genome.fa.s7.2.7.7.80.10.50.1000.120.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  120  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)
40848760--40849091	30	11.1	30	100	0	664	50	6	9	33	1.62
40849120--40849170	11	5.0	10	74	11	50	62	1	1	33	1.17
40851990--40852026	12	3.0	13	84	11	51	29	40	18	10	1.85
40853436--40853469	18	1.9	18	88	5	52	38	0	2	58	1.13
40853875--40853969	38	2.5	39	79	8	106	54	5	1	38	1.30
40854167--40854192	13	2.0	13	100	0	52	76	23	0	0	0.78
40854996--40855020	7	3.6	7	100	0	50	44	0	16	40	1.47
40855961--40855993	14	2.3	15	89	5	50	27	9	3	60	1.42
40861020--40861082	26	2.4	26	84	12	76	9	14	0	76	1.02
40862755--40862792	19	2.0	20	84	5	51	47	0	5	47	1.24
40865330--40865362	13	2.5	13	100	0	66	48	0	0	51	1.00
40871194--40871294	51	2.0	50	94	1	175	24	3	27	43	1.72
40875248--40875275	5	5.6	5	100	0	56	82	0	0	17	0.68
40883624--40883912	43	6.7	43	85	2	339	27	26	16	28	1.97
40883620--40883912	86	3.4	85	90	3	419	27	26	17	28	1.97
40883624--40883912	129	2.2	129	85	1	382	27	26	16	28	1.97
40889640--40889681	16	2.5	17	92	7	68	45	0	0	54	0.99
40889788--40889970	7	26.0	7	68	9	59	40	36	0	22	1.58
40889873--40889969	21	4.6	21	79	2	95	44	31	1	22	1.60
40889880--40889969	43	2.1	42	83	6	110	43	32	1	23	1.61
40890379--40890490	41	2.8	41	91	1	181	29	28	21	20	1.98
40890556--40890678	40	3.1	39	79	12	119	25	22	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40892679--40892732	12	3.9	15	75	25	64	70	0	3	25	1.04
40892683--40892734	25	2.0	26	89	10	81	73	0	3	23	1.00
40892687--40892730	21	2.0	21	87	12	63	72	0	4	22	1.02
40894371--40895205	96	8.9	96	88	4	1058	29	17	16	35	1.93
40894980--40895205	87	2.6	86	86	4	308	29	19	15	34	1.94
40899065--40899109	19	2.3	21	82	17	62	40	6	22	31	1.80
40899896--40899939	21	2.1	21	100	0	88	20	29	0	50	1.49
40901285--40902069	391	2.0	391	92	0	1302	35	19	17	27	1.94
40903388--40903458	4	17.8	4	75	13	58	70	1	4	23	1.13
40903388--40903458	20	3.6	19	81	11	81	70	1	4	23	1.13
40903388--40903458	24	3.1	23	70	15	67	70	1	4	23	1.13
40912191--40912318	39	3.3	39	87	0	184	31	19	26	22	1.98
40912190--40912344	78	2.0	76	82	5	186	30	20	27	21	1.98
40921077--40921117	19	2.0	22	86	13	61	24	9	2	63	1.37
40922627--40922684	25	2.3	25	93	0	98	13	29	5	51	1.63
40927246--40927337	32	2.9	32	93	3	159	33	8	9	47	1.67
40929345--40929399	21	2.6	21	85	0	74	30	34	9	25	1.87
40929976--40930010	17	2.0	18	88	5	54	20	0	8	71	1.11
40929978--40930058	6	13.7	6	76	7	76	16	3	4	75	1.12
40931877--40931934	30	1.9	30	82	6	73	20	37	29	12	1.89
40935128--40935167	20	1.9	20	85	10	53	27	12	12	47	1.77
40944843--40944893	17	2.9	19	77	13	56	35	3	0	60	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40944877--40945057	87	2.1	87	79	9	199	43	1	3	51	1.27
40945049--40945084	18	2.1	18	89	5	56	55	0	0	44	0.99
40945041--40945083	21	2.0	22	86	4	61	58	0	0	41	0.98
40945676--40945707	16	1.9	17	93	6	57	37	0	0	62	0.95
40952817--40952856	21	1.9	21	89	0	62	12	7	7	72	1.27
40952847--40952933	22	3.9	22	74	4	75	24	6	8	60	1.49
40953026--40953077	18	2.9	18	80	8	54	36	0	3	59	1.16
40954169--40954211	20	2.2	20	80	8	54	39	2	0	58	1.11
40954548--40954795	138	1.8	137	83	6	331	40	9	10	39	1.72
40954746--40954794	18	2.5	20	75	21	50	44	0	10	44	1.37
40955340--40955383	23	1.9	23	100	0	88	36	20	18	25	1.95
40959677--40959718	11	4.0	11	78	9	52	26	7	9	57	1.56
40962117--40962168	26	2.0	26	100	0	104	26	26	7	38	1.83
40967311--40967354	21	2.0	22	82	4	54	45	18	15	20	1.85
40967917--40967960	21	2.1	21	95	4	81	15	34	4	45	1.67
40975900--40976018	27	4.4	27	81	8	143	24	21	18	35	1.96
40975904--40976018	54	2.1	53	87	4	167	24	22	17	35	1.95
40975972--40976071	27	3.7	27	87	2	121	27	12	22	39	1.89
40975900--40976071	54	3.2	54	81	6	161	26	17	19	36	1.94
40975999--40976192	27	7.2	27	81	5	99	34	8	22	34	1.85
40976090--40976257	27	6.2	27	89	0	246	39	8	22	28	1.84
40976090--40976257	54	3.1	54	90	0	273	39	8	22	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40987105--40987156	18	2.9	18	77	5	61	32	5	34	26	1.80
40997188--40997221	18	1.9	18	88	5	52	44	0	23	32	1.54
40997704--40997775	27	2.7	27	76	8	76	20	6	36	36	1.80
41009382--41009426	19	2.4	19	81	3	56	55	0	2	42	1.12
41012343--41012383	11	3.7	11	80	0	55	19	14	9	56	1.66
41012420--41012482	30	2.1	30	88	5	92	28	4	12	53	1.58
41026916--41026991	27	2.8	27	77	0	80	22	30	19	27	1.98
41026916--41027060	55	2.7	54	78	2	128	23	27	20	28	1.99
41027752--41027792	20	2.0	20	90	0	64	46	0	14	39	1.45
41031935--41031973	19	2.1	19	100	0	78	51	0	5	43	1.24
41032208--41032235	5	5.6	5	100	0	56	42	0	0	57	0.99
41040239--41040487	27	9.2	27	79	1	266	38	21	15	24	1.92
41040239--41040487	81	3.1	80	81	3	302	38	21	15	24	1.92
41040471--41040504	17	2.0	17	94	0	59	41	23	26	8	1.83
41040446--41040529	44	1.9	44	92	0	141	36	23	21	17	1.94
41040488--41040542	27	2.0	27	89	0	83	34	18	20	27	1.95
41043174--41043211	18	2.1	19	85	9	53	57	2	13	26	1.49
41051576--41051618	15	2.9	15	77	16	54	27	18	25	27	1.98
41051644--41051731	15	6.0	14	75	9	68	25	17	30	27	1.97
41051644--41051731	44	2.0	44	86	0	122	25	17	30	27	1.97
41053332--41053357	13	2.0	13	100	0	52	30	15	23	30	1.95
41054131--41054219	46	1.9	47	84	6	119	33	23	14	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41054172--41054251	40	2.0	40	85	4	108	33	22	17	26	1.96
41057630--41057753	59	2.1	59	96	0	230	40	16	8	34	1.79
41061738--41061777	19	2.1	19	100	0	80	37	20	5	37	1.74
41062182--41062599	217	1.9	217	97	0	782	28	13	15	42	1.85
41064897--41064985	33	2.7	33	92	0	142	15	8	52	22	1.70
41065303--41065358	6	9.8	6	84	11	73	28	1	50	19	1.58
41065303--41065354	27	1.9	27	92	0	86	28	1	50	19	1.58
41065309--41065348	21	1.9	21	94	0	71	30	0	50	20	1.49
41065490--41065645	63	2.5	63	88	4	226	28	23	23	25	2.00
41067666--41067715	20	2.5	20	93	3	84	56	0	12	32	1.36
41073632--41073914	142	2.0	142	97	0	539	32	13	21	32	1.93
41073913--41074061	74	2.0	74	98	0	289	27	18	26	27	1.98
41074026--41074197	47	3.7	47	89	9	248	21	20	29	27	1.98
41074030--41074248	47	4.7	45	83	7	185	21	21	28	27	1.99
41076651--41076686	17	2.1	17	100	0	72	19	27	22	30	1.98
41082675--41082740	30	2.0	34	83	13	86	37	10	18	33	1.85
41087367--41087443	39	2.0	39	89	0	118	42	12	18	25	1.86
41093205--41093239	15	2.3	15	95	0	61	40	20	8	31	1.82
41095165--41095207	21	2.0	21	95	0	77	27	0	37	34	1.57
41095188--41095220	16	2.1	16	94	0	57	33	0	36	30	1.58
41095199--41095293	45	2.1	44	88	1	136	34	5	27	32	1.79
41095455--41095489	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41095413--41095485	27	2.7	27	76	8	76	52	2	0	45	1.15
41095374--41095654	144	1.9	154	89	10	447	47	3	2	46	1.33
41095575--41095629	25	2.2	25	84	9	69	52	1	0	45	1.11
41097826--41097870	23	2.0	23	90	0	72	48	11	0	40	1.39
41099955--41099989	18	1.9	18	88	0	52	42	2	2	51	1.31
41105687--41105743	18	3.2	18	65	9	53	33	17	10	38	1.84
41107625--41107722	23	4.3	23	93	2	171	30	26	22	20	1.98
41107632--41107720	45	2.0	45	97	0	169	30	26	23	19	1.98
41116212--41116359	73	2.0	73	98	0	287	31	26	9	33	1.88
41117765--41117802	17	2.2	17	100	0	76	60	13	5	21	1.52

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