genome.fa.s17.2.7.7.80.10.50.1000.19.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  19  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)
5268868--5269914	421	2.5	419	90	3	1624	33	17	14	34	1.90
5272299--5272346	3	16.0	3	91	0	78	62	0	37	0	0.95
5284895--5284961	9	7.4	9	84	0	80	40	23	8	26	1.84
5284895--5284961	27	2.5	27	90	0	107	40	23	8	26	1.84
5285111--5285150	18	2.2	18	90	0	62	12	5	42	40	1.64
5285111--5285158	18	2.6	18	86	3	51	12	4	43	39	1.62
5287075--5287127	24	2.2	24	82	0	61	60	0	15	24	1.35
5289931--5289974	22	2.0	22	86	0	61	43	18	4	34	1.70
5295750--5295786	17	2.2	17	100	0	74	35	5	18	40	1.74
5311090--5311208	24	5.0	24	91	0	175	20	29	31	19	1.97
5319003--5319030	14	2.0	14	100	0	56	50	14	14	21	1.78
5320122--5320178	17	3.1	18	73	21	55	45	0	0	54	0.99
5320129--5320172	21	2.2	20	83	4	52	43	0	0	56	0.99
5320122--5320182	20	3.2	20	78	13	67	45	0	0	54	1.00
5320186--5320227	13	2.9	14	80	13	50	54	0	0	45	0.99
5320190--5320226	16	2.3	16	86	13	58	59	0	0	40	0.97
5322666--5323000	44	7.3	44	71	14	212	29	19	17	33	1.95
5323485--5323556	36	2.0	36	97	0	135	40	19	23	16	1.91
5331575--5331607	14	2.3	15	89	5	50	24	0	0	75	0.80
5331958--5332009	17	3.0	17	82	2	50	48	0	3	48	1.20
5332211--5332241	16	1.9	16	93	0	53	48	3	0	48	1.17
5335335--5335403	11	6.4	11	79	14	81	57	0	2	39	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5335310--5335420	42	2.7	41	82	12	154	60	0	1	37	1.07
5335347--5335409	31	2.1	30	96	3	117	60	0	1	38	1.07
5335390--5335432	16	2.6	16	81	3	50	62	0	0	37	0.95
5335358--5335432	31	2.4	31	82	6	80	61	0	1	37	1.05
5340970--5341050	3	26.0	3	75	16	67	61	2	3	32	1.26
5341808--5341834	14	1.9	14	100	0	54	74	0	3	22	0.98
5342937--5343047	45	2.4	45	82	13	136	62	0	2	34	1.16
5342963--5343019	18	3.1	18	82	2	60	63	1	1	33	1.15
5342981--5343046	27	2.4	27	82	5	80	65	1	1	31	1.11
5342937--5343058	46	2.6	45	83	10	149	62	0	3	33	1.17
5346900--5346981	27	3.1	26	77	6	76	31	18	15	34	1.92
5351847--5351878	15	2.3	15	89	10	50	40	18	0	40	1.51
5352365--5352413	6	7.8	6	84	6	62	44	16	20	18	1.86
5352391--5352574	45	4.1	45	85	2	228	39	20	20	20	1.93
5367222--5367264	22	2.0	22	81	9	52	39	27	6	25	1.81
5368257--5368284	12	2.3	12	100	0	56	50	10	7	32	1.64
5369103--5369182	31	2.6	31	95	0	142	45	21	15	18	1.86
5370087--5370515	83	5.2	83	93	0	714	27	16	14	41	1.87
5370972--5371013	21	2.0	21	85	0	57	47	35	0	16	1.47
5371022--5371062	21	2.0	21	85	0	55	51	24	2	21	1.60
5371134--5371189	7	8.1	7	76	4	51	41	42	1	14	1.56
5371307--5371543	41	5.8	41	74	10	189	35	27	18	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5371347--5371501	83	1.9	82	82	6	197	35	26	19	18	1.95
5371306--5371542	124	1.9	122	84	5	316	34	27	18	19	1.95
5371427--5371590	41	4.0	41	81	7	163	31	31	16	20	1.94
5371641--5371733	40	2.3	41	86	1	134	30	23	19	26	1.98
5374128--5374175	25	1.9	25	83	8	62	35	2	16	45	1.59
5388087--5388147	20	3.0	20	81	13	79	44	3	1	50	1.28
5388078--5388194	21	5.2	21	75	17	94	43	3	2	50	1.32
5388114--5388151	12	3.4	12	79	20	55	47	0	0	52	1.00
5388076--5388194	16	7.8	16	71	19	67	43	3	2	50	1.32
5388283--5388331	13	3.7	13	83	2	53	44	2	20	32	1.63
5389538--5389604	31	2.2	31	86	5	100	34	5	20	38	1.77
5395722--5395765	11	4.3	11	78	21	51	61	2	0	36	1.09
5395750--5395842	26	3.5	26	94	4	152	40	10	0	48	1.38
5396082--5396120	19	2.0	21	85	10	55	25	0	7	66	1.18
5396164--5396205	3	14.0	3	100	0	84	33	0	0	66	0.92
5396204--5396229	3	8.7	3	100	0	52	0	0	30	69	0.89
5396464--5396494	12	2.6	12	94	0	53	19	0	19	61	1.35
5397048--5397092	18	2.5	18	81	0	63	28	8	44	17	1.79
5402765--5402802	19	2.0	19	85	10	51	60	7	0	31	1.25
5402813--5402965	44	3.6	42	80	13	145	0	34	0	64	0.98
5402861--5402963	35	2.8	37	81	11	108	0	33	0	65	1.00
5402824--5402963	39	3.5	39	75	19	130	0	33	0	65	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5403007--5403073	27	2.5	27	90	0	98	16	25	28	29	1.97
5403007--5403082	27	2.8	27	84	4	82	17	26	27	28	1.97
5403145--5403214	28	2.5	28	100	0	140	47	0	14	38	1.44
5405945--5406009	20	3.1	20	74	14	60	46	27	4	21	1.71
5406112--5406319	76	2.7	75	83	6	258	27	21	18	32	1.96
5406486--5406910	114	3.7	112	78	7	394	27	22	16	34	1.95
5406498--5406910	228	1.8	228	80	4	510	27	22	15	34	1.94
5408735--5409000	145	1.8	144	83	2	354	42	9	9	38	1.70
5409568--5409659	28	3.3	28	98	0	175	54	0	10	34	1.36
5420389--5420442	26	2.1	26	96	3	101	46	11	12	29	1.77
5423484--5423538	6	9.2	6	100	0	110	50	0	16	32	1.45
5424302--5424356	29	1.9	28	85	3	74	36	14	9	40	1.78
5424944--5425000	29	2.0	29	82	0	69	40	15	5	38	1.70
5430027--5430066	6	6.7	6	94	0	62	17	20	37	25	1.94
5437950--5438027	24	3.2	24	100	0	156	29	25	25	19	1.98
5437948--5438066	48	2.4	49	82	8	145	31	24	25	18	1.97
5438037--5438175	26	5.6	25	67	19	62	33	23	24	18	1.97
5438123--5438173	26	2.0	26	84	0	66	35	23	23	17	1.95
5438897--5438935	20	1.9	20	84	5	51	35	25	0	38	1.56
5444406--5444457	26	2.0	26	84	0	68	44	23	13	19	1.86
5448093--5448168	25	3.1	25	77	19	79	13	18	1	67	1.30
5448124--5448168	23	2.0	23	82	8	56	17	15	0	66	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5455975--5456035	31	2.0	31	96	0	113	47	18	16	18	1.83
5465106--5465160	25	2.2	25	96	3	103	60	3	7	29	1.41
5467256--5467336	39	2.1	39	100	0	162	55	9	2	32	1.46
5470808--5470872	32	2.0	32	100	0	130	35	15	21	27	1.94
5472755--5472805	18	3.0	16	78	13	57	70	1	0	27	0.98
5472958--5473051	49	2.0	47	89	8	147	32	13	12	40	1.83
5473689--5473719	11	2.8	11	90	0	53	67	0	0	32	0.91
5473689--5473723	11	3.1	11	91	4	52	65	0	0	34	0.93
5476583--5476633	24	2.1	24	100	0	102	29	23	13	33	1.93
5503264--5503291	14	2.0	14	100	0	56	50	7	14	28	1.69
5505657--5505724	25	2.7	25	95	0	118	30	17	30	20	1.96
5506785--5506816	13	2.5	13	100	0	64	40	12	0	46	1.42
5507870--5507899	16	1.9	15	93	6	51	60	16	10	13	1.59
5512170--5512200	14	2.1	15	94	5	55	61	6	12	19	1.53
5527185--5527226	20	2.0	21	90	4	68	76	0	4	19	0.96
5527303--5527336	11	3.2	11	83	8	52	64	0	2	32	1.08
5527303--5527338	10	3.5	10	85	7	54	61	0	2	36	1.11
5533035--5533064	13	2.3	13	100	0	60	50	10	13	26	1.73
5544795--5544862	3	22.3	3	82	8	84	30	2	4	61	1.30
5558923--5559196	45	6.1	45	85	1	352	29	17	24	28	1.98
5564872--5564914	23	1.9	23	90	4	70	44	13	6	34	1.72
5564869--5564926	22	2.6	22	81	7	73	41	17	5	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5565417--5565448	16	2.0	16	100	0	64	25	6	6	62	1.42
5565869--5565943	7	10.7	7	79	0	69	46	36	0	17	1.48
5572029--5572080	24	2.2	24	89	0	77	36	3	9	50	1.54
5575813--5576132	46	6.9	46	90	1	412	29	23	8	38	1.84
5577990--5578037	24	2.0	23	96	4	87	29	27	0	43	1.55
5581337--5581368	8	4.0	8	95	0	55	46	3	0	50	1.17
5583938--5583995	30	1.9	30	89	0	89	10	27	37	24	1.88
5601884--5601921	20	1.9	20	100	0	76	71	0	0	28	0.87
5609598--5609640	17	2.6	17	77	3	52	58	0	0	41	0.98
5610293--5610348	29	1.9	29	82	7	69	30	5	10	53	1.58

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