genome.fa.s4.2.7.7.80.10.50.1000.24.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  24  of  255  ( 30512 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)
6521619--6521725	35	3.0	35	91	4	160	35	13	11	40	1.80
6527273--6527302	15	2.0	15	100	0	60	53	6	0	40	1.27
6527824--6527863	21	1.9	21	94	0	71	62	12	0	25	1.30
6529008--6529046	20	2.0	20	100	0	78	35	15	15	33	1.89
6534794--6534824	16	1.9	16	100	0	62	58	16	12	12	1.64
6535258--6535341	26	3.2	26	96	0	150	33	4	25	36	1.77
6538856--6538979	34	3.6	34	82	6	135	42	16	8	32	1.79
6540840--6541099	141	1.8	142	80	7	314	33	18	18	28	1.95
6542769--6542813	23	2.0	23	82	8	56	37	8	13	40	1.76
6548641--6548723	30	2.8	28	72	18	78	50	8	6	34	1.57
6548768--6548826	23	2.5	23	74	17	59	59	6	3	30	1.40
6549281--6549327	23	2.0	25	91	8	80	6	2	40	51	1.39
6550146--6550204	29	2.0	30	93	3	102	40	28	10	20	1.85
6550305--6550334	14	2.1	14	93	0	51	56	6	13	23	1.60
6550230--6550394	87	1.9	88	83	5	219	37	18	17	26	1.93
6550328--6550566	78	3.1	76	80	8	241	34	17	17	29	1.94
6550408--6550731	169	1.9	165	85	3	434	32	19	18	29	1.96
6549983--6550809	249	3.4	242	82	7	785	35	18	17	29	1.93
6550560--6550913	78	4.7	75	86	4	419	32	18	16	31	1.94
6550560--6550913	153	2.4	147	84	4	431	32	18	16	31	1.94
6550867--6550962	49	2.0	49	97	0	183	33	19	15	31	1.93
6550916--6551138	71	3.0	71	82	11	270	34	18	17	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6550645--6551138	270	1.8	272	86	4	728	33	18	16	31	1.93
6551156--6551369	87	2.5	82	87	7	302	35	21	18	25	1.96
6551377--6551403	14	1.9	14	100	0	54	51	7	14	25	1.68
6551429--6551587	55	2.9	53	90	4	246	38	18	15	27	1.91
6551768--6551959	72	2.7	72	84	4	255	37	23	14	25	1.92
6551907--6552064	55	2.9	53	85	7	212	39	18	15	27	1.90
6552024--6552203	70	2.5	71	82	3	209	35	23	15	26	1.94
6551709--6552488	250	3.1	253	96	1	1430	37	21	15	25	1.93
6552157--6552302	54	2.7	54	84	6	181	39	19	14	27	1.90
6552268--6552461	72	2.7	71	84	4	255	36	23	14	25	1.93
6565101--6565214	43	2.7	43	94	1	194	23	21	31	22	1.98
6568624--6568660	18	2.1	18	94	0	65	54	0	0	45	1.00
6568624--6568662	19	2.1	18	90	4	60	53	0	0	46	1.00
6571227--6571281	27	2.0	27	100	0	110	52	3	25	18	1.61
6581075--6581102	5	5.6	5	100	0	56	82	0	0	17	0.68
6584680--6584814	57	2.3	58	87	1	182	30	14	21	34	1.93
6594030--6594308	139	2.0	139	100	0	558	29	16	17	36	1.92
6600525--6600664	70	2.0	70	94	0	244	27	17	22	32	1.97
6609827--6609915	39	2.3	38	84	5	108	13	11	37	38	1.81
6617949--6617990	16	2.6	17	81	11	61	11	26	0	61	1.30
6618213--6618272	22	2.7	22	92	0	93	40	23	8	28	1.83
6621144--6621178	15	2.4	15	95	4	63	48	28	0	22	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6622179--6622293	29	4.0	29	72	1	97	26	28	13	30	1.94
6622527--6622556	8	3.8	8	90	0	51	3	23	23	50	1.64
6629880--6629970	29	3.1	29	79	6	94	25	24	14	36	1.93
6634171--6634201	15	2.1	14	94	5	53	32	0	6	61	1.21
6640449--6640537	45	2.0	45	93	0	151	23	16	22	37	1.94
6643673--6644131	162	2.8	161	82	3	521	27	16	17	38	1.92
6645453--6645772	162	2.0	162	81	3	376	30	15	15	38	1.89
6648269--6648337	31	2.2	32	82	10	90	44	15	11	27	1.81
6648877--6648910	6	5.7	6	92	0	50	20	2	14	61	1.46
6648877--6648919	12	3.6	12	87	0	59	23	4	13	58	1.55
6648929--6649006	6	13.0	6	79	5	50	21	6	15	56	1.61
6648973--6649006	12	2.8	12	95	0	59	23	2	14	58	1.50
6649259--6649398	62	2.3	60	84	6	183	22	9	19	48	1.77
6649502--6649531	15	2.0	15	93	0	51	16	6	36	40	1.75
6649670--6649725	28	2.0	28	100	0	112	35	14	21	28	1.92
6652260--6652309	25	2.0	25	96	0	91	24	22	8	46	1.78
6656294--6656884	130	4.5	129	74	6	300	35	17	18	27	1.94
6659530--6659582	20	2.6	21	78	3	63	26	3	24	45	1.70
6661826--6661931	38	2.8	39	78	13	114	51	0	12	34	1.46
6662300--6662416	16	6.9	17	72	19	59	57	1	4	36	1.29
6662614--6662649	3	12.0	3	87	0	54	66	0	2	30	1.06
6662763--6662796	6	5.5	6	86	6	50	52	11	2	32	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6663279--6663314	11	3.2	11	88	4	54	50	0	50	0	1.00
6664193--6665131	132	7.1	132	94	0	1574	29	25	17	28	1.97
6665244--6665532	95	3.0	95	94	1	508	28	22	19	30	1.98
6665522--6665872	86	4.1	86	91	0	540	27	24	22	26	2.00
6665653--6665786	41	3.2	41	64	19	103	26	24	20	27	1.99
6665685--6665818	42	3.1	42	63	19	105	24	23	25	26	2.00
6669976--6670019	19	2.3	20	84	7	56	40	11	20	27	1.86
6672072--6672177	37	2.8	38	77	16	105	50	0	13	34	1.47
6672546--6672662	16	6.9	17	72	19	59	57	1	4	36	1.29
6673007--6673040	6	5.5	6	86	6	50	52	11	2	32	1.53
6673523--6673558	11	3.2	11	88	4	54	50	0	50	0	1.00
6674374--6674452	19	4.2	19	90	9	126	35	16	10	37	1.82
6674396--6674452	17	3.5	15	88	11	53	35	15	10	38	1.82
6674374--6674452	36	2.1	39	90	9	128	35	16	10	37	1.82
6677360--6677407	24	2.0	24	95	0	87	29	6	20	43	1.76
6679510--6679565	22	2.8	20	77	17	53	33	8	1	55	1.42
6679574--6679608	13	2.6	13	86	4	52	14	5	11	68	1.37
6679650--6679689	16	2.6	15	88	7	62	25	5	0	70	1.08
6680107--6680210	26	4.0	26	92	0	181	32	6	25	35	1.82
6681989--6682275	137	2.1	137	98	0	556	24	19	25	31	1.98
6687188--6687242	26	2.2	26	83	9	69	34	29	14	21	1.93
6687225--6687280	25	2.2	26	87	6	80	35	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6687238--6687288	25	2.1	24	81	3	57	37	17	15	29	1.91
6690440--6690473	4	8.5	4	93	0	59	50	20	2	26	1.63
6693136--6693200	27	2.4	26	78	21	71	66	4	1	27	1.20
6697206--6697251	3	15.3	3	100	0	92	34	0	0	65	0.93
6697926--6698021	10	10.0	10	68	8	56	60	1	4	34	1.23
6699135--6699195	21	2.8	23	75	9	65	6	13	13	67	1.41
6699137--6699195	22	2.8	20	73	12	55	6	13	11	67	1.40
6699131--6699199	33	2.1	33	81	10	79	5	11	15	66	1.41
6701376--6701460	39	2.2	39	89	4	127	15	25	21	37	1.92
6701395--6701476	39	2.1	39	90	0	128	12	28	21	37	1.90
6703451--6703685	3	76.3	3	64	12	84	58	3	8	29	1.45
6710453--6710679	112	2.0	113	96	0	420	33	17	3	46	1.65
6710982--6711006	5	5.0	5	100	0	50	80	0	0	20	0.72
6717576--6717611	10	3.6	10	88	0	54	30	0	8	61	1.26
6720573--6720673	18	5.5	17	72	17	69	60	1	2	34	1.23
6720520--6720623	10	10.7	9	68	18	57	61	2	3	31	1.28
6720573--6720673	39	2.7	37	76	13	100	60	1	2	34	1.23
6724535--6724573	3	13.0	3	100	0	78	66	0	0	33	0.92
6724771--6724816	23	1.9	23	86	8	65	63	2	0	34	1.07
6724772--6724848	39	2.0	39	87	5	111	59	2	1	36	1.19
6724787--6724827	16	2.6	16	92	3	66	58	2	0	39	1.11
6724773--6724843	27	2.7	26	81	16	76	59	2	1	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6725038--6725105	24	2.8	24	80	4	75	63	8	2	25	1.38
6726637--6727083	44	10.2	44	88	1	659	22	30	16	30	1.96
6726647--6727081	172	2.5	173	91	1	674	22	30	17	29	1.96
6736653--6736705	23	2.3	23	87	6	72	50	0	1	47	1.12
6736665--6736697	17	2.0	16	94	5	57	54	0	0	45	0.99
6741103--6741146	19	2.3	19	84	11	54	36	0	2	61	1.09
6741998--6742049	25	2.1	25	88	0	77	46	9	23	21	1.80
6748093--6749338	63	19.8	61	68	9	398	21	16	34	27	1.95
6748290--6748692	189	2.1	189	87	2	569	20	17	33	29	1.95
6748784--6749336	252	2.2	252	91	0	890	22	16	34	26	1.95

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