genome.fa.s22.2.7.7.80.10.50.1000.21.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: Gbar_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  21  of  172  ( 20605 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)
5217339--5217544	9	23.4	9	74	12	169	46	20	1	31	1.60
5217120--5217360	114	2.1	114	86	5	272	46	9	4	39	1.56
5217344--5217548	25	7.8	25	73	11	119	45	20	1	31	1.60
5217339--5217551	34	6.1	34	75	9	180	46	20	1	31	1.59
5217339--5217522	95	1.9	94	80	6	210	46	20	1	30	1.60
5223015--5223082	21	3.2	20	79	4	73	32	19	42	5	1.75
5223447--5223570	41	3.0	42	84	7	144	25	18	20	35	1.95
5223389--5223570	41	4.3	41	77	10	143	26	17	20	35	1.95
5225616--5225686	20	3.6	20	85	11	94	54	7	0	38	1.27
5225696--5225746	21	2.5	20	75	15	52	60	1	5	31	1.31
5225843--5225873	16	1.9	16	93	0	53	35	6	9	48	1.62
5227111--5227605	253	2.0	253	97	0	936	35	11	23	29	1.90
5228283--5228319	16	2.2	17	82	17	51	24	13	2	59	1.47
5250991--5251085	41	2.3	41	79	10	97	35	10	17	35	1.85
5251018--5251097	41	2.0	41	90	5	126	36	15	16	32	1.89
5251352--5251382	3	10.3	3	100	0	62	32	0	0	67	0.91
5251576--5251601	5	5.2	5	100	0	52	38	0	0	61	0.96
5252982--5253009	3	9.3	3	100	0	56	67	0	0	32	0.91
5253463--5253499	19	1.9	19	94	0	65	54	29	10	5	1.57
5254751--5254814	25	2.5	24	82	9	74	26	3	4	65	1.27
5255215--5255485	109	2.5	109	91	0	425	31	18	17	32	1.94
5260566--5260637	11	6.1	11	75	22	58	77	6	11	4	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5260544--5260620	14	5.6	14	69	17	54	77	5	14	2	1.04
5260566--5260620	13	4.3	13	71	13	51	78	5	12	3	1.06
5260559--5260632	24	3.2	23	77	7	69	77	8	10	4	1.12
5260994--5261037	13	3.6	12	85	14	63	79	0	18	2	0.83
5260991--5261035	11	4.0	11	83	13	56	80	0	17	2	0.82
5260991--5261055	26	2.7	23	83	11	76	76	0	20	3	0.91
5261002--5261035	6	5.7	6	86	13	52	82	0	17	0	0.67
5262132--5262338	46	4.6	46	69	9	122	26	20	23	29	1.99
5262132--5262406	134	2.1	134	95	0	496	27	19	23	29	1.98
5262415--5262634	40	5.3	40	79	10	253	31	24	19	24	1.98
5262407--5262634	84	2.7	84	96	0	411	32	24	19	23	1.97
5262406--5262613	44	5.0	41	79	8	249	34	23	20	22	1.97
5263789--5263825	19	1.9	19	94	0	65	54	29	10	5	1.57
5265079--5265142	25	2.5	24	82	9	74	26	3	4	65	1.27
5265210--5265245	2	18.5	2	88	5	56	44	0	0	55	0.99
5265551--5265819	109	2.5	109	91	0	421	32	19	17	30	1.95
5268808--5268877	10	6.3	10	74	20	59	77	10	11	1	1.07
5268809--5268882	23	3.2	23	78	16	89	77	9	10	2	1.10
5269242--5269286	11	4.0	11	83	13	56	77	2	17	2	0.97
5269244--5269306	13	4.9	13	71	9	58	76	1	19	3	1.01
5270381--5270655	134	2.1	134	95	0	496	28	19	23	29	1.98
5270656--5273796	84	37.7	84	91	5	3720	33	23	20	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5274089--5274125	19	1.9	19	94	0	65	54	29	10	5	1.57
5275359--5275422	25	2.5	24	82	9	74	26	3	4	65	1.27
5275823--5276090	109	2.5	109	93	1	448	32	19	17	30	1.95
5277404--5277592	105	1.8	105	84	4	265	17	26	22	32	1.97
5277552--5277749	25	8.0	25	69	14	83	20	21	21	36	1.95
5280528--5280660	63	2.1	63	84	2	169	27	5	33	33	1.79
5281518--5281542	8	3.1	8	100	0	50	24	0	0	76	0.80
5284755--5284859	7	15.0	7	81	0	93	40	0	30	29	1.57
5288640--5288695	29	1.9	29	85	7	78	39	12	7	41	1.70
5291396--5291445	20	2.5	21	80	9	59	58	0	2	40	1.10
5291438--5291473	11	3.2	11	92	4	54	69	0	8	22	1.15
5291395--5291499	20	5.2	20	68	18	56	59	0	3	37	1.16
5291544--5291598	19	2.9	18	75	17	58	63	0	7	29	1.21
5292395--5292421	13	2.1	13	100	0	54	7	14	0	77	0.97
5298772--5298822	7	7.0	7	79	20	52	70	0	15	13	1.17
5298777--5298803	13	2.1	13	100	0	54	70	0	14	14	1.17
5298780--5298822	22	1.9	22	90	4	68	72	0	13	13	1.13
5298770--5298813	16	2.9	16	77	22	58	75	0	13	11	1.06
5300031--5300454	88	4.8	88	90	1	629	27	24	23	24	2.00
5300067--5300391	44	7.5	42	64	12	145	26	23	24	25	2.00
5300470--5300560	44	2.1	44	87	0	128	31	19	16	31	1.94
5300475--5300586	44	2.5	44	79	2	118	30	21	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5301224--5301262	17	2.3	17	86	0	51	5	35	35	23	1.77
5302100--5302147	6	7.7	6	84	9	60	14	2	6	77	1.06
5310377--5310412	15	2.5	15	90	4	56	19	0	16	63	1.30
5318429--5318466	18	2.1	19	90	5	60	52	5	21	21	1.66
5330567--5330607	2	20.5	2	94	0	73	53	0	46	0	1.00
5330762--5330839	25	2.8	29	79	16	101	23	24	7	44	1.79
5330762--5330808	15	3.1	15	70	11	51	25	23	8	42	1.82
5334350--5334389	18	2.3	18	87	12	57	32	10	2	55	1.47
5337783--5337846	30	2.1	31	94	2	112	26	28	6	39	1.80
5337793--5337839	15	3.1	15	70	11	51	27	23	8	40	1.83
5339094--5339144	21	2.5	19	84	9	66	54	1	3	39	1.30
5340832--5340890	22	2.7	22	92	2	93	8	18	30	42	1.80
5340957--5341072	41	2.8	41	90	2	180	33	23	21	21	1.97
5341044--5341193	42	3.6	42	85	0	185	26	20	20	34	1.96
5341518--5341583	21	3.2	21	79	12	82	4	46	18	30	1.68
5342741--5342793	19	2.9	19	86	5	65	52	0	0	47	1.00
5342816--5342867	16	3.1	16	84	10	68	42	1	15	40	1.58
5342814--5342870	9	6.7	9	78	9	66	42	1	14	42	1.55
5344541--5344631	44	2.1	44	93	0	155	34	7	32	25	1.84
5345828--5345857	15	2.0	15	93	0	51	40	36	0	23	1.55
5346188--5346398	115	1.8	115	85	6	302	27	20	18	33	1.96
5346494--5346630	73	1.9	73	84	7	188	31	22	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5348943--5348992	17	3.0	16	80	8	55	34	0	2	64	1.05
5348943--5348977	16	2.1	17	89	5	54	28	0	2	68	1.04
5349547--5349621	29	2.6	29	80	6	80	57	0	5	37	1.22
5349565--5349621	29	1.9	29	89	3	87	57	0	3	38	1.16
5349605--5349644	19	2.1	19	86	9	55	65	2	2	30	1.19
5349557--5349627	29	2.4	29	80	15	83	59	0	4	36	1.17
5360557--5360600	21	2.0	22	91	4	72	38	15	22	22	1.92
5362502--5362562	23	2.7	22	74	5	59	57	1	6	34	1.34
5362550--5362591	16	2.6	16	78	17	50	57	0	7	35	1.26
5365528--5365570	4	10.8	4	94	0	77	25	0	20	53	1.46
5365833--5365870	20	2.0	19	85	10	51	34	2	15	47	1.60
5366042--5366101	3	19.7	3	89	3	84	61	1	1	35	1.16
5366728--5366767	19	2.2	18	86	4	53	17	17	2	62	1.44
5367085--5367132	18	2.7	18	80	9	53	12	14	29	43	1.82
5367600--5367719	44	2.7	44	88	2	170	25	21	17	35	1.95
5367730--5368658	44	21.0	44	77	5	773	30	24	13	31	1.94
5367728--5368654	266	3.5	261	77	6	794	30	24	13	31	1.94
5367730--5368658	89	10.5	89	76	6	633	30	24	13	31	1.94
5369945--5369987	7	6.0	7	84	13	52	13	16	2	67	1.33
5369945--5369986	15	2.9	15	82	13	52	14	16	2	66	1.35
5372828--5372872	19	2.4	19	85	7	56	44	8	20	26	1.80
5374877--5374948	4	18.5	4	94	5	130	26	0	23	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5375402--5375453	3	16.7	3	90	4	68	63	1	1	32	1.16
5376078--5376117	19	2.2	18	86	4	53	17	17	2	62	1.44
5376968--5377103	44	3.1	43	84	8	123	27	19	16	36	1.94
5376993--5377112	44	2.7	44	88	2	170	25	20	17	36	1.94
5377123--5378050	44	21.0	44	77	6	847	30	24	14	31	1.94
5377123--5378053	221	4.2	220	78	6	891	30	24	14	31	1.94
5377151--5377845	265	2.6	264	83	4	835	31	24	13	31	1.93
5377123--5378050	89	10.5	88	79	5	847	30	24	14	31	1.94
5377195--5378044	177	4.8	178	77	8	470	30	23	14	31	1.94
5382147--5382191	19	2.4	19	85	7	56	44	8	20	26	1.80

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