genome.fa.s25.2.7.7.80.10.50.1000.164.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: At_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  164  of  297  ( 35593 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)
55306229--55306287	30	2.0	30	93	6	102	42	0	37	20	1.52
55307726--55307772	19	2.4	19	89	7	67	48	19	23	8	1.75
55312420--55312484	32	2.0	32	100	0	130	47	15	9	27	1.76
55318604--55318749	53	2.7	53	88	4	195	30	28	14	27	1.95
55324545--55324602	30	1.9	30	86	6	82	18	25	32	22	1.97
55329135--55329196	18	3.6	17	85	6	72	77	1	6	14	1.04
55329150--55329194	6	7.5	6	92	0	72	80	0	4	15	0.87
55329481--55329832	86	4.1	86	99	0	690	29	12	18	39	1.87
55331383--55331524	39	3.6	40	92	2	218	18	23	28	28	1.98
55333949--55334078	65	2.0	65	92	3	217	16	20	26	37	1.93
55335097--55335141	11	3.9	11	80	11	54	35	0	2	62	1.08
55337212--55337258	25	2.0	25	83	8	62	53	4	14	27	1.60
55343887--55343928	21	2.0	21	85	0	57	45	16	9	28	1.79
55350120--55350287	46	3.7	46	88	1	230	40	15	24	19	1.90
55350548--55350594	25	2.0	25	83	8	62	53	4	14	27	1.60
55351745--55351813	4	17.0	4	77	16	63	1	23	2	72	1.06
55351746--55351815	33	2.1	34	89	2	106	1	21	2	74	1.03
55354376--55354423	23	2.1	23	84	0	60	43	6	10	39	1.64
55354792--55354976	93	2.0	93	97	0	352	46	3	16	33	1.65
55355396--55355533	68	2.0	68	97	0	258	31	10	23	34	1.88
55355591--55355668	40	2.0	39	87	7	115	37	10	17	34	1.84
55361126--55362029	39	23.2	39	98	0	1749	38	22	25	13	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55367030--55367082	11	4.7	11	75	13	54	66	3	0	30	1.10
55374377--55374405	15	1.9	15	100	0	58	62	6	10	20	1.50
55374403--55374722	67	4.5	68	69	20	242	55	4	8	31	1.50
55374352--55374720	110	3.4	110	100	0	738	55	4	8	30	1.51
55374487--55374515	15	1.9	15	100	0	58	62	6	10	20	1.50
55374597--55374625	15	1.9	15	100	0	58	62	6	10	20	1.50
55375698--55375835	69	2.0	69	94	5	244	28	18	8	43	1.80
55376117--55376219	33	3.1	33	95	0	179	43	15	6	33	1.73
55376375--55376438	33	1.9	33	96	0	119	42	15	7	34	1.76
55376156--55376579	219	1.9	219	98	0	821	35	9	13	41	1.77
55381613--55381643	2	15.5	2	100	0	62	51	0	48	0	1.00
55386530--55386570	18	2.2	20	86	8	59	65	9	0	24	1.22
55386653--55386715	30	2.1	30	93	0	108	57	14	3	25	1.52
55386744--55386802	22	2.7	22	75	0	55	64	8	8	18	1.46
55387352--55387389	19	2.1	19	85	9	53	42	7	5	44	1.56
55388581--55388652	29	2.6	27	82	12	83	62	2	4	30	1.28
55390999--55391196	43	4.7	43	82	4	204	31	21	17	29	1.96
55391004--55391196	86	2.3	83	83	5	235	31	21	17	29	1.96
55391078--55391201	40	2.9	42	79	8	126	29	21	16	33	1.95
55391490--55391534	21	2.1	21	95	0	81	0	57	20	22	1.40
55399939--55400008	24	2.9	24	72	18	72	45	10	4	40	1.57
55400728--55400773	24	1.9	24	95	0	83	56	8	17	17	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55401422--55401527	41	2.6	41	82	8	112	25	16	17	39	1.91
55401589--55401734	72	2.0	71	94	1	256	29	10	5	53	1.58
55401769--55401808	7	5.7	7	87	0	62	45	50	0	5	1.23
55401755--55401817	21	3.0	21	83	0	63	44	44	1	9	1.46
55401754--55401861	14	7.8	14	69	10	51	45	39	1	12	1.53
55402073--55402131	7	8.4	7	75	0	55	40	40	3	15	1.64
55402239--55402281	22	2.0	22	90	0	68	37	34	2	25	1.69
55402236--55402277	15	2.8	15	82	10	59	38	35	2	23	1.68
55402236--55402279	8	5.8	8	78	10	56	36	36	2	25	1.69
55402306--55402335	14	2.1	14	100	0	60	56	23	0	20	1.42
55402492--55402538	14	3.5	13	82	2	58	48	29	0	21	1.50
55403576--55403602	12	2.2	12	100	0	54	48	29	14	7	1.71
55405935--55405989	21	2.6	21	91	0	92	21	9	40	29	1.84
55406251--55406302	22	2.3	22	78	15	54	50	3	1	44	1.31
55406727--55406926	100	2.0	100	100	0	400	32	19	19	30	1.96
55415334--55415409	38	2.0	38	100	0	152	31	18	2	47	1.62
55420303--55420351	24	2.0	24	100	0	98	40	8	8	42	1.64
55420889--55420943	19	3.1	17	75	14	58	38	1	34	25	1.67
55431524--55431628	46	2.3	45	83	9	124	30	18	27	23	1.97
55454300--55454356	26	2.2	26	80	3	60	28	19	19	33	1.96
55455360--55455444	42	2.0	42	95	0	152	42	0	37	20	1.52
55457219--55457273	26	2.2	25	83	6	67	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55465281--55465377	48	2.0	48	91	0	158	39	8	22	29	1.83
55465968--55466015	24	2.0	24	87	0	69	20	27	16	35	1.94
55468399--55468693	146	2.0	146	99	0	581	34	13	13	38	1.84
55469187--55469394	39	5.3	39	89	0	290	29	28	21	20	1.98
55475112--55475368	39	6.5	39	89	2	381	28	29	22	20	1.98
55486023--55486116	47	2.0	47	91	0	152	17	29	17	36	1.92
55488130--55488232	37	2.8	37	96	0	188	24	32	20	23	1.98
55488373--55489339	48	20.1	48	99	0	1880	31	29	6	33	1.82
55489309--55489595	28	11.1	28	65	18	140	29	27	5	37	1.80
55489261--55489638	76	5.0	76	94	2	661	29	26	6	37	1.81
55489337--55489567	48	4.6	48	68	23	172	29	27	6	37	1.81
55489165--55489474	124	2.5	123	74	15	364	29	27	6	36	1.81
55491547--55491674	28	4.5	28	88	2	175	28	12	25	32	1.92
55491547--55491674	57	2.2	57	88	2	186	28	12	25	32	1.92
55494699--55494737	16	2.4	17	95	4	71	48	33	5	12	1.63
55496253--55496354	29	3.6	29	86	1	143	26	15	29	28	1.96
55496253--55496363	58	1.9	57	87	1	159	27	16	29	27	1.97
55502440--55502476	16	2.3	16	90	0	56	62	8	8	21	1.49
55509166--55509196	14	2.3	13	94	5	53	61	12	6	19	1.53
55512796--55513013	40	5.5	40	74	15	202	24	19	27	27	1.99
55512714--55512996	120	2.3	122	92	5	470	24	18	27	29	1.98
55527825--55528690	40	21.6	40	98	0	1637	24	20	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55536362--55536513	27	5.6	27	88	2	214	26	13	29	30	1.94
55536362--55536513	55	2.8	55	89	2	234	26	13	29	30	1.94
55536362--55536513	82	1.9	82	90	0	241	26	13	29	30	1.94
55538357--55538448	43	2.2	42	92	3	157	22	10	27	39	1.87
55539311--55540216	40	22.6	40	98	0	1717	24	20	27	27	1.99
55546526--55547029	27	18.5	27	83	1	540	26	15	27	30	1.96
55546525--55547104	109	5.4	109	94	2	944	26	15	28	30	1.96
55547032--55547104	27	2.7	27	91	2	110	24	13	30	31	1.94
55546986--55547077	48	1.9	47	93	2	157	23	13	32	30	1.93
55546958--55547105	75	2.0	74	95	1	269	24	13	31	31	1.93
55547034--55547115	27	3.0	27	83	5	85	28	13	26	31	1.94
55554629--55554715	43	2.0	43	82	8	106	28	31	19	20	1.97
55567320--55567867	274	2.0	274	98	0	1051	27	24	24	23	2.00
55570701--55570909	28	7.5	28	92	1	305	32	27	12	27	1.93
55570701--55570934	56	4.2	55	86	3	290	32	27	12	27	1.93
55570701--55570934	84	2.8	83	86	3	308	32	27	12	27	1.93
55571080--55571252	87	2.0	87	98	0	337	37	13	13	35	1.84
55574617--55574666	22	2.3	22	96	3	93	30	20	12	38	1.88
55576467--55576496	11	2.7	11	100	0	60	30	10	20	40	1.85
55587379--55587436	30	1.9	30	82	0	71	22	22	29	25	1.99
55589903--55589981	31	2.5	31	93	0	140	27	25	17	29	1.98
55590008--55590096	42	2.1	42	91	0	142	35	20	13	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55590236--55590287	25	2.1	25	92	3	88	26	19	21	32	1.97
55590243--55590312	25	2.8	25	88	0	95	25	24	22	27	2.00
55591102--55591165	27	2.4	27	84	5	85	23	25	15	35	1.94
55591227--55591352	56	2.3	54	83	5	146	30	7	17	43	1.78
55591197--55591431	27	8.7	27	77	4	170	32	9	19	39	1.83
55591303--55591473	80	2.1	79	77	9	177	31	11	19	36	1.88
55591463--55591652	84	2.3	84	89	2	287	40	6	22	30	1.80
55591463--55591663	27	7.3	27	81	4	215	39	7	23	29	1.82
55594538--55594613	22	3.6	22	77	10	95	30	6	2	60	1.36
55594542--55594606	19	3.3	19	64	19	51	29	6	3	61	1.35

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