genome.fa.s16.2.7.7.80.10.50.1000.56.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  56  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)
16299022--16300041	132	7.8	132	93	1	1724	31	20	23	24	1.98
16300550--16300626	19	3.8	19	83	11	100	36	6	16	40	1.75
16300592--16300636	23	2.0	23	86	4	65	33	4	15	46	1.66
16304594--16304632	14	2.8	14	84	0	51	35	12	23	28	1.91
16305204--16305239	18	1.9	18	88	5	54	58	2	0	38	1.13
16305214--16305279	30	2.2	31	86	13	93	54	0	0	45	0.99
16305517--16305564	22	2.4	19	80	19	53	18	22	14	43	1.87
16309362--16309549	51	3.7	51	84	2	218	31	27	15	25	1.95
16314583--16314626	18	2.5	18	88	3	63	29	0	36	34	1.58
16314595--16314632	18	2.1	18	95	0	67	31	0	36	31	1.58
16315024--16315061	20	1.9	20	94	0	67	18	10	2	68	1.30
16315025--16315064	10	4.0	10	84	12	55	17	10	2	70	1.27
16318770--16318877	37	2.9	37	92	0	171	25	29	21	23	1.99
16318996--16319693	47	14.6	47	89	2	1036	28	29	9	33	1.88
16318996--16319693	96	7.3	96	95	0	1201	28	29	9	33	1.88
16325847--16326057	109	1.9	109	85	4	291	31	18	17	33	1.94
16329802--16329892	45	2.1	44	83	6	114	21	18	14	45	1.85
16331252--16331294	20	2.0	21	86	13	61	39	0	0	60	0.97
16333236--16333278	20	2.2	19	80	15	52	55	0	4	39	1.20
16341803--16341865	31	2.0	31	100	0	126	46	12	12	28	1.79
16349048--16349087	7	5.6	7	82	5	53	77	5	0	17	0.94
16355332--16355583	27	9.3	26	83	4	243	19	16	20	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16355332--16355583	54	4.7	53	80	7	285	19	16	20	43	1.88
16355342--16355583	81	3.0	80	83	2	322	19	16	19	44	1.87
16357857--16357898	21	2.0	21	86	9	59	23	4	7	64	1.38
16364080--16364118	20	2.0	20	90	10	62	51	30	5	12	1.62
16364525--16364568	20	2.2	20	83	0	52	18	18	2	61	1.45
16365234--16365316	25	3.4	25	78	9	98	33	18	24	24	1.96
16375158--16375212	24	2.2	26	81	12	71	45	0	1	52	1.11
16375349--16375443	45	2.1	45	86	1	129	31	27	6	34	1.82
16375424--16375491	16	4.2	16	96	0	118	35	36	0	27	1.58
16377342--16377664	51	6.4	51	73	7	253	31	13	25	30	1.93
16377338--16377633	102	2.9	102	83	1	371	30	14	25	30	1.94
16385055--16385340	51	5.6	50	79	6	308	28	14	26	30	1.95
16385055--16385332	102	2.7	102	89	1	416	28	14	26	30	1.95
16385055--16385377	102	3.2	102	86	2	328	29	13	26	30	1.94
16387438--16387531	31	3.1	31	73	13	95	36	4	6	53	1.46
16388459--16388486	5	5.6	5	100	0	56	78	0	0	21	0.75
16388453--16388516	15	4.6	14	74	16	62	67	0	3	29	1.06
16388473--16388568	26	3.7	26	71	15	65	63	2	7	27	1.32
16388703--16388746	21	2.0	23	86	8	65	61	4	2	31	1.28
16390118--16390235	48	2.4	48	79	8	130	20	28	22	27	1.99
16390163--16390933	100	7.8	100	88	1	1014	24	23	21	29	1.99
16390163--16390933	398	1.9	398	87	3	1113	24	23	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16390106--16390951	50	17.0	49	67	6	349	24	24	21	29	1.99
16390866--16391275	167	2.5	167	82	0	469	26	26	19	28	1.99
16391302--16391466	88	1.9	88	87	0	240	26	27	19	26	1.99
16395273--16395308	18	2.0	18	100	0	72	44	27	5	22	1.75
16396179--16396232	24	2.3	23	81	12	65	59	0	16	24	1.37
16396211--16396267	27	2.1	27	90	6	89	66	8	8	15	1.43
16396776--16396819	18	2.4	18	96	0	79	22	36	4	36	1.75
16415464--16416048	44	13.5	43	70	12	203	29	20	22	27	1.99
16415478--16416099	217	2.9	216	91	2	973	29	20	22	26	1.99
16415770--16415925	84	1.8	85	81	6	192	28	21	23	26	1.99
16424127--16424157	15	2.1	15	100	0	62	32	6	25	35	1.82
16429340--16429433	25	3.8	25	78	5	93	25	23	22	28	1.99
16432442--16432548	29	3.7	30	75	6	103	32	12	21	33	1.90
16432420--16432560	58	2.4	58	81	4	151	27	14	21	36	1.92
16435876--16435931	26	2.1	27	83	6	69	39	19	5	35	1.75
16439115--16439425	157	2.0	157	90	1	489	38	16	11	34	1.84
16449190--16449244	22	2.6	21	80	8	67	74	18	3	3	1.11
16449232--16449279	25	1.9	25	83	8	62	66	12	2	18	1.33
16451467--16451693	42	5.4	42	74	9	185	37	24	14	24	1.93
16451467--16451692	85	2.7	85	84	5	289	37	23	14	24	1.93
16457536--16457661	45	2.8	45	79	0	135	26	20	15	38	1.92
16468191--16468370	40	4.5	40	88	1	236	16	31	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16468197--16468340	20	7.2	20	67	9	96	15	30	16	37	1.90
16471824--16471875	20	2.7	20	81	3	70	63	3	0	32	1.12
16473628--16473721	23	4.1	23	85	0	134	47	4	25	22	1.69
16478133--16478226	23	4.1	23	83	0	125	48	3	25	22	1.65
16478874--16478956	42	2.0	42	100	0	166	37	28	9	24	1.87
16479320--16479374	25	2.2	24	84	9	67	65	1	0	32	1.03
16481131--16481165	18	1.9	18	88	11	54	57	2	11	28	1.48
16483078--16483239	44	3.7	43	76	10	132	27	24	19	28	1.99
16483507--16483537	10	3.1	10	95	0	53	48	19	12	19	1.81
16484297--16484356	30	2.0	31	83	9	79	41	0	38	20	1.52
16484571--16484607	9	4.1	9	92	0	65	29	10	13	45	1.77
16484661--16484691	9	3.4	9	90	0	53	38	22	12	25	1.90
16497218--16497252	18	1.9	18	88	11	54	57	2	11	28	1.48
16499270--16499304	17	2.1	16	94	5	61	17	0	8	74	1.06
16500179--16500257	41	1.9	42	86	2	115	50	3	5	40	1.42
16500357--16500398	16	2.6	17	81	11	52	38	0	0	61	0.96
16504574--16504614	20	2.0	22	85	9	59	48	4	0	46	1.23
16505847--16505894	22	2.2	22	96	0	87	39	20	14	25	1.91
16510876--16510917	22	1.9	22	100	0	84	47	21	9	21	1.79
16512066--16512103	18	2.1	18	90	0	58	7	23	18	50	1.73
16514167--16514191	12	2.1	12	100	0	50	24	0	0	76	0.80
16514152--16514195	21	2.1	21	87	8	63	29	0	2	68	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16514225--16514288	30	2.1	30	88	5	94	32	3	0	64	1.10
16514166--16514315	77	1.9	78	81	9	182	31	2	3	62	1.25
16514282--16514324	17	2.4	19	80	7	54	20	4	2	72	1.14
16523833--16523860	14	2.0	14	100	0	56	50	21	0	28	1.49
16525196--16525239	20	2.2	20	84	8	54	47	15	2	34	1.58
16528115--16528185	30	2.4	30	92	0	115	53	8	4	33	1.51
16531864--16531946	25	3.3	25	75	0	85	30	20	21	27	1.98
16540227--16540254	12	2.3	12	100	0	56	35	42	14	7	1.73
16544368--16544422	28	1.9	29	85	3	76	45	23	0	30	1.53
16547498--16547538	7	5.9	7	97	0	73	46	0	0	53	1.00
16547490--16547538	21	2.4	21	86	3	73	51	0	0	48	1.00
16550700--16550732	16	2.1	15	94	5	57	63	0	0	36	0.95
16553502--16553911	124	3.3	124	85	2	547	31	16	17	33	1.93
16553815--16553995	84	2.1	85	88	1	274	30	16	17	36	1.91
16553815--16554030	84	2.5	84	85	2	270	31	17	16	33	1.93
16554197--16554311	7	15.6	7	70	13	52	23	0	28	47	1.52
16554195--16554305	22	5.0	21	81	9	89	24	0	27	47	1.52
16554248--16554304	15	3.8	15	75	9	53	24	0	24	50	1.49
16554233--16554310	8	10.2	8	72	15	58	23	0	26	50	1.50
16559077--16559389	43	7.3	43	76	6	258	27	15	23	33	1.95
16565664--16565732	32	2.2	32	97	0	129	34	2	26	36	1.71
16574983--16575258	144	2.0	134	86	8	387	44	3	26	25	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16575422--16575539	51	2.3	51	94	1	202	47	1	18	32	1.59
16575617--16575672	19	2.8	20	74	15	62	58	3	10	26	1.48
16577613--16577745	67	2.0	67	95	0	239	27	15	33	24	1.95
16577897--16577947	25	2.0	25	96	0	93	39	0	17	43	1.49
16581608--16581638	14	2.2	14	94	0	53	19	19	6	54	1.65
16591530--16591899	182	2.0	182	95	0	659	44	25	4	25	1.73
16592672--16592830	46	3.4	45	76	8	131	31	19	20	28	1.97
16603804--16603836	15	2.1	17	88	11	52	42	0	0	57	0.98
16603942--16604015	29	2.5	29	86	4	94	25	13	13	47	1.79
16614664--16614703	19	2.0	20	85	4	55	25	20	7	47	1.75

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