genome.fa.s3.2.7.7.80.10.50.1000.131.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333   

This is table  131  of  333  ( 39894 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)
42379572--42379793	40	5.6	40	88	1	313	27	26	20	25	1.99
42405427--42405507	40	2.0	40	97	0	153	25	25	12	35	1.91
42412221--42412375	27	5.7	27	85	0	211	29	8	21	40	1.83
42412224--42412436	54	3.9	54	84	6	252	30	7	22	38	1.83
42412224--42412435	27	7.8	26	75	13	169	31	7	22	39	1.82
42412244--42412439	81	2.4	81	81	3	234	32	7	21	38	1.82
42417164--42417197	18	1.9	18	94	5	61	14	26	11	47	1.79
42418221--42418255	15	2.4	15	85	4	54	48	14	0	37	1.44
42419157--42419216	27	2.3	26	85	2	75	35	20	23	21	1.96
42420319--42420443	65	1.9	65	98	0	241	36	26	16	21	1.94
42421236--42421345	42	2.6	41	81	5	121	30	16	25	28	1.97
42423096--42423187	42	2.2	42	82	5	105	27	22	20	29	1.99
42423096--42423234	43	3.3	43	76	9	115	28	23	19	28	1.98
42424819--42424844	6	4.3	6	100	0	52	15	0	0	84	0.62
42427210--42427248	18	2.2	18	85	0	51	61	2	23	12	1.43
42428640--42428665	6	4.3	6	100	0	52	15	0	0	84	0.62
42434314--42434535	40	5.6	40	89	1	295	27	24	23	24	2.00
42442279--42442500	40	5.6	40	91	1	331	27	26	23	22	2.00
42445063--42445102	21	1.9	21	94	0	71	42	22	10	25	1.84
42448038--42448211	50	3.7	47	81	11	205	24	31	17	26	1.97
42448038--42448211	47	3.7	49	84	9	204	24	31	17	26	1.97
42452912--42452957	20	2.3	20	85	3	67	21	17	32	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42452950--42453086	60	2.3	59	83	8	161	28	21	25	24	1.99
42455335--42455471	46	3.0	46	86	0	193	25	30	8	35	1.86
42455445--42455636	47	4.1	47	94	0	303	25	30	11	32	1.92
42455561--42455635	23	3.2	23	62	23	57	28	32	10	29	1.90
42459077--42459110	17	2.0	17	88	0	50	23	23	2	50	1.63
42461975--42462009	6	5.8	6	93	0	52	0	45	0	54	0.99
42463436--42463474	20	2.0	20	85	5	53	41	7	23	28	1.82
42464303--42464441	40	3.5	41	79	7	142	25	12	27	34	1.92
42464301--42464482	81	2.2	81	80	3	197	25	13	26	34	1.93
42466019--42466071	20	2.7	19	80	8	52	71	7	15	5	1.27
42469178--42469353	46	3.8	46	78	10	187	20	21	29	28	1.98
42469174--42469345	93	1.8	93	91	0	281	20	21	30	27	1.98
42473134--42473164	16	1.9	16	93	0	53	35	22	0	41	1.54
42473131--42473170	20	2.0	20	90	0	62	37	20	0	42	1.52
42473415--42473610	55	3.6	53	79	6	189	20	25	18	35	1.96
42490940--42491186	40	6.2	40	89	1	318	29	28	19	22	1.98
42499388--42499672	40	7.2	40	89	3	371	29	27	19	22	1.98
42499388--42499672	79	3.6	80	85	4	371	29	27	19	22	1.98
42499384--42499672	119	2.4	120	86	4	372	29	27	19	23	1.98
42506173--42506301	46	2.8	46	91	0	195	19	22	29	28	1.98
42518009--42518181	46	3.7	47	77	13	196	21	21	26	30	1.99
42518005--42518176	93	1.8	93	91	2	283	21	21	27	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42521891--42522075	40	4.6	39	81	6	187	24	22	27	26	2.00
42521943--42522108	79	2.1	79	82	6	203	25	20	26	27	1.99
42528889--42529058	46	3.7	46	77	13	195	21	20	28	29	1.98
42528882--42529053	93	1.8	93	92	0	290	20	20	29	29	1.98
42534874--42534976	27	3.8	26	85	3	134	29	23	17	30	1.97
42534962--42535185	27	8.3	26	71	11	130	32	11	18	37	1.86
42534960--42535200	54	4.5	52	76	6	189	34	10	17	37	1.85
42535014--42535200	81	2.3	81	85	3	250	34	11	17	36	1.85
42535414--42535450	17	2.1	18	90	5	58	18	40	24	16	1.90
42547150--42547265	43	2.7	43	83	0	151	40	24	12	22	1.89
42556000--42556027	14	2.0	14	100	0	56	14	0	14	71	1.15
42557886--42557918	15	2.2	15	94	0	57	42	27	3	27	1.70
42562227--42562279	23	2.3	22	80	6	52	28	1	22	47	1.62
42566445--42566504	30	2.0	30	83	6	77	33	23	6	36	1.81
42575578--42575633	28	2.0	28	100	0	112	46	17	7	28	1.75
42576354--42576482	44	3.0	43	78	8	136	33	25	17	24	1.96
42577577--42577601	13	1.9	13	100	0	50	40	24	4	32	1.73
42582883--42583107	49	4.5	49	84	4	308	29	26	18	25	1.98
42582883--42583114	100	2.3	99	86	4	324	28	27	18	25	1.98
42583762--42583821	30	2.0	30	83	6	77	30	25	8	36	1.85
42585389--42585655	46	5.8	46	89	2	358	21	23	13	41	1.89
42603743--42603806	30	2.1	30	83	11	78	35	6	6	51	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42613801--42613948	43	3.5	43	88	3	203	26	27	14	31	1.95
42619259--42619421	85	1.9	84	81	5	193	26	19	25	28	1.99
42623464--42623562	42	2.3	42	86	5	137	31	23	18	27	1.97
42623453--42623617	43	3.8	44	75	13	148	32	24	16	26	1.96
42624879--42624981	53	1.9	53	94	0	179	29	7	24	38	1.83
42630313--42630527	46	4.6	46	82	4	225	31	19	24	24	1.98
42644100--42644169	30	2.3	30	97	0	131	8	41	22	27	1.83
42648482--42648650	48	3.6	48	75	9	166	28	17	27	26	1.97
42654247--42654326	22	3.3	22	66	21	61	46	23	11	18	1.81
42654222--42654326	51	2.1	51	98	0	201	45	25	10	18	1.81
42656161--42656377	40	5.5	40	86	3	255	23	22	27	26	1.99
42659525--42659557	12	2.8	12	100	0	66	18	24	33	24	1.97
42665036--42665144	40	2.7	40	92	0	173	15	12	25	45	1.82
42668489--42668640	27	5.6	27	89	2	214	26	13	28	30	1.94
42668489--42668640	55	2.8	55	88	2	225	26	13	28	30	1.94
42668489--42668640	82	1.9	82	91	0	250	26	13	28	30	1.94
42672064--42672100	19	1.9	19	100	0	74	24	10	21	43	1.84
42678955--42678996	18	2.3	18	84	8	50	76	4	16	2	1.07
42679618--42679655	20	1.9	19	89	5	58	31	0	10	57	1.32
42687818--42687968	70	2.2	65	80	13	189	27	9	7	55	1.59
42694162--42694227	11	5.9	10	75	20	51	33	0	6	60	1.21
42694173--42694228	11	4.9	11	79	14	60	33	0	3	62	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42708744--42708781	20	2.0	19	90	10	60	52	21	23	2	1.59
42711125--42711167	22	2.0	22	90	9	70	20	13	27	37	1.91
42713265--42713581	49	6.7	47	74	11	211	27	19	28	23	1.99
42713265--42713534	93	2.9	94	78	11	279	27	20	29	23	1.99
42725816--42726172	191	1.9	191	91	0	588	43	3	15	37	1.65
42729992--42730069	37	2.1	37	92	0	129	41	25	12	20	1.88
42742023--42742180	51	3.1	51	89	0	235	18	27	32	21	1.96
42744295--42744331	12	2.7	14	88	12	51	54	0	8	37	1.30
42750735--42750782	3	16.3	3	93	4	80	29	0	0	70	0.87
42750767--42750804	11	3.5	11	85	10	51	13	0	0	86	0.56
42750940--42750983	22	2.0	22	91	4	72	36	43	11	9	1.72
42752041--42752081	18	2.2	20	86	8	59	7	12	29	51	1.66
42756562--42756651	44	2.0	44	97	0	171	36	23	13	26	1.92
42758637--42758681	20	2.2	20	92	0	72	31	2	4	62	1.27
42761335--42761366	2	16.0	2	100	0	64	50	0	50	0	1.00
42762144--42762330	79	2.4	77	81	10	211	45	9	16	28	1.78
42763936--42764025	45	2.0	45	97	0	171	32	11	14	42	1.81
42770161--42770194	18	1.9	17	94	5	59	47	14	11	26	1.79
42773316--42773366	18	2.9	17	77	13	50	21	11	0	66	1.23
42774274--42774494	89	2.4	89	83	8	261	41	19	10	29	1.84
42774321--42774551	89	2.6	87	82	7	243	38	20	10	30	1.86
42774664--42774794	10	13.8	9	68	15	50	59	3	3	34	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42774693--42774806	30	3.9	28	71	13	79	61	3	2	32	1.27
42774749--42774813	20	3.2	20	68	12	60	64	3	3	29	1.23
42774733--42774813	10	8.0	10	67	17	51	66	2	3	27	1.21
42774978--42775115	9	15.2	9	69	14	54	31	4	1	62	1.24
42774994--42775070	10	8.0	9	72	15	57	25	6	1	66	1.24
42775008--42775067	31	1.9	31	83	6	77	23	8	1	66	1.28
42775053--42775115	28	2.2	29	81	13	78	36	1	1	60	1.16
42778412--42778497	44	2.0	44	90	0	136	37	23	10	29	1.88
42779937--42780108	43	4.0	43	75	13	156	24	17	25	32	1.97
42779943--42780108	86	1.9	86	83	10	207	24	17	25	32	1.97

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   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333