genome.fa.s22.2.7.7.80.10.50.1000.99.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_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  99  of  172  ( 20605 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)
28527563--28527992	45	9.6	45	76	10	341	30	19	23	25	1.98
28527664--28528036	178	2.1	178	85	4	502	32	18	23	25	1.97
28533242--28533266	11	2.3	11	100	0	50	68	0	8	24	1.16
28536251--28536529	72	3.9	72	95	0	495	34	18	19	27	1.95
28537006--28537035	10	3.0	10	95	0	51	36	0	13	50	1.42
28537180--28537216	19	2.0	18	89	5	56	56	0	8	35	1.29
28539121--28539193	23	3.2	23	92	1	121	35	0	15	49	1.44
28539128--28539194	13	5.6	13	73	20	74	34	0	16	49	1.46
28539948--28540011	30	2.1	31	91	2	103	57	14	3	25	1.51
28545190--28545244	13	4.5	13	73	13	62	40	1	10	47	1.49
28546143--28546171	5	5.8	5	100	0	58	17	0	0	82	0.66
28548904--28548939	18	2.1	17	89	5	54	58	0	0	41	0.98
28548912--28549001	35	2.7	34	77	14	89	50	0	0	50	1.00
28549730--28549816	30	2.9	30	85	0	111	17	20	39	22	1.92
28553033--28553087	26	2.1	27	86	10	78	21	3	5	69	1.25
28553041--28553118	29	2.7	30	80	15	92	19	3	3	73	1.15
28553066--28553124	14	4.1	14	78	8	57	16	3	3	76	1.06
28563257--28563327	35	2.0	35	97	0	133	15	26	11	46	1.79
28565083--28565648	44	12.6	44	76	8	397	31	18	20	29	1.96
28565034--28565648	227	2.7	224	77	5	603	31	18	20	29	1.96
28566471--28566522	26	2.0	27	85	11	72	21	3	5	69	1.26
28567823--28567864	22	1.9	22	90	0	66	30	4	11	52	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28568439--28568486	25	1.9	25	100	0	96	31	12	16	39	1.86
28569871--28569921	26	1.9	27	92	4	86	29	13	0	56	1.38
28570269--28570695	93	4.5	93	77	8	391	18	20	15	46	1.84
28571015--28571050	18	2.0	18	100	0	72	33	5	11	50	1.61
28577195--28577238	21	2.1	21	100	0	88	25	9	22	43	1.82
28579608--28579708	49	2.1	48	96	1	184	31	21	4	41	1.75
28581438--28581463	3	8.7	3	100	0	52	0	30	0	69	0.89
28589791--28589841	24	2.1	24	86	13	70	50	7	1	39	1.42
28590102--28590162	26	2.4	25	86	2	77	63	1	0	34	1.04
28596454--28596531	37	2.1	37	97	0	147	23	10	16	50	1.76
28598677--28598702	7	3.7	7	100	0	52	84	0	0	15	0.62
28598964--28599017	28	2.0	28	85	3	74	59	3	5	31	1.38
28607248--28607307	27	2.2	27	96	0	111	21	30	13	35	1.92
28607456--28607528	27	2.7	27	78	0	74	36	26	8	28	1.85
28612354--28612418	12	5.4	12	76	20	57	43	0	1	55	1.09
28612353--28612426	17	4.5	17	74	16	66	41	0	1	56	1.07
28612339--28612432	48	2.0	48	91	0	152	41	0	2	56	1.11
28612499--28612539	21	1.9	22	85	14	59	51	0	2	46	1.14
28612629--28612677	23	2.0	25	84	11	66	42	6	12	38	1.67
28616378--28616425	24	2.0	24	100	0	96	37	16	16	29	1.91
28618514--28618555	16	2.5	17	84	11	59	33	2	11	52	1.51
28618611--28618672	27	2.3	27	80	5	63	27	4	16	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28626925--28627086	46	3.6	46	90	2	249	29	22	16	32	1.95
28628457--28628489	18	1.9	17	88	11	50	36	15	0	48	1.45
28649294--28649406	25	4.6	25	74	11	90	34	23	23	19	1.96
28651548--28651579	10	3.4	10	83	16	50	71	18	0	9	1.12
28652856--28652913	30	1.9	30	89	0	89	41	3	24	31	1.71
28656606--28656648	14	3.0	14	82	3	50	20	2	16	60	1.46
28658576--28658619	22	1.9	24	81	9	56	25	20	18	36	1.95
28661129--28661181	24	2.3	22	87	12	72	64	1	1	32	1.15
28662916--28662969	23	2.3	23	80	0	63	46	0	3	50	1.19
28666497--28666596	33	3.0	33	85	0	128	30	35	27	8	1.85
28666578--28666735	42	3.8	42	87	0	217	36	32	21	9	1.86
28667673--28667762	44	2.1	44	97	2	173	62	8	8	20	1.51
28667970--28668009	15	2.5	17	76	15	50	35	2	10	52	1.48
28683882--28683933	20	2.8	18	78	21	63	51	3	1	42	1.31
28690368--28690437	26	2.7	26	71	2	61	17	27	21	34	1.95
28693359--28693414	22	2.5	24	80	11	64	64	5	1	28	1.26
28699205--28699390	59	3.1	56	69	19	144	43	2	3	51	1.32
28699251--28699438	61	3.1	60	68	17	154	43	2	5	48	1.39
28699198--28699488	120	2.4	122	87	4	444	44	2	4	49	1.33
28699432--28699468	19	2.0	19	85	15	51	45	0	0	54	1.00
28699633--28699723	45	2.0	45	85	2	121	37	28	6	27	1.82
28699704--28699756	16	3.2	16	94	5	97	37	37	0	24	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28701017--28701085	24	2.9	23	76	8	59	34	4	1	59	1.26
28703343--28703383	20	2.0	20	95	0	73	31	14	19	34	1.92
28717406--28717542	30	4.6	29	72	10	98	31	21	6	40	1.79
28717959--28718000	18	2.3	19	80	12	52	64	0	33	2	1.07
28718068--28718118	7	7.4	7	79	16	54	74	0	25	0	0.82
28718064--28718148	22	3.9	22	75	7	75	74	0	25	0	0.82
28718063--28718152	13	6.5	14	71	15	62	74	0	25	0	0.82
28718089--28718160	9	8.3	9	70	14	53	77	0	20	1	0.84
28718062--28718148	44	2.0	44	82	15	108	73	0	26	0	0.83
28718071--28718152	35	2.4	33	85	6	101	75	0	24	0	0.80
28718281--28718328	24	2.0	25	91	4	80	66	10	22	0	1.22
28718438--28718492	7	7.7	7	82	11	67	85	0	14	0	0.60
28718440--28718492	22	2.5	22	84	9	74	84	0	15	0	0.61
28718438--28718492	18	3.1	17	80	10	65	85	0	14	0	0.60
28718438--28718486	10	5.1	10	79	16	59	85	0	14	0	0.59
28719050--28719267	18	12.5	17	78	15	214	30	14	9	44	1.77
28719050--28719315	35	7.6	35	77	12	212	30	13	10	45	1.78
28719050--28719315	53	5.1	51	78	13	233	30	13	10	45	1.78
28719056--28719315	17	14.9	17	75	8	195	28	14	10	46	1.78
28723004--28723028	9	2.8	9	100	0	50	48	0	44	8	1.32
28731082--28731815	75	9.7	76	83	7	743	28	16	20	34	1.94
28731103--28731815	226	3.1	224	85	4	896	29	16	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28731082--28731815	151	4.9	148	84	6	807	28	16	20	34	1.94
28732134--28732289	30	5.3	30	77	13	112	34	21	5	39	1.75
28732568--28732601	15	2.3	15	94	0	59	26	58	11	2	1.47
28732671--28732700	11	2.8	11	95	5	53	66	0	33	0	0.92
28732786--28732871	7	12.0	7	74	14	59	70	0	29	0	0.87
28732781--28732832	16	3.3	16	83	2	52	65	0	34	0	0.93
28732795--28732880	27	3.1	28	76	14	81	73	0	25	1	0.91
28733001--28733049	25	2.0	25	91	0	80	71	10	18	0	1.13
28733679--28733712	18	1.9	17	100	0	59	41	11	11	35	1.78
28733705--28733761	29	2.0	29	89	0	87	14	19	12	54	1.71
28733776--28733963	18	10.7	17	73	16	152	28	16	10	44	1.81
28733771--28734011	35	6.9	35	83	4	281	28	16	11	43	1.82
28733772--28734011	17	13.8	17	73	8	178	28	15	11	44	1.82
28736301--28736346	24	2.0	24	87	12	69	30	4	0	65	1.12
28736305--28736357	25	2.3	22	78	12	61	28	1	0	69	0.99
28740092--28740246	57	2.7	58	83	7	192	41	1	2	53	1.25
28740248--28740272	3	8.3	3	100	0	50	64	0	0	36	0.94
28740419--28740469	16	3.2	16	85	0	66	25	27	5	41	1.78
28740792--28740851	30	2.0	30	96	0	111	56	15	3	25	1.54
28741883--28741912	14	2.2	13	94	5	51	30	3	0	66	1.07
28742432--28742488	11	5.4	10	79	10	53	71	1	0	26	0.95
28742448--28742494	20	2.3	20	86	10	69	76	2	0	21	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28759111--28759154	21	2.1	21	83	8	54	22	13	4	59	1.53
28767754--28767779	6	4.3	6	100	0	52	34	0	0	65	0.93
28773262--28773326	11	6.2	11	75	16	50	61	3	0	35	1.12
28773297--28773368	25	3.0	24	80	12	76	52	4	1	41	1.29
28773362--28773391	5	6.0	5	100	0	60	80	0	0	20	0.72
28783651--28783749	28	3.6	27	79	14	112	30	12	29	28	1.93
28784730--28785072	47	7.3	47	88	3	460	27	12	15	44	1.82
28796860--28796949	2	47.5	2	76	10	55	56	1	4	37	1.27
28800476--28800533	29	1.9	30	89	6	91	22	12	13	51	1.74
28808738--28808796	29	2.0	31	83	6	77	25	16	8	49	1.74

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