genome.fa.s8.2.7.7.80.10.50.1000.161.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  161  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)
53195885--53196193	154	2.0	154	100	0	618	34	23	3	38	1.72
53196242--53196277	13	2.8	14	84	16	51	27	25	0	47	1.52
53196229--53196269	18	2.2	19	87	12	59	29	24	0	46	1.53
53197751--53197847	39	2.5	39	80	5	108	24	23	26	24	2.00
53198671--53198717	15	3.1	15	81	0	67	48	12	2	36	1.53
53199021--53199056	14	2.6	14	95	0	63	16	13	0	69	1.19
53199054--53199085	13	2.5	13	100	0	64	15	6	0	78	0.95
53210505--53210556	10	5.2	11	78	21	53	75	1	0	23	0.91
53210502--53210547	24	1.9	24	86	8	67	71	2	0	26	0.97
53210528--53210556	5	5.8	5	100	0	58	79	0	0	20	0.74
53211339--53211381	20	2.2	20	91	0	68	58	2	2	37	1.24
53216056--53216098	7	6.1	7	88	0	59	41	34	0	23	1.55
53217244--53217279	13	2.8	14	84	16	51	27	25	0	47	1.52
53217231--53217271	18	2.2	19	87	12	59	29	24	0	46	1.53
53217394--53217528	39	3.4	38	73	8	101	28	28	20	23	1.99
53217768--53217806	18	2.1	19	90	4	62	48	10	0	41	1.37
53219122--53219178	5	11.0	5	78	14	62	56	1	0	42	1.10
53219121--53219176	12	4.5	12	81	16	69	55	1	0	42	1.10
53219123--53219178	26	2.2	26	90	6	69	55	1	0	42	1.10
53223830--53223865	13	2.8	14	84	16	51	27	25	0	47	1.52
53223817--53223857	18	2.2	19	87	12	59	29	24	0	46	1.53
53223980--53224114	39	3.4	38	73	8	101	28	28	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53224354--53224392	18	2.1	19	90	4	62	48	10	0	41	1.37
53225714--53225766	5	10.0	5	80	11	61	56	1	0	41	1.10
53225713--53225768	12	4.5	12	81	16	69	55	1	0	42	1.10
53228593--53228619	14	1.9	14	100	0	54	37	0	14	48	1.45
53237443--53237588	39	3.7	39	95	0	256	20	23	28	27	1.99
53240275--53240534	132	2.0	132	96	0	475	23	19	28	28	1.98
53240633--53240768	60	2.3	59	81	10	152	27	20	25	26	1.99
53244179--53244344	53	3.1	53	88	6	221	25	15	28	30	1.96
53248356--53248494	60	2.3	59	80	9	158	28	20	23	27	1.99
53249153--53249185	18	1.9	17	88	11	50	42	12	15	30	1.83
53256123--53256188	32	2.1	32	82	0	78	37	3	3	56	1.30
53256156--53256193	18	2.2	18	95	4	69	42	0	0	57	0.98
53256145--53256194	17	3.1	17	81	16	61	44	0	0	56	0.99
53256168--53256250	26	3.1	28	75	16	68	43	4	0	51	1.23
53256828--53256898	31	2.3	31	80	9	83	47	7	1	43	1.39
53259426--53259487	21	3.0	21	83	4	74	45	17	22	14	1.85
53260602--53260638	10	3.5	10	86	13	56	45	0	0	54	1.00
53260593--53260638	22	2.1	22	95	0	83	47	0	0	52	1.00
53260593--53260638	12	4.0	12	88	11	69	47	0	0	52	1.00
53262692--53262775	28	3.0	28	91	1	132	19	3	30	46	1.66
53262696--53262789	28	3.6	24	78	18	91	15	4	34	45	1.66
53262992--53263065	21	3.5	21	81	5	78	16	22	24	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53264144--53264312	46	3.5	48	75	15	161	24	14	29	30	1.95
53267308--53267355	19	2.4	20	75	6	53	60	4	0	35	1.16
53268817--53268841	12	2.1	12	100	0	50	32	20	8	40	1.81
53285679--53285735	30	1.9	30	86	13	82	49	0	3	47	1.18
53286125--53286161	18	2.1	18	89	0	56	43	0	2	54	1.14
53286189--53286216	13	2.2	13	100	0	56	78	7	14	0	0.95
53286744--53286800	15	3.9	15	88	2	89	35	0	12	52	1.39
53286740--53286798	30	2.0	28	93	6	100	32	0	11	55	1.36
53287184--53287235	21	2.4	22	93	6	88	11	25	28	34	1.91
53288126--53288162	18	2.1	18	89	0	56	43	0	2	54	1.14
53288190--53288217	13	2.2	13	100	0	56	78	7	14	0	0.95
53290789--53290928	39	3.6	39	95	0	244	12	26	23	37	1.91
53292611--53292657	19	2.3	20	78	7	51	51	2	0	46	1.13
53292639--53292674	12	2.9	12	88	8	54	33	0	0	66	0.92
53294445--53294490	22	2.1	22	95	0	83	30	15	8	45	1.76
53296922--53297170	122	2.0	122	92	0	408	30	13	18	38	1.89
53301310--53301377	27	2.5	27	83	4	84	27	35	17	19	1.94
53306006--53306047	22	1.9	22	85	0	57	30	2	2	64	1.19
53315762--53315872	17	6.5	16	68	24	59	58	0	1	38	1.15
53315723--53315797	39	1.9	38	81	7	89	61	2	4	32	1.28
53315804--53315899	49	2.0	49	82	12	117	60	1	1	37	1.11
53315714--53315912	10	21.7	9	69	15	90	60	1	2	35	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53316358--53316447	28	3.3	27	68	22	71	34	4	4	56	1.39
53316384--53316416	10	3.4	10	91	4	50	27	6	0	66	1.15
53316418--53316460	21	2.0	22	90	4	70	41	0	6	51	1.29
53316376--53316519	9	15.6	9	69	15	71	36	2	2	59	1.24
53332612--53332638	3	9.0	3	100	0	54	66	0	33	0	0.92
53336804--53336834	15	2.1	15	100	0	62	41	6	12	38	1.69
53340208--53340268	24	2.5	25	77	17	58	27	1	11	59	1.42
53342736--53342763	3	9.3	3	100	0	56	64	0	35	0	0.94
53344515--53344578	29	2.2	30	82	2	76	39	4	14	42	1.66
53351238--53351275	17	2.3	17	86	4	51	47	5	0	47	1.24
53351712--53351736	10	2.5	10	100	0	50	8	0	0	92	0.40
53354006--53354058	21	2.6	20	72	24	56	32	3	1	62	1.24
53355260--53355416	66	2.4	66	81	2	181	38	14	31	15	1.87
53358619--53358790	86	2.0	86	91	2	283	32	23	16	27	1.96
53360555--53360615	29	2.1	29	96	0	113	37	21	14	26	1.92
53365908--53365936	2	14.5	2	100	0	58	0	51	0	48	1.00
53371564--53371625	29	2.1	30	90	3	99	46	6	1	45	1.38
53384113--53384156	12	3.7	12	81	0	52	54	0	0	45	0.99
53387177--53387215	18	2.2	17	86	13	53	33	0	20	46	1.51
53387441--53387538	23	4.3	23	90	2	162	20	21	26	31	1.98
53387443--53387531	45	2.0	45	95	0	160	19	22	26	31	1.97
53400326--53400376	25	2.0	25	100	0	102	49	11	11	27	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53408143--53408168	6	4.3	6	100	0	52	50	0	0	50	1.00
53408815--53408865	21	2.4	21	87	12	70	41	1	5	50	1.37
53408823--53408885	21	3.0	20	84	13	67	42	1	3	52	1.27
53408896--53409031	18	7.7	18	65	24	67	30	2	0	65	1.13
53408956--53409032	26	3.0	26	84	3	93	29	1	0	68	0.97
53410659--53410706	24	2.0	24	83	0	60	47	2	16	33	1.58
53415010--53415054	18	2.5	18	81	0	54	46	6	2	44	1.42
53418090--53418138	24	2.0	25	92	4	82	24	18	18	38	1.93
53424524--53424563	13	3.1	13	100	0	80	37	7	22	32	1.82
53432485--53432509	12	2.1	12	100	0	50	8	24	36	32	1.84
53445983--53446075	39	2.5	37	80	7	98	27	29	22	20	1.98
53446430--53446454	3	8.3	3	100	0	50	68	0	0	32	0.90
53458418--53458469	24	2.2	24	89	0	77	55	9	1	32	1.43
53458679--53458703	12	2.1	12	100	0	50	8	32	8	52	1.60
53462811--53462836	6	4.3	6	100	0	52	15	69	0	15	1.20
53463778--53463837	29	2.0	29	83	6	75	51	11	11	25	1.72
53465233--53465363	39	3.4	39	98	0	253	38	22	25	13	1.91
53476554--53476596	21	2.0	21	86	8	61	55	4	2	37	1.33
53477065--53477090	12	2.2	12	100	0	52	34	7	0	57	1.27
53488818--53488871	20	2.6	22	78	18	62	35	0	1	62	1.06
53489362--53489419	21	2.8	21	85	12	75	67	6	1	24	1.25
53489360--53489447	15	6.5	13	69	12	52	64	5	2	27	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53489539--53489666	65	2.0	66	88	1	195	33	7	6	52	1.55
53493439--53493485	21	2.2	22	92	3	78	21	19	38	21	1.94
53497432--53497519	45	2.0	45	88	8	135	36	19	13	30	1.90
53498204--53498233	7	4.3	7	100	0	60	33	26	13	26	1.93
53503093--53503236	35	4.1	35	81	3	137	31	21	13	34	1.92
53503105--53503263	70	2.3	70	85	1	201	31	22	10	35	1.88
53503713--53503780	19	3.4	21	76	21	67	41	0	2	55	1.15
53503713--53503789	40	1.9	40	84	5	102	44	0	2	53	1.14
53530085--53530152	34	2.0	34	100	0	136	44	8	14	32	1.76
53532791--53532891	21	5.0	21	69	11	57	16	10	43	28	1.82

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