genome.fa.s5.2.7.7.80.10.50.1000.19.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  56894857

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   176   
          177   178   179   180   181   182   183   184   185   

This is table  19  of  185  ( 22150 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)
5146351--5146396	24	1.9	24	86	0	65	10	26	17	45	1.81
5148672--5148706	18	1.9	18	88	0	52	57	2	5	34	1.37
5148865--5148912	3	15.7	3	91	4	78	66	2	0	31	1.03
5151794--5151885	25	3.7	25	78	7	80	38	2	2	57	1.23
5161012--5161043	16	1.9	17	93	6	57	40	6	0	53	1.26
5164698--5164740	17	2.5	17	84	0	50	60	2	0	37	1.10
5167354--5167477	46	2.8	46	91	3	200	28	22	16	33	1.95
5167439--5167652	37	5.8	37	97	0	392	27	20	13	39	1.89
5170178--5170227	26	1.9	26	83	0	64	60	4	2	34	1.27
5184168--5184235	33	2.2	28	82	12	73	76	7	14	1	1.07
5184201--5184235	12	2.9	12	84	16	54	82	0	17	0	0.66
5185422--5185474	16	3.3	16	76	10	54	33	5	24	35	1.79
5187617--5187651	16	2.2	16	94	0	61	37	0	34	28	1.58
5187865--5187906	15	2.7	16	82	14	52	52	2	0	45	1.13
5187874--5187915	15	2.9	15	82	10	52	52	0	0	47	1.00
5204365--5204410	19	2.3	20	82	17	60	19	0	6	73	1.04
5204684--5204737	26	2.1	26	82	6	65	61	7	0	31	1.24
5206793--5206940	73	2.1	71	80	10	158	37	10	22	29	1.87
5207626--5207814	86	2.2	87	83	7	242	39	20	8	31	1.82
5207866--5207929	28	2.2	28	84	13	78	60	1	3	34	1.22
5207941--5208003	19	3.3	18	73	8	63	61	3	4	30	1.32
5208240--5208318	35	2.2	36	81	6	88	36	2	2	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5208257--5208371	45	2.6	44	77	14	110	39	2	0	57	1.19
5208316--5208355	10	4.1	10	83	3	55	42	0	0	57	0.98
5208404--5208575	90	1.9	91	87	1	256	33	9	18	37	1.84
5208399--5208622	90	2.5	89	82	4	252	30	8	21	39	1.84
5217402--5217461	29	2.0	32	83	9	81	50	8	25	16	1.73
5234687--5234779	44	2.1	45	86	6	127	30	5	31	33	1.80
5234936--5234970	18	2.0	17	88	5	52	54	0	0	45	0.99
5235054--5235090	16	2.2	17	86	13	51	54	0	2	43	1.14
5234916--5235166	120	2.1	119	96	1	457	48	5	2	43	1.41
5234964--5235151	61	3.1	61	70	11	197	47	6	3	42	1.46
5238216--5238260	22	2.0	22	95	0	81	53	4	4	37	1.41
5238616--5238678	23	2.7	24	76	16	78	50	22	9	17	1.74
5238588--5238817	107	2.1	107	98	0	442	43	24	6	25	1.79
5238723--5238785	23	2.7	24	79	16	87	52	22	7	17	1.70
5238752--5238797	22	2.1	22	84	8	58	58	19	4	17	1.55
5240090--5240132	24	1.9	22	86	13	61	46	13	20	18	1.83
5246064--5246116	22	2.4	22	87	0	70	60	11	0	28	1.31
5248677--5248815	68	2.0	68	84	7	179	47	6	3	42	1.46
5263582--5263610	5	5.8	5	100	0	58	17	0	0	82	0.66
5273239--5273352	55	2.1	55	91	0	183	28	21	11	38	1.88
5273359--5273942	109	5.4	109	83	1	647	26	19	12	41	1.87
5273294--5273838	70	7.6	70	69	13	241	26	19	12	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5273294--5273942	36	18.1	35	65	16	141	26	19	12	41	1.87
5273359--5273942	218	2.7	216	84	3	726	26	19	12	41	1.87
5276685--5276871	62	3.0	62	100	0	374	36	22	24	16	1.94
5278081--5278131	4	12.8	4	79	8	59	43	27	5	23	1.77
5278083--5278129	12	3.9	12	88	0	76	42	27	6	23	1.78
5280019--5280068	25	2.0	25	100	0	100	36	24	4	36	1.74
5282757--5282796	21	1.9	21	100	0	80	32	17	20	30	1.95
5284562--5284654	32	3.0	31	85	6	125	36	4	0	59	1.17
5292161--5292199	14	2.7	15	84	8	53	53	15	10	20	1.70
5298134--5298180	16	3.1	15	76	14	51	57	0	4	38	1.18
5301077--5301116	19	2.1	19	86	9	55	42	0	2	55	1.13
5301269--5301317	25	2.0	25	83	0	62	36	6	10	46	1.63
5302160--5302188	5	5.8	5	100	0	58	41	0	17	41	1.49
5303224--5303325	22	4.3	25	79	6	81	15	25	20	38	1.92
5308330--5308399	27	2.6	27	77	11	79	30	25	17	27	1.97
5309804--5309871	25	2.7	25	81	0	82	39	14	1	44	1.55
5310007--5310036	15	2.1	15	93	6	53	53	20	6	20	1.67
5327537--5327577	21	2.0	21	86	9	59	31	12	12	43	1.79
5331809--5331858	20	2.5	20	76	23	61	30	22	0	48	1.51
5331809--5331862	19	2.8	19	84	15	67	27	25	0	46	1.53
5331884--5331920	20	2.0	20	89	10	60	24	32	0	43	1.55
5331832--5331969	53	2.6	54	85	5	174	23	34	0	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5331949--5331990	20	2.2	19	87	8	59	23	45	0	30	1.53
5332432--5332469	19	2.0	19	94	0	67	39	7	21	31	1.82
5333187--5333283	33	2.8	35	72	20	89	45	3	1	50	1.24
5335384--5335417	6	5.7	6	100	0	68	0	47	0	52	1.00
5335791--5335823	3	11.0	3	100	0	66	33	33	0	33	1.58
5350243--5350336	48	2.0	48	87	8	138	40	27	12	19	1.88
5350861--5351058	99	2.0	99	97	0	378	11	38	17	32	1.85
5353207--5353250	17	2.4	19	88	11	65	63	2	4	29	1.26
5354053--5354127	23	3.3	23	90	0	123	48	10	1	40	1.46
5360795--5360843	17	2.7	18	81	12	55	57	0	8	34	1.29
5361666--5361708	13	3.5	13	75	18	56	48	13	0	37	1.43
5361664--5361717	23	2.3	23	96	0	99	48	12	0	38	1.42
5362832--5362871	21	1.9	21	85	10	55	37	12	27	22	1.90
5372873--5372913	11	3.9	11	76	23	52	43	2	0	53	1.13
5372882--5372919	20	1.9	20	88	0	58	42	2	0	55	1.14
5375641--5375683	20	2.2	20	86	0	59	62	2	2	32	1.20
5375851--5375929	25	3.2	25	73	18	74	50	1	3	44	1.28
5376847--5376910	20	3.2	20	86	6	94	45	0	1	53	1.10
5376813--5376872	28	2.2	27	82	8	77	43	1	3	51	1.28
5376964--5377024	17	3.3	18	84	6	70	60	3	3	32	1.29
5377021--5377056	18	1.9	19	88	5	56	36	0	2	61	1.11
5377018--5377065	19	2.5	20	76	10	64	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5377909--5377970	19	3.2	20	78	17	67	37	0	3	59	1.13
5379765--5379789	13	1.9	13	100	0	50	32	24	24	20	1.98
5380071--5380098	14	2.0	14	100	0	56	50	7	7	35	1.57
5380855--5380992	59	2.4	59	91	1	224	53	4	3	38	1.38
5383565--5383604	14	2.9	14	84	0	53	42	17	7	32	1.77
5383530--5383596	34	1.9	35	87	3	100	44	13	10	31	1.77
5384319--5384360	12	3.6	12	77	6	50	23	14	21	40	1.90
5384296--5384365	23	3.0	23	87	2	104	27	12	18	41	1.87
5384296--5384380	23	3.7	23	84	4	100	29	11	18	40	1.86
5391014--5391064	19	2.8	18	80	8	59	39	0	5	54	1.24
5397146--5397179	11	3.1	11	100	0	68	35	11	8	44	1.72
5398396--5398435	20	2.0	20	85	0	53	50	15	10	25	1.74
5409396--5409490	27	3.5	27	75	9	95	18	20	17	43	1.89
5410980--5411041	27	2.3	27	80	5	72	35	9	24	30	1.87
5420993--5421055	30	2.1	30	90	0	99	57	12	3	26	1.51
5428092--5428162	25	2.8	25	95	0	124	35	4	2	57	1.33
5428214--5428253	19	2.1	19	86	13	55	22	0	15	62	1.32
5440155--5440338	40	4.6	41	82	12	190	25	26	22	26	2.00
5440155--5440338	79	2.3	82	81	11	215	25	26	22	26	2.00
5447876--5447956	31	2.6	31	88	0	117	28	8	16	46	1.76
5447914--5447999	43	2.0	43	100	0	172	25	6	18	48	1.73
5447889--5448030	74	1.9	74	88	0	212	29	7	16	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5447957--5448065	31	3.5	31	82	3	141	29	7	17	45	1.75
5455209--5455384	89	2.0	89	95	2	318	33	12	12	41	1.81
5460395--5460450	28	2.0	28	82	6	69	53	8	7	30	1.59
5478474--5478516	21	2.0	22	82	8	54	32	2	20	44	1.65
5478474--5478521	21	2.2	22	81	7	53	35	4	18	41	1.70
5491092--5491118	14	1.9	14	100	0	54	37	22	25	14	1.93
5495431--5495464	18	1.9	17	88	5	50	5	38	0	55	1.24
5498112--5498304	50	3.8	50	88	0	269	20	30	22	26	1.98
5506052--5506097	22	2.1	22	87	0	65	39	47	4	8	1.54
5506064--5506124	11	5.5	11	76	0	59	34	49	4	11	1.61

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   176   
          177   178   179   180   181   182   183   184   185