	72	0	15	12	1.12
5138432--5138472	21	2.0	21	85	9	57	70	0	14	14	1.16
5139718--5140442	89	8.1	89	87	2	812	32	17	22	27	1.96
5139718--5140442	133	5.4	134	86	1	751	32	17	22	27	1.96
5139718--5140463	222	3.4	222	91	1	1111	32	16	23	28	1.96
5140459--5140696	132	1.8	132	97	0	449	29	18	23	28	1.98
5142077--5142262	40	4.7	40	89	2	259	26	27	21	23	1.99
5145752--5145781	13	2.4	12	94	5	51	36	0	0	63	0.95
5147201--5147245	16	3.0	16	81	12	60	68	2	6	22	1.24
5150022--5150064	18	2.4	18	100	0	86	20	20	13	44	1.86
5155003--5155055	23	2.3	23	90	0	88	32	26	18	22	1.97
5156399--5156446	17	2.7	17	77	20	53	39	0	4	56	1.19
5156400--5156486	9	9.2	9	73	25	65	42	0	3	54	1.17
5157489--5157526	10	3.8	10	85	0	58	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5165721--5165810	30	3.0	30	91	0	153	45	6	16	31	1.73
5168916--5168974	16	3.6	16	73	8	55	30	5	3	61	1.34
5170285--5170336	27	2.0	27	92	3	88	71	0	1	26	0.97
5171436--5171460	13	1.9	13	100	0	50	52	8	0	40	1.31
5171508--5171574	34	1.9	35	93	3	118	46	11	8	32	1.72
5172755--5172795	14	2.9	14	86	10	57	82	0	0	17	0.66
5172755--5172786	7	4.7	7	96	3	57	87	0	0	12	0.54
5172845--5172885	14	2.9	14	86	10	57	82	0	0	17	0.66
5172845--5172876	7	4.7	7	96	3	57	87	0	0	12	0.54
5172919--5172955	18	2.1	18	94	0	65	48	0	10	40	1.38
5180427--5180489	30	2.1	30	93	0	108	55	15	4	23	1.59
5189723--5189835	61	1.9	59	87	7	165	40	4	3	51	1.39
5192058--5192131	38	1.9	38	100	0	148	25	10	16	47	1.79
5194236--5194292	16	3.5	17	71	7	55	59	1	7	31	1.34
5194567--5194612	11	4.4	11	81	8	51	73	0	4	21	1.00
5194575--5194615	9	4.7	9	79	14	50	78	0	2	19	0.87
5195402--5195458	11	5.7	10	84	16	66	75	3	1	19	1.04
5196149--5196533	45	8.8	43	73	8	158	25	22	21	31	1.98
5196105--5196486	129	3.0	128	85	4	473	26	21	21	30	1.98
5196282--5196591	45	7.1	44	77	9	233	23	23	20	31	1.98
5196593--5197876	259	4.9	259	85	2	1677	27	25	17	29	1.97
5197243--5197288	21	2.2	21	84	0	56	21	34	10	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5196601--5197876	520	2.5	519	90	0	1980	27	25	17	28	1.97
5197763--5197803	21	2.0	21	85	0	55	21	34	7	36	1.82
5207727--5207757	14	2.1	15	94	5	55	80	0	0	19	0.71
5211012--5211079	30	2.2	31	84	2	84	48	7	17	26	1.73
5220049--5220095	21	2.2	21	85	7	60	65	8	6	19	1.41
5227579--5227722	43	3.3	43	85	3	130	26	21	20	31	1.98
5228067--5228137	21	3.4	21	80	0	88	5	40	14	39	1.69
5230407--5230596	9	20.2	9	68	16	66	33	1	18	46	1.59
5230774--5230936	73	2.2	77	85	8	228	49	6	9	34	1.62
5231054--5231192	66	2.1	66	82	2	163	48	12	4	34	1.60
5231407--5231449	13	3.2	13	84	12	52	65	9	2	23	1.34
5234098--5234331	7	32.9	7	72	8	123	44	34	1	20	1.60
5234097--5234156	23	2.7	23	84	2	77	35	41	0	23	1.55
5234647--5234893	114	2.2	115	85	3	329	29	22	20	27	1.99
5234828--5234933	40	2.6	39	83	5	122	27	27	21	23	1.99
5234985--5235068	40	2.1	40	86	4	116	23	27	21	27	1.99
5234716--5235068	154	2.3	153	85	3	476	27	25	19	27	1.99
5237505--5237546	18	2.3	18	87	0	57	45	7	26	21	1.77
5241230--5241272	3	14.3	3	80	0	50	25	2	0	72	0.97
5241239--5241272	12	2.8	12	95	0	59	23	0	0	76	0.79
5241491--5241540	22	2.1	23	82	10	57	26	6	8	60	1.48
5241719--5241751	15	2.2	15	94	0	57	24	0	12	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5246488--5246600	54	2.1	54	98	0	217	28	19	6	46	1.74
5247621--5248128	44	11.7	43	75	11	355	28	20	25	25	1.99
5247482--5248166	217	3.2	217	90	3	1018	28	21	24	26	1.99
5249111--5249993	98	9.0	98	99	0	1748	28	10	24	36	1.89
5251199--5251372	85	2.0	85	91	2	278	40	12	27	19	1.88
5253329--5253366	20	1.9	20	88	0	58	36	18	31	13	1.89
5263532--5263724	50	3.7	50	75	6	154	24	26	21	26	2.00
5268192--5268263	25	2.9	25	95	0	126	25	19	22	33	1.97
5268669--5268762	47	2.0	48	87	2	136	21	14	18	45	1.85
5269445--5269512	30	2.3	30	81	0	82	23	26	30	19	1.98
5275519--5275578	27	2.2	28	82	14	81	43	20	18	18	1.88
5275539--5275613	27	2.8	27	85	0	87	42	21	26	9	1.83
5277472--5277535	25	2.6	25	76	0	65	21	23	23	31	1.99
5277583--5277630	13	3.5	13	85	5	60	43	2	25	29	1.66
5277592--5277655	13	4.9	13	82	3	76	42	4	21	31	1.74
5277583--5277655	26	2.7	26	83	8	76	42	4	23	30	1.73
5277611--5277666	26	2.2	26	83	6	69	46	3	23	26	1.68
5293138--5293827	100	6.9	99	81	4	710	24	20	22	32	1.98
5293031--5293807	50	15.5	50	67	6	327	23	19	23	33	1.97
5293138--5293827	200	3.5	199	85	2	823	24	20	22	32	1.98
5293966--5293995	9	3.4	9	95	4	53	10	0	0	90	0.47
5295093--5295134	21	2.0	21	85	4	57	11	14	0	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5295111--5295137	13	2.1	13	100	0	54	14	14	0	70	1.17
5296037--5296104	12	5.8	12	81	6	59	11	5	8	73	1.24
5296022--5296098	34	2.3	34	86	0	100	10	7	7	74	1.23
5296036--5296116	40	2.0	42	87	4	121	11	4	7	76	1.14
5296060--5296123	9	6.7	9	75	21	51	10	4	3	81	0.96
5301573--5301605	16	2.1	16	88	11	50	54	9	12	24	1.66
5303384--5303425	21	2.0	21	95	0	75	28	21	23	26	1.99
5303582--5303648	27	2.6	24	78	17	71	19	29	17	32	1.95
5303678--5303735	25	2.3	25	81	0	71	18	22	20	37	1.94
5304384--5304412	2	14.5	2	100	0	58	0	0	51	48	1.00
5305423--5305492	25	2.8	25	89	4	106	21	22	22	32	1.98
5307094--5307128	18	2.0	18	94	5	63	11	25	45	17	1.81
5307874--5307904	15	2.0	16	93	6	55	54	0	25	19	1.44
5308370--5308399	16	1.9	16	93	6	53	30	0	20	50	1.49
5310451--5310766	138	2.3	138	86	3	431	37	25	21	15	1.93
5310451--5310766	69	4.6	69	83	2	375	37	25	21	15	1.93
5310812--5310930	58	2.1	58	87	3	168	40	11	12	35	1.80
5313733--5313759	12	2.2	12	100	0	54	40	11	33	14	1.82
5314149--5314199	16	3.1	17	75	8	52	33	0	3	62	1.13
5314182--5314213	9	3.6	9	95	0	55	34	0	0	65	0.93
5315216--5315259	12	3.6	12	84	3	61	79	4	0	15	0.89
5315577--5315604	13	2.2	13	100	0	56	32	17	7	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5316296--5316322	6	4.5	6	100	0	54	0	66	0	33	0.92
5319725--5319786	16	3.9	16	78	4	63	40	4	25	29	1.76
5319946--5319999	26	2.1	26	82	0	63	64	1	0	33	1.04
5331237--5331300	20	3.2	20	80	6	69	25	18	28	28	1.98
5331264--5331312	20	2.4	21	83	10	66	28	16	30	24	1.96
5331281--5331350	35	2.0	35	91	0	113	31	20	28	20	1.97
5347994--5348034	20	2.0	20	86	9	57	63	4	9	21	1.44
5348800--5348953	43	3.6	43	83	2	193	29	14	23	31	1.95
5369973--5370100	27	4.8	26	79	10	107	21	11	21	44	1.84
5373420--5373465	17	2.6	17	86	3	56	30	13	13	43	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