genome.fa.s7.2.7.7.80.10.50.1000.142.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  142  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)
48229257--48229601	78	4.4	78	88	2	498	25	24	17	33	1.96
48228697--48230070	442	3.1	443	89	1	2038	25	23	17	32	1.97
48229715--48230200	78	6.2	78	96	0	859	24	24	17	33	1.97
48230789--48230827	20	1.9	21	89	5	62	38	38	10	12	1.78
48231973--48232030	23	2.5	22	81	13	64	50	5	0	44	1.24
48232063--48232133	25	2.9	25	89	2	99	32	2	0	64	1.08
48232058--48232133	11	6.5	11	73	19	64	32	2	0	64	1.07
48242790--48242844	26	2.1	27	86	6	78	21	14	25	38	1.92
48244332--48244439	26	4.2	26	93	0	189	36	24	7	32	1.83
48250991--48251043	26	2.0	27	85	7	74	24	15	22	37	1.92
48253569--48253627	27	2.2	27	93	0	100	42	23	11	22	1.86
48254712--48254799	21	4.2	21	97	0	158	19	23	38	18	1.93
48255816--48255994	46	3.8	45	77	10	150	21	28	20	29	1.98
48259403--48259525	61	2.0	61	100	0	246	37	25	6	30	1.81
48259503--48259547	20	2.3	19	81	11	54	35	15	2	46	1.58
48261544--48261818	42	6.5	43	74	7	215	31	27	15	25	1.96
48261838--48261880	22	1.9	23	85	4	61	37	4	4	53	1.43
48263009--48263112	28	3.8	27	81	7	120	31	19	25	23	1.98
48263009--48263112	56	1.9	54	84	4	136	31	19	25	23	1.98
48263044--48263124	28	2.9	29	81	7	96	33	18	24	23	1.97
48263522--48263551	8	3.8	8	90	0	51	3	23	23	50	1.64
48265920--48266011	39	2.3	39	88	5	132	25	28	22	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48265901--48266064	40	4.1	40	80	10	176	24	27	23	25	2.00
48267881--48267906	12	2.2	12	100	0	52	76	0	0	23	0.78
48275216--48275259	20	2.2	20	83	0	52	36	20	2	40	1.65
48277766--48278108	40	8.6	40	90	2	451	27	28	20	24	1.99
48280604--48280700	39	2.5	40	87	1	133	26	26	21	24	1.99
48280604--48280765	40	4.1	40	82	5	159	26	26	22	24	2.00
48300477--48300515	14	3.0	13	82	10	53	61	10	10	17	1.55
48308104--48308215	44	2.5	44	92	0	188	25	13	28	32	1.94
48310933--48311874	470	2.0	470	100	0	1884	29	21	15	32	1.94
48319890--48319966	29	2.7	28	74	7	75	24	15	29	29	1.96
48322291--48322885	304	2.0	304	85	4	815	34	16	12	37	1.86
48324496--48324535	16	2.6	16	84	4	55	57	2	10	30	1.45
48330672--48330859	48	3.9	47	78	10	193	25	18	30	25	1.98
48334122--48334299	27	6.6	27	84	3	205	29	28	15	26	1.96
48334143--48334298	82	1.9	81	88	3	233	29	28	15	26	1.96
48341970--48342147	27	6.6	27	82	3	178	30	28	14	26	1.95
48341991--48342146	82	1.9	81	86	3	224	30	28	14	26	1.95
48349829--48349883	26	2.1	26	96	0	101	23	45	0	30	1.53
48350347--48350388	16	2.6	16	96	0	75	45	0	11	42	1.41
48351963--48352001	17	2.4	17	86	4	53	30	0	17	51	1.46
48352313--48352452	63	2.2	63	83	2	165	25	17	22	35	1.96
48354966--48355070	39	2.6	39	86	5	122	24	22	27	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48354926--48355089	40	4.1	40	80	12	169	25	23	27	24	2.00
48354926--48355076	79	1.9	80	82	6	191	25	23	27	23	2.00
48362939--48363083	40	3.6	40	85	4	193	25	24	26	23	2.00
48366154--48366505	176	2.0	176	90	1	553	32	25	23	19	1.97
48368687--48368712	8	3.2	8	100	0	52	30	0	23	46	1.53
48369185--48369243	24	2.4	25	78	13	68	27	18	20	33	1.96
48371720--48371837	46	2.5	48	84	9	147	29	16	29	23	1.97
48373735--48373774	20	2.0	20	85	14	55	22	27	40	10	1.86
48389742--48389779	19	2.0	19	85	10	51	68	0	10	21	1.19
48410410--48410507	42	2.3	43	82	5	119	24	17	25	32	1.97
48413060--48413099	21	1.9	21	85	10	55	55	20	25	0	1.44
48422178--48422225	21	2.3	21	82	13	71	25	14	14	45	1.83
48424299--48424338	21	2.0	21	85	5	55	30	12	12	45	1.79
48427466--48427570	39	2.6	39	86	5	122	24	22	27	24	2.00
48427426--48427589	40	4.1	40	80	12	169	25	23	27	24	2.00
48427426--48427576	79	1.9	80	82	6	191	25	23	27	23	2.00
48435322--48435571	40	6.3	40	94	0	376	23	20	28	26	1.99
48435269--48435571	80	3.8	80	88	2	387	24	20	28	26	1.99
48435269--48435571	120	2.5	119	85	2	383	24	20	28	26	1.99
48445702--48445904	42	4.8	42	84	3	219	32	25	19	23	1.98
48452933--48453111	42	4.2	42	84	2	207	29	22	19	27	1.98
48452933--48453158	84	2.7	85	81	7	253	29	23	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48456995--48457103	48	2.3	47	76	10	112	25	19	26	28	1.99
48457120--48457292	42	4.0	42	73	11	125	27	19	27	25	1.98
48457125--48457292	90	1.9	90	83	5	223	27	19	27	24	1.99
48464988--48465153	90	1.8	90	80	5	201	28	19	27	24	1.98
48465001--48465155	42	3.5	42	70	11	114	29	20	27	23	1.98
48474028--48474071	23	1.9	23	85	0	61	31	9	13	45	1.75
48475888--48475924	15	2.3	17	86	9	51	70	0	21	8	1.13
48487675--48487731	14	4.0	14	80	8	62	31	1	28	38	1.67
48488811--48488836	12	2.2	12	100	0	52	50	34	7	7	1.60
48492311--48492354	21	2.1	21	82	0	52	50	34	15	0	1.45
48505767--48505895	43	3.0	43	80	13	140	29	27	17	24	1.98
48510329--48510425	48	2.0	48	86	6	133	56	3	5	35	1.37
48510328--48510426	24	4.0	24	76	12	103	56	3	6	34	1.39
48512047--48512808	43	17.6	43	74	10	633	20	23	22	33	1.97
48512047--48512809	87	8.8	87	90	3	827	20	23	22	33	1.97
48512047--48512829	130	6.0	130	77	8	745	20	23	22	33	1.97
48512225--48512828	87	7.0	87	96	0	860	20	23	22	33	1.97
48514000--48514198	86	2.3	87	84	4	269	19	21	25	34	1.96
48514000--48514543	129	4.2	130	75	8	493	20	22	22	34	1.97
48514136--48514561	86	4.9	86	92	0	647	20	23	21	34	1.97
48514046--48514561	43	12.0	44	73	12	279	19	23	21	34	1.96
48522572--48522614	19	2.2	20	87	4	61	46	6	18	27	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48527266--48527305	20	2.1	19	85	4	53	7	10	2	80	1.00
48530569--48530631	12	5.1	12	75	5	54	69	3	1	25	1.12
48534507--48534550	6	7.2	6	80	14	54	20	0	2	77	0.88
48534508--48534550	13	3.4	13	81	12	54	18	0	2	79	0.85
48534507--48534550	19	2.4	18	92	3	70	20	0	2	77	0.88
48535145--48535238	49	1.9	49	81	12	113	39	29	2	28	1.69
48535200--48535253	15	3.7	15	76	16	51	40	35	1	22	1.65
48535211--48535252	22	2.0	21	85	4	57	40	38	0	21	1.53
48535557--48535692	40	3.4	40	90	3	202	19	23	21	36	1.95
48535697--48535722	12	2.2	12	100	0	52	46	23	15	15	1.83
48536593--48536764	46	3.7	46	81	6	186	27	18	29	24	1.98
48536694--48536806	46	2.5	44	81	7	111	29	18	28	23	1.98
48540199--48540284	39	2.2	39	91	0	145	50	13	6	29	1.68
48545880--48546009	46	2.8	46	80	10	147	22	30	20	26	1.98
48545880--48546050	94	1.8	92	81	9	213	23	29	18	28	1.98
48549760--48549911	43	3.5	43	90	1	216	34	13	17	34	1.89
48564878--48565105	40	5.7	40	91	0	350	18	21	28	31	1.97
48566956--48567138	79	2.3	81	84	7	232	24	22	27	25	2.00
48566957--48567140	40	4.6	40	83	9	216	23	22	28	25	2.00
48567009--48567173	79	2.1	79	84	6	210	25	21	27	25	1.99
48580756--48580983	40	5.7	40	89	0	323	19	20	27	32	1.97
48582366--48582529	56	2.9	55	89	5	233	34	26	13	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48583664--48583692	14	2.0	15	93	6	51	55	20	0	24	1.44
48607017--48607043	12	2.2	12	100	0	54	51	11	0	37	1.37
48608952--48608982	15	2.1	15	93	0	53	54	25	0	19	1.44
48610951--48611101	44	3.5	43	77	13	148	27	21	19	31	1.98
48621306--48621333	14	2.0	14	100	0	56	7	7	7	78	1.09
48623082--48623115	18	1.9	18	88	5	52	29	17	11	41	1.85
48624244--48624357	29	4.0	29	91	1	167	28	32	14	24	1.95
48631390--48631651	39	6.7	40	87	7	337	25	22	27	24	2.00
48639406--48639628	39	5.7	40	86	7	273	25	22	27	24	2.00
48639406--48639628	79	2.8	81	85	8	282	25	22	27	24	2.00

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