genome.fa.s18.2.7.7.80.10.50.1000.13.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_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  13  of  199  ( 23841 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)
5484201--5484250	24	2.1	24	96	0	91	36	6	30	28	1.81
5485874--5485926	26	2.0	26	85	3	70	18	1	16	62	1.42
5488694--5488719	6	4.3	6	100	0	52	50	0	50	0	1.00
5489450--5489478	8	3.6	8	100	0	58	79	0	0	20	0.74
5489696--5489749	17	3.2	17	73	21	51	40	0	5	53	1.24
5490275--5490303	13	2.2	13	100	0	58	34	13	0	51	1.42
5490750--5490923	84	2.1	84	98	0	339	45	5	4	44	1.44
5496334--5496375	21	2.0	21	85	0	57	54	21	9	14	1.68
5498029--5498105	35	2.3	35	82	8	88	37	14	20	27	1.91
5499796--5499828	3	11.0	3	100	0	66	33	0	0	66	0.92
5500183--5500278	39	2.5	39	80	6	108	20	23	28	27	1.99
5500969--5501303	173	2.0	166	91	8	545	37	8	16	37	1.79
5506269--5506324	28	2.0	29	82	3	69	53	1	1	42	1.21
5507084--5507116	3	11.0	3	100	0	66	33	0	0	66	0.92
5507468--5507563	39	2.5	39	80	6	108	20	23	28	27	1.99
5510524--5510550	12	2.2	12	100	0	54	14	7	0	77	0.97
5521498--5521548	19	2.7	19	79	11	52	56	15	0	27	1.39
5522159--5522223	30	2.3	29	80	15	73	49	6	10	33	1.63
5527383--5527407	7	3.6	7	100	0	50	52	0	0	48	1.00
5527830--5527869	18	2.3	18	86	4	64	60	0	5	35	1.19
5530357--5530449	46	2.0	46	87	4	134	38	10	22	27	1.87
5532596--5532657	28	2.1	28	88	5	88	40	1	6	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5533296--5533329	17	1.9	18	88	5	52	44	0	20	35	1.52
5539659--5539707	6	8.3	6	86	4	73	48	0	2	48	1.12
5561460--5561542	8	9.2	9	69	20	50	34	3	0	61	1.13
5569736--5569882	59	2.5	59	84	3	179	32	8	14	44	1.75
5569853--5570117	84	3.2	84	87	6	400	32	7	10	49	1.67
5569828--5570117	79	3.6	79	88	6	429	32	8	10	48	1.68
5572188--5572212	13	1.9	13	100	0	50	48	0	8	44	1.32
5572373--5572403	15	2.0	16	93	6	55	38	6	9	45	1.63
5573122--5573236	52	2.2	52	90	0	185	34	20	9	34	1.86
5580534--5580558	13	1.9	13	100	0	50	16	0	0	84	0.63
5580551--5580580	11	2.6	11	94	5	51	36	3	0	60	1.14
5580931--5580994	29	2.2	30	82	2	76	35	6	6	51	1.52
5582297--5582328	3	10.7	3	93	0	55	0	34	34	31	1.58
5608733--5608802	27	2.5	29	90	6	110	40	10	1	48	1.45
5608856--5608907	27	1.9	27	92	7	88	28	26	30	13	1.94
5608959--5609020	14	4.1	14	72	23	54	69	0	30	0	0.89
5608962--5609094	38	3.6	37	87	9	168	67	0	31	0	0.96
5608964--5609064	10	10.5	10	72	16	79	65	0	33	0	1.00
5609817--5609868	19	2.7	19	82	8	61	26	0	7	65	1.20
5609875--5609900	13	2.0	13	100	0	52	76	0	0	23	0.78
5609907--5609974	28	2.4	28	90	4	102	42	10	1	45	1.47
5609975--5610008	17	2.0	17	88	11	52	82	5	5	5	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5612305--5612333	14	2.1	14	100	0	58	37	6	0	55	1.27
5612777--5612844	27	2.5	27	87	0	91	20	27	25	26	1.99
5612911--5612980	27	2.5	28	90	4	106	47	1	10	41	1.46
5615252--5615303	24	2.2	24	85	0	68	40	5	5	48	1.51
5619489--5619540	24	2.2	24	85	0	68	38	3	7	50	1.50
5641238--5641279	20	2.2	20	91	4	68	45	0	16	38	1.48
5641358--5641405	20	2.4	20	89	0	69	47	8	12	31	1.71
5641544--5641615	20	3.6	19	71	14	56	43	5	12	38	1.66
5641657--5641762	20	5.3	20	85	2	133	38	3	17	39	1.68
5641657--5641781	20	6.3	19	78	7	90	37	4	19	39	1.70
5641878--5642066	20	9.5	20	71	5	123	35	6	15	42	1.73
5641876--5641978	39	2.6	39	78	1	116	33	5	15	44	1.70
5641858--5642028	79	2.2	80	78	6	195	38	7	14	40	1.72
5641918--5642055	60	2.3	60	78	3	154	34	7	15	42	1.74
5642106--5642156	20	2.5	20	80	0	57	39	0	17	43	1.49
5642272--5642324	20	2.7	20	87	0	79	41	0	20	37	1.53
5642368--5642433	20	3.3	20	79	12	73	40	1	15	42	1.56
5642424--5642471	20	2.4	20	86	6	62	39	2	18	39	1.63
5642701--5642837	20	6.8	20	73	8	100	40	5	13	40	1.67
5642705--5642837	60	2.2	61	82	6	164	40	5	13	40	1.67
5644432--5644474	21	2.0	21	82	8	52	39	13	46	0	1.44
5672941--5672992	24	2.2	24	89	0	77	25	42	1	30	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5672961--5674170	96	12.6	96	90	3	1658	25	50	2	21	1.62
5674086--5674216	69	1.9	69	82	0	163	22	52	2	22	1.58
5674143--5674191	21	2.3	21	82	0	62	16	59	4	20	1.53
5689809--5689875	25	2.7	25	86	4	91	34	16	28	20	1.95
5692745--5692769	13	1.9	13	100	0	50	32	4	24	40	1.73
5694330--5694421	41	2.2	41	86	3	123	23	17	26	32	1.97
5694330--5694434	41	2.6	41	77	8	115	25	17	25	31	1.97
5696820--5696867	19	2.6	17	81	15	60	37	0	0	62	0.95
5696823--5696856	7	4.7	7	85	7	50	38	0	0	61	0.96
5696820--5696886	5	14.2	5	76	17	63	34	0	4	61	1.16
5696823--5696866	22	1.9	24	90	9	74	38	0	0	61	0.96
5696823--5696861	12	3.4	12	82	13	55	38	0	0	61	0.96
5696819--5696886	15	4.9	14	79	13	70	33	0	4	61	1.16
5697707--5697756	18	2.8	18	81	0	55	40	0	4	56	1.18
5697697--5697755	24	2.7	23	80	12	70	38	0	5	55	1.22
5699384--5699426	22	2.0	22	95	0	77	39	18	23	18	1.92
5701354--5701460	45	2.4	45	80	3	135	44	18	14	21	1.86
5701495--5701598	45	2.3	45	83	0	127	39	18	18	24	1.92
5701622--5701669	18	2.6	18	86	3	60	52	14	14	18	1.75
5701492--5701771	152	1.8	153	86	0	409	40	18	17	22	1.91
5701662--5701748	45	1.9	45	88	0	129	43	19	14	21	1.87
5701952--5702035	40	2.1	40	82	4	98	44	21	5	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5705489--5705527	19	2.1	19	100	0	78	35	12	15	35	1.86
5714603--5714718	24	4.9	24	85	3	155	21	27	6	44	1.75
5714603--5714714	47	2.4	46	86	5	161	22	27	6	43	1.77
5721673--5721713	21	2.0	21	90	0	64	29	21	29	19	1.98
5741016--5741125	44	2.5	44	96	0	202	30	13	22	32	1.93
5744786--5744814	11	2.6	11	100	0	58	51	10	37	0	1.36
5745469--5745515	3	15.7	3	86	0	67	34	0	6	59	1.23
5745469--5745515	12	3.9	12	97	0	85	34	0	6	59	1.23
5761557--5761614	30	1.9	30	89	0	89	41	3	24	31	1.71
5761939--5762181	50	4.8	50	90	0	369	26	21	30	21	1.98
5765340--5765438	23	4.3	23	89	0	153	21	21	26	31	1.98
5770377--5770432	22	2.5	23	74	8	62	57	8	8	25	1.58
5777068--5777108	15	2.6	16	81	11	50	12	9	7	70	1.33
5777889--5777971	41	2.0	41	100	0	166	19	9	16	54	1.70
5795436--5795469	18	2.0	18	88	11	54	52	0	0	47	1.00
5802409--5802448	18	2.2	19	86	4	55	42	12	0	45	1.42
5810840--5810939	34	3.2	33	67	26	90	51	12	0	37	1.39
5810832--5810950	60	2.0	60	93	0	202	52	11	0	34	1.44
5811037--5811105	23	3.0	22	74	19	61	8	20	0	71	1.12
5811049--5811107	19	3.2	19	75	24	63	5	23	0	71	1.06
5811369--5811404	17	2.2	17	90	5	56	55	0	0	44	0.99
5815302--5815332	5	6.2	5	92	0	53	0	64	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5831838--5831892	22	2.5	21	80	8	65	60	3	1	34	1.25
5831845--5831887	23	1.9	22	90	4	68	62	0	0	37	0.95
5831863--5831905	16	2.6	18	82	14	56	62	2	2	32	1.20
5843695--5843749	22	2.5	21	80	8	65	34	1	3	60	1.25
5844115--5844153	18	2.2	18	85	0	51	33	0	5	61	1.18
5890262--5890302	20	2.0	20	90	4	64	73	2	24	0	0.96
5890730--5890842	37	2.9	39	77	9	131	26	17	22	33	1.96
5896783--5896983	25	8.2	24	73	10	140	18	25	20	35	1.95
5896891--5896970	24	3.3	23	82	6	97	17	27	21	33	1.96
5899836--5899864	14	2.1	14	100	0	58	44	0	6	48	1.29

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199