genome.fa.s16.2.7.7.80.10.50.1000.21.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  21  of  175  ( 20966 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)
5562056--5562169	56	2.0	56	86	3	158	25	8	13	52	1.68
5562898--5562938	21	2.0	20	85	4	55	34	12	31	21	1.91
5565183--5565366	72	2.6	68	81	7	197	42	10	29	16	1.83
5568439--5568471	18	1.9	17	88	11	50	30	21	12	36	1.90
5568725--5568789	24	2.7	24	87	0	94	44	18	7	29	1.77
5568836--5568976	27	5.1	27	81	5	140	19	15	21	43	1.88
5568827--5568976	56	2.7	55	79	6	144	20	16	20	43	1.88
5572103--5572172	35	2.0	35	94	0	122	21	37	11	30	1.89
5580791--5580857	29	2.3	29	92	0	116	14	34	32	17	1.91
5582103--5582132	12	2.6	11	90	10	51	56	3	0	40	1.16
5582158--5582194	17	2.2	17	95	0	65	35	2	5	56	1.36
5583880--5583915	13	2.8	13	95	0	63	16	2	5	75	1.12
5587896--5587944	23	2.1	23	84	0	62	26	18	12	42	1.85
5588098--5588133	13	2.8	13	95	0	63	16	2	5	75	1.12
5595075--5595126	26	2.0	26	100	0	104	7	11	19	61	1.53
5599643--5599820	33	5.3	33	67	14	121	31	16	25	26	1.97
5599643--5599888	68	3.6	68	91	2	361	30	16	25	27	1.96
5599909--5599959	24	2.1	24	96	0	93	45	5	23	25	1.75
5603579--5603740	43	3.8	42	76	4	155	31	25	16	25	1.97
5607350--5607507	33	4.7	33	70	9	122	31	15	24	28	1.96
5607280--5607519	101	2.4	101	91	0	381	30	14	24	30	1.95
5607513--5607563	24	2.1	24	96	0	93	45	5	27	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5612925--5613114	25	7.7	25	70	9	138	18	26	19	35	1.95
5613047--5613126	25	3.2	25	73	1	72	17	26	20	36	1.94
5613519--5613571	26	2.0	26	100	0	106	35	3	15	45	1.64
5616234--5616358	50	2.5	50	81	0	142	28	22	28	21	1.99
5616631--5616669	20	2.0	20	90	10	62	56	5	23	15	1.59
5616910--5616942	17	1.9	17	100	0	66	42	6	27	24	1.78
5621503--5621545	17	2.5	17	100	0	86	44	4	27	23	1.73
5623811--5624090	146	1.9	146	99	0	551	34	13	13	38	1.84
5632152--5632440	50	5.7	50	80	4	260	23	28	20	28	1.99
5632222--5632440	99	2.1	102	83	5	264	22	29	21	26	1.99
5648789--5648875	43	2.0	43	97	0	165	25	24	18	32	1.97
5654988--5655058	13	5.4	12	72	21	54	40	1	1	56	1.17
5663181--5663239	20	2.9	20	74	2	55	61	0	3	35	1.13
5669064--5669106	2	21.5	2	100	0	86	51	48	0	0	1.00
5670658--5670691	3	11.3	3	100	0	68	0	35	0	64	0.94
5676261--5676298	12	3.2	12	96	0	67	36	44	7	10	1.68
5681292--5681334	6	7.0	6	92	5	68	16	20	0	62	1.32
5684398--5684460	6	10.8	6	77	6	58	14	6	12	66	1.42
5684458--5684492	9	3.7	9	88	11	52	0	14	0	85	0.59
5689727--5689760	3	11.0	3	87	6	50	67	2	0	29	1.05
5692059--5692107	22	2.2	23	82	10	66	30	8	18	42	1.79
5695005--5695037	2	17.0	2	93	6	59	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5696531--5696583	20	2.7	19	80	8	61	28	5	5	60	1.42
5699901--5699925	13	1.9	13	100	0	50	32	0	20	48	1.50
5702920--5702971	11	4.6	11	80	15	54	69	0	3	26	1.06
5712857--5712918	28	2.1	28	91	5	97	41	1	6	50	1.38
5713559--5713594	18	2.1	18	89	5	56	41	0	25	33	1.55
5722945--5722992	22	2.2	22	96	0	87	37	16	6	39	1.74
5723935--5723959	6	4.2	6	100	0	50	52	0	0	48	1.00
5730145--5730319	86	2.0	86	88	1	262	35	4	12	48	1.60
5730156--5730338	86	2.1	86	83	2	215	36	4	12	46	1.62
5736971--5737013	21	2.0	21	100	0	86	37	16	13	32	1.88
5739163--5739220	30	1.9	30	85	0	80	56	15	3	24	1.54
5740434--5740516	27	3.1	27	96	0	157	31	3	12	53	1.55
5748197--5748223	14	1.9	14	100	0	54	37	11	22	29	1.89
5751014--5751178	21	8.0	21	72	10	106	16	21	20	42	1.89
5751035--5751216	81	2.2	80	85	1	229	15	20	21	41	1.90
5756333--5756385	25	2.2	24	86	3	70	39	22	20	16	1.92
5756362--5756489	64	2.0	64	79	0	139	39	23	14	22	1.91
5764820--5764889	16	4.4	16	92	0	104	31	0	34	34	1.58
5764868--5764977	45	2.6	43	80	9	129	33	5	29	31	1.80
5765123--5765157	18	2.0	17	88	5	52	54	0	0	45	0.99
5765010--5765326	157	2.0	157	98	0	607	44	3	5	47	1.41
5765280--5765314	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5765508--5765658	75	2.0	75	100	0	302	35	15	13	35	1.87
5787655--5787693	18	2.3	18	86	8	55	43	12	5	38	1.65
5791226--5791255	15	2.0	15	93	0	51	23	46	6	23	1.75
5791997--5792035	18	2.3	18	86	8	55	43	12	5	38	1.65
5792192--5792222	15	2.1	15	100	0	62	22	32	6	38	1.80
5793990--5794139	81	1.9	81	87	2	221	32	22	18	26	1.97
5797104--5797189	45	1.9	45	85	0	118	23	22	12	41	1.88
5801072--5801136	27	2.4	27	92	0	103	38	3	4	53	1.37
5804010--5804082	34	2.0	38	87	10	109	46	6	16	30	1.73
5806698--5806741	20	2.1	21	84	12	56	47	0	13	38	1.43
5806810--5806985	64	2.8	64	86	5	227	32	7	17	42	1.76
5807105--5807207	41	2.5	41	95	0	179	24	18	22	34	1.96
5807105--5807223	41	2.9	41	89	2	150	23	18	23	34	1.96
5812466--5812521	20	2.8	19	76	15	51	64	0	8	26	1.23
5812733--5812766	11	3.1	11	82	0	50	23	5	2	67	1.26
5812742--5812785	18	2.3	20	85	14	58	22	4	2	70	1.17
5812753--5812842	9	9.9	9	70	11	67	31	3	1	64	1.17
5815544--5815630	33	2.6	35	78	8	103	51	0	2	45	1.13
5816070--5816135	32	2.1	32	100	0	132	30	15	18	36	1.91
5817403--5817545	42	3.4	42	79	3	153	23	22	35	18	1.96
5820387--5820447	29	2.1	29	81	9	70	57	6	8	27	1.53
5821704--5821833	43	3.0	42	76	12	138	21	17	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5827330--5827606	41	6.8	41	86	0	358	23	20	26	29	1.99
5828170--5828211	13	3.2	13	80	16	50	16	0	45	38	1.48
5828115--5828272	83	1.9	83	85	10	218	29	1	27	41	1.66
5828400--5828442	7	6.1	7	83	0	59	23	0	48	27	1.51
5828405--5828447	21	2.0	21	90	0	68	23	0	44	32	1.54
5833662--5833929	43	6.3	42	79	9	240	24	18	27	29	1.98
5833662--5833929	86	3.1	85	80	7	283	24	18	27	29	1.98
5836078--5836117	18	2.2	17	86	8	53	37	0	17	45	1.49
5837624--5837780	81	1.9	81	83	5	201	28	0	26	44	1.59
5837760--5837798	14	2.8	14	84	0	51	15	0	43	41	1.46
5837799--5837860	28	2.2	28	94	0	106	30	0	33	35	1.58
5838194--5838233	13	2.9	14	81	7	55	7	0	45	47	1.31
5839162--5839572	147	2.8	144	76	6	371	24	14	24	36	1.93
5840463--5840492	7	4.3	7	100	0	60	16	0	26	56	1.40
5840519--5840550	15	2.1	15	100	0	64	28	6	12	53	1.62
5841517--5841575	13	4.5	13	91	0	82	42	10	1	45	1.48
5841767--5841832	28	2.3	29	92	5	107	48	13	1	36	1.52
5841786--5841833	14	3.3	14	72	11	51	52	12	0	35	1.40
5841842--5841986	28	5.0	28	75	15	123	45	15	1	37	1.55
5841808--5841914	57	1.9	55	86	9	153	44	13	0	42	1.43
5841717--5842047	158	2.1	157	93	1	556	46	14	1	38	1.53
5841937--5841986	16	3.4	16	73	21	63	46	18	2	34	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5842074--5842249	18	9.4	19	71	26	69	48	19	1	30	1.56
5842094--5842362	25	10.4	25	76	14	182	46	20	1	31	1.59
5842094--5842367	9	31.8	9	74	15	233	46	20	1	32	1.59
5842094--5842363	34	8.4	33	71	22	193	46	20	1	31	1.59
5847881--5847945	21	3.1	21	84	4	87	38	20	38	3	1.68
5848383--5848516	42	3.1	42	79	4	153	27	19	17	35	1.95
5854645--5854698	25	2.2	25	80	6	58	48	3	5	42	1.44
5856211--5857267	100	10.5	100	91	1	1634	24	23	20	30	1.98
5858730--5858771	21	2.0	21	90	0	66	14	14	0	71	1.15
5858730--5858771	7	6.0	7	79	20	52	14	14	0	71	1.15

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