genome.fa.s8.2.7.7.80.10.50.1000.115.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  115  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)
36382050--36382100	21	2.5	20	79	17	61	43	0	1	54	1.11
36393079--36393285	45	4.6	45	75	1	157	31	16	23	28	1.96
36393553--36393624	31	2.3	32	85	2	101	30	13	11	44	1.79
36398533--36398611	38	2.1	38	97	0	149	35	13	12	37	1.83
36400809--36400925	31	3.8	31	70	11	89	47	13	6	32	1.70
36404834--36404948	44	2.6	44	85	2	149	35	13	22	27	1.92
36404834--36404967	46	3.0	45	82	4	153	35	14	23	26	1.93
36411738--36411852	44	2.6	44	85	2	149	35	13	22	27	1.92
36411738--36411871	46	3.0	45	82	4	153	35	14	23	26	1.93
36415960--36415993	18	1.9	18	88	5	52	38	2	20	38	1.68
36425672--36425705	14	2.4	14	90	5	50	58	2	0	38	1.13
36427066--36427107	15	2.9	15	78	3	50	52	2	0	45	1.13
36428133--36428175	21	2.0	21	95	0	77	23	20	4	51	1.66
36431496--36431520	5	5.0	5	100	0	50	20	0	0	80	0.72
36432623--36432664	21	2.0	21	100	0	84	38	42	14	4	1.66
36432853--36432915	24	2.7	24	82	7	76	20	9	7	61	1.51
36438696--36438733	17	2.2	17	95	0	67	31	2	7	57	1.41
36443008--36443158	53	2.8	53	88	4	205	25	16	27	30	1.97
36448619--36448672	23	2.3	24	81	12	67	55	5	5	33	1.46
36465257--36465320	32	2.0	32	96	0	119	25	48	9	17	1.76
36470209--36470261	26	2.0	26	82	7	63	47	3	3	45	1.39
36470217--36470268	27	1.9	27	84	7	70	44	7	3	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36488571--36489054	170	2.9	170	94	1	832	30	21	21	27	1.98
36488618--36488988	41	8.8	42	72	11	210	30	21	21	26	1.98
36488619--36489054	44	10.4	42	73	11	233	30	21	20	27	1.98
36496544--36496713	85	2.0	85	100	0	340	31	14	18	35	1.91
36500362--36500402	21	2.0	21	90	0	64	29	21	29	19	1.98
36502308--36502341	16	2.1	16	88	0	50	50	14	17	17	1.79
36504352--36504393	2	21.0	2	100	0	84	0	50	0	50	1.00
36509330--36509385	23	2.4	23	100	0	112	37	44	5	12	1.65
36511862--36511912	23	2.2	23	92	0	84	47	7	5	39	1.57
36519502--36519548	21	2.2	22	92	3	78	21	38	19	21	1.94
36522524--36522561	19	2.0	19	89	0	58	26	26	0	47	1.52
36525376--36525422	21	2.2	22	92	3	78	21	38	19	21	1.94
36536392--36536458	33	2.0	33	97	0	125	29	5	16	47	1.70
36537676--36537706	3	10.3	3	100	0	62	0	0	64	35	0.94
36550533--36550791	108	2.4	107	86	4	344	37	16	13	32	1.88
36550696--36550884	93	2.0	93	88	4	283	35	14	15	34	1.88
36555301--36555560	107	2.3	110	86	8	366	33	12	14	39	1.84
36564962--36564995	16	2.0	18	88	11	54	55	5	0	38	1.24
36571873--36571957	30	2.7	32	80	10	95	34	7	8	50	1.59
36576369--36576468	48	2.0	50	88	3	150	29	3	7	61	1.37
36577821--36577876	15	4.0	15	73	17	57	55	0	0	44	0.99
36577831--36578000	26	7.0	26	64	24	84	52	3	1	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36577826--36578024	59	3.3	59	72	19	214	53	3	1	41	1.24
36577804--36578043	120	2.0	120	97	0	453	51	4	1	42	1.31
36586249--36586348	48	2.1	48	92	0	164	60	10	10	20	1.57
36590723--36590869	18	8.2	18	89	0	213	29	25	15	29	1.96
36590729--36590873	36	4.0	36	97	0	263	30	24	15	30	1.95
36592975--36593004	6	5.0	6	100	0	60	83	0	0	16	0.65
36608688--36608716	7	4.1	7	100	0	58	58	0	13	27	1.36
36615593--36615647	17	3.3	17	71	19	53	60	0	10	29	1.31
36646534--36646584	25	2.0	25	100	0	102	31	11	7	49	1.68
36668381--36668415	3	11.7	3	87	0	52	34	5	0	60	1.21
36688538--36688576	19	2.1	19	90	9	62	58	5	12	23	1.54
36688740--36688807	30	2.3	30	82	10	77	41	1	5	51	1.35
36696319--36696343	13	1.9	13	100	0	50	56	0	40	4	1.18
36708627--36710092	733	2.0	733	100	0	2932	28	19	19	32	1.96
36715135--36715163	14	2.1	14	100	0	58	20	31	13	34	1.92
36717008--36717049	21	2.2	19	84	16	52	64	4	9	21	1.42
36720964--36720992	15	1.9	15	100	0	58	58	0	6	34	1.25
36724091--36724215	59	2.1	58	88	5	180	48	7	0	44	1.36
36729567--36729605	19	2.0	20	90	9	64	64	0	0	35	0.94
36729795--36729830	17	2.1	18	89	5	56	36	2	0	61	1.11
36731825--36731884	26	2.3	26	97	0	111	30	20	18	31	1.96
36732614--36732715	52	2.0	52	90	0	159	28	10	14	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36732486--36732702	116	1.9	114	91	1	353	28	10	13	47	1.76
36732709--36732760	27	1.9	27	92	0	86	19	13	11	55	1.68
36739221--36739361	43	3.4	41	84	11	191	56	8	18	17	1.66
36739473--36739528	21	2.7	21	85	0	67	10	17	23	48	1.79
36748024--36748201	27	6.6	26	79	10	153	26	15	29	28	1.96
36748025--36748175	54	2.8	54	84	7	189	26	16	29	27	1.97
36748025--36748180	82	1.9	81	84	6	208	26	16	30	27	1.96
36748021--36748201	82	2.2	81	80	4	204	26	16	29	28	1.96
36752111--36752226	46	2.6	44	86	6	153	25	31	18	24	1.98
36762844--36762887	21	2.1	21	100	0	88	25	9	34	31	1.87
36772314--36772358	22	2.0	22	95	0	81	31	13	6	48	1.68
36776675--36776748	25	3.0	25	90	5	107	18	24	20	36	1.95
36776899--36776953	24	2.3	24	90	0	83	20	23	21	34	1.97
36778613--36778754	48	3.0	48	83	4	196	21	16	30	32	1.95
36779532--36779562	4	7.8	4	100	0	62	74	0	25	0	0.82
36782763--36782795	9	3.7	9	88	12	50	30	24	3	42	1.70
36796179--36796346	79	2.1	79	91	0	273	42	4	20	32	1.73
36805164--36805239	22	3.7	21	76	15	68	40	17	6	35	1.75
36805193--36805290	35	2.7	37	87	12	150	35	16	10	37	1.82
36805200--36805290	19	4.9	19	92	8	161	36	15	10	37	1.83
36805635--36805908	45	6.1	45	77	6	277	25	27	16	31	1.96
36805652--36805818	89	1.9	89	91	2	273	25	29	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36805848--36806424	78	7.4	78	95	1	1005	23	25	19	31	1.98
36806240--36807050	376	2.2	376	91	0	1325	25	23	18	31	1.97
36806616--36806830	78	2.8	78	86	0	313	24	21	20	33	1.97
36811300--36811376	38	2.0	38	94	0	136	11	37	9	41	1.73
36815394--36815469	22	3.7	21	76	15	68	40	17	6	35	1.75
36815430--36816257	54	15.3	54	99	0	1647	35	14	12	36	1.85
36816660--36816689	14	2.1	15	93	6	53	13	33	6	46	1.69
36820451--36820999	275	2.0	275	97	0	1026	28	18	23	30	1.97
36821041--36821158	61	1.9	61	98	0	227	27	11	26	34	1.90
36827374--36827410	19	1.9	19	88	0	56	35	2	2	59	1.26
36831934--36832092	27	5.9	27	80	10	164	35	21	23	19	1.96
36831952--36832095	54	2.7	54	93	2	236	35	22	23	18	1.96
36833691--36833797	26	4.2	26	87	1	162	35	23	8	32	1.85
36834932--36835040	37	2.9	37	95	0	191	26	31	19	22	1.98
36835202--36835387	47	4.0	47	88	0	264	25	28	12	33	1.92
36840621--36841327	40	17.6	40	93	1	1164	25	27	19	27	1.99
36847256--36847396	27	5.2	27	80	11	173	32	24	24	18	1.97
36847256--36847399	54	2.7	54	92	2	236	32	24	25	18	1.97
36848994--36849153	26	6.2	26	90	0	248	36	21	7	34	1.82
36848994--36849153	52	3.1	52	96	0	284	36	21	7	34	1.82
36854959--36855180	46	4.8	46	79	7	270	21	21	28	28	1.98
36857240--36858136	54	16.6	54	99	0	1751	33	22	25	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36858522--36858551	8	3.8	8	90	0	51	3	26	26	43	1.70
36859232--36859432	100	2.0	100	100	0	402	37	4	21	35	1.76
36860004--36860155	40	3.8	41	79	2	182	23	24	26	25	2.00
36860042--36860168	41	3.1	41	79	2	175	22	25	27	25	2.00
36860004--36860176	81	2.1	81	98	0	337	22	23	27	26	2.00
36866690--36866826	61	2.2	61	93	0	238	33	8	16	41	1.78
36870091--36870458	26	14.2	26	91	0	592	34	23	7	34	1.84
36870091--36870458	52	7.1	52	98	0	691	34	23	7	34	1.84
36871255--36871440	94	2.0	94	94	0	327	23	18	16	41	1.89
36878165--36878228	22	2.9	22	73	13	60	37	23	18	20	1.94

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