genome.fa.s17.2.7.7.80.10.50.1000.143.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  143  of  173  ( 20651 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)
43356459--43356510	27	1.9	27	100	0	104	48	0	9	42	1.36
43358468--43358821	142	2.5	144	87	4	515	53	3	9	33	1.52
43358808--43358844	19	1.9	19	88	0	56	54	10	16	18	1.71
43360842--43360936	47	2.0	47	97	0	181	26	7	34	31	1.84
43363779--43363821	16	2.6	16	81	3	50	44	2	2	51	1.27
43365277--43365380	52	2.1	48	83	7	127	26	14	17	41	1.88
43375524--43375585	24	2.4	26	89	7	92	38	9	1	50	1.45
43375590--43375627	18	2.1	18	90	9	60	89	7	2	0	0.57
43375593--43375626	12	2.9	11	91	8	50	88	8	2	0	0.62
43375729--43375830	24	4.3	23	69	11	64	65	0	34	0	0.93
43375732--43375811	34	2.8	28	75	24	85	66	0	33	0	0.92
43375729--43375823	10	9.5	10	74	13	61	64	0	35	0	0.94
43375729--43375890	38	4.4	38	80	10	160	65	0	33	0	1.02
43375729--43375891	72	2.3	75	80	12	193	65	0	33	0	1.02
43376589--43376629	18	2.2	19	86	4	57	26	0	7	65	1.18
43376600--43376638	18	2.2	18	86	9	53	25	0	5	69	1.09
43376673--43376740	26	2.5	27	90	9	104	41	10	0	48	1.37
43379493--43379530	18	2.1	18	90	0	58	15	44	5	34	1.69
43379496--43379537	18	2.3	18	83	0	57	21	47	2	28	1.63
43380573--43380646	27	2.7	27	85	0	85	12	39	27	21	1.89
43380596--43380678	27	3.1	27	82	0	112	10	42	20	26	1.85
43380705--43380739	17	2.0	18	88	5	54	17	2	0	80	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43380729--43380798	27	2.5	28	84	6	99	51	0	5	42	1.25
43382198--43382260	26	2.4	27	87	12	103	41	4	0	53	1.22
43382553--43382601	22	2.2	22	82	7	55	40	0	6	53	1.26
43382674--43382737	19	3.4	19	78	4	85	35	10	1	51	1.47
43382972--43383030	19	3.2	19	80	4	75	50	0	11	37	1.39
43383669--43383701	16	2.1	16	88	11	50	0	3	12	84	0.72
43383704--43383765	28	2.3	28	94	5	110	53	0	4	41	1.22
43385089--43385146	26	2.2	26	84	6	73	48	1	12	37	1.51
43385263--43385313	19	2.7	20	82	11	63	31	0	3	64	1.11
43388779--43388855	31	2.5	31	93	4	131	48	3	15	32	1.64
43394420--43394484	24	2.8	23	78	15	80	46	1	0	52	1.10
43395380--43395516	25	5.5	25	72	13	102	37	21	15	25	1.92
43395368--43395518	50	3.0	50	84	0	185	38	20	15	25	1.92
43407014--43407138	64	2.0	64	95	0	223	32	12	30	24	1.92
43407935--43408202	140	1.9	140	96	0	491	23	16	25	33	1.95
43408466--43408689	58	3.9	58	85	3	265	35	8	19	37	1.81
43408752--43409037	69	4.1	69	76	1	225	19	21	24	34	1.96
43418633--43418666	5	6.8	5	93	0	59	55	2	41	0	1.15
43423200--43423231	16	2.0	16	100	0	64	68	0	18	12	1.20
43424653--43424694	17	2.4	17	84	11	50	71	0	16	11	1.14
43426687--43426724	18	2.2	17	86	9	51	47	0	7	44	1.32
43426902--43426950	22	2.4	22	80	19	61	16	12	14	57	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43427498--43427545	23	2.1	23	88	7	71	52	16	2	29	1.56
43428606--43428630	13	1.9	13	100	0	50	8	0	24	68	1.16
43430371--43430517	41	3.6	40	75	16	140	27	20	24	27	1.99
43431191--43431225	17	2.1	17	89	10	54	40	0	0	60	0.97
43433034--43433087	24	2.2	24	100	0	108	53	0	16	29	1.43
43435279--43435428	68	2.2	68	89	2	221	32	18	26	23	1.97
43441753--43441803	25	2.1	24	85	3	66	35	21	23	19	1.96
43441810--43441942	64	2.1	64	92	0	221	38	21	15	25	1.92
43446367--43446402	13	2.8	13	86	0	54	80	8	0	11	0.90
43451445--43451484	18	2.2	18	100	0	80	10	30	5	55	1.54
43451567--43451606	19	2.1	19	100	0	80	22	5	25	47	1.71
43460950--43461007	10	5.8	10	80	13	66	25	3	22	48	1.66
43460960--43461016	19	2.9	19	89	7	80	24	3	24	47	1.68
43462636--43462698	24	2.6	24	80	9	83	41	9	15	33	1.80
43462839--43463186	54	6.5	54	81	3	389	38	13	23	24	1.91
43462839--43463183	159	2.1	162	86	2	491	38	13	23	24	1.91
43465795--43465866	36	2.0	35	84	7	92	30	8	23	37	1.84
43486225--43486282	17	3.2	17	76	16	55	51	0	24	24	1.48
43486362--43486421	30	2.0	31	86	3	86	40	0	40	20	1.52
43486635--43486662	9	3.1	9	100	0	56	32	10	10	46	1.73
43486893--43486964	31	2.4	30	83	4	99	36	11	11	41	1.76
43487826--43487875	26	1.9	26	83	0	64	34	6	4	56	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43491384--43491443	29	2.0	29	87	9	86	53	5	1	40	1.33
43491383--43491451	29	2.4	29	81	11	72	57	4	1	36	1.27
43509724--43509769	21	2.1	22	84	4	58	56	2	6	34	1.37
43515400--43515585	36	4.9	36	75	14	185	29	19	12	38	1.89
43515436--43515626	82	2.3	82	91	1	303	28	20	12	38	1.89
43515374--43515585	118	1.8	117	93	1	370	29	18	14	37	1.90
43515475--43515626	46	3.5	46	76	17	189	27	21	13	37	1.91
43518092--43518239	73	2.0	73	92	0	242	20	20	14	44	1.86
43528880--43528941	29	2.2	28	91	8	99	37	30	22	9	1.86
43537653--43537715	18	3.5	18	85	8	76	63	9	1	25	1.34
43537740--43537783	18	2.4	18	84	0	52	50	2	0	47	1.13
43537969--43538020	19	2.8	19	79	2	52	26	0	3	69	1.06
43543615--43543645	4	7.8	4	100	0	62	25	0	74	0	0.82
43547254--43547292	20	2.0	19	85	14	53	28	28	2	41	1.69
43553677--43553801	50	2.4	52	77	5	130	35	14	14	36	1.87
43556242--43556294	21	2.5	21	93	0	88	15	22	41	20	1.89
43557739--43557971	70	3.3	70	89	0	342	30	18	23	28	1.97
43561442--43561473	16	1.9	17	93	6	57	75	3	18	3	1.08
43562387--43562464	22	3.4	22	72	12	68	16	24	17	41	1.90
43568949--43568979	16	1.9	16	93	0	53	9	6	9	74	1.23
43573984--43574020	18	2.1	18	89	0	56	13	16	29	40	1.86
43577966--43578047	22	3.6	22	71	11	76	45	1	1	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43588190--43588229	20	2.0	20	90	0	62	27	10	12	50	1.72
43588175--43588241	34	1.9	35	90	3	109	31	8	13	46	1.74
43588169--43588245	14	5.0	15	71	20	52	33	9	14	42	1.77
43588736--43588932	98	2.0	98	100	0	394	35	22	10	32	1.88
43590402--43590465	27	2.3	28	83	8	85	29	6	10	53	1.60
43590413--43590464	27	1.9	27	100	0	104	30	7	7	53	1.57
43598800--43598826	2	13.5	2	100	0	54	51	0	0	48	1.00
43603994--43604060	20	3.4	19	87	4	80	40	0	7	52	1.30
43604198--43604253	23	2.4	23	76	5	60	44	16	1	37	1.58
43604775--43604820	19	2.3	20	82	14	60	36	2	4	56	1.31
43606626--43606769	23	6.3	23	82	4	184	31	22	21	24	1.98
43606626--43606768	68	2.1	69	90	1	225	31	23	21	23	1.98
43610256--43610289	18	1.9	18	88	5	52	29	0	5	64	1.17
43622429--43622461	5	6.4	5	93	6	57	75	0	3	21	0.93
43624652--43624715	33	1.9	33	100	0	128	37	3	14	45	1.60
43627307--43627368	25	2.5	24	82	7	79	11	0	33	54	1.36
43627307--43627367	12	4.9	12	78	7	59	11	0	34	54	1.37
43627497--43627545	14	3.6	14	81	8	57	81	0	2	16	0.78
43627497--43627551	6	9.3	6	76	23	55	80	0	1	18	0.81
43627507--43627563	30	1.9	29	85	3	78	75	0	5	19	0.99
43637740--43637766	2	13.5	2	100	0	54	51	0	0	48	1.00
43644256--43644280	10	2.5	10	100	0	50	92	0	8	0	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43644941--43645038	51	1.9	51	93	0	169	35	10	17	36	1.84
43649487--43649538	15	3.6	15	80	12	56	44	0	1	53	1.11
43649616--43649657	15	2.7	16	82	14	52	45	0	2	52	1.13
43649868--43649903	16	2.2	16	95	0	63	38	38	0	22	1.54
43650691--43650725	15	2.3	15	90	0	52	65	11	2	20	1.37
43651110--43651168	30	2.0	30	86	6	84	64	3	3	28	1.26
43651177--43651222	22	2.1	21	88	4	65	56	6	4	32	1.45
43653261--43653982	133	5.4	131	84	4	362	29	24	16	29	1.97
43653214--43654008	177	4.5	177	79	3	708	29	24	16	29	1.97
43653214--43654010	266	3.0	267	83	2	888	29	24	16	29	1.97

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