genome.fa.s17.2.7.7.80.10.50.1000.2.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  2  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)
373409--373447	19	2.1	18	90	4	60	15	2	2	79	0.95
374086--374134	21	2.3	21	82	13	64	32	38	4	24	1.74
374264--374297	15	2.2	16	94	5	61	47	32	0	20	1.51
374584--374696	41	2.8	41	87	2	156	29	25	22	23	1.99
374738--374812	39	1.9	39	86	7	109	21	21	22	34	1.97
374757--374889	40	3.3	41	76	7	123	22	21	21	35	1.96
375259--375337	32	2.5	32	81	4	97	22	34	22	20	1.97
377514--377577	9	7.0	9	77	8	58	56	1	3	39	1.25
377599--377649	20	2.6	20	76	11	61	62	7	1	27	1.33
378163--378241	17	4.5	17	69	18	54	40	5	2	51	1.37
378229--378277	21	2.3	21	82	0	53	48	2	4	44	1.33
385337--385392	27	2.0	28	83	13	71	46	1	12	39	1.52
394566--394658	33	2.8	34	69	25	88	38	1	5	54	1.30
395017--395077	27	2.3	27	76	21	65	57	1	14	26	1.47
395571--395607	12	3.0	12	84	7	56	40	2	10	45	1.53
397445--397700	86	3.0	86	81	2	318	30	19	18	32	1.96
405106--405160	16	3.2	17	73	12	51	61	3	0	34	1.13
405168--405215	24	2.0	24	92	8	80	66	6	0	27	1.15
405190--405257	18	3.8	17	74	14	57	64	8	0	26	1.22
405255--405372	10	11.6	10	68	19	50	57	5	1	35	1.31
405255--405352	20	4.9	20	70	17	60	57	5	2	35	1.33
405314--405377	20	3.0	20	82	15	60	59	7	0	32	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405913--405943	15	2.1	15	100	0	62	25	25	29	19	1.99
407826--407866	12	3.6	12	87	12	68	41	0	7	51	1.30
407827--407893	20	3.2	20	80	4	62	34	0	4	61	1.16
410555--410598	11	4.0	11	81	0	52	59	4	11	25	1.51
422228--422273	17	2.8	17	83	3	58	36	4	6	52	1.47
426754--426793	20	2.0	20	90	0	62	35	10	10	45	1.71
426784--426869	33	2.7	32	75	13	95	27	8	17	46	1.76
429235--429265	16	1.9	16	100	0	62	51	12	6	29	1.65
432244--432272	12	2.3	13	94	5	51	51	10	0	37	1.36
439003--439074	22	3.5	21	75	17	71	55	0	4	40	1.19
439018--439084	11	6.4	11	74	20	63	55	1	4	38	1.29
439039--439073	18	2.0	18	88	5	54	54	0	5	40	1.24
439028--439091	29	2.2	28	91	2	101	56	1	3	39	1.25
439156--439241	38	2.2	39	83	6	104	66	0	3	30	1.08
443431--443500	28	2.5	28	88	0	104	27	25	21	25	1.99
443527--443587	25	2.4	26	83	2	70	26	22	24	26	2.00
449821--449876	21	2.7	21	72	10	60	42	28	5	23	1.76
451722--451772	19	2.6	19	84	9	59	54	1	1	41	1.22
457520--457656	21	6.5	21	69	0	85	43	17	22	16	1.88
457515--457674	42	3.8	42	82	0	158	41	16	24	17	1.89
483421--483461	20	2.2	19	86	8	57	43	0	0	56	0.99
500126--500151	11	2.4	11	100	0	52	38	7	0	53	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500137--500209	31	2.3	31	84	11	96	32	2	1	63	1.17
509243--509333	39	2.3	40	83	7	105	35	6	19	38	1.78
509516--509664	45	3.3	45	79	0	165	21	16	17	44	1.86
511127--511200	28	2.6	28	79	8	78	39	0	0	60	0.97
515576--515611	18	2.0	18	94	0	63	30	22	2	44	1.67
516283--516314	15	2.1	15	94	0	55	59	0	0	40	0.97
516247--516309	26	2.3	26	74	15	65	60	1	3	34	1.22
516283--516315	8	4.2	8	88	7	50	60	0	0	39	0.97
516328--516373	21	2.2	21	88	0	65	21	8	28	41	1.83
516461--516501	20	2.0	20	86	9	57	63	0	2	34	1.08
516509--516555	15	3.1	15	84	0	67	55	4	0	40	1.19
516743--516785	21	2.2	19	83	8	50	25	2	4	67	1.22
524482--524524	17	2.9	14	78	21	52	65	2	0	32	1.06
534186--534237	22	2.4	22	83	6	61	38	5	1	53	1.36
538553--538615	31	2.0	31	96	0	117	41	15	17	25	1.89
545118--545143	13	2.0	13	100	0	52	15	0	23	61	1.33
550022--550069	24	2.0	26	84	12	66	64	2	2	31	1.16
550186--550266	9	8.1	9	75	22	65	33	2	1	62	1.16
550231--550274	9	4.8	9	88	5	52	40	0	0	59	0.98
550233--550274	19	2.3	18	87	4	57	40	0	0	59	0.97
552027--552063	13	2.8	14	92	8	60	51	0	0	48	1.00
563639--563704	34	2.0	34	87	3	98	21	19	6	53	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567351--567396	22	2.0	23	84	12	60	67	0	8	23	1.18
567797--567848	25	2.1	25	100	0	104	23	38	11	26	1.89
572969--573097	36	3.4	38	72	16	115	42	11	10	35	1.75
573058--573219	35	4.7	35	78	8	161	46	10	12	30	1.75
573058--573219	17	9.4	17	77	10	150	46	10	12	30	1.75
573397--573443	20	2.5	19	77	16	53	44	8	17	29	1.78
573807--573890	7	11.0	7	79	13	78	0	20	0	79	0.73
573814--573892	8	10.2	8	77	15	60	0	21	0	78	0.75
573807--573890	15	5.5	15	83	9	98	0	20	0	79	0.73
573804--573889	23	3.8	23	79	13	97	0	18	0	81	0.69
573802--573880	19	4.2	18	80	6	86	0	18	0	81	0.70
573804--573890	45	1.9	45	86	4	122	0	19	0	80	0.71
574002--574041	15	2.6	15	85	14	55	0	12	20	67	1.22
574020--574091	34	2.1	33	82	10	83	1	6	20	70	1.18
574204--574238	3	11.3	3	93	6	61	0	31	0	68	0.90
574594--574710	30	3.9	30	80	3	130	45	3	21	29	1.68
574982--575199	54	4.1	55	88	8	333	37	16	16	29	1.91
575178--575212	14	2.5	14	95	0	61	60	0	17	22	1.37
575300--575547	85	2.8	87	81	10	281	36	18	18	26	1.94
575460--575493	16	2.1	16	88	0	50	64	5	11	17	1.45
575300--575554	91	2.9	88	82	9	315	37	18	18	26	1.93
575512--576314	191	4.2	192	98	0	1540	35	20	13	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584497--584640	17	8.4	17	77	8	130	47	10	11	30	1.74
584408--584526	36	3.2	38	70	17	104	42	11	10	35	1.75
584497--584659	35	4.7	35	79	6	170	47	10	11	30	1.74
584837--584883	20	2.5	19	77	16	53	44	8	17	29	1.78
585253--585332	8	10.2	8	77	10	67	0	22	0	77	0.77
585238--585330	38	2.4	37	84	12	109	0	21	0	78	0.75
585241--585328	15	5.9	15	84	4	106	0	19	0	80	0.71
585239--585330	23	4.1	22	77	13	98	0	20	0	79	0.73
585443--585481	15	2.5	15	84	15	53	2	15	15	66	1.36
585625--585653	9	3.2	9	100	0	58	0	10	0	89	0.48
585652--585685	3	11.3	3	100	0	68	0	32	0	67	0.91
585754--585803	10	5.2	10	80	7	59	0	30	0	70	0.88
585758--585800	19	2.3	19	88	11	63	0	30	0	69	0.88
585981--586097	30	3.9	29	77	11	94	44	3	22	29	1.69
585996--586097	30	3.4	30	84	2	134	44	3	22	29	1.71
586093--586127	15	2.3	16	90	9	56	31	0	2	65	1.07
587990--588081	32	3.0	30	77	12	80	34	4	1	59	1.24
592467--592715	50	4.8	50	85	4	284	20	29	24	26	1.99
592466--592715	100	2.4	104	88	6	357	20	29	24	26	1.99
592810--592841	13	2.5	13	94	0	55	56	12	0	31	1.37
593053--593110	30	1.9	30	89	0	89	31	24	3	41	1.71
596349--596404	29	1.9	29	82	13	71	50	0	5	44	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611503--611540	19	2.2	17	86	13	51	44	2	0	52	1.14
615823--615851	15	1.9	15	100	0	58	44	20	34	0	1.52
616663--616733	29	2.5	27	78	10	79	35	2	0	61	1.10
618327--618387	31	2.0	31	83	6	79	22	14	8	54	1.67
620839--620891	23	2.4	22	76	20	56	9	18	1	69	1.25
623188--623213	6	4.3	6	100	0	52	84	0	0	15	0.62
637072--637106	12	2.6	14	86	13	56	34	0	2	62	1.10
641082--641305	76	2.9	77	87	1	324	41	16	9	32	1.80
642948--642999	25	2.1	24	82	13	61	36	5	0	57	1.23
642995--643043	22	2.1	24	88	7	75	34	2	2	61	1.19

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