genome.fa.s4.2.7.7.80.10.50.1000.130.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  130  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)
41713043--41713125	31	2.7	31	96	3	152	27	26	16	28	1.97
41713345--41713414	25	2.8	25	93	0	113	24	22	25	27	2.00
41714342--41714393	27	1.9	27	84	7	70	34	7	13	44	1.72
41714397--41714733	27	12.5	27	80	2	158	35	6	21	36	1.80
41714503--41714699	81	2.4	81	84	0	259	36	6	22	34	1.81
41714532--41714688	54	2.9	54	90	0	251	38	6	24	30	1.80
41716893--41716975	31	2.7	31	88	3	125	27	25	16	30	1.97
41717195--41717264	25	2.8	25	91	0	104	25	22	24	27	2.00
41718073--41718150	27	2.9	26	76	14	77	20	17	21	39	1.92
41718232--41718384	27	5.7	27	82	4	150	28	6	20	45	1.76
41718191--41718398	27	7.6	27	78	7	136	30	7	19	42	1.79
41718191--41718398	54	3.8	54	76	6	188	30	7	19	42	1.79
41718377--41718506	27	4.8	27	85	7	183	37	8	23	30	1.84
41718340--41718519	81	2.2	81	75	0	189	33	7	22	36	1.83
41718377--41718530	81	1.9	81	83	0	200	36	8	22	32	1.84
41718371--41718544	81	2.1	81	76	0	177	35	8	20	35	1.84
41730992--41731070	33	2.4	33	82	6	97	26	25	25	22	2.00
41732289--41732433	43	3.4	43	81	6	168	29	15	22	32	1.95
41748361--41748420	22	2.8	21	72	7	57	20	21	38	20	1.94
41749595--41749619	13	1.9	13	100	0	50	32	0	16	52	1.44
41751166--41751413	50	4.9	50	73	1	199	26	18	25	30	1.98
41756802--41756979	51	3.5	52	87	6	233	28	28	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41760949--41761081	54	2.5	54	76	4	142	21	26	24	27	1.99
41767554--41767752	40	5.1	40	85	3	228	22	21	27	29	1.99
41775762--41775874	40	2.8	40	86	2	156	23	19	28	29	1.98
41775766--41775903	40	3.5	39	84	3	152	23	21	26	28	1.99
41798166--41798221	6	9.3	6	75	5	51	16	3	3	76	1.06
41798167--41798221	24	2.3	23	81	9	65	16	3	3	76	1.07
41802766--41802808	17	2.5	17	81	11	52	16	0	23	60	1.35
41805345--41805506	76	2.2	72	89	6	236	29	6	22	41	1.79
41816204--41816317	29	4.0	29	82	6	126	28	29	15	25	1.96
41816529--41816571	16	2.7	16	81	0	59	16	23	11	48	1.78
41817636--41817671	16	2.2	17	90	5	56	22	5	19	52	1.66
41821088--41821116	6	5.0	6	91	8	51	68	0	0	31	0.89
41821086--41821116	11	2.7	11	95	5	53	70	0	0	29	0.87
41824874--41824962	30	3.0	30	79	11	94	56	15	16	11	1.67
41824874--41824956	15	5.6	14	73	10	58	55	16	16	10	1.69
41824885--41824962	15	5.2	15	75	9	70	55	15	16	12	1.70
41827881--41828055	46	3.8	45	73	7	154	30	30	18	20	1.96
41827888--41828060	93	1.9	93	88	0	265	30	30	18	20	1.97
41835404--41835587	67	2.8	64	76	8	185	29	17	29	23	1.97
41841767--41841808	18	2.2	20	83	8	52	50	9	14	26	1.73
41847313--41847487	46	3.8	45	78	14	178	28	28	20	22	1.98
41847321--41847491	93	1.8	93	89	0	270	28	28	20	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41847318--41847507	46	4.1	45	71	18	140	28	28	20	23	1.98
41854350--41854382	17	2.0	17	88	5	50	36	12	0	51	1.39
41854663--41854846	46	4.0	46	85	0	224	19	23	15	40	1.90
41854663--41854834	92	1.9	92	86	2	247	20	23	16	40	1.91
41854848--41854972	46	2.7	46	92	0	196	24	24	12	39	1.90
41854770--41854919	77	1.9	77	86	2	212	19	25	13	42	1.87
41854726--41854957	123	1.9	123	85	1	322	21	24	14	40	1.90
41857958--41858012	28	2.0	28	96	0	101	32	21	16	29	1.95
41859562--41859629	29	2.3	29	82	10	84	29	7	5	57	1.50
41861401--41861425	11	2.3	11	100	0	50	44	8	0	48	1.32
41870128--41870181	24	2.3	23	80	6	63	35	18	25	20	1.95
41872752--41872790	20	2.1	19	90	9	62	38	20	0	41	1.53
41873410--41873476	33	2.0	33	100	0	134	26	29	0	43	1.55
41873718--41873758	8	5.2	8	77	16	50	58	2	0	39	1.11
41873716--41873746	5	6.0	5	96	3	53	61	0	0	38	0.96
41874381--41874494	58	2.0	58	91	0	183	29	24	11	34	1.90
41877629--41877741	46	2.5	46	100	0	226	37	14	23	24	1.92
41877705--41877773	32	2.2	32	97	0	129	39	17	21	21	1.93
41877659--41877819	78	2.1	78	97	0	304	37	15	23	22	1.93
41877737--41877980	46	5.3	46	88	2	330	41	14	22	21	1.89
41877629--41877865	124	1.9	124	93	1	413	38	14	23	24	1.92
41881571--41881882	47	6.7	47	90	6	476	30	8	29	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41881574--41881882	87	3.3	90	88	7	435	31	8	29	30	1.87
41881671--41881749	25	3.3	25	61	10	65	31	5	27	35	1.79
41881663--41881882	49	4.6	47	93	1	341	30	8	29	30	1.87
41881572--41881882	134	2.2	134	89	6	415	30	9	29	30	1.88
41882000--41882078	37	2.1	37	90	0	122	24	18	31	25	1.98
41883931--41884033	43	2.4	43	98	0	197	22	15	36	25	1.93
41884015--41884086	29	2.5	29	86	4	92	25	15	31	27	1.95
41884373--41884687	40	7.9	40	81	3	298	25	21	27	25	2.00
41884373--41884672	80	3.8	80	84	3	338	25	22	27	25	2.00
41888093--41888411	47	6.7	47	96	1	548	31	8	29	30	1.87
41890147--41890356	40	5.3	40	92	0	260	23	20	29	26	1.99
41890147--41890356	80	2.6	80	87	0	314	23	20	29	26	1.99
41898083--41898290	40	5.3	40	91	2	287	24	19	29	26	1.98
41898077--41898290	79	2.7	78	87	4	304	24	19	28	27	1.98
41904906--41905086	40	4.6	40	90	2	276	27	27	22	23	1.99
41904873--41905086	80	2.7	79	85	7	290	26	27	22	24	2.00
41913030--41913174	40	3.6	40	91	2	238	25	28	22	23	1.99
41913007--41913174	80	2.1	80	89	5	252	25	27	22	24	2.00
41921004--41921037	14	2.4	14	95	0	59	23	5	35	35	1.79
41922475--41922517	22	2.0	22	85	0	59	20	13	9	55	1.66
41922684--41922729	18	2.5	19	79	10	60	23	0	13	63	1.30
41922729--41922759	11	2.8	11	90	0	53	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41925493--41925567	37	2.0	37	92	0	123	28	10	22	38	1.87
41928423--41928501	37	2.1	37	88	4	115	25	30	18	25	1.98
41928620--41929046	47	9.1	47	93	0	692	28	29	9	33	1.88
41937816--41938481	329	2.0	329	100	0	1332	28	15	18	36	1.92
41951859--41951978	58	2.1	58	98	0	231	14	12	20	52	1.73
41954624--41954665	6	7.0	6	88	0	57	50	42	0	7	1.30
41954624--41954667	12	3.7	12	90	0	70	47	43	0	9	1.35
41954624--41954665	18	2.3	18	91	0	75	50	42	0	7	1.30
41956637--41956768	65	2.0	65	97	0	246	26	21	12	38	1.90
41959933--41959978	18	2.5	19	82	6	60	43	2	2	52	1.25
41960043--41960073	7	4.4	7	91	0	53	25	3	0	70	1.02
41960497--41960529	12	2.6	13	85	9	50	54	0	0	45	0.99
41960610--41960645	7	5.0	7	89	3	54	30	0	11	58	1.33
41962390--41962418	7	4.1	7	100	0	58	17	55	0	27	1.42
41964260--41964323	26	2.5	26	79	5	76	25	15	21	37	1.93
41969084--41969340	46	5.5	46	75	14	215	23	29	17	29	1.97
41969083--41969342	92	2.8	91	80	13	241	23	29	17	29	1.97
41973936--41974048	55	2.1	55	80	6	122	23	28	19	29	1.98
41974698--41974747	26	1.9	26	100	0	100	50	12	8	30	1.68
41977277--41977546	46	5.8	45	72	11	131	23	26	20	29	1.99
41984296--41984609	46	6.7	46	73	12	221	24	29	17	27	1.98
41985373--41985498	29	4.4	28	74	10	94	30	26	7	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41987432--41987653	46	4.7	46	76	7	198	26	17	31	25	1.97
41987434--41987653	94	2.3	94	83	6	259	26	17	30	25	1.97
41996596--41996655	26	2.3	26	82	0	75	38	21	21	18	1.94
41997694--41997721	13	2.2	13	100	0	56	21	14	0	64	1.29
41999706--41999782	40	1.9	41	83	2	102	25	19	14	40	1.89
42011591--42012179	70	8.4	70	79	2	513	29	24	19	26	1.98
42011591--42012182	140	4.2	140	79	4	586	29	24	18	26	1.98
42011569--42012182	210	2.9	209	80	2	631	29	25	18	26	1.98
42015719--42016092	39	9.6	39	83	2	448	44	18	5	32	1.72
42015817--42015911	8	12.1	8	73	12	63	44	16	3	35	1.64

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