genome.fa.s4.2.7.7.80.10.50.1000.113.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  113  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)
35859469--35859588	60	2.0	60	95	3	215	23	16	25	34	1.95
35860863--35860900	19	2.0	19	100	0	76	47	10	10	31	1.72
35860865--35860908	19	2.3	19	92	4	70	50	11	11	27	1.72
35871749--35871836	44	2.0	44	100	0	176	20	4	27	47	1.69
35878341--35878525	79	2.3	81	82	7	218	24	22	27	25	2.00
35878342--35878525	40	4.6	40	80	9	198	25	22	27	25	2.00
35878394--35878558	79	2.1	79	82	6	192	26	20	27	25	1.99
35886312--35886494	39	4.7	40	80	9	207	25	22	27	24	2.00
35886364--35886527	78	2.1	78	80	6	190	26	20	27	25	1.99
35901333--35901805	47	10.1	47	92	0	741	32	9	30	27	1.88
35927245--35927322	29	2.7	29	82	7	104	17	28	15	38	1.91
35927304--35927432	29	4.4	30	78	10	133	27	25	9	37	1.87
35927304--35927432	58	2.2	59	81	4	154	27	25	9	37	1.87
35932006--35932421	40	10.4	40	89	4	619	26	27	22	23	1.99
35940672--35940879	28	7.5	28	95	2	350	31	28	13	25	1.94
35940672--35940904	55	4.2	55	92	1	358	31	29	13	25	1.94
35940672--35940879	111	1.9	110	93	1	362	31	28	13	25	1.94
35948720--35948903	27	6.5	28	87	9	250	31	29	13	25	1.94
35948723--35948896	59	3.0	59	84	10	241	32	29	12	25	1.93
35948720--35948928	59	3.7	56	85	9	230	32	29	13	24	1.93
35951538--35951913	40	9.4	40	90	3	548	26	27	22	23	1.99
35954511--35954682	93	1.8	93	94	0	308	27	30	21	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35954504--35954679	46	3.8	46	79	12	207	28	30	21	19	1.98
35966339--35966512	46	3.8	46	83	10	221	29	27	19	22	1.98
35968441--35968490	15	3.4	15	86	2	66	60	12	18	10	1.59
35968452--35968499	15	3.2	15	79	5	53	56	14	16	12	1.68
35971437--35971580	46	3.1	46	72	14	134	29	27	20	22	1.98
35976362--35976620	29	8.9	29	78	4	236	41	12	23	23	1.88
35976362--35976608	87	2.8	86	86	2	316	42	12	22	22	1.87
35979233--35979262	15	2.0	15	93	0	51	46	16	3	33	1.64
35986122--35986150	14	2.0	15	93	6	51	27	0	20	51	1.47
35988031--35988055	13	1.9	13	100	0	50	48	8	0	44	1.32
35996380--35996404	13	1.9	13	100	0	50	48	8	0	44	1.32
35996835--35996861	14	1.9	14	100	0	54	62	7	7	22	1.46
36000689--36001013	178	1.8	179	88	2	501	34	19	8	36	1.83
36001343--36001374	16	2.0	16	93	0	55	34	18	0	46	1.49
36001574--36001917	50	6.8	50	84	2	377	30	26	17	26	1.97
36001585--36001913	151	2.2	151	83	1	399	31	26	16	26	1.97
36002536--36002594	30	2.0	30	86	0	82	25	27	5	42	1.76
36005872--36005922	25	2.0	25	85	7	68	29	17	19	33	1.95
36005966--36006000	10	3.4	10	92	7	61	34	17	17	31	1.93
36005961--36006000	21	1.9	21	94	0	71	37	17	15	30	1.90
36006051--36006115	22	2.8	23	86	6	78	26	24	24	24	2.00
36006051--36006122	24	3.1	23	84	7	83	30	22	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36006062--36006142	24	3.4	24	77	14	69	27	24	22	25	2.00
36006336--36006412	31	2.5	31	93	4	129	33	18	25	22	1.96
36013784--36013834	25	2.0	25	85	7	68	29	17	19	33	1.95
36013873--36013912	21	1.9	21	89	0	62	37	17	12	32	1.87
36013878--36013912	10	3.4	10	88	7	52	34	17	14	34	1.90
36013957--36014024	25	2.8	24	90	2	100	26	25	23	25	2.00
36013957--36014037	24	3.3	24	87	5	101	29	22	23	24	1.99
36014245--36014328	31	2.7	31	87	1	125	30	16	26	26	1.97
36018454--36018498	15	3.0	15	90	0	72	55	13	17	13	1.69
36021153--36021480	180	1.8	181	91	2	543	32	20	10	36	1.86
36021811--36021841	16	1.9	16	93	0	53	35	19	0	45	1.51
36022049--36022301	50	5.1	49	77	7	231	31	28	15	25	1.95
36025216--36025249	7	4.9	7	92	0	59	55	11	0	32	1.36
36037182--36037370	50	3.7	50	77	4	157	32	24	15	26	1.95
36039346--36039398	27	2.0	27	88	7	81	30	15	16	37	1.90
36046624--36046700	37	2.1	37	97	0	145	40	3	5	50	1.43
36061574--36061883	48	6.6	48	71	13	182	29	19	28	23	1.98
36063696--36063763	29	2.3	29	82	5	84	27	29	13	29	1.94
36064039--36064117	29	2.7	30	82	13	110	29	30	15	25	1.96
36063585--36064086	174	2.9	174	94	0	896	31	24	14	30	1.94
36072006--36072073	29	2.3	29	82	5	84	27	29	13	29	1.94
36071895--36072394	173	2.9	174	96	1	941	31	24	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36072347--36072425	29	2.7	30	82	13	110	29	30	15	25	1.96
36095191--36095373	79	2.3	81	85	7	241	25	26	23	24	2.00
36095170--36095373	40	5.1	40	80	8	229	25	26	23	25	2.00
36097824--36097886	23	2.6	24	77	10	65	39	17	23	19	1.92
36100992--36101364	49	7.5	49	77	4	372	30	27	16	26	1.96
36100992--36101364	99	3.8	96	79	10	344	30	27	16	26	1.96
36100979--36101365	150	2.6	148	88	3	555	30	26	16	26	1.96
36104914--36105159	133	1.9	132	86	2	359	27	25	21	25	1.99
36110392--36110432	21	2.0	21	85	0	55	36	26	0	36	1.57
36114377--36114422	24	1.9	24	82	8	58	28	6	4	60	1.40
36131448--36131517	28	2.5	28	90	4	106	28	14	24	32	1.94
36138747--36138771	12	2.1	12	100	0	50	56	0	0	44	0.99
36139318--36139387	28	2.5	28	90	4	106	27	12	27	32	1.93
36148441--36148833	87	4.5	84	68	16	221	33	19	19	27	1.96
36148342--36148663	174	1.8	177	87	5	485	33	18	19	27	1.96
36148859--36148992	42	3.2	42	94	0	232	34	18	15	31	1.93
36149103--36149200	25	4.0	24	73	13	58	25	22	24	27	2.00
36150009--36150110	27	3.8	26	72	12	80	24	20	16	38	1.93
36150104--36150340	27	8.7	27	79	5	174	31	8	19	39	1.83
36150217--36150373	54	2.9	54	78	3	165	29	10	19	39	1.86
36150217--36150373	81	1.9	81	82	10	196	29	10	19	39	1.86
36150372--36150569	27	7.3	27	85	2	236	39	7	23	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36150372--36150569	81	2.4	81	88	1	272	39	7	23	29	1.81
36157757--36157823	32	2.1	32	94	0	116	29	23	7	38	1.82
36159648--36159840	40	4.8	40	89	3	298	23	23	27	25	2.00
36167751--36167945	81	2.4	80	89	2	293	23	23	27	25	2.00
36167752--36167945	40	4.8	40	87	5	284	23	23	27	25	2.00
36189456--36189598	39	3.7	38	86	5	173	21	23	23	30	1.99
36194314--36194465	27	5.6	27	93	3	241	26	13	28	30	1.94
36194314--36194465	55	2.8	55	94	0	259	26	13	28	30	1.94
36209803--36210083	50	5.7	50	80	9	328	24	29	18	28	1.98
36209803--36210072	144	1.9	145	87	3	402	24	29	18	27	1.98
36211682--36211710	14	2.1	14	100	0	58	37	0	6	55	1.27
36213040--36213084	14	2.7	18	77	16	53	2	20	4	73	1.11
36215499--36215615	43	2.8	42	82	10	157	27	26	16	29	1.97
36217147--36217273	43	3.0	43	73	10	125	32	24	18	25	1.97
36227892--36227931	14	2.9	13	88	3	53	17	2	2	77	0.99
36241069--36241368	96	3.1	96	91	4	482	32	8	30	28	1.87
36241048--36241368	47	6.7	47	93	2	491	32	8	30	28	1.87
36241487--36241565	37	2.1	37	88	0	113	24	17	31	26	1.97
36242769--36242847	40	2.1	36	79	18	99	25	18	32	22	1.97
36242793--36242912	62	1.9	62	98	0	231	25	23	30	20	1.98
36242855--36243230	40	9.4	40	93	1	565	23	21	28	26	1.99
36246581--36247185	47	12.7	47	95	1	1039	32	8	29	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36247304--36247382	37	2.1	37	90	0	122	24	18	31	25	1.98
36251237--36251307	35	2.0	35	97	0	133	43	22	4	29	1.72
36258183--36258360	27	6.6	27	84	3	205	29	28	15	26	1.96
36258204--36258359	82	1.9	81	88	3	233	29	28	15	26	1.96
36276373--36276459	29	3.0	29	88	1	122	29	28	12	28	1.93
36276522--36276559	17	2.2	17	95	0	67	26	44	21	7	1.79
36276712--36276749	16	2.4	16	90	0	58	21	15	13	50	1.78
36283247--36283340	48	2.0	48	93	0	161	26	27	21	24	1.99
36286451--36286510	30	2.0	30	90	0	93	30	25	8	36	1.85
36293144--36293312	92	1.8	92	92	2	286	27	27	21	23	1.99

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