genome.fa.s5.2.7.7.80.10.50.1000.111.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   

This is table  111  of  318  ( 38109 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)
35520854--35521490	319	2.0	319	95	0	1139	29	16	23	31	1.96
35522284--35522343	22	2.6	22	92	5	84	41	13	8	36	1.74
35522295--35522343	22	2.2	22	100	0	98	42	14	8	34	1.75
35523186--35523231	3	15.3	3	100	0	92	32	0	0	67	0.91
35526359--35526431	21	3.4	21	82	3	74	41	10	17	30	1.84
35530865--35530907	20	2.2	20	82	0	50	60	0	2	37	1.10
35530854--35530917	8	7.5	8	77	22	60	62	1	1	34	1.14
35531000--35531025	12	2.2	12	100	0	52	76	0	0	23	0.78
35530853--35531013	9	17.6	9	68	17	82	63	1	3	31	1.21
35540503--35540553	15	3.3	15	75	10	50	35	0	3	60	1.15
35541011--35541104	47	2.0	47	97	0	179	34	13	21	30	1.92
35543113--35543155	17	2.7	17	86	10	56	34	0	6	58	1.25
35549617--35549647	13	2.4	13	94	0	53	45	9	9	35	1.70
35553492--35553563	36	2.0	36	91	0	117	36	18	2	43	1.64
35553846--35553904	31	1.9	31	86	6	84	33	11	8	45	1.71
35560347--35560393	16	2.9	17	78	12	55	61	0	2	36	1.08
35560374--35560435	22	2.8	21	72	20	54	54	1	3	40	1.26
35567687--35567723	3	12.3	3	100	0	74	32	0	0	67	0.91
35568044--35568068	5	5.0	5	100	0	50	80	0	20	0	0.72
35572178--35572323	37	4.0	37	91	1	233	25	21	15	36	1.93
35572287--35572555	46	5.6	46	84	10	340	28	22	14	34	1.93
35572330--35572549	52	4.3	52	85	8	299	27	22	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35572287--35572555	98	2.7	98	93	0	457	28	22	14	34	1.93
35574632--35574777	49	3.0	47	82	9	168	26	24	21	27	1.99
35574633--35574777	25	6.0	24	83	9	161	26	24	21	26	1.99
35574835--35574891	9	5.9	9	73	15	51	35	21	8	35	1.84
35574823--35574893	20	3.5	20	94	0	124	32	21	11	35	1.89
35574828--35574882	11	5.4	11	70	16	55	30	20	12	36	1.90
35574930--35574977	25	1.9	25	86	0	69	25	16	25	33	1.96
35576140--35576214	27	2.8	27	78	11	82	21	20	22	36	1.96
35576255--35576484	27	8.4	27	78	3	147	32	8	19	39	1.82
35576345--35576484	54	2.6	54	81	4	183	30	7	21	40	1.80
35576463--35576665	27	7.5	27	86	2	237	39	7	23	30	1.82
35576679--35576768	27	3.3	27	84	6	103	33	8	16	41	1.80
35579733--35579787	23	2.3	24	93	6	94	41	21	9	27	1.83
35582712--35582780	31	2.3	28	80	11	75	28	1	1	68	1.07
35583496--35583552	18	3.0	19	84	5	71	56	1	0	42	1.10
35583490--35583551	19	3.3	19	82	6	74	58	3	0	38	1.15
35583521--35583564	18	2.5	17	82	10	52	50	6	0	43	1.29
35583733--35583765	16	2.0	17	88	5	50	33	3	12	51	1.54
35602007--35602077	23	3.2	23	86	4	83	42	28	2	26	1.69
35602030--35602077	23	2.1	23	100	0	96	39	29	4	27	1.75
35608328--35608379	25	2.1	24	82	3	59	11	19	0	69	1.18
35608813--35608898	43	2.0	43	95	0	154	46	9	16	27	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35610323--35610364	17	2.4	18	84	11	61	42	9	2	45	1.49
35611180--35611523	172	2.0	172	94	0	607	24	21	11	42	1.85
35613625--35613682	30	1.9	30	86	6	82	20	37	29	12	1.89
35621503--35621533	16	1.9	16	100	0	62	83	0	0	16	0.64
35632191--35632242	23	2.2	24	80	10	63	17	9	3	69	1.31
35632277--35632362	18	4.7	18	86	4	102	27	4	5	61	1.39
35632277--35632342	3	21.7	3	84	3	87	27	1	6	65	1.25
35632339--35632394	28	2.0	29	82	10	71	30	14	7	48	1.70
35639675--35639833	81	2.0	80	82	6	196	25	16	4	52	1.62
35644224--35644333	44	2.5	44	83	0	130	29	20	18	31	1.96
35644575--35644838	89	3.0	89	81	1	298	34	18	18	27	1.95
35644572--35644833	44	5.9	44	76	3	211	34	19	19	27	1.95
35646564--35646603	12	3.2	12	92	3	62	27	2	5	65	1.27
35646564--35646603	3	13.0	3	84	5	53	27	2	5	65	1.27
35648429--35648469	3	13.7	3	100	0	82	65	0	34	0	0.93
35651623--35651654	16	1.9	17	93	6	57	46	6	3	43	1.44
35653122--35653166	17	2.6	17	75	0	54	40	6	0	53	1.27
35653150--35653214	26	2.5	26	84	0	76	38	3	1	56	1.24
35653246--35653313	27	2.6	27	86	6	86	25	4	1	69	1.16
35653240--35653315	27	2.9	26	79	14	84	27	3	2	65	1.23
35653240--35653433	26	7.7	26	74	9	159	27	5	6	61	1.41
35653335--35653433	50	1.9	52	83	4	130	27	6	7	59	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35656954--35657000	22	2.1	22	84	11	60	38	6	0	55	1.26
35658767--35658858	45	2.0	45	100	0	184	43	8	6	41	1.61
35660238--35660292	24	2.2	25	81	18	62	70	0	0	29	0.87
35660716--35660746	14	2.1	15	94	5	55	29	0	0	70	0.87
35663039--35663091	22	2.4	22	93	0	88	30	52	3	13	1.57
35663367--35663420	26	2.1	25	86	10	74	9	5	3	81	0.97
35664331--35664388	3	18.3	3	75	10	53	29	8	3	58	1.44
35664390--35664441	20	2.7	19	82	11	54	23	13	3	59	1.50
35664737--35664767	15	2.1	15	100	0	62	32	6	0	61	1.21
35664850--35664887	15	2.5	15	86	0	58	31	5	2	60	1.33
35665894--35665937	20	2.3	19	88	11	63	59	2	2	36	1.23
35666127--35666164	12	3.2	12	85	7	51	57	2	0	39	1.12
35666133--35666191	13	4.6	13	73	10	50	55	1	3	38	1.26
35666133--35666368	25	9.6	25	71	14	179	54	4	5	36	1.43
35666150--35666369	72	3.0	73	86	6	275	54	5	5	35	1.45
35666292--35666410	38	2.9	37	69	25	89	58	4	3	33	1.34
35666216--35666392	72	2.4	71	89	4	230	57	5	3	33	1.37
35681002--35681055	22	2.3	24	81	12	69	37	0	3	59	1.15
35681208--35681233	13	2.0	13	100	0	52	46	0	7	46	1.31
35683742--35683803	9	6.6	9	73	23	56	30	0	0	69	0.89
35683741--35683804	20	3.3	20	76	22	73	29	0	0	70	0.88
35683762--35683801	21	1.9	21	90	10	64	30	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35684320--35684357	18	2.1	18	85	9	51	26	0	0	73	0.83
35685313--35685350	19	2.0	19	85	10	51	5	15	2	76	1.08
35688444--35688500	28	2.0	28	96	0	105	28	19	24	28	1.98
35692854--35693001	48	3.1	48	86	0	215	38	7	23	30	1.82
35695129--35695255	33	3.8	32	69	13	78	31	29	12	26	1.93
35696617--35696844	110	2.1	108	82	6	282	28	18	17	34	1.95
35696798--35696916	45	2.6	46	85	6	154	28	19	24	27	1.98
35696617--35696873	108	2.3	107	75	10	252	27	19	19	33	1.96
35696705--35697038	153	2.2	154	82	4	392	30	18	20	30	1.96
35700153--35700386	73	3.2	73	78	12	257	58	1	14	25	1.45
35700216--35700399	25	7.4	25	67	20	75	59	1	13	26	1.41
35700290--35700348	26	2.2	25	85	8	73	55	1	13	28	1.48
35700322--35700488	47	3.7	46	80	14	195	59	0	13	25	1.39
35700319--35700512	90	2.2	89	85	6	261	61	0	12	25	1.35
35700319--35700512	41	4.4	42	74	19	148	61	0	12	25	1.35
35700502--35700585	5	15.6	5	79	7	69	55	0	22	21	1.43
35700507--35700575	12	6.2	11	83	8	79	56	0	24	18	1.42
35700508--35700578	11	6.5	10	79	9	52	54	0	25	19	1.44
35700502--35700585	16	5.2	15	79	11	69	55	0	22	21	1.43
35700782--35700827	21	2.2	22	92	7	78	69	0	6	23	1.11
35700852--35700904	15	3.3	15	72	23	54	64	0	7	28	1.21
35700941--35701062	5	22.4	5	70	18	50	53	0	16	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35700942--35701040	28	3.4	29	76	14	98	53	0	15	31	1.42
35701169--35701236	5	12.6	5	80	9	64	58	2	17	20	1.51
35701169--35701209	6	7.3	6	81	13	52	65	0	14	19	1.26
35701169--35701236	11	6.3	10	77	11	64	58	2	17	20	1.51
35701169--35701237	17	4.2	17	76	12	72	59	2	17	20	1.50
35704821--35705002	51	3.6	51	93	0	312	24	21	20	32	1.98
35707204--35707228	3	8.3	3	100	0	50	36	0	32	32	1.58
35727103--35727235	66	2.0	66	97	0	248	33	18	9	38	1.84
35729767--35729839	27	2.7	26	78	8	74	54	4	4	36	1.38
35734002--35734054	22	2.4	22	90	0	79	30	13	3	52	1.57

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   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318