genome.fa.s6.2.7.7.80.10.50.1000.70.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  70  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)
20335006--20335074	32	2.2	32	84	5	88	44	5	20	28	1.74
20339145--20339186	14	3.0	14	82	0	57	52	4	11	30	1.59
20339217--20339531	127	2.5	126	88	1	461	39	13	19	27	1.90
20339631--20339692	25	2.5	25	91	0	106	53	3	24	19	1.60
20342655--20342785	59	2.2	60	89	6	196	54	6	4	34	1.48
20343759--20343798	20	2.0	21	90	5	64	70	17	0	12	1.18
20344983--20345019	19	1.9	19	94	0	65	37	10	8	43	1.69
20345036--20345103	17	3.6	18	75	16	66	42	10	13	33	1.78
20344999--20345102	22	5.5	17	72	20	66	42	11	11	34	1.77
20344986--20345270	39	7.5	37	68	16	140	43	10	11	34	1.75
20345161--20345268	18	6.3	18	75	10	93	41	9	13	35	1.77
20345370--20345406	16	2.2	17	86	13	51	67	2	2	27	1.17
20345763--20345808	20	2.4	19	86	13	67	0	15	0	84	0.62
20346159--20346207	21	2.4	20	86	6	71	2	24	0	73	0.94
20346167--20346203	18	2.1	17	95	5	65	0	24	0	75	0.80
20346308--20346379	25	2.8	26	80	12	78	1	16	2	79	0.93
20346313--20346347	7	5.0	7	90	10	54	0	14	0	85	0.59
20346697--20346756	28	2.1	29	84	3	77	36	6	26	30	1.82
20346734--20346817	30	2.8	30	82	5	91	47	4	19	28	1.69
20346986--20347659	76	8.6	79	83	5	761	34	19	16	29	1.94
20355880--20355922	16	2.5	17	81	7	52	37	16	11	34	1.85
20355910--20355998	39	2.2	40	82	5	101	41	10	11	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20355880--20355998	18	6.4	17	69	19	69	40	11	11	36	1.79
20356039--20356081	19	2.1	22	87	12	65	32	9	11	46	1.72
20356059--20356114	18	3.2	18	84	5	69	46	8	10	33	1.70
20356060--20356121	18	3.5	17	78	6	61	48	8	12	30	1.70
20356059--20356157	36	2.8	35	77	7	85	44	8	13	34	1.73
20356654--20356699	16	2.8	16	81	12	58	0	15	0	84	0.62
20356654--20356702	17	2.9	17	81	3	64	0	16	0	83	0.64
20357032--20357113	14	5.7	14	77	14	71	1	19	0	79	0.80
20357037--20357118	27	2.7	31	77	17	84	1	21	0	76	0.85
20357038--20357119	28	3.1	25	80	19	87	1	23	0	75	0.87
20357669--20357725	30	1.9	30	85	0	78	50	3	19	26	1.63
20360105--20360131	10	2.7	10	100	0	54	74	0	0	25	0.83
20368594--20368668	38	2.0	38	100	0	150	40	10	10	38	1.75
20369645--20369669	13	1.9	13	100	0	50	0	16	0	84	0.63
20370048--20370112	20	3.3	20	85	8	89	55	6	0	38	1.25
20371569--20371613	19	2.2	21	84	7	58	53	0	2	44	1.13
20371746--20371790	19	2.4	18	85	14	56	22	8	8	60	1.55
20372835--20372860	7	3.7	7	100	0	52	73	0	0	26	0.84
20377400--20377486	45	2.0	44	88	2	129	51	2	2	43	1.26
20379832--20379856	8	3.1	8	100	0	50	36	0	0	64	0.94
20384055--20384080	4	6.5	4	100	0	52	76	0	0	23	0.78
20384155--20384191	4	9.2	4	100	0	74	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20384628--20384720	3	31.0	3	69	4	53	54	5	3	36	1.39
20385683--20385708	11	2.4	11	100	0	52	7	26	7	57	1.54
20386036--20386060	12	2.1	12	100	0	50	76	8	8	8	1.18
20387961--20388021	29	2.1	29	100	0	122	37	19	0	42	1.52
20388262--20388286	5	5.0	5	100	0	50	80	20	0	0	0.72
20392525--20392577	21	2.5	21	90	0	79	30	35	9	24	1.87
20393614--20393669	21	2.7	21	91	0	85	28	37	8	25	1.86
20399469--20399508	20	2.0	20	95	0	71	32	10	10	47	1.70
20399499--20399584	33	2.7	32	75	13	95	26	5	18	48	1.70
20403029--20403110	35	2.3	36	85	4	112	48	3	7	40	1.48
20406372--20406400	5	5.8	5	100	0	58	82	0	0	17	0.66
20408048--20408183	51	2.7	51	91	0	218	30	16	26	26	1.97
20410239--20410338	36	2.7	37	80	11	107	47	1	21	31	1.58
20410542--20410614	21	3.5	21	84	1	85	17	24	24	32	1.97
20414669--20414710	21	2.0	21	90	0	66	47	0	7	45	1.30
20415201--20415354	57	2.7	57	82	2	186	50	15	9	24	1.74
20415201--20415350	55	2.7	55	83	4	167	50	16	8	25	1.73
20418173--20418226	26	2.1	25	86	10	74	29	12	5	51	1.63
20418522--20418623	42	2.4	43	75	12	104	42	18	16	22	1.89
20420238--20420286	23	2.1	22	82	14	55	26	4	16	53	1.61
20420532--20420556	13	1.9	13	100	0	50	24	0	4	72	1.02
20427035--20427060	3	8.7	3	100	0	52	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20432254--20432329	38	2.0	38	100	0	152	42	23	10	23	1.85
20435006--20435033	14	2.0	14	100	0	56	35	0	0	64	0.94
20434989--20435032	13	3.3	13	78	6	52	38	2	0	59	1.10
20435641--20435680	15	2.8	14	85	7	53	55	5	5	35	1.44
20435647--20435691	14	3.1	14	87	3	54	55	4	4	35	1.40
20435702--20435728	4	6.8	4	100	0	54	74	0	25	0	0.83
20437084--20437227	66	2.2	65	85	3	182	30	13	27	27	1.94
20443778--20443805	4	7.0	4	100	0	56	25	0	25	50	1.50
20444843--20444886	21	2.1	20	83	8	52	40	4	9	45	1.56
20461756--20462215	109	4.2	110	89	2	644	31	15	17	35	1.91
20461753--20462201	220	2.1	216	90	1	691	31	15	18	35	1.91
20462378--20462475	51	1.9	51	97	0	187	28	16	16	38	1.90
20462887--20462932	23	2.0	23	86	0	65	34	15	6	43	1.72
20463046--20463241	98	2.0	98	94	0	347	37	13	14	34	1.86
20470366--20470460	47	2.0	48	93	2	165	44	7	3	45	1.47
20470469--20470512	21	2.0	21	82	8	52	47	2	6	43	1.42
20470968--20471036	31	2.3	30	82	5	93	43	13	10	33	1.77
20470968--20471052	31	2.8	29	77	8	80	42	12	9	35	1.76
20473625--20473685	30	2.0	30	100	0	122	34	3	19	42	1.68
20477713--20477801	27	3.2	27	81	9	106	11	11	43	33	1.76
20477713--20477804	30	3.2	29	83	9	116	10	10	44	33	1.74
20480447--20480594	58	2.5	58	82	10	176	22	18	9	49	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20480713--20480852	29	4.9	28	74	7	120	48	11	16	23	1.78
20480713--20480873	88	1.8	88	84	5	218	47	12	16	24	1.81
20486050--20486074	7	3.6	7	100	0	50	32	0	40	28	1.57
20489732--20489772	21	2.0	21	90	0	64	29	21	29	19	1.98
20492512--20492584	36	2.0	36	100	0	146	42	8	13	35	1.74
20494015--20494063	18	2.7	18	74	0	53	69	2	12	16	1.28
20494396--20494461	31	2.3	30	84	10	84	33	10	16	39	1.83
20494396--20494490	31	3.1	30	78	17	81	34	10	15	38	1.82
20498954--20499000	21	2.2	22	92	3	78	21	38	19	21	1.94
20510149--20510258	42	2.6	42	87	7	154	27	28	14	30	1.95
20510318--20510497	31	5.8	31	90	3	274	26	26	19	28	1.99
20516969--20517048	40	2.0	40	87	2	117	32	28	20	18	1.96
20517374--20517407	11	3.1	11	84	16	52	2	8	17	70	1.25
20520694--20520754	21	2.8	22	87	9	90	34	27	24	13	1.93
20520682--20520766	21	3.9	23	81	9	88	37	25	22	14	1.92
20523260--20523490	35	6.6	35	81	2	268	30	22	13	33	1.93
20523260--20523490	70	3.3	70	86	4	297	30	22	13	33	1.93
20523261--20523490	105	2.2	104	85	0	316	30	22	13	33	1.93
20527515--20527548	11	3.1	11	84	16	52	2	8	17	70	1.25
20528913--20529021	53	2.1	53	94	3	193	24	21	22	31	1.98
20529932--20529962	15	2.1	15	100	0	62	48	12	12	25	1.77
20537564--20537607	21	2.1	21	86	0	61	29	11	27	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20542815--20542886	19	3.7	19	74	7	56	51	8	0	40	1.32
20542843--20542888	20	2.5	17	86	13	56	47	6	0	45	1.28
20542855--20542915	27	2.3	27	80	5	70	52	4	0	42	1.23
20544418--20544442	13	1.9	13	100	0	50	52	8	0	40	1.31
20546365--20546458	26	3.6	26	81	2	98	59	8	5	26	1.48
20546479--20546528	26	1.9	26	84	8	66	54	0	8	38	1.30
20548468--20548506	4	9.8	4	100	0	78	51	25	0	23	1.49
20550709--20550742	12	2.8	12	95	4	59	47	0	0	52	1.00
20550876--20550921	25	1.9	23	86	8	65	28	0	8	63	1.24
20552177--20552202	2	13.0	2	100	0	52	0	0	50	50	1.00

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