genome.fa.s7.2.7.7.80.10.50.1000.186.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  186  of  290  ( 34714 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)
63779241--63779287	6	7.8	6	90	0	76	14	2	2	80	0.89
63782155--63782187	13	2.6	13	90	4	50	39	0	12	48	1.40
63797975--63798044	30	2.3	30	92	0	113	20	30	34	15	1.93
63798636--63798714	12	6.2	13	75	17	69	22	7	3	65	1.34
63800270--63800355	6	14.3	6	92	0	109	16	5	2	75	1.10
63800554--63800595	22	2.0	21	86	13	61	23	0	14	61	1.32
63802494--63802553	30	2.0	30	100	0	120	36	16	10	36	1.82
63807930--63807982	25	2.1	25	82	3	61	45	1	0	52	1.11
63808521--63808867	174	2.0	173	99	0	685	44	10	6	38	1.65
63818168--63818209	22	1.9	22	85	0	57	64	9	14	11	1.50
63819553--63819646	18	5.5	17	71	15	77	13	19	2	64	1.37
63827106--63827140	18	1.9	18	88	0	52	8	31	11	48	1.69
63837938--63838118	98	1.8	98	83	2	238	24	24	17	33	1.96
63838058--63838109	27	1.9	27	84	0	68	23	25	21	30	1.99
63837937--63838163	98	2.4	97	79	8	232	24	22	17	35	1.95
63846286--63846468	40	4.6	40	87	4	239	26	27	21	24	2.00
63846286--63846468	79	2.3	79	85	7	230	26	27	21	24	2.00
63851937--63852278	47	7.2	47	88	2	495	31	8	30	29	1.87
63851937--63852278	96	3.6	96	91	0	517	31	8	30	29	1.87
63851940--63852278	143	2.4	143	89	3	506	32	8	30	28	1.87
63852396--63852474	37	2.1	37	90	0	122	24	18	31	25	1.98
63857998--63858175	40	4.5	40	89	0	259	24	26	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63862028--63862113	43	2.0	42	84	6	111	38	18	23	18	1.92
63862773--63862867	47	2.0	47	81	4	111	28	12	17	41	1.86
63870305--63870405	50	2.0	50	98	0	193	35	17	3	42	1.68
63876554--63876610	21	2.7	21	91	5	89	17	35	31	15	1.92
63879301--63879340	21	2.0	21	85	14	57	17	25	45	12	1.83
63882130--63882310	98	1.9	97	82	3	229	24	27	20	27	1.99
63890242--63890283	18	2.3	18	100	0	84	33	4	19	42	1.72
63898641--63898825	79	2.3	81	84	7	236	24	22	27	25	2.00
63898642--63898825	40	4.6	40	83	9	216	24	22	27	25	2.00
63898642--63898858	79	2.7	79	81	7	201	25	22	27	24	2.00
63901133--63901310	40	4.5	40	87	3	236	24	23	27	24	2.00
63906050--63906484	55	8.0	54	80	9	481	33	17	25	23	1.96
63906057--63906465	110	3.7	110	96	1	716	32	18	25	23	1.97
63911077--63911130	26	2.0	27	82	10	67	46	11	11	31	1.74
63913359--63913423	31	2.1	31	94	0	112	23	1	24	50	1.58
63914003--63914257	55	4.8	54	78	7	247	34	17	25	22	1.96
63914013--63914212	108	1.8	110	87	4	298	32	18	25	24	1.97
63918738--63919033	18	16.1	18	72	13	156	38	15	11	34	1.83
63918765--63918880	62	1.9	62	83	1	153	40	17	9	32	1.82
63918836--63918972	72	1.9	72	85	5	188	37	15	12	34	1.85
63920855--63920894	16	2.4	16	88	12	55	2	12	5	80	0.98
63923372--63923556	27	6.7	26	69	16	106	18	24	21	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63923421--63923589	84	2.0	84	100	0	338	17	23	23	35	1.95
63930790--63930821	16	2.1	15	94	5	55	50	28	18	3	1.62
63931237--63931344	54	2.0	54	83	7	139	16	25	21	37	1.94
63931237--63931343	27	3.9	27	83	11	121	16	25	21	36	1.94
63936154--63936436	18	15.3	18	72	12	180	38	16	10	34	1.84
63936234--63936436	54	3.8	54	75	6	214	38	16	10	34	1.82
63936235--63936436	72	2.8	71	80	5	219	39	16	10	34	1.83
63936779--63936812	16	2.1	16	89	10	52	35	8	0	55	1.31
63944602--63944652	25	2.0	25	100	0	102	31	11	33	23	1.91
63947499--63947553	28	2.0	28	82	13	69	23	14	3	58	1.52
63959747--63959943	48	4.1	48	74	6	184	24	23	22	29	1.99
63959758--63959939	96	1.9	96	86	2	258	24	23	23	29	1.99
63962966--63963049	32	2.6	33	80	17	97	54	2	2	40	1.26
63967402--63967450	24	2.0	24	100	0	98	20	16	24	38	1.92
63968861--63968921	28	2.2	28	88	5	88	52	4	3	39	1.39
63968848--63968920	28	2.9	24	73	23	78	49	4	2	43	1.36
63972820--63972844	11	2.3	11	100	0	50	28	0	0	72	0.86
63974046--63974078	17	1.9	17	93	0	57	39	0	12	48	1.40
63983904--63984024	42	2.8	43	81	7	140	26	26	21	25	1.99
63983904--63984062	85	1.9	85	82	5	205	25	27	22	25	2.00
63991177--63991277	42	2.4	43	78	9	109	28	20	18	31	1.97
63994872--63994955	35	2.4	35	85	0	105	27	22	16	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63996408--63996474	24	2.8	24	90	2	98	16	29	31	22	1.96
63998066--63998202	39	3.5	39	82	2	157	28	24	18	27	1.98
64002499--64002584	43	2.0	43	97	0	163	20	36	4	38	1.74
64005457--64005572	43	2.7	42	80	11	137	33	23	17	25	1.96
64005474--64005572	42	2.3	43	84	10	132	32	21	19	27	1.97
64006661--64006687	13	2.1	13	100	0	54	48	22	0	29	1.51
64008631--64008706	40	1.9	40	94	0	134	28	9	19	42	1.82
64008922--64009004	41	2.0	43	85	4	116	32	15	28	22	1.95
64016421--64016494	37	2.0	37	97	0	139	35	22	18	22	1.96
64022626--64022663	6	6.3	6	87	0	58	18	2	0	78	0.86
64036010--64036089	42	1.9	42	92	0	133	32	31	15	21	1.94
64038507--64038733	40	5.7	40	93	0	391	29	20	28	22	1.98
64042258--64042322	30	2.2	30	100	0	130	53	3	20	23	1.59
64045378--64045402	12	2.1	12	100	0	50	92	8	0	0	0.40
64045978--64046049	16	4.7	16	70	19	55	13	1	37	47	1.52
64045986--64046063	22	3.5	22	77	3	84	17	1	34	46	1.57
64045976--64046098	45	2.7	45	82	3	149	17	0	34	47	1.53
64046103--64046239	41	3.4	40	77	6	132	18	18	23	38	1.93
64046183--64046270	40	2.2	40	91	2	140	17	17	22	43	1.88
64050203--64050332	40	3.3	39	85	3	170	23	21	28	26	1.99
64050203--64050367	79	2.1	79	80	2	179	25	21	28	24	1.99
64052994--64053123	40	3.3	39	85	3	170	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64052994--64053158	79	2.1	79	80	2	179	25	21	28	24	1.99
64056944--64056994	7	7.1	7	90	2	75	15	45	0	39	1.47
64057460--64057579	56	2.1	56	96	0	222	45	8	24	22	1.80
64058707--64058852	40	3.7	40	84	7	181	23	22	27	26	2.00
64058707--64058885	80	2.2	80	81	6	195	25	21	26	25	2.00
64062237--64062275	19	2.1	19	85	9	53	48	2	0	48	1.15
64062462--64062486	5	5.0	5	100	0	50	60	0	0	40	0.97
64062844--64062916	16	4.6	16	80	0	83	34	4	30	31	1.77
64062898--64062991	44	2.1	44	86	4	125	34	5	25	35	1.79
64073497--64073598	10	10.7	10	71	15	65	65	2	0	30	1.14
64073491--64073600	19	5.9	18	71	12	80	65	2	0	30	1.13
64073505--64073581	28	2.7	29	80	13	88	62	2	1	33	1.17
64073484--64073598	9	12.4	9	72	17	76	66	2	1	28	1.14
64073998--64074095	4	24.0	4	91	4	160	25	2	24	47	1.62
64076046--64076211	48	3.5	47	83	6	185	28	21	27	22	1.99
64079746--64079856	23	4.6	23	72	13	66	16	22	22	38	1.92
64081240--64081417	27	6.6	27	82	5	162	28	29	15	26	1.96
64081261--64081416	82	1.9	81	85	3	215	28	29	16	26	1.96
64092736--64092781	23	2.0	22	88	12	67	36	4	10	47	1.58
64101005--64101033	12	2.4	12	100	0	58	6	27	41	24	1.80
64108189--64108349	48	3.4	47	79	5	139	21	32	19	26	1.97
64108772--64108812	21	1.9	22	85	5	57	41	14	0	43	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64110024--64110053	15	1.9	16	93	6	53	20	20	6	53	1.67
64121363--64121430	29	2.3	29	82	5	84	27	29	13	29	1.94
64121252--64122101	174	4.9	174	98	0	1601	31	24	13	29	1.94
64121537--64121604	29	2.3	29	85	5	93	27	30	13	27	1.94
64121711--64121778	29	2.3	29	85	5	93	27	30	13	27	1.94
64121885--64121952	29	2.3	29	82	5	84	27	29	13	29	1.94
64129111--64129154	22	2.0	22	90	0	70	59	2	0	38	1.10
64129111--64129146	12	3.3	11	88	11	56	66	0	0	33	0.92
64129102--64129153	10	5.1	10	82	11	52	61	3	0	34	1.14
64132069--64132287	79	2.7	78	82	8	246	26	27	21	25	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   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