genome.fa.s8.2.7.7.80.10.50.1000.140.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  140  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)
45384868--45385154	40	7.2	40	76	8	212	41	13	6	38	1.70
45384903--45385094	60	3.2	60	73	8	151	43	13	6	36	1.69
45385021--45385152	60	2.2	60	82	8	153	42	14	5	37	1.68
45384864--45385195	20	16.6	20	72	10	119	40	13	6	40	1.70
45385254--45385317	20	3.2	20	79	0	74	45	14	3	37	1.60
45385415--45385490	40	1.9	40	94	0	134	36	10	6	46	1.65
45385415--45385500	40	2.2	40	89	0	127	36	11	6	45	1.68
45387109--45387170	25	2.7	23	77	7	63	29	1	4	64	1.23
45389139--45389174	11	3.2	11	88	7	54	41	19	0	38	1.52
45389309--45389350	20	2.1	20	86	8	59	45	11	2	40	1.54
45389435--45389474	21	1.9	21	89	0	62	45	12	0	42	1.42
45397421--45397446	8	3.2	8	100	0	52	53	0	0	46	1.00
45398280--45398315	15	2.4	15	95	0	63	55	0	11	33	1.35
45404912--45404939	13	2.2	13	100	0	56	21	14	7	57	1.61
45409736--45409846	56	2.0	55	92	0	177	28	15	37	17	1.90
45419135--45419198	26	2.5	25	80	9	76	35	7	12	43	1.71
45419147--45419198	26	2.0	26	88	0	77	26	9	13	50	1.72
45419515--45419582	17	4.1	17	77	14	61	61	1	1	35	1.14
45423143--45423206	26	2.5	25	80	9	76	35	7	12	43	1.71
45423155--45423206	26	2.0	26	88	0	77	26	9	13	50	1.72
45423523--45423590	17	4.1	17	77	14	61	61	1	1	35	1.14
45426418--45426643	113	2.0	113	100	0	452	34	15	20	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45426579--45426952	187	2.0	186	95	2	678	29	23	22	24	1.99
45430226--45430286	22	2.8	21	75	9	59	60	1	1	36	1.16
45434890--45434937	25	2.0	24	87	4	69	52	2	2	43	1.24
45436056--45436081	3	8.7	3	100	0	52	34	0	34	30	1.58
45440700--45440728	11	2.5	12	88	11	51	79	0	6	13	0.93
45443751--45443786	12	3.0	12	92	8	56	27	0	16	55	1.42
45443805--45443854	26	2.0	24	88	7	73	30	0	6	64	1.18
45458948--45458981	15	2.3	15	90	10	52	64	2	5	26	1.30
45459000--45459053	3	18.3	3	78	17	60	62	0	3	33	1.12
45459260--45459311	3	17.3	3	80	7	52	59	0	7	32	1.26
45459251--45459344	18	5.1	18	67	26	63	58	0	8	32	1.28
45459257--45459312	21	2.6	22	86	10	73	58	0	8	32	1.29
45459640--45459733	37	2.8	32	74	19	100	58	6	4	30	1.42
45459656--45459718	17	3.5	17	72	10	54	57	6	6	30	1.49
45459847--45459888	14	3.1	14	80	13	52	52	9	0	38	1.34
45460028--45460058	15	2.0	16	93	6	55	58	0	0	41	0.98
45461296--45461935	44	14.7	44	70	7	417	20	23	20	35	1.96
45461290--45461935	87	7.4	87	92	1	1026	20	23	20	35	1.96
45462011--45462134	64	1.9	64	88	0	185	37	13	17	30	1.89
45467565--45467640	39	1.9	39	91	0	125	38	23	23	14	1.92
45470402--45470455	25	2.2	25	82	0	63	42	3	16	37	1.66
45479392--45479419	5	5.6	5	100	0	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45484278--45484332	24	2.3	24	78	15	60	52	7	1	38	1.40
45491955--45491988	18	1.9	17	94	5	59	35	0	8	55	1.31
45494229--45494271	20	2.1	21	87	8	63	62	0	6	30	1.21
45496332--45496373	16	2.5	17	80	7	50	73	2	2	21	1.06
45496332--45496378	17	2.6	18	80	10	60	74	2	2	21	1.03
45497402--45497426	2	12.5	2	100	0	50	52	48	0	0	1.00
45501315--45501361	21	2.2	22	92	3	78	21	38	19	21	1.94
45507235--45507293	22	2.7	21	79	10	64	67	8	15	8	1.40
45511988--45512100	30	3.8	30	95	0	199	25	23	6	45	1.76
45511988--45512094	15	7.1	15	67	12	76	26	22	6	44	1.77
45516681--45516764	30	2.8	30	87	0	123	26	21	8	44	1.80
45521150--45521217	32	2.1	32	100	0	136	76	5	5	11	1.14
45529055--45529102	11	4.4	11	79	10	53	58	2	0	39	1.10
45529066--45529127	30	2.1	30	84	6	81	54	3	0	41	1.16
45530580--45530672	18	5.2	18	90	0	150	27	24	16	31	1.96
45530580--45530672	36	2.6	36	94	0	168	27	24	16	31	1.96
45541910--45541939	15	2.1	15	93	6	53	40	0	6	53	1.27
45542096--45542167	24	3.0	24	89	4	110	33	4	5	56	1.41
45547264--45547292	4	7.2	4	100	0	58	24	0	51	24	1.48
45551245--45551753	253	2.0	254	95	0	921	30	11	16	41	1.83
45551816--45551857	22	1.9	22	85	0	57	4	26	0	69	1.08
45551828--45551882	13	4.2	13	77	13	58	1	21	0	76	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45551832--45551882	9	5.9	9	77	4	52	1	21	0	76	0.88
45553836--45553860	2	12.5	2	100	0	50	0	0	48	52	1.00
45559413--45559481	16	4.2	16	92	3	120	24	1	37	36	1.65
45559413--45559481	33	2.1	32	94	2	120	24	1	37	36	1.65
45559462--45559552	45	2.0	45	85	2	121	27	6	28	37	1.82
45559717--45559751	18	2.0	17	88	5	52	54	0	0	45	0.99
45559745--45560052	61	5.1	61	69	15	221	48	5	2	43	1.40
45559835--45559871	16	2.2	17	86	13	51	54	0	2	43	1.14
45559695--45560088	120	3.3	120	93	1	655	48	4	2	44	1.34
45559955--45559991	16	2.2	17	86	13	51	54	0	2	43	1.14
45567461--45567516	19	3.1	18	72	23	55	39	1	3	55	1.28
45567630--45567680	21	2.4	21	86	0	66	33	37	5	23	1.79
45578896--45578929	18	1.9	17	88	5	50	32	2	0	64	1.08
45588920--45589015	30	3.2	30	86	2	131	27	21	6	44	1.76
45588930--45589007	15	5.2	15	68	11	52	25	20	7	46	1.77
45593069--45593125	18	3.2	18	92	0	96	31	17	24	26	1.97
45594073--45594156	43	1.9	44	92	2	143	42	20	23	13	1.87
45594389--45594422	16	2.1	16	89	10	52	2	17	17	61	1.46
45594822--45594888	27	2.5	27	95	0	125	20	26	11	40	1.88
45596538--45596658	61	2.0	60	82	10	149	19	28	14	38	1.91
45602133--45602228	18	5.4	18	79	2	77	30	13	15	40	1.86
45602570--45602654	19	5.0	15	78	21	80	40	15	2	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45602563--45602652	16	5.0	19	77	22	88	40	14	3	42	1.62
45602570--45602652	35	2.4	35	97	0	157	39	14	2	43	1.58
45603040--45603084	19	2.2	20	88	7	65	2	33	0	64	1.06
45604963--45604996	12	2.9	12	86	4	52	32	0	0	67	0.91
45609082--45609155	31	2.4	31	81	4	87	32	0	2	64	1.07
45613276--45613314	20	2.0	20	94	0	69	48	0	2	48	1.15
45614776--45614801	6	4.3	6	100	0	52	19	19	30	30	1.96
45621897--45622253	93	3.8	93	97	0	660	29	28	19	22	1.98
45621892--45622250	46	7.7	46	78	12	385	29	27	19	22	1.98
45621942--45622262	47	6.9	46	69	22	219	28	28	19	23	1.98
45627113--45627223	40	2.8	39	87	1	141	29	14	18	36	1.91
45627114--45627234	39	3.1	39	87	1	143	29	14	19	36	1.91
45627158--45627254	39	2.5	38	79	12	115	27	12	23	36	1.91
45627213--45627433	78	2.8	77	88	2	325	32	14	21	32	1.93
45628883--45628937	27	2.1	26	89	3	83	36	7	5	50	1.53
45630239--45630282	18	2.3	20	76	11	56	43	0	0	56	0.99
45630245--45630286	18	2.3	18	88	8	59	40	0	0	59	0.97
45631166--45631210	11	3.9	11	80	11	54	35	0	2	62	1.08
45633203--45633483	46	6.2	46	83	2	316	42	14	23	19	1.88
45633204--45633465	91	2.9	91	84	1	326	42	14	23	19	1.88
45633203--45633450	137	1.8	137	84	1	345	43	14	23	18	1.87
45633203--45633483	137	2.1	137	82	2	332	42	14	23	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45636278--45636311	14	2.3	15	90	5	52	52	0	0	47	1.00
45646502--45646598	51	1.9	50	97	0	176	27	11	13	46	1.77
45648541--45648601	31	2.0	29	87	6	86	42	13	16	27	1.85
45667232--45667271	3	13.3	3	100	0	80	67	0	0	32	0.91
45668160--45668221	26	2.3	27	97	2	117	17	27	0	54	1.43
45670683--45670742	25	2.4	25	80	5	68	38	3	3	55	1.33
45675325--45675376	21	2.4	21	83	3	59	65	5	0	28	1.16
45675346--45675380	17	2.1	17	89	5	54	68	0	0	31	0.90
45679244--45679286	2	21.5	2	100	0	86	48	0	51	0	1.00
45683240--45683287	21	2.3	21	78	7	53	14	20	25	39	1.91

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