genome.fa.s8.2.7.7.80.10.50.1000.131.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: At_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  131  of  279  ( 33431 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)
41936976--41937005	15	2.0	15	100	0	60	33	40	6	20	1.78
41937873--41937905	8	4.2	8	92	3	50	0	33	0	66	0.92
41978831--41978871	21	2.0	21	90	0	64	19	29	21	29	1.98
41994492--41994521	15	2.0	15	100	0	60	40	20	0	40	1.52
41999796--41999860	32	2.0	32	96	0	121	43	12	10	33	1.77
42002425--42002815	201	2.0	198	88	1	575	37	19	18	25	1.94
42002139--42003103	486	2.0	487	86	3	1354	37	19	18	25	1.94
42008259--42008583	44	7.6	42	74	11	234	27	21	20	30	1.98
42008259--42008578	87	3.7	84	73	10	256	27	21	20	30	1.98
42008259--42008627	44	8.5	44	72	14	213	27	21	20	30	1.98
42008293--42008630	170	2.0	173	85	3	468	26	22	21	30	1.98
42012471--42012553	41	2.0	41	90	0	130	19	28	13	38	1.89
42026596--42026629	16	2.2	16	89	5	52	41	2	8	47	1.50
42027717--42027763	5	9.0	5	83	6	58	42	0	2	55	1.12
42028463--42028501	18	2.1	19	90	4	62	41	0	10	48	1.37
42028741--42028875	39	3.4	39	74	6	112	23	20	28	28	1.99
42028998--42029038	19	2.2	19	87	12	59	46	0	24	29	1.53
42036066--42036688	111	5.8	102	90	2	537	18	23	21	36	1.95
42036249--42036796	111	4.9	111	87	1	679	19	23	21	35	1.95
42036147--42036688	222	2.5	213	87	3	726	18	23	21	36	1.95
42036147--42036782	333	1.9	324	80	4	738	19	23	21	35	1.96
42036608--42036880	111	2.5	110	83	3	323	23	24	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42040110--42040152	22	2.0	22	85	0	59	13	13	13	58	1.64
42041743--42041802	30	2.0	30	96	0	111	28	3	11	56	1.51
42045282--42045488	30	6.9	30	97	0	378	27	24	7	41	1.81
42048786--42048879	30	3.1	30	90	1	143	25	24	6	43	1.78
42048796--42048873	15	5.2	15	67	11	61	25	21	7	44	1.79
42054199--42054228	11	2.7	11	94	0	51	26	0	0	73	0.84
42055800--42055833	4	8.2	4	90	3	50	73	2	0	23	0.97
42057575--42057604	15	2.0	15	93	0	51	66	3	0	30	1.07
42057675--42057699	6	4.2	6	100	0	50	84	0	0	16	0.63
42057969--42058016	14	3.5	13	86	11	51	4	18	0	77	0.93
42057968--42058013	21	2.2	21	85	11	60	4	19	0	76	0.96
42058020--42058059	20	2.0	20	95	0	71	10	22	5	62	1.46
42058724--42058776	27	2.0	28	85	7	74	26	0	5	67	1.12
42059324--42059353	15	2.0	15	93	0	51	66	3	0	30	1.07
42059576--42059633	29	2.0	28	83	9	73	60	3	0	36	1.14
42069593--42069645	16	3.3	15	74	10	52	66	0	16	16	1.26
42074990--42075023	11	3.0	11	91	4	50	73	0	26	0	0.83
42075276--42075304	8	3.6	8	100	0	58	51	0	10	37	1.36
42076750--42076793	20	2.2	20	84	8	54	25	4	25	45	1.72
42077752--42077782	15	2.1	15	93	0	53	19	16	6	58	1.59
42079199--42079226	13	2.2	13	100	0	56	0	14	7	78	0.95
42082968--42082995	5	5.6	5	100	0	56	17	0	0	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42102686--42103097	207	2.0	207	99	0	806	37	14	14	33	1.87
42103806--42103903	51	1.9	51	97	0	187	23	33	6	36	1.80
42106769--42106826	29	2.0	29	96	0	107	44	18	10	25	1.82
42109178--42109284	54	2.0	54	96	0	196	30	12	14	42	1.81
42111903--42112000	45	2.2	45	96	1	178	53	10	21	15	1.71
42122414--42123081	287	2.3	289	88	2	986	42	19	11	26	1.85
42125076--42125166	33	2.8	33	94	0	164	29	42	9	17	1.82
42128210--42128237	13	2.2	13	100	0	56	28	7	25	39	1.82
42137094--42137151	5	10.8	5	80	12	62	43	0	1	55	1.10
42137095--42137152	8	6.7	9	74	21	61	43	0	1	55	1.10
42137097--42137152	12	4.5	12	81	16	69	42	0	1	55	1.10
42137976--42138014	18	2.1	19	90	4	62	41	0	10	48	1.37
42138254--42138388	39	3.4	39	74	6	112	23	20	28	28	1.99
42138511--42138551	19	2.2	19	87	12	59	46	0	24	29	1.53
42141966--42142043	36	2.2	36	84	9	97	62	8	7	20	1.49
42146251--42146351	50	2.0	49	92	1	166	9	26	7	55	1.60
42150360--42150385	10	2.6	10	100	0	52	50	7	0	42	1.31
42160864--42161151	49	5.8	49	84	2	315	28	26	19	26	1.98
42160889--42161159	150	1.8	148	90	1	434	28	26	18	25	1.98
42162212--42162263	16	3.2	17	81	8	72	57	0	3	38	1.17
42162216--42162298	32	2.6	31	86	9	105	57	0	1	40	1.06
42162218--42162270	16	3.3	15	77	17	54	58	0	1	39	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42173669--42173719	4	12.8	4	95	0	75	19	0	29	50	1.48
42177580--42177621	21	2.0	21	95	4	77	30	9	4	54	1.53
42180636--42180706	31	2.3	31	95	0	124	50	12	16	19	1.77
42181165--42181207	21	2.0	21	86	0	59	67	9	20	2	1.30
42189823--42189870	24	2.0	24	84	8	62	58	4	10	27	1.49
42195639--42195869	118	2.0	118	93	3	403	23	23	12	39	1.89
42196989--42197048	22	2.7	21	72	10	57	56	0	8	35	1.29
42205477--42205569	18	5.2	18	85	0	132	27	20	17	34	1.95
42207500--42208067	284	2.0	284	95	0	1028	33	14	23	29	1.94
42218614--42218647	17	2.0	17	100	0	68	35	23	5	35	1.79
42223575--42223622	13	3.7	13	80	0	60	39	22	2	35	1.66
42235779--42235843	27	2.4	28	89	2	96	52	13	1	32	1.50
42239866--42239923	31	1.9	29	83	13	73	37	10	10	41	1.73
42248160--42248252	18	5.2	18	90	0	141	31	15	24	29	1.95
42248158--42248252	36	2.6	36	93	0	163	30	15	24	29	1.96
42254799--42254832	6	5.7	6	100	0	68	50	14	0	35	1.44
42282790--42282818	13	2.2	13	100	0	58	48	6	13	31	1.69
42285275--42285341	33	2.0	34	91	2	109	20	32	8	37	1.84
42286633--42286657	12	2.1	12	100	0	50	68	0	16	16	1.22
42298371--42298408	16	2.4	16	86	4	51	28	5	7	57	1.49
42302390--42302430	20	2.0	21	85	4	57	41	2	4	51	1.36
42304468--42304544	28	2.6	29	84	13	88	31	9	9	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42323264--42323332	25	2.7	25	73	10	68	62	1	5	30	1.27
42323308--42323346	17	2.3	17	86	8	53	69	2	0	28	1.02
42328642--42328667	6	4.3	6	100	0	52	30	30	19	19	1.96
42338920--42338960	4	10.2	4	100	0	82	51	24	0	24	1.49
42341403--42341503	51	2.0	52	90	2	159	37	22	14	24	1.92
42345193--42345236	8	5.5	8	97	0	70	43	0	0	56	0.99
42345782--42345820	8	4.8	8	90	3	60	38	2	0	58	1.12
42345852--42345888	14	2.5	15	83	16	51	64	0	35	0	0.94
42348894--42349003	58	1.9	58	88	3	168	22	19	25	32	1.97
42350428--42350467	19	2.2	18	86	13	55	62	0	30	7	1.23
42351910--42351969	21	2.9	20	75	5	57	36	18	26	18	1.94
42352282--42352328	20	2.3	20	100	0	94	53	10	0	36	1.36
42355078--42355106	6	4.8	6	100	0	58	0	17	13	68	1.20
42357994--42358046	16	3.2	16	94	5	97	24	0	37	37	1.56
42358262--42358303	15	2.7	16	82	14	52	47	2	0	50	1.14
42358372--42358556	59	3.1	59	70	11	187	52	3	1	42	1.26
42358265--42358605	120	2.8	120	93	0	567	48	5	1	43	1.35
42358712--42358744	14	2.3	15	89	5	50	75	6	0	18	1.00
42359091--42359240	59	2.6	58	85	3	212	37	22	18	21	1.94
42369348--42369547	38	5.2	38	92	1	310	21	23	27	28	1.99
42369540--42369651	43	2.6	43	100	0	224	9	26	33	29	1.89
42378076--42378117	13	3.4	12	81	12	50	21	0	2	76	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42378653--42378677	12	2.1	12	100	0	50	24	36	24	16	1.94
42378837--42378897	9	6.8	9	96	0	95	39	27	9	22	1.86
42379115--42379140	12	2.2	12	100	0	52	46	15	7	30	1.74
42379909--42379942	6	5.7	6	92	0	59	64	2	0	32	1.08
42387822--42387852	15	2.1	15	93	0	53	51	9	25	12	1.70
42394245--42394334	43	2.1	43	95	0	162	40	8	10	41	1.70
42395469--42395507	3	13.0	3	100	0	78	33	0	0	66	0.92
42397952--42398146	95	2.1	95	100	0	390	40	16	9	33	1.80
42402993--42403094	53	1.9	52	84	2	132	32	24	15	27	1.96
42404140--42404165	12	2.2	12	100	0	52	50	7	15	26	1.71

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