genome.fa.s20.2.7.7.80.10.50.1000.54.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  54  of  189  ( 22580 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)
15380633--15380686	23	2.3	24	78	9	58	51	1	1	44	1.22
15387365--15387441	33	2.3	32	80	10	84	35	16	20	27	1.95
15387260--15387456	105	1.9	105	84	2	270	33	16	23	26	1.95
15387400--15387475	33	2.3	33	79	0	80	35	17	23	23	1.95
15415566--15415744	10	18.8	9	68	17	69	61	3	2	32	1.25
15415566--15415622	17	3.2	16	81	15	60	68	0	0	31	0.90
15415567--15415642	27	2.8	26	82	9	91	67	0	1	31	0.99
15415566--15415660	37	2.6	35	78	9	93	68	2	1	28	1.08
15416297--15416396	10	10.1	10	74	15	66	31	1	7	61	1.29
15416301--15416397	39	2.5	39	79	12	110	29	1	7	61	1.29
15423385--15423428	22	2.0	22	86	0	61	52	0	0	47	1.00
15424219--15424279	20	3.2	19	68	9	52	40	19	1	37	1.62
15424328--15424386	20	3.0	19	80	5	64	42	13	10	33	1.78
15424858--15424914	25	2.2	26	78	3	62	49	7	21	22	1.73
15430031--15430136	40	2.7	39	81	7	115	41	14	6	37	1.72
15430049--15430182	20	6.7	20	71	3	74	41	13	5	39	1.67
15430236--15430386	20	7.6	20	73	7	83	39	13	5	41	1.68
15430236--15430386	40	3.8	40	72	11	123	39	13	5	41	1.68
15430233--15430422	80	2.4	80	78	12	194	38	14	6	40	1.72
15430598--15430646	25	1.9	25	84	12	64	44	10	6	38	1.63
15430789--15430843	16	3.4	16	89	0	92	40	7	23	29	1.81
15430825--15430918	44	2.1	45	84	5	120	38	4	21	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15436513--15436561	20	2.5	20	76	6	55	53	2	2	42	1.24
15439748--15439806	23	2.6	23	91	2	102	16	1	0	81	0.78
15439746--15439801	18	3.2	17	87	9	78	16	1	0	82	0.76
15439749--15439802	28	2.0	27	92	3	90	18	1	0	79	0.82
15439748--15439806	5	11.8	5	84	13	77	16	1	0	81	0.78
15439745--15439822	33	2.3	34	82	10	90	17	1	3	76	1.00
15452858--15452887	15	2.0	15	100	0	60	20	6	33	40	1.78
15453362--15453412	26	1.9	26	88	11	77	19	15	11	52	1.73
15457281--15457360	31	2.6	30	78	7	90	43	5	6	45	1.51
15457603--15457645	21	2.1	21	91	4	70	39	0	6	53	1.28
15465441--15465515	26	2.9	25	86	5	96	44	12	13	30	1.80
15465511--15465853	173	2.0	173	94	0	596	41	12	18	27	1.86
15467884--15468094	40	5.3	40	83	1	226	45	25	14	14	1.83
15470663--15470735	16	4.7	16	71	15	55	47	4	1	46	1.30
15472424--15472454	16	1.9	16	93	0	53	77	6	6	9	1.12
15471651--15473452	902	2.0	903	86	1	2520	33	17	13	34	1.89
15474524--15474582	29	2.0	30	90	3	93	47	15	6	30	1.71
15475909--15475936	3	9.3	3	100	0	56	0	32	0	67	0.91
15483647--15483697	15	3.5	15	71	15	52	29	5	11	52	1.61
15494080--15494116	17	2.2	17	95	0	65	72	2	0	24	0.97
15494080--15494136	17	3.0	19	85	10	64	71	1	0	26	0.95
15496518--15496594	25	3.1	24	81	10	68	40	22	22	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15496578--15496762	64	2.9	64	86	1	246	36	21	20	21	1.95
15501722--15501769	3	16.0	3	100	0	96	66	0	0	33	0.92
15515971--15515995	13	1.9	13	100	0	50	84	0	0	16	0.63
15516434--15516501	25	2.7	25	90	0	109	32	25	20	22	1.98
15517792--15517843	23	2.3	23	86	6	70	42	21	7	28	1.80
15517992--15518059	30	2.2	31	84	2	84	48	7	17	26	1.73
15521969--15522011	18	2.5	17	85	10	61	62	0	0	37	0.95
15522255--15522289	16	2.3	15	90	5	52	42	17	0	40	1.49
15522310--15522334	7	3.6	7	100	0	50	60	12	0	28	1.32
15528869--15528904	14	2.6	14	90	0	54	36	5	19	38	1.75
15529434--15529651	108	2.0	108	100	0	436	40	15	11	32	1.83
15530593--15530618	2	13.0	2	100	0	52	50	0	50	0	1.00
15533939--15534008	33	2.2	31	82	10	79	41	1	2	54	1.24
15535356--15535383	9	3.1	9	100	0	56	32	10	10	46	1.73
15537903--15538299	107	3.7	107	89	2	609	27	16	21	33	1.96
15537903--15538299	215	1.9	214	88	2	609	27	16	21	33	1.96
15545944--15546011	31	2.3	30	82	7	77	39	8	10	41	1.70
15545953--15546011	31	1.9	30	86	3	82	40	10	11	37	1.76
15546411--15546463	21	2.5	22	87	6	67	32	32	9	26	1.88
15553540--15553577	16	2.4	16	90	0	58	52	0	2	44	1.14
15558275--15558343	21	3.3	21	72	8	59	42	18	24	14	1.88
15558290--15558444	42	3.7	42	86	5	206	42	17	23	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15558282--15558439	84	1.9	84	88	5	239	43	17	23	16	1.88
15558332--15558446	21	5.5	21	66	4	79	44	17	20	18	1.87
15564860--15564899	14	2.9	14	88	0	62	32	5	17	45	1.70
15564883--15564920	20	1.9	20	88	0	58	28	5	13	52	1.61
15564868--15564934	34	1.9	35	93	3	118	31	5	13	49	1.66
15564915--15565000	33	2.6	32	77	12	93	27	9	16	46	1.77
15565380--15565463	41	2.0	41	100	0	168	35	16	14	33	1.89
15565499--15565720	111	2.0	111	99	0	435	40	15	11	32	1.83
15574087--15574122	19	1.9	19	88	5	56	38	2	5	52	1.39
15575378--15575408	14	2.1	15	94	5	55	41	19	0	38	1.51
15588094--15588168	32	2.3	32	81	0	87	20	20	22	37	1.94
15590556--15590591	18	2.1	18	89	5	56	38	0	0	61	0.96
15590561--15590613	19	2.7	19	85	11	63	33	0	3	62	1.13
15591312--15591871	311	1.8	303	81	6	703	33	14	12	39	1.83
15592773--15592828	28	2.0	27	83	10	69	37	1	5	55	1.33
15603025--15603092	35	1.9	35	85	11	95	30	5	4	58	1.41
15608273--15608383	25	4.4	26	72	13	81	21	27	19	30	1.98
15612180--15612212	9	3.5	10	88	12	52	45	0	42	12	1.41
15613973--15614029	30	1.9	30	88	0	87	36	0	42	21	1.53
15614546--15614586	5	8.2	5	100	0	82	0	58	41	0	0.98
15614646--15614672	14	1.9	14	100	0	54	22	0	0	77	0.76
15615505--15615685	34	5.3	34	87	0	254	34	15	18	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15615843--15615885	15	2.9	15	85	0	50	27	25	18	27	1.98
15621272--15621302	3	10.3	3	100	0	62	32	0	0	67	0.91
15622792--15622840	3	16.3	3	79	8	55	34	0	38	26	1.57
15624344--15624414	24	3.0	22	72	11	70	53	1	0	45	1.09
15624404--15624453	9	5.2	10	75	15	52	62	0	2	36	1.07
15624376--15624454	9	9.1	9	71	15	51	56	1	1	40	1.15
15624376--15624456	30	2.6	32	79	11	89	58	1	1	39	1.14
15624630--15624673	22	2.1	21	91	8	72	27	0	4	68	1.09
15624630--15624682	20	2.6	21	85	11	67	28	0	3	67	1.07
15624630--15624679	22	2.5	19	81	15	57	28	0	4	68	1.08
15625454--15625506	18	3.1	16	79	12	61	69	7	0	22	1.13
15625463--15625519	19	3.1	18	82	10	62	68	5	0	26	1.11
15627392--15627427	19	1.9	19	88	5	56	11	8	0	80	0.90
15628335--15628461	34	3.7	34	84	2	130	34	7	14	43	1.74
15632166--15632281	26	4.5	26	86	3	144	38	19	15	25	1.91
15632181--15632304	26	4.7	26	85	3	133	37	17	17	26	1.92
15633003--15633029	12	2.2	12	100	0	54	44	11	7	37	1.68
15639679--15639801	26	4.6	27	81	10	146	34	17	18	28	1.94
15639677--15639815	52	2.6	53	80	10	149	34	19	17	28	1.95
15642479--15642526	21	2.3	21	81	0	60	39	18	39	2	1.63
15643772--15643830	31	1.9	32	86	6	86	30	0	5	64	1.15
15644241--15644273	6	5.5	6	96	0	57	51	15	12	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15646964--15647018	27	2.0	27	92	0	92	52	7	10	29	1.63
15661919--15661957	19	2.1	19	95	4	71	64	15	15	5	1.46
15667697--15667763	33	2.1	31	86	10	91	25	25	20	28	1.99
15671398--15671846	130	3.5	130	85	5	615	30	17	14	37	1.89
15671846--15671871	8	3.2	8	100	0	52	11	0	26	61	1.30
15672999--15673047	24	2.0	24	96	0	89	42	26	12	18	1.85
15673640--15673719	39	2.1	39	100	0	160	23	35	12	28	1.91
15685978--15686054	40	2.0	40	94	5	140	49	5	7	37	1.54
15686170--15686212	22	2.0	22	90	4	70	16	2	30	51	1.57
15686283--15686329	7	6.7	7	83	9	51	17	2	38	42	1.61

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