genome.fa.s17.2.7.7.80.10.50.1000.20.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  20  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)
5613032--5613080	22	2.3	22	85	3	64	65	4	6	24	1.33
5615833--5615914	24	3.4	24	81	0	101	12	45	6	36	1.67
5615850--5615922	24	3.0	24	76	7	76	13	43	6	35	1.71
5617838--5617872	16	2.1	18	89	10	56	57	0	2	40	1.14
5619588--5619621	16	2.0	16	88	11	50	58	0	0	41	0.98
5620321--5620354	17	2.0	17	94	0	59	26	11	14	47	1.79
5620462--5620501	19	2.1	19	85	0	53	52	5	15	27	1.63
5627980--5628033	27	2.0	28	85	3	74	16	7	9	66	1.42
5633235--5633270	18	2.0	18	88	0	54	50	0	5	44	1.25
5633252--5633308	22	2.5	23	82	2	71	61	0	1	36	1.07
5633288--5633349	19	3.0	21	77	20	76	66	0	1	32	1.02
5633844--5633899	22	2.8	21	79	12	55	14	3	69	12	1.31
5633926--5633978	22	2.5	21	85	14	65	35	1	1	60	1.19
5646618--5646659	21	2.0	21	85	0	57	30	33	9	26	1.88
5668665--5668710	15	3.1	15	77	0	56	23	10	50	15	1.75
5676834--5676885	24	2.2	24	86	6	70	50	5	3	40	1.45
5683830--5683876	25	2.0	23	83	8	58	65	2	4	27	1.22
5687889--5687925	3	12.7	3	94	5	67	29	0	0	70	0.88
5690757--5690809	22	2.4	22	87	3	70	66	1	1	30	1.13
5690781--5690831	18	2.9	18	85	2	59	66	1	3	27	1.20
5690805--5690840	17	2.1	17	90	10	56	69	0	2	27	1.02
5690762--5690840	18	4.1	19	71	21	58	68	1	2	27	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5690789--5690856	28	2.4	28	80	7	66	67	2	4	25	1.23
5691543--5691584	19	2.2	19	86	4	57	66	0	0	33	0.92
5691536--5691584	18	2.7	18	87	9	64	65	2	0	32	1.04
5696506--5696557	24	2.2	24	89	0	77	53	7	3	34	1.48
5698447--5698498	24	2.2	24	96	0	95	57	7	0	34	1.27
5699044--5699098	18	3.1	19	74	12	62	41	0	0	58	0.98
5699065--5699098	17	2.0	17	100	0	68	47	0	0	52	1.00
5707517--5707569	16	3.3	16	74	10	54	15	33	1	49	1.55
5728618--5728672	22	2.5	22	78	18	62	34	0	65	0	0.93
5728627--5728672	14	2.9	16	78	21	53	30	0	69	0	0.89
5737994--5738043	20	2.5	20	87	6	75	46	16	10	28	1.78
5748373--5748407	18	1.9	18	88	0	52	25	42	8	22	1.82
5752679--5752714	17	2.1	18	89	5	56	50	0	0	50	1.00
5758195--5758236	10	4.1	10	87	3	57	33	0	19	47	1.49
5765891--5765939	17	2.9	17	75	0	53	69	0	28	2	1.00
5767002--5767072	21	3.4	21	84	0	97	15	14	35	35	1.88
5769537--5769651	27	4.3	27	79	5	90	28	24	12	34	1.91
5769556--5769651	27	3.6	27	86	0	120	30	21	13	34	1.92
5773212--5773341	45	2.9	45	79	12	151	27	21	16	34	1.94
5774115--5774302	92	2.0	92	94	0	331	36	9	13	40	1.77
5777569--5777598	14	2.1	15	93	6	53	60	6	0	33	1.23
5779955--5779989	2	17.5	2	100	0	70	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5784742--5784831	41	2.2	42	82	4	103	60	0	34	5	1.20
5788174--5788446	139	2.0	139	84	2	361	25	21	15	36	1.93
5788602--5788655	16	3.4	16	82	2	65	72	3	3	20	1.16
5788715--5788753	20	2.0	19	85	14	53	71	5	0	23	1.05
5789012--5789085	36	2.1	36	82	10	89	24	8	0	67	1.17
5789484--5789545	19	3.2	19	84	15	83	54	6	1	37	1.36
5790815--5790852	15	2.4	17	82	13	53	65	0	13	21	1.26
5794255--5794302	20	2.3	21	86	10	64	47	0	2	50	1.12
5794269--5794349	29	2.8	30	81	9	96	49	1	2	46	1.23
5794293--5794335	15	2.8	15	82	13	52	44	0	2	53	1.13
5797890--5797925	12	2.8	13	87	12	56	66	0	2	30	1.06
5798612--5798683	30	2.4	30	81	6	83	45	0	1	52	1.09
5799252--5799307	26	2.2	25	90	3	85	28	1	0	69	0.98
5801813--5801855	20	2.2	19	84	12	52	51	2	2	44	1.27
5802498--5802572	38	2.0	37	89	2	114	33	2	0	64	1.08
5802541--5802574	13	2.8	12	87	12	52	41	2	0	55	1.15
5802790--5802854	34	1.9	34	83	0	85	24	12	16	46	1.82
5812976--5813041	20	3.3	20	72	4	71	54	9	16	19	1.68
5812965--5813046	39	2.1	39	97	0	155	52	7	19	20	1.70
5812964--5813022	19	3.1	19	70	4	64	54	6	20	18	1.66
5813886--5813931	18	2.4	20	85	7	60	39	6	4	50	1.48
5813860--5814068	108	1.9	110	88	1	314	32	10	3	53	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5815712--5815805	9	10.4	9	82	4	118	41	22	8	27	1.83
5831349--5831461	55	2.1	55	100	0	226	43	12	14	30	1.82
5851757--5851805	23	2.1	23	100	0	98	26	28	12	32	1.92
5854864--5854911	25	1.9	25	95	0	87	60	16	12	10	1.58
5855387--5855416	9	3.2	9	90	9	51	56	0	0	43	0.99
5866898--5866922	11	2.3	11	100	0	50	92	0	8	0	0.40
5867058--5867116	31	2.0	29	83	6	73	35	6	11	45	1.67
5873657--5873707	26	2.0	26	92	0	84	41	25	15	17	1.89
5874357--5874396	20	2.0	20	85	0	53	37	15	2	45	1.59
5875469--5875516	25	1.9	25	82	0	60	50	4	2	43	1.33
5885590--5885614	6	4.2	6	100	0	50	84	0	0	16	0.63
5898039--5898132	37	2.6	36	81	8	109	32	22	1	43	1.60
5898039--5898133	36	2.6	35	80	12	102	32	23	1	43	1.61
5898412--5898445	17	1.9	18	88	5	52	35	23	0	41	1.55
5898819--5898858	9	4.4	9	83	0	53	0	30	0	70	0.88
5898819--5898862	18	2.4	18	96	0	79	0	31	0	68	0.90
5899170--5899225	17	3.2	17	76	16	60	50	1	0	48	1.11
5900089--5900156	21	3.2	21	76	11	77	58	0	2	38	1.13
5900060--5900138	35	2.4	33	91	6	124	53	0	3	43	1.19
5900119--5900188	10	6.9	10	75	14	54	54	0	1	44	1.09
5900111--5900148	11	3.5	11	92	7	60	50	0	2	47	1.15
5900101--5900243	44	3.0	48	85	9	163	62	0	2	35	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5904317--5904349	17	1.9	17	88	11	50	24	36	6	33	1.80
5904732--5904757	11	2.4	11	100	0	52	15	7	0	76	0.99
5905548--5905600	20	2.7	20	100	0	106	30	0	0	69	0.88
5905570--5905632	29	2.2	29	85	5	83	34	0	0	65	0.93
5908181--5908213	6	5.5	6	96	0	57	15	3	0	81	0.80
5912896--5913072	93	1.9	92	82	3	221	31	20	16	30	1.95
5913493--5913779	104	2.8	103	79	4	299	30	19	15	33	1.93
5913525--5913841	104	3.0	104	79	1	323	29	20	17	33	1.95
5917381--5917414	12	2.8	12	100	0	68	23	17	0	58	1.38
5917407--5917515	11	10.3	11	68	11	66	22	26	2	47	1.65
5917417--5917520	22	4.9	22	68	17	85	25	25	2	47	1.66
5917531--5917570	15	2.9	14	82	10	55	50	0	0	50	1.00
5922084--5922369	125	2.3	125	90	0	455	29	18	18	33	1.95
5930572--5930648	38	2.0	38	100	0	154	29	10	20	38	1.86
5934119--5934222	33	3.4	33	72	22	127	25	6	21	46	1.76
5934112--5934227	57	2.0	57	100	0	232	24	6	20	48	1.74
5959663--5959705	22	2.0	22	85	0	59	41	2	2	53	1.26
5960248--5960282	16	2.1	16	89	10	52	71	2	25	0	1.00
5963433--5963662	62	3.7	61	92	2	361	34	4	10	50	1.57
5963433--5963725	124	2.3	125	86	5	387	34	6	10	49	1.62
5963998--5964084	33	2.6	33	78	3	95	22	16	42	18	1.89
5964885--5964919	14	2.5	14	95	0	61	40	5	20	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5966775--5966823	26	1.9	25	87	4	71	2	28	0	69	1.00
5968140--5968264	56	2.2	56	95	0	223	23	24	16	36	1.94
5972156--5972211	23	2.4	23	93	3	94	25	25	21	28	1.99
5976580--5976626	21	2.2	22	92	3	78	21	19	38	21	1.94
5978024--5978064	18	2.3	18	100	0	82	29	12	36	21	1.90
5979729--5979753	13	1.9	13	100	0	50	48	20	8	24	1.76
5979939--5980041	41	2.5	41	82	3	118	29	24	18	28	1.98
5979977--5980072	41	2.3	41	85	1	120	34	20	16	28	1.95
5981216--5981282	27	2.4	27	78	9	73	52	2	0	44	1.16
5982564--5982657	46	2.1	44	88	11	138	36	25	4	34	1.76

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