genome.fa.s17.2.7.7.80.10.50.1000.53.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  53  of  185  ( 22116 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)
15058280--15058399	44	2.7	43	87	2	141	26	23	19	30	1.98
15058317--15058440	44	2.8	44	83	0	149	24	26	22	26	2.00
15058324--15058485	89	1.8	89	82	1	209	23	23	23	29	1.99
15058601--15059178	50	11.6	50	73	3	401	25	20	21	31	1.98
15058598--15059093	100	5.0	100	88	0	652	25	20	21	32	1.98
15058598--15059178	200	2.9	198	81	2	633	25	20	21	31	1.98
15059978--15060199	108	2.1	108	90	0	345	48	9	17	25	1.76
15060852--15060885	9	3.8	9	96	0	59	2	0	20	76	0.92
15062167--15062227	29	2.1	29	87	3	86	55	8	18	18	1.66
15064322--15064350	4	7.2	4	100	0	58	75	0	0	24	0.80
15064833--15064900	3	22.7	3	71	16	52	60	2	4	32	1.32
15066636--15066739	42	2.5	42	88	1	147	25	19	21	34	1.96
15067082--15067158	21	3.7	21	92	0	118	6	42	19	31	1.76
15072614--15073218	16	37.4	16	67	22	213	31	2	20	45	1.64
15072614--15073218	9	70.7	9	67	19	248	31	2	20	45	1.64
15072619--15072767	25	5.9	25	80	10	71	30	1	21	46	1.59
15072625--15072771	50	2.9	50	84	2	186	29	1	21	47	1.59
15072862--15073030	25	6.8	24	70	21	93	31	2	21	43	1.67
15072923--15073105	25	7.6	25	73	20	112	33	1	17	48	1.55
15073147--15073204	12	5.2	12	74	19	63	31	0	15	53	1.42
15073147--15073213	23	3.0	23	77	16	70	29	0	16	53	1.43
15073297--15073339	15	2.9	15	78	0	50	58	0	2	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15073515--15073726	69	3.1	69	90	2	327	45	5	5	43	1.48
15076586--15076649	14	4.5	14	71	11	58	35	40	0	23	1.55
15076576--15076665	21	4.2	22	75	4	76	35	41	0	23	1.55
15076943--15077013	15	4.9	15	78	14	78	46	32	0	21	1.51
15076963--15076992	8	3.9	8	91	8	53	46	40	0	13	1.43
15077033--15077071	15	2.7	15	84	4	53	43	35	0	20	1.52
15077028--15077124	21	4.5	21	69	14	63	46	27	2	23	1.64
15077300--15077977	113	6.0	113	86	2	903	27	25	22	24	2.00
15077300--15077961	227	2.9	225	87	3	925	27	25	22	25	2.00
15079806--15079831	13	2.0	13	100	0	52	30	0	0	69	0.89
15081565--15081678	42	2.7	42	84	2	149	12	35	28	23	1.91
15084125--15084166	18	2.4	18	92	4	68	14	21	42	21	1.88
15084867--15084895	6	4.8	6	100	0	58	31	0	0	68	0.89
15089171--15089195	13	1.9	13	100	0	50	80	0	4	16	0.87
15091630--15091673	23	1.9	24	90	9	74	54	0	20	25	1.45
15093106--15093142	18	2.1	18	90	5	58	40	5	24	29	1.77
15109146--15109176	16	1.9	16	100	0	62	32	19	6	41	1.77
15109256--15109320	20	3.2	20	65	10	51	32	10	32	24	1.90
15109258--15109348	41	2.2	41	88	5	132	31	14	29	24	1.94
15128876--15129157	29	9.8	28	82	2	287	20	25	14	39	1.91
15128876--15129157	58	4.9	58	89	1	395	20	25	14	39	1.91
15128876--15129157	87	3.2	87	83	2	316	20	25	14	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15150499--15150592	38	2.5	38	91	0	152	39	34	10	15	1.83
15150854--15150968	58	2.0	58	98	0	221	23	27	9	39	1.86
15153206--15153244	3	13.0	3	100	0	78	66	0	0	33	0.92
15168319--15168365	21	2.1	23	88	11	71	19	29	0	51	1.47
15168346--15168404	30	1.9	31	86	3	84	20	40	0	38	1.53
15174525--15174576	24	2.2	24	89	0	77	38	1	7	51	1.42
15178921--15178972	24	2.2	24	85	0	68	38	3	7	50	1.50
15178938--15178983	24	1.9	24	86	8	67	41	4	6	47	1.49
15180479--15180526	23	2.1	23	100	0	96	27	31	8	33	1.86
15181429--15181461	16	1.9	18	88	11	52	51	0	0	48	1.00
15183186--15183241	19	2.8	20	78	10	62	55	0	8	35	1.31
15183187--15183250	21	3.2	21	72	18	64	54	0	9	35	1.33
15195715--15195741	13	2.1	13	100	0	54	48	22	0	29	1.51
15203557--15203583	13	2.1	13	100	0	54	48	22	0	29	1.51
15208118--15208173	10	5.5	10	75	10	51	1	25	0	73	0.93
15210878--15210924	19	2.4	19	79	10	51	34	2	4	59	1.29
15211795--15211847	24	2.2	24	80	6	63	20	49	3	26	1.66
15212805--15212843	20	1.9	21	89	5	62	41	15	2	41	1.61
15220760--15220799	9	4.4	9	100	0	80	22	12	22	42	1.87
15220853--15220889	9	4.1	9	89	0	56	45	10	10	32	1.74
15220938--15220998	30	2.0	31	87	3	88	19	45	0	34	1.51
15223162--15223187	11	2.4	11	100	0	52	65	15	7	11	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15229096--15229193	2	49.0	2	93	0	169	1	2	46	50	1.19
15241955--15241994	15	2.8	14	88	3	53	65	10	2	22	1.35
15246345--15246432	41	2.1	41	87	0	122	30	34	5	29	1.81
15253312--15253349	19	2.0	19	85	10	51	71	0	7	21	1.11
15253718--15253757	18	2.2	18	95	0	71	22	22	10	45	1.82
15253798--15253894	49	2.0	49	87	2	142	19	12	23	44	1.85
15277592--15277950	181	2.0	181	92	2	596	21	8	25	44	1.80
15282025--15282091	26	2.6	26	97	0	125	22	29	20	26	1.99
15287673--15287861	58	3.2	57	81	7	209	39	14	19	26	1.90
15289059--15289143	31	2.7	30	73	7	89	37	9	5	47	1.60
15290376--15290450	30	2.4	32	93	6	136	57	8	0	34	1.28
15299559--15299877	41	7.9	41	87	3	432	21	21	26	31	1.98
15299885--15299930	20	2.4	19	85	7	58	26	4	4	65	1.30
15304306--15304364	31	1.9	31	96	0	109	13	18	18	49	1.80
15305695--15305782	43	2.1	42	85	6	115	36	7	10	45	1.67
15306085--15306357	43	6.3	43	83	5	268	18	16	32	32	1.93
15306072--15306357	86	3.3	85	83	4	342	18	15	32	33	1.93
15306085--15306357	129	2.1	130	87	2	390	18	16	32	32	1.93
15306422--15306464	22	2.0	22	90	0	68	41	25	20	11	1.86
15310502--15310551	26	1.9	26	92	8	84	38	10	14	38	1.79
15310508--15310560	25	2.1	26	82	3	63	37	11	18	32	1.87
15311933--15311963	16	1.9	16	93	0	53	54	0	3	41	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15312123--15312172	24	2.1	24	100	0	100	24	16	24	36	1.94
15319468--15319525	17	3.6	16	80	15	59	37	0	3	58	1.15
15319492--15319547	25	2.2	25	84	12	71	42	0	5	51	1.24
15319538--15319653	62	1.9	59	87	5	169	41	3	4	50	1.39
15326647--15326678	11	2.9	11	100	0	64	43	28	9	18	1.81
15328513--15328629	45	2.6	46	79	4	121	23	25	12	37	1.91
15328560--15328625	22	2.9	23	68	20	57	24	21	15	39	1.91
15329514--15329545	16	2.0	16	100	0	64	25	12	6	56	1.59
15331655--15331699	23	2.0	23	91	8	74	75	0	17	6	1.01
15340263--15340303	21	2.0	21	85	4	57	24	21	21	31	1.98
15342232--15342477	43	5.7	43	83	4	239	29	30	15	24	1.96
15342186--15342473	86	3.4	85	79	4	285	29	29	16	24	1.97
15347670--15347744	7	10.3	7	77	7	51	40	37	1	21	1.62
15348383--15348661	41	6.9	41	85	4	381	27	30	23	18	1.98
15348721--15348847	40	3.2	40	74	11	120	22	22	22	33	1.98
15349551--15349600	18	2.6	19	73	14	50	46	0	4	50	1.20
15349567--15349614	13	3.6	13	78	10	53	47	0	6	45	1.27
15349562--15349614	27	2.0	27	88	7	81	49	0	5	45	1.26
15349567--15349620	27	2.1	26	83	13	67	48	1	5	44	1.37
15350507--15350612	43	2.5	43	78	3	97	24	18	25	31	1.98
15355848--15355894	22	2.1	22	84	0	58	14	14	10	59	1.61
15355869--15355936	33	2.1	33	85	0	91	22	14	7	55	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15355955--15356064	52	2.1	53	89	3	177	20	9	15	55	1.67
15360518--15360548	4	7.8	4	92	0	53	54	22	0	22	1.44
15361188--15361227	21	1.9	21	85	10	55	42	0	0	57	0.98
15363715--15363777	30	2.1	30	88	5	92	41	38	1	19	1.61
15363736--15363768	17	1.9	17	93	0	57	39	45	0	15	1.46
15363753--15363866	51	2.2	52	92	4	196	45	32	2	19	1.64
15364020--15364094	37	2.0	37	86	0	105	34	4	13	48	1.61
15364376--15364416	20	2.0	20	90	0	64	29	14	31	24	1.95
15364625--15364650	9	2.9	9	100	0	52	30	0	11	57	1.34
15368980--15369010	15	2.1	15	100	0	62	38	6	32	22	1.80

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