genome.fa.s4.2.7.7.80.10.50.1000.167.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  167  of  235  ( 28198 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)
56363323--56364355	40	25.8	40	97	0	1915	25	29	22	22	1.99
56368209--56368356	76	1.9	76	93	2	253	30	21	12	35	1.91
56372095--56372215	38	3.1	38	84	2	152	33	23	20	21	1.97
56373130--56373572	221	2.0	221	100	0	886	31	19	9	38	1.85
56382492--56382676	81	2.3	81	85	3	239	34	7	18	40	1.78
56382463--56382682	27	8.1	27	76	9	182	32	8	20	38	1.83
56386058--56386199	60	2.4	60	88	2	207	25	16	27	30	1.97
56399069--56399100	10	3.3	10	95	4	57	71	6	0	21	1.07
56403541--56403630	46	2.0	46	88	0	135	34	23	11	31	1.90
56411822--56411885	31	2.1	31	90	0	101	25	23	15	35	1.94
56412078--56412223	49	3.0	47	84	9	186	26	23	21	28	1.99
56412079--56412223	25	6.0	24	85	9	179	26	23	21	28	1.99
56412281--56412337	9	5.9	9	73	15	51	35	21	8	35	1.84
56412269--56412339	20	3.5	20	94	0	124	32	21	11	35	1.89
56412274--56412328	11	5.4	11	70	16	55	30	20	12	36	1.90
56421309--56421571	40	6.6	39	86	4	278	25	27	21	25	1.99
56421309--56421571	120	2.2	119	82	4	307	25	27	21	25	1.99
56421503--56421580	40	1.9	41	82	10	97	26	28	20	24	1.99
56426055--56426292	118	2.0	118	97	0	449	26	28	18	26	1.98
56435882--56436052	93	1.8	93	94	0	306	27	29	21	21	1.98
56435874--56436049	46	3.8	46	81	10	214	28	29	21	21	1.98
56438441--56438529	30	3.0	30	80	8	101	57	15	16	10	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56438441--56438520	15	5.4	15	80	7	92	58	13	17	10	1.62
56438452--56438529	15	5.2	15	78	9	79	56	15	16	11	1.67
56441455--56441625	93	1.8	93	96	0	315	28	28	21	21	1.99
56441447--56441622	46	3.8	46	79	12	216	28	28	21	21	1.98
56449670--56449985	49	6.6	49	94	2	509	32	6	29	30	1.84
56469463--56469683	46	4.7	48	80	10	208	23	29	18	28	1.98
56473215--56473432	46	4.7	48	79	12	199	23	28	18	28	1.98
56475103--56475199	48	2.0	48	97	0	185	27	36	10	25	1.89
56478266--56478427	80	2.0	81	96	3	301	29	26	6	38	1.80
56479104--56479286	48	3.9	49	76	15	208	29	25	20	24	1.99
56479111--56479286	91	1.9	90	88	3	264	29	25	20	25	1.99
56482021--56482108	28	3.1	29	80	4	99	29	31	13	25	1.94
56482177--56482216	17	2.4	17	86	0	62	20	37	20	22	1.94
56488644--56488680	18	2.1	19	85	10	51	27	16	10	45	1.80
56489798--56489885	28	3.1	28	85	8	108	31	30	13	23	1.93
56499526--56499601	23	3.1	23	81	7	80	60	3	2	32	1.29
56510853--56511033	40	4.6	40	88	4	224	25	25	22	25	2.00
56514470--56514592	62	2.0	62	98	0	237	44	4	24	26	1.71
56514665--56514726	31	2.0	31	96	0	115	61	4	3	30	1.33
56521861--56521900	16	2.5	16	100	0	80	70	10	7	12	1.35
56530212--56530272	30	2.0	30	87	0	86	39	4	24	31	1.77
56530696--56530731	17	2.1	17	100	0	72	33	0	27	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56530953--56531205	68	3.9	64	76	13	230	29	16	29	24	1.97
56537904--56537970	20	3.3	20	89	0	107	32	13	20	32	1.92
56538020--56538137	23	5.0	24	86	5	143	28	19	22	29	1.98
56538331--56538394	31	2.1	31	93	0	110	37	15	23	23	1.93
56544155--56544245	44	2.1	44	100	0	182	31	26	13	28	1.93
56545284--56545434	28	5.4	28	90	1	205	25	11	29	33	1.92
56550553--56550585	13	2.6	13	90	4	50	48	12	0	39	1.40
56558463--56558954	48	10.2	48	89	5	713	36	7	26	30	1.83
56565732--56565831	40	2.5	40	85	1	130	30	26	21	23	1.99
56568077--56568296	40	5.6	40	81	7	236	24	22	26	26	2.00
56568523--56568567	22	2.0	22	83	8	56	31	11	13	44	1.78
56584587--56584733	53	2.7	53	81	10	149	23	21	19	35	1.96
56584655--56584795	54	2.6	55	86	3	178	21	23	19	35	1.96
56584880--56584927	24	2.0	24	100	0	96	29	20	20	29	1.98
56585635--56585692	30	1.9	30	85	3	80	25	25	13	34	1.93
56586634--56586719	40	2.2	40	95	0	154	32	27	16	23	1.96
56589352--56589605	39	6.5	39	91	1	384	30	29	21	18	1.97
56589686--56589767	28	2.9	27	80	7	92	30	21	9	37	1.86
56595892--56596114	39	5.7	39	91	1	340	29	29	22	18	1.98
56598119--56598286	40	4.2	40	80	1	149	25	26	24	24	2.00
56598142--56598286	40	3.6	39	83	4	155	23	24	25	26	2.00
56599354--56599573	121	1.8	121	100	0	440	38	29	9	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56601868--56601919	24	2.2	24	86	6	70	50	26	3	19	1.65
56603874--56603951	24	3.3	24	89	3	113	30	20	16	32	1.95
56603878--56603950	23	3.1	23	92	2	110	32	19	17	30	1.95
56604001--56604067	20	3.3	20	89	0	107	32	20	13	32	1.92
56613387--56613442	26	2.2	25	90	6	94	33	21	16	28	1.95
56613393--56613446	26	2.1	26	100	0	108	33	20	18	27	1.96
56628311--56628376	20	3.4	20	66	29	61	24	3	24	48	1.65
56643964--56644098	45	3.0	45	82	11	168	34	18	22	24	1.96
56643964--56644123	22	6.8	24	79	10	124	33	18	22	25	1.97
56645526--56645826	90	3.3	89	74	9	255	28	17	25	27	1.98
56645418--56645740	48	6.8	48	72	9	180	29	17	25	27	1.97
56651723--56651785	29	2.2	29	80	2	74	28	30	14	26	1.95
56652001--56652043	16	2.7	16	81	0	59	13	20	11	53	1.71
56653145--56653187	16	2.6	16	77	3	50	16	11	20	51	1.75
56662045--56662152	29	3.8	28	78	6	87	26	31	15	25	1.96
56662375--56662419	8	5.6	8	81	0	54	8	24	17	48	1.75
56662369--56662419	16	3.2	16	85	0	57	11	23	15	49	1.78
56663527--56663573	16	2.9	16	87	6	69	21	6	21	51	1.70
56676271--56676368	27	3.5	28	86	5	119	33	28	13	24	1.93
56676270--56676368	28	3.5	28	86	5	112	33	29	13	24	1.93
56690244--56690427	79	2.3	81	83	10	229	24	27	22	25	2.00
56690244--56690427	40	4.6	41	84	9	206	24	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56693131--56693280	55	2.8	54	80	4	149	26	15	29	28	1.96
56693103--56693280	27	6.6	27	77	6	146	25	15	28	30	1.96
56693104--56693259	82	1.9	81	81	6	190	25	16	28	30	1.96
56699233--56699410	27	6.6	27	77	6	137	30	28	15	25	1.96
56699233--56699410	54	3.3	54	78	7	164	30	28	15	25	1.96
56704037--56704084	25	1.9	25	82	0	60	35	25	14	25	1.94
56704132--56704187	11	5.5	11	71	16	57	35	12	19	32	1.89
56704121--56704187	20	3.3	20	93	0	116	34	11	20	32	1.90
56704238--56704357	25	4.9	25	94	2	208	27	20	23	29	1.98
56704238--56704381	75	1.9	75	86	8	206	28	20	23	27	1.99
56704576--56704638	31	2.0	31	87	0	90	36	15	23	23	1.94
56711732--56711769	17	2.2	18	85	4	51	39	0	7	52	1.31
56712667--56712730	22	2.9	22	81	4	58	26	20	18	34	1.96
56720822--56720848	14	1.9	14	100	0	54	29	18	14	37	1.91
56744116--56744179	20	3.2	20	93	4	112	51	10	9	28	1.68
56745470--56745621	27	5.6	28	71	7	100	28	11	20	38	1.88
56745541--56745631	27	3.4	26	73	11	76	29	13	24	32	1.93
56750730--56750809	28	2.8	29	76	14	78	31	33	13	21	1.92
56751036--56751080	16	2.8	16	86	0	63	17	13	20	48	1.80
56753178--56753440	47	5.6	47	76	15	294	30	27	19	22	1.98
56753133--56753489	93	3.8	93	98	0	669	29	28	20	21	1.98
56753125--56753486	46	7.8	46	76	15	361	29	28	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56759011--56759097	28	3.1	28	78	6	95	28	32	13	25	1.94
56759163--56759197	17	2.0	18	88	5	54	20	34	22	22	1.97
56760132--56760157	4	6.5	4	100	0	52	76	0	0	23	0.78
56763990--56764050	30	2.0	30	87	0	86	29	22	6	40	1.79
56766198--56766539	47	7.3	47	90	0	531	28	28	8	33	1.87
56771209--56771359	43	3.5	44	78	9	159	25	19	24	31	1.98
56771250--56771349	42	2.4	42	81	1	128	27	16	23	34	1.95
56775096--56775248	68	2.2	68	100	0	306	28	16	28	26	1.97
56775096--56775287	68	2.8	68	91	4	264	29	16	28	25	1.97
56775826--56775943	59	2.0	59	94	0	209	46	11	9	32	1.72

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