genome.fa.s8.2.7.7.80.10.50.1000.198.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  198  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)
64901377--64901407	14	2.2	14	94	0	53	32	0	0	67	0.91
64902242--64902301	30	2.0	30	90	0	93	26	1	13	58	1.45
64911078--64911162	7	12.9	7	71	9	54	44	35	2	17	1.62
64911078--64911163	13	6.5	13	71	10	59	44	34	2	18	1.63
64911182--64911226	21	2.1	21	83	0	54	26	6	28	37	1.82
64912650--64912702	18	3.1	17	83	10	72	67	1	0	30	1.01
64912856--64912893	20	1.9	20	88	0	58	36	0	2	60	1.11
64917171--64917287	60	2.0	59	87	1	171	35	8	12	43	1.74
64917828--64917892	23	2.9	23	68	19	55	52	4	3	40	1.38
64925287--64925351	30	2.2	30	88	2	96	24	13	6	55	1.61
64935972--64935996	13	1.9	13	100	0	50	36	0	0	64	0.94
64939647--64939681	7	4.9	7	96	3	61	68	2	0	28	1.04
64946228--64946276	24	2.0	24	84	7	64	32	8	6	53	1.55
64946870--64947004	47	2.9	47	84	3	155	40	28	13	17	1.87
64947141--64947608	232	2.0	232	100	0	936	39	17	8	34	1.80
64947667--64947695	4	7.2	4	100	0	58	51	0	0	48	1.00
64952286--64952484	100	2.0	100	98	0	389	12	21	43	22	1.86
64954715--64954975	88	3.0	88	99	0	513	20	10	19	49	1.77
64956555--64956592	17	2.2	17	100	0	76	21	10	23	44	1.83
64956984--64957049	33	2.0	33	96	0	123	59	10	12	18	1.61
64958024--64958053	15	2.0	15	93	0	51	63	0	0	36	0.95
64962408--64962469	22	3.1	22	61	29	57	37	19	9	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64962395--64962469	37	2.0	37	100	0	150	37	18	10	33	1.86
64966167--64966534	135	2.8	131	79	7	348	29	19	17	33	1.95
64966409--64966660	131	1.9	131	79	3	283	25	19	19	35	1.95
64984031--64984067	8	4.8	8	90	3	58	32	0	2	64	1.07
64984049--64984086	13	3.0	13	84	3	51	44	0	0	55	0.99
64984030--64984072	21	2.0	20	86	8	59	32	0	2	65	1.06
64999313--64999346	5	6.6	5	93	6	59	82	0	0	17	0.67
64999313--64999346	16	2.1	16	100	0	68	82	0	0	17	0.67
65002138--65002326	54	3.5	53	80	8	195	34	19	23	22	1.96
65002143--65002388	107	2.3	109	80	8	285	35	17	23	22	1.95
65002578--65002608	16	1.9	16	93	0	53	41	0	22	35	1.54
65009709--65009904	55	3.6	52	80	8	205	34	17	24	22	1.96
65009707--65009904	108	1.8	110	87	4	303	34	17	24	23	1.96
65010148--65010178	16	1.9	16	93	0	53	41	0	22	35	1.54
65015996--65016062	22	3.0	22	80	6	64	32	17	28	20	1.96
65019441--65019524	42	2.0	42	100	0	168	23	21	16	38	1.93
65022276--65022448	46	3.8	45	79	11	190	23	20	26	29	1.99
65022273--65022443	93	1.8	93	91	2	281	22	21	27	28	1.99
65022673--65022710	19	2.0	20	85	15	53	36	0	23	39	1.55
65029866--65030038	46	3.7	46	77	11	192	22	20	27	30	1.98
65029863--65030033	93	1.8	93	91	2	281	22	20	28	29	1.98
65030263--65030300	19	2.0	20	85	15	53	36	0	23	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65032969--65033005	17	2.1	19	90	10	60	16	0	10	72	1.10
65038274--65038381	26	4.2	26	92	0	180	32	8	23	36	1.84
65041982--65042147	21	8.0	21	71	4	113	16	19	18	45	1.85
65042018--65042160	42	3.4	42	83	3	180	16	21	18	44	1.87
65044149--65044189	21	2.0	21	95	0	73	56	7	0	36	1.27
65045542--65045604	31	2.0	31	90	0	99	39	14	19	26	1.90
65049440--65049470	2	15.5	2	100	0	62	0	0	48	51	1.00
65058845--65058887	22	2.0	22	90	0	68	9	18	27	44	1.80
65058979--65059184	42	4.9	42	90	2	324	33	20	20	24	1.97
65059253--65059286	14	2.4	14	95	0	59	52	20	8	17	1.71
65059510--65059580	21	3.4	21	80	0	79	2	45	18	33	1.64
65065032--65065236	9	22.0	9	65	30	78	35	0	20	43	1.56
65065077--65065393	26	12.1	26	75	18	250	33	0	20	45	1.58
65065020--65065252	116	2.0	117	98	0	450	34	0	21	42	1.59
65065193--65065369	95	1.9	96	93	3	313	31	1	20	46	1.58
65065401--65065536	39	3.6	39	74	13	149	50	5	0	44	1.29
65065447--65065560	34	3.2	34	72	16	122	45	5	1	47	1.35
65065410--65065559	73	2.1	73	100	0	300	46	5	1	46	1.33
65065726--65065770	13	3.5	13	81	0	63	48	2	6	42	1.41
65065726--65065784	26	2.4	25	86	8	77	49	3	6	40	1.46
65065819--65066016	17	10.6	17	71	23	132	41	1	12	44	1.51
65065775--65066025	57	4.6	57	79	18	311	43	1	11	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65065836--65065942	40	2.7	40	94	2	189	43	1	11	42	1.51
65065742--65065996	97	2.6	99	93	3	426	44	2	10	42	1.51
65067359--65067398	11	3.7	11	93	3	64	27	27	10	35	1.89
65067924--65067953	14	2.1	14	100	0	60	53	6	13	26	1.64
65069267--65069318	27	1.9	27	88	0	77	50	9	0	40	1.35
65069386--65069422	10	3.7	10	92	0	65	43	13	0	43	1.44
65070322--65070580	82	3.2	82	98	0	491	35	19	15	29	1.92
65072339--65072402	13	4.9	13	81	7	85	34	0	23	42	1.55
65072788--65072846	30	2.0	30	96	0	109	57	8	3	30	1.45
65072879--65072921	22	2.0	22	86	9	61	55	11	11	20	1.66
65072886--65072925	11	3.6	11	79	0	53	57	10	12	20	1.63
65074147--65074192	24	2.0	23	86	4	65	28	4	2	65	1.23
65074379--65074454	29	2.6	28	83	6	89	43	15	14	26	1.85
65074417--65074544	61	2.1	59	83	11	154	46	13	14	25	1.80
65076844--65076885	18	2.5	18	81	11	54	33	0	4	61	1.17
65080524--65080553	3	10.0	3	100	0	60	66	0	0	33	0.92
65082331--65082694	165	2.2	165	85	2	464	25	23	15	35	1.95
65083437--65083510	22	3.4	22	71	3	69	24	0	31	44	1.54
65083671--65083706	17	2.1	18	89	5	56	61	13	0	25	1.33
65083833--65083999	41	4.1	42	80	7	175	23	20	20	35	1.96
65083852--65084008	81	1.9	82	84	3	210	24	19	20	35	1.96
65083852--65084008	41	3.9	41	82	3	192	24	19	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65085683--65085737	12	4.9	11	75	18	51	52	1	3	41	1.29
65087678--65088113	215	2.0	215	99	0	854	34	19	7	38	1.80
65090385--65090481	34	2.8	33	82	4	113	42	1	12	44	1.49
65090562--65091073	125	4.1	125	81	4	608	37	16	15	29	1.91
65098758--65098818	31	2.0	31	86	0	86	42	8	6	42	1.60
65099109--65099149	5	8.8	5	84	10	52	82	2	0	14	0.76
65099975--65100020	19	2.4	19	89	10	67	17	13	4	65	1.42
65102148--65102218	29	2.5	29	83	2	99	59	7	5	28	1.47
65102151--65102226	29	2.7	29	80	10	77	60	6	6	26	1.46
65107304--65107354	25	2.0	26	84	3	68	49	9	1	39	1.47
65110657--65110699	21	2.0	21	90	0	68	23	18	6	51	1.70
65111921--65112051	46	2.8	46	87	2	174	19	23	15	41	1.90
65114212--65114248	20	1.9	20	88	5	58	51	8	0	40	1.32
65115048--65115131	30	2.9	29	79	10	91	34	15	16	33	1.91
65118711--65118748	20	1.9	20	84	10	51	42	13	23	21	1.88
65120558--65120697	46	3.0	46	80	2	156	40	14	23	21	1.90
65122291--65122354	21	3.1	21	84	10	80	20	21	6	51	1.69
65129656--65129792	60	2.3	60	82	8	154	29	20	24	26	1.99
65131130--65131370	3	79.7	3	74	4	171	29	5	2	61	1.32
65139079--65139116	15	2.5	15	91	4	58	23	0	2	73	0.95
65140283--65140329	22	2.1	23	84	4	60	44	14	2	38	1.58
65142535--65143354	3	273.3	3	100	0	1640	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65147095--65147129	3	11.7	3	93	0	61	62	0	2	34	1.10
65147241--65147275	3	11.7	3	93	0	61	62	0	2	34	1.10
65147054--65148012	146	6.5	146	95	3	1738	60	5	3	30	1.37
65147387--65147421	3	11.7	3	93	0	61	62	0	2	34	1.10
65147533--65147567	3	11.7	3	93	0	61	62	0	2	34	1.10
65147679--65147713	3	11.7	3	93	0	61	62	0	2	34	1.10
65147826--65147875	3	16.7	3	100	0	100	66	0	0	34	0.92
65147987--65148016	3	10.0	3	100	0	60	66	0	0	33	0.92
65149375--65149511	44	3.1	44	62	12	109	24	21	24	28	1.99
65149351--65149511	88	1.8	88	93	0	277	26	19	25	27	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