genome.fa.s17.2.7.7.80.10.50.1000.23.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  23  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)
6234688--6234780	20	4.7	19	74	12	80	50	20	2	26	1.59
6234682--6234779	40	2.4	39	88	5	108	52	20	2	25	1.58
6234871--6234910	14	2.9	14	88	0	53	52	22	0	25	1.47
6234864--6234994	21	6.4	19	73	14	68	53	25	0	20	1.51
6234756--6234994	20	11.9	20	67	16	79	52	25	1	20	1.54
6235111--6235163	21	2.6	21	90	3	81	47	33	0	18	1.49
6235126--6235163	14	2.7	14	91	0	58	47	36	0	15	1.46
6235194--6235248	20	2.8	20	75	5	58	56	18	0	25	1.42
6235152--6235247	40	2.4	40	82	0	111	53	19	0	27	1.46
6235217--6235280	13	5.0	13	70	11	51	60	20	1	17	1.43
6235304--6235408	20	5.1	21	75	7	74	46	26	0	26	1.53
6235263--6235414	20	7.2	21	72	12	71	49	23	0	26	1.55
6235379--6235428	14	3.6	14	74	12	50	52	20	0	28	1.47
6235519--6235563	20	2.3	19	85	11	63	55	15	2	26	1.52
6235526--6235615	20	4.5	20	73	15	69	51	16	1	31	1.52
6235729--6235786	31	1.9	30	86	6	82	43	12	8	36	1.73
6235724--6235790	31	2.3	27	80	14	80	41	10	8	38	1.71
6236048--6236134	42	2.1	42	80	8	97	52	27	3	16	1.59
6236118--6236191	14	5.3	14	71	0	58	50	28	4	17	1.64
6236295--6236357	7	8.7	7	81	6	56	57	28	1	12	1.45
6236308--6236345	8	5.0	8	87	9	53	60	26	0	13	1.33
6236437--6236478	20	2.1	21	91	8	70	42	35	0	21	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6236425--6236497	27	2.7	28	80	6	78	47	28	1	21	1.59
6236704--6236763	28	2.2	28	82	8	70	51	25	3	20	1.62
6236795--6236838	20	2.1	21	91	4	72	43	38	0	18	1.50
6236982--6237039	28	2.0	29	83	3	73	44	31	0	24	1.54
6237089--6237131	20	2.2	20	91	0	68	51	20	0	27	1.48
6237664--6237722	29	2.0	29	86	3	82	27	6	15	50	1.68
6237821--6237917	31	3.2	30	72	5	88	43	11	7	38	1.68
6238305--6238412	7	15.6	7	70	19	57	50	26	0	22	1.55
6238250--6238316	28	2.4	28	82	0	89	47	29	4	17	1.67
6238331--6238391	27	2.2	28	80	8	72	47	29	0	22	1.52
6238471--6238580	21	5.2	21	70	15	75	56	24	0	18	1.47
6238416--6238586	42	4.1	42	74	9	136	54	26	0	18	1.48
6238533--6238615	21	4.0	21	76	9	71	55	27	0	16	1.42
6238416--6238640	42	5.4	42	74	11	117	52	26	0	20	1.49
6238639--6238686	20	2.5	20	83	10	55	50	18	0	31	1.48
6238735--6238824	33	2.7	33	74	6	83	51	27	3	17	1.61
6238843--6238916	21	3.7	20	77	16	73	47	31	2	18	1.63
6238875--6238927	27	2.0	27	92	0	88	47	33	0	18	1.49
6243506--6243602	51	1.9	50	87	2	140	18	15	32	32	1.92
6263715--6263766	24	2.2	24	89	0	77	55	9	1	32	1.43
6265684--6265735	24	2.2	24	89	0	77	55	9	1	32	1.43
6266676--6266705	13	2.3	13	94	0	51	36	6	20	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6274503--6274599	49	2.0	49	93	0	167	37	13	14	35	1.85
6278575--6278722	63	2.3	63	78	8	142	29	5	33	31	1.80
6280501--6280567	28	2.4	28	80	5	73	52	4	16	26	1.63
6282597--6282662	33	2.1	32	83	10	84	63	0	0	36	0.95
6290621--6290650	13	2.3	13	100	0	60	53	16	0	30	1.44
6291254--6291288	10	3.5	10	85	14	54	68	0	2	28	1.04
6292721--6292774	16	3.6	16	77	22	64	55	0	1	42	1.10
6296726--6296757	3	10.7	3	100	0	64	34	0	0	65	0.93
6298341--6298376	17	2.1	17	89	0	54	25	5	22	47	1.73
6301083--6301121	16	2.5	16	87	4	53	35	23	2	38	1.68
6307128--6307438	43	7.1	42	70	13	171	20	13	19	47	1.82
6307168--6307319	44	3.5	43	73	7	130	22	13	19	44	1.86
6307128--6307334	86	2.4	85	85	1	261	21	13	18	45	1.84
6308836--6309211	200	1.9	200	93	1	655	23	20	16	39	1.91
6310677--6311181	250	2.0	249	86	5	707	28	5	13	51	1.64
6313600--6313645	22	2.1	22	92	4	76	10	13	28	47	1.76
6313756--6313876	43	2.8	43	85	5	156	26	27	20	25	1.99
6319773--6320100	25	13.0	25	68	18	153	33	2	19	44	1.63
6319768--6320132	9	43.7	9	63	24	106	32	2	20	44	1.63
6319878--6319920	22	1.9	23	90	4	70	46	0	13	39	1.44
6319971--6320013	16	2.7	16	88	0	59	30	0	23	46	1.52
6319962--6320074	41	2.8	41	81	7	126	30	2	22	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6320050--6320120	20	3.3	22	82	11	85	35	0	19	45	1.51
6320001--6320269	96	2.9	94	83	8	266	33	1	17	47	1.55
6320125--6320196	36	2.0	36	89	5	110	37	0	12	50	1.41
6319872--6320255	198	1.9	195	80	11	429	34	1	17	47	1.55
6320276--6320320	19	2.3	19	85	11	56	53	2	0	44	1.13
6320287--6320339	21	2.5	22	78	9	65	54	1	1	41	1.22
6324246--6324350	43	2.4	43	87	0	138	29	27	17	25	1.97
6324279--6324376	43	2.3	43	83	0	115	32	26	16	24	1.96
6324664--6324722	21	2.8	21	80	10	75	1	42	22	33	1.63
6330275--6330325	25	2.0	26	84	7	68	31	0	21	47	1.51
6330357--6330618	18	14.6	18	65	23	72	33	1	20	45	1.59
6330282--6330445	69	2.4	69	79	12	173	33	0	19	46	1.50
6330315--6330464	76	2.1	69	84	10	185	32	0	20	47	1.55
6330429--6330618	9	20.6	9	70	16	95	34	1	21	43	1.62
6330432--6330632	102	2.0	103	89	1	314	34	1	21	42	1.62
6330488--6330576	46	1.9	47	84	6	119	34	1	21	42	1.60
6330414--6330660	56	4.6	56	75	13	234	35	1	19	43	1.59
6330437--6330673	102	2.3	102	84	5	291	35	1	19	43	1.59
6334136--6334169	12	2.8	12	100	0	68	0	17	50	32	1.47
6336435--6336762	43	7.7	43	88	1	435	30	32	16	20	1.95
6340896--6340924	10	2.9	10	100	0	58	20	0	0	79	0.74
6341287--6341349	26	2.4	26	89	0	90	34	44	4	15	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6341404--6341435	15	2.1	16	94	5	57	46	31	0	21	1.52
6341648--6341674	13	2.1	13	100	0	54	51	7	0	40	1.30
6342172--6342494	41	7.9	41	90	2	497	30	27	22	19	1.98
6342550--6342664	39	3.0	39	76	8	112	25	20	19	34	1.96
6361037--6361061	12	2.1	12	100	0	50	48	0	0	52	1.00
6361132--6361186	12	4.3	13	75	17	53	50	3	3	41	1.37
6361912--6361945	16	2.2	16	89	5	52	50	2	0	47	1.16
6362681--6362716	11	3.3	11	88	0	54	11	5	5	77	1.10
6365702--6365783	23	3.4	23	88	8	103	29	21	26	21	1.99
6365702--6365793	23	3.9	23	80	15	98	30	21	26	21	1.99
6368955--6369004	18	2.8	18	90	0	82	12	34	6	48	1.65
6370429--6370685	41	6.3	41	89	0	399	23	27	19	29	1.98
6370435--6370685	82	3.1	82	98	0	486	23	27	19	29	1.98
6378156--6378413	41	6.3	41	91	0	417	23	27	19	29	1.98
6378162--6378413	82	3.1	82	98	0	495	23	28	19	29	1.98
6378627--6378663	19	1.9	19	94	0	65	45	18	0	35	1.50
6383507--6383531	7	3.6	7	100	0	50	36	0	0	64	0.94
6388673--6388704	16	1.9	17	93	6	57	37	0	15	46	1.46
6391994--6392249	126	2.0	126	92	1	424	37	12	8	40	1.75
6394954--6394987	12	2.7	13	90	4	52	73	14	11	0	1.10
6396981--6397040	31	2.0	31	83	3	77	38	11	10	40	1.75
6399038--6399104	23	3.0	22	70	14	64	50	5	4	38	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6399216--6399276	3	20.3	3	96	0	113	65	0	1	32	1.02
6401881--6401925	20	2.2	20	88	0	63	35	0	0	64	0.94
6405418--6405547	12	10.3	12	70	14	66	25	13	8	52	1.69
6405430--6405548	25	4.8	24	74	13	89	26	14	8	51	1.70
6405466--6405548	24	3.4	23	77	11	76	27	14	9	48	1.75
6412279--6412335	3	19.3	3	75	10	55	24	1	0	73	0.92
6412281--6412337	19	3.1	19	85	9	66	22	1	0	75	0.90
6412281--6412338	6	9.3	6	83	14	64	22	1	0	75	0.89
6412287--6412338	13	4.1	13	76	14	54	21	1	0	76	0.87
6413702--6413826	12	9.8	12	68	14	63	27	14	7	51	1.68

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