genome.fa.s8.2.7.7.80.10.50.1000.120.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  120  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)
38046451--38046493	22	1.9	23	86	13	63	65	2	0	32	1.06
38046940--38046978	20	2.0	20	85	10	53	51	0	5	43	1.24
38050075--38050160	19	4.2	20	69	15	61	50	0	1	48	1.08
38050055--38050116	28	2.3	27	83	8	81	54	0	0	45	0.99
38050055--38050121	18	3.7	18	71	13	57	55	0	0	44	0.99
38058860--38058909	24	2.1	24	92	0	82	46	12	20	22	1.83
38059538--38059975	219	2.0	219	96	0	815	57	5	8	28	1.51
38064014--38064068	17	3.2	18	84	7	78	47	9	12	30	1.73
38064599--38064824	3	74.3	3	65	18	69	60	3	5	30	1.38
38064598--38064651	26	2.0	27	82	10	67	64	5	5	24	1.36
38065118--38065174	30	1.9	30	82	3	71	57	5	10	26	1.53
38066531--38066584	21	2.6	21	81	0	63	25	31	12	29	1.93
38066825--38066859	14	2.6	13	86	8	52	48	8	14	28	1.73
38066688--38066920	86	2.7	87	80	9	260	32	22	16	28	1.96
38066878--38067293	73	5.7	72	88	3	591	30	23	18	28	1.98
38066878--38067293	148	2.8	145	86	5	570	30	23	18	28	1.98
38066838--38067293	221	2.1	217	86	5	621	30	23	18	28	1.97
38078669--38078723	17	3.2	17	82	7	67	47	7	12	32	1.69
38079252--38079305	26	2.0	27	82	10	67	64	5	5	24	1.36
38079314--38079367	18	3.1	17	79	12	56	59	1	3	35	1.26
38079540--38079607	26	2.6	26	77	9	68	64	1	11	22	1.34
38079771--38079827	30	1.9	30	85	3	80	59	5	8	26	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38082171--38082227	30	1.9	30	85	3	80	59	5	8	26	1.48
38088794--38088824	14	2.2	14	100	0	62	61	6	19	12	1.53
38101611--38101664	27	2.0	27	100	0	108	29	22	22	25	1.99
38105529--38105569	18	2.4	17	83	4	55	68	9	0	21	1.18
38105934--38105975	14	3.1	14	76	13	52	61	4	0	33	1.17
38105939--38106067	31	4.1	30	69	20	77	62	3	3	31	1.26
38105928--38105982	26	2.1	27	86	3	76	61	3	1	32	1.24
38108522--38108548	13	2.1	13	100	0	54	14	33	29	22	1.94
38109465--38109491	13	2.1	13	100	0	54	14	33	29	22	1.94
38113173--38113270	19	5.2	19	92	7	164	37	10	16	35	1.82
38113162--38113270	36	2.9	35	78	20	114	37	11	15	35	1.83
38120850--38121015	85	2.0	85	96	0	305	30	23	18	27	1.98
38121477--38121531	27	2.0	27	96	0	101	50	18	5	25	1.67
38124302--38124575	46	6.0	46	95	0	451	39	14	23	22	1.91
38135474--38135567	47	2.0	47	100	0	188	42	2	27	27	1.67
38135934--38135979	18	2.8	18	84	15	64	0	30	41	28	1.56
38136249--38136303	25	2.1	25	83	6	65	58	7	5	29	1.48
38136922--38136953	7	4.6	7	92	0	55	43	40	12	3	1.58
38147832--38147876	22	2.0	22	91	0	72	33	2	15	48	1.57
38148115--38148200	25	3.3	25	73	12	91	46	9	17	26	1.78
38164263--38164296	17	2.0	17	88	0	50	64	5	0	29	1.17
38168829--38168962	69	2.0	69	91	4	218	23	20	16	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38173029--38173070	15	2.9	14	82	13	50	54	0	0	45	0.99
38181003--38181047	22	2.0	22	100	0	90	26	15	8	48	1.74
38181008--38181057	22	2.3	22	86	6	66	30	14	6	50	1.66
38181594--38181646	18	2.9	18	75	10	54	41	18	7	32	1.79
38184381--38184410	15	2.0	15	93	0	51	3	23	0	73	0.98
38184501--38184555	15	3.8	15	74	13	53	36	1	1	60	1.18
38184492--38184535	21	2.1	21	83	8	54	38	0	4	56	1.20
38185193--38185277	3	29.0	3	70	9	59	63	3	4	28	1.31
38185193--38185280	23	4.0	23	72	8	67	63	4	4	27	1.33
38193491--38193605	44	2.6	44	85	2	149	35	13	22	27	1.92
38193491--38193624	46	3.0	45	82	4	153	35	14	23	26	1.93
38201368--38201397	15	2.0	15	93	0	51	3	23	0	73	0.98
38201488--38201542	15	3.8	15	74	13	53	36	1	1	60	1.18
38201479--38201522	21	2.1	21	83	8	54	38	0	4	56	1.20
38202180--38202264	3	29.0	3	70	9	59	63	3	4	28	1.31
38202180--38202267	23	4.0	23	72	8	67	63	4	4	27	1.33
38205371--38205399	5	5.8	5	100	0	58	17	0	0	82	0.66
38209010--38209048	18	2.1	18	86	13	53	35	5	0	58	1.20
38209960--38210024	25	2.6	25	90	4	96	46	9	16	27	1.78
38209989--38210036	25	1.9	25	83	8	62	52	8	18	20	1.71
38220770--38220857	35	2.5	35	92	0	158	30	14	18	36	1.91
38221239--38221286	18	2.5	20	86	6	64	35	0	2	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38221244--38221276	16	2.1	16	88	11	50	33	0	3	63	1.10
38221204--38221288	21	4.1	20	75	13	73	30	1	3	64	1.17
38221327--38221431	13	8.6	11	70	26	54	37	3	0	58	1.23
38221350--38221431	23	3.3	23	72	27	69	39	3	0	57	1.16
38221426--38221466	19	2.2	18	86	8	55	21	7	4	65	1.37
38221856--38221904	24	2.0	26	84	8	66	32	6	4	57	1.42
38225508--38225537	14	2.1	14	93	0	51	36	6	10	46	1.64
38233650--38234543	206	4.3	206	92	0	1398	30	18	22	28	1.97
38236187--38236234	18	2.5	20	86	6	64	35	0	2	62	1.07
38236192--38236224	16	2.1	16	88	11	50	33	0	3	63	1.10
38236248--38236272	13	1.9	13	100	0	50	32	8	0	60	1.26
38236252--38236377	11	10.5	11	69	26	55	35	3	1	58	1.26
38236250--38236324	33	2.2	33	81	9	80	33	2	2	61	1.24
38236298--38236377	23	3.3	23	71	28	67	38	3	0	57	1.17
38236372--38236411	18	2.2	19	86	13	57	22	7	5	65	1.38
38236671--38236714	23	2.0	22	82	13	54	27	6	2	63	1.31
38236806--38236854	24	2.0	26	84	8	66	32	6	4	57	1.42
38246531--38246583	26	2.1	25	83	16	65	50	1	1	45	1.23
38251580--38251613	6	5.7	6	100	0	68	0	64	0	35	0.94
38267400--38267447	24	2.0	24	88	4	71	50	0	0	50	1.00
38267799--38267827	4	7.2	4	100	0	58	51	0	0	48	1.00
38268460--38268508	23	2.1	23	81	7	55	40	8	10	40	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38278329--38278407	33	2.5	31	80	13	99	32	49	2	15	1.58
38282465--38282540	22	3.4	22	83	7	91	32	2	3	60	1.29
38282607--38282663	21	2.6	22	75	13	64	29	7	3	59	1.40
38288592--38288619	3	9.3	3	100	0	56	32	0	0	67	0.91
38290251--38290277	10	2.7	10	100	0	54	37	0	0	62	0.95
38293998--38294040	2	21.5	2	95	0	77	0	51	0	48	1.00
38304751--38304813	24	2.6	24	80	9	67	25	4	6	63	1.38
38304772--38304828	24	2.4	24	81	0	69	26	3	8	61	1.42
38305036--38305076	16	2.6	16	96	3	75	41	0	0	58	0.98
38305015--38305090	23	3.4	23	79	15	72	38	1	1	59	1.14
38305017--38305092	25	3.1	23	82	15	82	36	1	1	60	1.13
38305264--38305320	3	18.3	3	75	13	53	29	7	1	61	1.32
38317674--38317865	45	4.3	44	74	11	147	32	17	22	27	1.96
38317743--38317821	41	1.9	41	87	5	115	30	20	21	27	1.98
38317900--38318000	44	2.4	44	80	8	102	31	20	23	23	1.98
38319484--38319516	14	2.3	15	89	5	50	27	0	3	69	1.03
38325401--38325452	17	2.8	17	80	11	50	61	1	1	34	1.18
38327338--38327401	17	3.6	17	75	20	69	60	0	1	37	1.06
38328968--38329015	10	4.6	10	78	16	53	33	0	0	66	0.92
38328973--38329024	23	2.3	23	93	3	88	42	0	0	57	0.98
38331092--38331173	23	3.5	23	72	12	62	35	4	4	54	1.43
38331157--38331315	25	6.0	26	70	15	94	33	6	5	54	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38331449--38331491	16	2.7	15	92	7	68	32	0	2	65	1.06
38331449--38331491	8	5.4	8	86	8	61	32	0	2	65	1.06
38331505--38331567	25	2.5	24	84	7	72	30	4	6	58	1.43
38343291--38344226	72	12.9	72	93	2	1428	29	16	20	33	1.95
38343205--38345031	216	8.0	216	80	13	1666	28	17	20	34	1.95
38344302--38344331	13	2.3	13	100	0	60	23	13	0	63	1.29
38344085--38344411	86	3.9	82	81	10	294	28	17	18	35	1.94
38344360--38344469	56	1.9	57	85	7	152	26	18	20	34	1.96
38344418--38344694	75	3.7	75	92	2	425	25	21	22	31	1.98
38344674--38344708	14	2.5	14	90	0	52	25	14	0	60	1.35

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