genome.fa.s17.2.7.7.80.10.50.1000.43.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  43  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)
11783215--11783332	10	11.4	10	68	20	57	61	1	0	36	1.12
11786785--11786835	25	2.1	24	82	10	59	72	0	13	13	1.12
11797732--11797824	45	2.1	45	86	6	127	37	23	2	36	1.67
11797814--11797857	16	2.8	16	78	0	61	29	22	4	43	1.73
11798743--11798810	24	2.8	24	79	0	64	44	13	17	25	1.85
11801218--11801341	57	2.2	57	92	0	203	27	21	14	36	1.93
11807156--11807231	24	3.2	23	76	9	73	48	0	1	50	1.09
11807170--11807213	12	3.7	11	80	14	52	52	0	2	45	1.13
11807193--11807230	14	2.4	17	87	12	55	47	0	0	52	1.00
11807450--11807481	17	2.0	17	88	11	50	62	15	21	0	1.32
11808335--11808504	43	4.0	43	83	5	202	31	30	15	22	1.95
11813351--11813414	14	4.5	14	71	11	58	34	42	0	23	1.55
11813341--11813436	22	4.4	22	77	5	79	35	39	0	25	1.56
11813628--11813660	16	2.1	16	88	11	50	57	0	0	42	0.98
11814021--11814194	73	2.4	73	94	1	296	24	29	20	25	1.99
11814094--11814305	111	1.9	113	88	2	320	24	27	22	25	1.99
11814004--11814378	184	2.0	185	89	2	565	25	28	19	26	1.99
11814208--11814451	73	3.4	73	90	1	359	25	28	20	26	1.99
11814278--11814644	187	2.0	186	91	0	599	25	29	19	25	1.99
11814351--11814565	114	1.9	114	89	0	331	26	28	20	25	1.99
11814465--11814717	73	3.5	73	86	1	382	23	26	20	28	1.99
11814021--11814898	259	3.4	260	91	1	1399	24	27	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11814613--11814824	114	1.9	114	88	4	320	23	25	21	28	1.99
11814727--11814898	74	2.3	73	81	6	195	23	25	19	31	1.98
11815102--11815165	27	2.5	27	80	12	73	39	0	26	34	1.57
11821396--11821444	24	2.2	23	79	13	59	51	0	2	46	1.12
11821400--11821443	12	3.7	11	80	14	52	52	0	2	45	1.13
11821423--11821460	14	2.4	17	87	12	55	47	0	0	52	1.00
11821633--11821708	5	14.6	5	71	22	50	72	5	18	3	1.19
11821638--11821708	16	4.4	16	75	10	56	71	5	18	4	1.22
11822567--11822630	27	2.5	27	80	12	73	39	0	26	34	1.57
11828749--11828819	27	2.6	27	77	0	70	25	32	30	11	1.91
11828914--11828951	3	12.7	3	94	0	67	63	0	36	0	0.95
11829063--11829120	24	2.4	24	77	11	66	15	0	12	72	1.12
11829293--11829339	23	2.0	23	88	8	69	23	4	12	59	1.51
11829201--11829424	76	2.9	77	76	9	231	35	4	8	50	1.55
11829399--11829445	3	15.7	3	100	0	94	34	0	0	65	0.93
11832242--11832283	8	5.4	8	85	5	59	23	0	26	50	1.50
11834694--11835386	159	4.4	158	92	1	1131	28	8	8	54	1.60
11834695--11835386	317	2.2	316	91	2	1122	28	8	8	54	1.60
11835537--11835659	30	4.4	30	77	17	147	63	7	5	23	1.42
11835537--11835591	14	3.8	14	77	17	67	67	7	3	21	1.31
11835533--11835633	52	1.9	52	93	0	175	64	6	4	23	1.38
11835946--11835998	3	18.0	3	81	18	67	1	33	0	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11835946--11835988	8	5.2	8	81	13	52	0	34	0	65	0.93
11835946--11835998	11	4.8	11	81	13	65	1	33	0	64	1.05
11835948--11835998	19	2.7	20	85	14	72	1	33	0	64	1.05
11839511--11839541	6	5.2	6	100	0	62	32	35	16	16	1.91
11844220--11844265	24	1.9	24	86	8	67	50	17	2	30	1.58
11844385--11844450	27	2.4	27	94	0	114	25	13	15	45	1.83
11846738--11846803	28	2.4	28	86	0	96	25	15	28	30	1.96
11850588--11850700	40	2.8	40	87	1	156	37	17	26	18	1.93
11850604--11850699	20	4.8	20	65	10	61	35	18	29	16	1.93
11872694--11872730	16	2.3	16	95	0	65	35	5	35	24	1.78
11872710--11872806	44	2.2	44	87	5	133	29	5	29	35	1.79
11872963--11872997	18	2.0	17	88	5	52	54	0	0	45	0.99
11872943--11873421	120	4.0	120	95	0	805	50	4	1	43	1.29
11873203--11873356	18	8.9	18	66	18	76	54	2	0	42	1.19
11878198--11878245	14	3.4	14	79	2	51	10	29	2	58	1.43
11884722--11884754	16	2.1	16	100	0	66	36	6	36	21	1.78
11884977--11885018	15	2.9	15	82	10	52	52	0	0	47	1.00
11884971--11885212	120	2.0	120	96	0	448	49	6	1	42	1.37
11885083--11885129	16	3.0	16	78	12	53	51	2	0	46	1.13
11885029--11885216	61	3.1	61	68	17	174	48	6	2	42	1.42
11885252--11885550	91	3.3	91	91	2	492	45	3	4	46	1.38
11885366--11885510	44	3.2	44	68	21	120	47	2	3	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11885379--11885424	18	2.7	18	86	6	60	47	2	4	45	1.34
11885328--11885562	47	5.1	46	65	13	126	46	4	3	45	1.42
11886895--11886940	20	2.3	20	92	0	74	45	17	28	8	1.78
11888952--11888989	3	12.7	3	83	10	51	68	0	28	2	1.03
11888954--11888988	17	2.0	18	88	5	54	71	0	25	2	1.00
11888939--11888989	27	2.0	25	84	7	66	66	0	27	5	1.14
11889287--11889337	22	2.2	22	86	6	66	43	0	15	41	1.47
11889298--11889340	22	2.0	22	100	0	86	39	0	13	46	1.44
11892160--11892212	28	1.9	28	84	3	72	43	5	3	47	1.45
11894263--11894308	24	1.9	24	86	0	65	50	8	2	39	1.46
11894324--11894395	35	2.1	35	94	0	126	29	16	6	47	1.73
11902863--11902888	5	5.2	5	100	0	52	42	19	19	19	1.90
11902978--11903003	5	5.2	5	100	0	52	38	19	19	23	1.93
11902952--11903003	26	2.0	26	81	7	61	34	15	26	23	1.94
11903372--11903419	19	2.6	19	78	18	57	60	0	2	37	1.09
11903920--11903953	9	3.8	9	92	0	59	29	11	14	44	1.81
11904005--11904035	9	3.4	9	90	0	53	38	22	12	25	1.90
11906403--11906498	48	2.0	48	84	9	126	40	2	1	56	1.18
11906601--11906710	49	2.2	49	91	3	177	39	22	4	33	1.75
11911483--11911518	15	2.5	14	82	8	54	75	2	8	13	1.15
11916179--11916226	24	2.0	24	100	0	96	29	16	16	37	1.91
11917782--11917819	15	2.5	15	87	8	51	50	5	2	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11919395--11919422	8	3.5	8	100	0	56	0	28	21	50	1.49
11919389--11919422	16	2.1	16	88	0	50	2	26	20	50	1.63
11941001--11941035	10	3.4	10	84	7	52	31	2	0	65	1.07
11941001--11941052	21	2.5	20	84	9	61	34	1	1	61	1.18
11941699--11941729	11	2.7	12	90	10	55	25	0	0	74	0.82
11947854--11947924	12	6.4	10	73	16	52	14	2	5	77	1.06
11950203--11950252	21	2.4	21	96	0	91	34	14	14	38	1.85
11951390--11951428	14	2.8	14	88	11	62	43	0	7	48	1.31
11951390--11951428	9	4.2	9	81	18	53	43	0	7	48	1.31
11955792--11955845	3	18.0	3	92	0	90	64	1	0	33	1.04
11955909--11955970	23	2.9	22	84	13	76	53	0	6	40	1.27
11956050--11956130	42	1.9	43	82	7	103	64	4	3	27	1.31
11958948--11958987	20	2.0	21	85	5	55	47	5	0	47	1.24
11959081--11959110	15	2.0	15	93	0	51	86	3	10	0	0.67
11959722--11959752	15	2.1	15	100	0	62	19	25	6	48	1.72
11960390--11960428	13	3.1	13	86	13	55	66	0	0	33	0.92
11968990--11969027	17	2.2	18	85	4	51	55	0	0	44	0.99
11969995--11970071	28	2.9	26	83	7	100	67	1	0	31	0.99
11970013--11970071	28	2.1	28	100	0	118	72	0	0	27	0.84
11977476--11977898	43	9.8	43	84	0	515	26	29	21	22	1.99
11978213--11978261	21	2.3	21	86	6	64	4	40	18	36	1.70
11978216--11978414	87	2.3	87	88	3	285	10	31	19	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11978298--11978348	21	2.4	21	86	0	66	3	41	17	37	1.68
11983893--11983933	16	2.7	15	92	7	73	43	0	14	41	1.45
11983957--11983992	19	1.9	19	88	5	56	36	2	13	47	1.58
11983958--11984113	50	3.3	50	73	15	184	40	1	12	45	1.52
11984008--11984170	43	3.6	43	73	15	150	41	2	11	44	1.54
11984051--11984113	16	3.9	15	82	14	72	39	1	12	46	1.52
11983877--11984159	93	3.1	92	92	2	478	39	2	12	44	1.57
11984774--11984809	15	2.5	15	90	4	56	63	8	16	11	1.49
11986631--11986666	13	2.6	14	86	8	56	33	0	0	66	0.92
11987660--11987907	73	3.4	73	94	1	424	33	19	18	29	1.96

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