genome.fa.s4.2.7.7.80.10.50.1000.173.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  173  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)
56908853--56908894	21	2.0	21	85	0	57	21	16	42	19	1.89
56911067--56911127	30	2.0	30	83	0	77	31	21	8	39	1.82
56912621--56912939	47	6.8	46	74	11	213	26	20	29	23	1.99
56915090--56915219	50	2.6	49	87	1	179	31	27	16	24	1.96
56915132--56915217	28	3.3	28	69	24	87	31	27	15	25	1.95
56918580--56918608	12	2.4	12	100	0	58	17	6	34	41	1.76
56922637--56922858	96	2.3	95	86	8	290	28	20	27	23	1.99
56922637--56922859	49	4.7	48	73	17	189	28	20	28	23	1.99
56927724--56928142	48	8.8	46	70	8	232	26	27	16	28	1.97
56927825--56928192	144	2.6	143	86	1	493	26	27	16	28	1.97
56931483--56931544	7	8.9	7	100	0	124	14	56	0	29	1.39
56932647--56932757	41	2.7	41	84	4	136	23	15	25	36	1.94
56940079--56940390	41	7.7	41	83	6	366	23	16	26	32	1.96
56940080--56940384	81	3.8	81	86	2	416	23	17	26	32	1.96
56940080--56940390	122	2.5	121	82	7	369	23	17	26	32	1.96
56947959--56948005	8	5.9	8	84	0	67	40	17	23	19	1.91
56947954--56948009	24	2.3	23	85	8	76	42	17	21	17	1.89
56948237--56948338	29	3.6	29	86	1	134	25	16	28	29	1.97
56948237--56948347	57	1.9	57	88	1	168	26	16	28	28	1.97
56952693--56952821	46	2.8	45	88	4	188	19	19	30	31	1.96
56957102--56957373	40	6.8	39	88	1	276	26	29	21	23	1.99
56957109--56957372	80	3.3	80	86	3	338	26	29	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56957146--56957370	120	1.9	119	88	6	339	26	30	21	21	1.99
56965037--56965260	40	5.6	40	90	4	312	25	27	23	23	2.00
56981324--56981363	15	2.7	15	80	11	55	15	57	0	27	1.38
56987284--56987455	93	1.8	93	95	2	310	28	29	20	20	1.98
56987277--56987452	46	3.8	46	79	14	209	29	29	20	20	1.98
56990387--56990432	25	1.9	24	82	8	58	30	13	15	41	1.85
56994851--56995022	93	1.8	93	95	2	310	28	29	20	20	1.98
56994844--56995019	46	3.8	46	79	14	209	29	29	20	20	1.98
56995438--56995498	30	2.0	31	83	3	79	32	19	6	40	1.77
56998115--56998145	16	1.9	16	93	0	53	70	9	9	9	1.33
57000845--57000873	3	10.0	3	92	7	51	34	0	31	34	1.58
57003201--57003238	20	1.9	20	89	10	60	34	18	15	31	1.92
57004633--57004694	27	2.4	26	77	15	67	35	1	4	58	1.29
57005555--57005594	18	2.2	18	86	8	55	10	2	32	55	1.47
57011034--57011106	21	3.4	21	94	3	119	12	24	28	34	1.92
57017405--57017434	3	10.0	3	100	0	60	33	0	0	66	0.92
57020011--57020043	9	3.7	9	91	0	57	39	24	12	24	1.89
57020011--57020045	18	1.9	18	100	0	70	37	22	11	28	1.89
57024992--57025108	43	2.7	43	80	5	139	25	17	24	31	1.97
57027747--57027781	17	2.1	17	100	0	70	22	17	5	54	1.64
57032188--57032224	18	2.1	18	100	0	74	27	32	27	13	1.94
57037314--57037345	15	2.0	17	88	11	50	25	0	31	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57039151--57039192	17	2.5	17	80	7	50	54	4	33	7	1.49
57040818--57041012	27	7.2	27	79	4	187	35	21	10	32	1.88
57040818--57041011	54	3.6	53	78	2	208	36	21	10	31	1.88
57040996--57041101	27	3.9	27	90	2	151	32	19	22	25	1.98
57041087--57041159	26	2.8	26	75	8	69	28	19	21	30	1.98
57041096--57041145	26	1.9	26	87	0	73	32	18	20	30	1.96
57047485--57047520	15	2.4	15	95	0	63	52	2	13	30	1.55
57049149--57049220	34	2.1	34	94	0	126	27	12	34	25	1.92
57052233--57052265	16	2.0	17	94	5	59	51	0	0	48	1.00
57052453--57052495	18	2.4	18	81	14	54	39	0	2	58	1.11
57056370--57056508	60	2.3	60	81	8	158	26	17	26	29	1.97
57056770--57056802	10	3.3	10	91	8	50	24	0	3	72	0.98
57059471--57059504	17	2.0	17	100	0	68	35	17	17	29	1.93
57062012--57062063	5	9.6	5	88	12	68	78	3	0	17	0.89
57071816--57071913	42	2.3	42	91	0	151	30	25	14	29	1.95
57076552--57076651	41	2.4	41	89	0	146	21	27	24	28	1.99
57076640--57076688	25	2.0	25	87	0	71	26	26	20	26	1.99
57076640--57076705	25	2.6	25	82	0	69	25	25	22	25	2.00
57106651--57106808	40	4.0	40	82	3	149	25	29	23	22	1.99
57107111--57107189	29	2.7	29	86	5	106	27	32	15	24	1.95
57107171--57107273	43	2.4	43	100	0	206	26	35	15	22	1.94
57109139--57109217	37	2.1	37	90	4	124	25	30	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57109336--57110203	47	18.5	47	95	0	1511	29	30	8	31	1.87
57116723--57116763	21	1.9	22	85	5	57	39	0	21	39	1.54
57122668--57122856	48	3.9	48	88	1	290	17	17	30	33	1.94
57125731--57125774	13	3.5	13	75	12	56	56	6	2	34	1.38
57127852--57127903	24	2.2	24	89	0	77	53	7	3	34	1.48
57129733--57129895	83	2.0	83	98	0	317	31	17	13	38	1.88
57138357--57138392	13	2.8	13	84	16	56	22	5	2	69	1.22
57138357--57138396	14	3.0	14	82	10	57	22	5	2	70	1.19
57143198--57143374	27	6.5	27	83	3	149	28	29	15	26	1.96
57143219--57143374	82	1.9	81	85	3	215	28	29	15	26	1.96
57143224--57143374	54	2.8	54	86	3	214	27	29	15	27	1.96
57151293--57151442	27	5.5	27	84	4	122	26	30	16	27	1.96
57151319--57151442	55	2.3	54	87	4	169	25	29	16	28	1.96
57154935--57155106	84	2.0	84	100	0	344	45	9	10	34	1.71
57155496--57155550	23	2.4	22	76	8	56	45	0	18	36	1.49
57155593--57155678	30	2.9	31	79	6	97	38	9	24	27	1.86
57156878--57156920	21	2.0	21	100	0	86	30	9	27	32	1.88
57158400--57158587	48	4.0	47	90	5	272	24	18	29	27	1.98
57158408--57158626	48	4.6	47	85	5	203	25	17	29	27	1.97
57158400--57158626	95	2.4	95	84	6	264	24	17	29	28	1.97
57186165--57186219	23	2.4	24	82	11	62	56	0	1	41	1.10
57188947--57188971	8	3.1	8	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57191061--57191234	46	3.8	46	80	6	199	41	14	22	20	1.89
57191519--57191551	17	2.0	17	94	5	59	48	0	15	36	1.45
57192504--57192551	24	2.0	24	100	0	96	33	25	29	12	1.92
57195827--57195920	48	2.0	48	95	0	170	36	15	9	38	1.81
57199141--57199215	26	2.9	25	88	5	105	49	44	1	5	1.33
57202809--57202877	34	2.0	34	97	0	129	30	17	17	34	1.93
57205592--57205720	55	2.3	55	82	2	152	30	27	24	17	1.97
57207370--57207432	26	2.3	26	82	15	74	20	4	0	74	0.99
57225600--57225694	44	2.2	43	81	7	111	32	29	13	24	1.93
57225698--57225820	43	2.9	43	80	0	147	31	30	16	21	1.95
57225751--57225845	43	2.2	43	86	3	129	30	29	16	23	1.96
57232793--57232876	6	14.0	6	83	5	89	75	2	5	16	1.11
57234972--57235274	40	7.6	40	90	2	396	24	20	28	27	1.99
57242955--57243257	40	7.6	40	90	2	396	24	20	28	27	1.99
57244585--57244676	1	92.0	1	95	0	166	1	0	1	97	0.17
57247041--57247218	27	6.6	27	82	3	196	27	15	27	29	1.96
57247042--57247197	82	1.9	81	86	3	224	27	15	27	29	1.96
57247038--57247218	82	2.2	81	82	2	220	27	15	27	29	1.96
57258620--57258922	40	7.6	40	90	2	396	24	20	28	27	1.99
57272197--57272564	47	7.7	47	93	1	585	32	8	30	28	1.88
57272218--57272564	192	1.8	190	93	1	604	32	8	29	28	1.88
57272683--57272761	37	2.1	37	88	4	115	25	18	30	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57278596--57278665	36	1.9	36	94	0	122	64	8	2	24	1.36
57280612--57280812	43	4.7	43	87	4	237	34	24	13	26	1.93
57283719--57283937	48	4.6	48	76	5	176	26	17	29	26	1.97
57283703--57283888	95	1.9	94	81	9	216	27	15	29	27	1.96
57291495--57291528	15	2.2	15	89	5	50	82	0	11	5	0.83
57292258--57292297	21	1.9	21	84	0	53	67	12	12	7	1.41
57297312--57297355	14	2.8	16	86	10	56	29	2	4	63	1.26
57299693--57299726	6	5.7	6	100	0	68	17	17	47	17	1.84
57301069--57301103	17	2.1	17	89	10	54	40	5	2	51	1.40
57301313--57301347	11	3.1	11	95	4	61	88	0	11	0	0.51

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