genome.fa.s8.2.7.7.80.10.50.1000.144.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  144  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)
46742401--46742433	17	2.0	17	88	5	50	39	0	0	60	0.97
46749219--46749267	18	2.6	18	84	15	55	34	8	6	51	1.57
46754194--46754582	197	2.0	197	100	0	778	38	17	12	31	1.88
46755725--46755797	33	2.2	33	92	0	119	53	5	8	32	1.54
46756959--46756991	16	2.1	16	94	0	57	51	3	0	45	1.16
46757125--46757698	287	2.0	287	100	0	1148	41	9	9	40	1.68
46758421--46758665	42	5.8	42	88	2	341	32	21	22	24	1.98
46758432--46758668	126	1.9	126	91	1	395	31	20	22	25	1.98
46758421--46758767	84	4.1	82	78	6	327	31	20	20	27	1.98
46758432--46758752	126	2.5	126	85	2	376	29	20	21	28	1.98
46758821--46758854	14	2.4	14	95	0	59	52	20	8	17	1.71
46759078--46759148	21	3.4	21	80	0	79	2	45	18	33	1.64
46764599--46764763	18	9.5	18	66	30	69	33	0	20	45	1.52
46764599--46764763	7	19.0	9	65	32	69	33	0	20	45	1.52
46764613--46764909	19	15.6	19	67	22	78	31	0	20	47	1.53
46764644--46765025	26	15.2	26	88	6	531	32	0	20	46	1.56
46764644--46765026	51	7.7	46	87	6	277	32	1	20	46	1.58
46764909--46764952	18	2.4	18	84	0	70	34	4	18	43	1.70
46767605--46767680	7	10.9	7	74	5	64	46	35	1	17	1.56
46767721--46767770	17	3.0	17	94	2	84	50	16	0	34	1.45
46767792--46768142	113	3.1	111	80	7	411	26	23	19	30	1.98
46767927--46768324	188	2.1	188	94	0	688	26	23	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46768115--46768540	114	3.7	114	79	4	464	26	23	19	30	1.98
46769068--46769147	38	2.1	39	83	6	101	31	6	12	50	1.65
46771956--46772002	15	3.1	15	79	8	51	61	8	8	21	1.51
46772790--46772825	13	2.8	14	84	16	51	27	25	0	47	1.52
46772777--46772817	18	2.2	19	87	12	59	29	24	0	46	1.53
46772940--46773074	39	3.4	38	73	8	101	28	28	20	23	1.99
46773314--46773352	18	2.1	19	90	4	62	48	10	0	41	1.37
46774668--46774724	5	11.0	5	78	14	62	56	1	0	42	1.10
46774667--46774722	17	3.4	17	80	12	71	55	1	0	42	1.10
46774668--46774725	22	2.7	21	86	5	80	55	1	0	43	1.10
46777289--46777342	27	2.0	26	85	3	72	11	11	7	70	1.34
46778172--46778226	22	2.4	22	78	9	56	32	5	7	54	1.51
46779996--46780025	12	2.5	12	94	0	51	33	20	30	16	1.94
46787616--46787653	9	4.2	9	93	6	60	89	0	10	0	0.49
46787617--46787650	16	2.1	16	94	0	59	91	0	8	0	0.43
46787616--46787653	19	2.0	19	89	0	58	89	0	10	0	0.49
46791554--46791604	24	2.1	24	85	7	68	50	9	21	17	1.74
46799535--46799565	2	15.5	2	100	0	62	48	0	51	0	1.00
46800875--46801164	149	1.9	149	92	1	492	31	24	19	25	1.98
46802536--46802561	4	6.5	4	100	0	52	0	0	23	76	0.78
46812732--46812811	39	2.1	39	100	0	160	42	22	5	30	1.75
46814984--46815092	47	2.4	45	81	7	130	33	10	28	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46815163--46815247	40	2.2	40	86	2	118	17	21	31	29	1.96
46818395--46818478	26	3.2	26	96	0	150	35	23	5	34	1.80
46825741--46825829	40	2.3	38	78	5	90	32	24	16	25	1.96
46825765--46825881	41	3.0	41	73	8	116	35	23	15	26	1.94
46829183--46829250	34	2.0	33	83	8	84	50	4	4	41	1.42
46847853--46848077	107	2.1	106	94	0	387	35	5	4	54	1.45
46856068--46856106	16	2.4	16	83	8	53	56	0	2	41	1.13
46871492--46871531	21	2.0	20	85	14	55	17	0	32	50	1.47
46875269--46875850	246	2.4	245	86	7	763	36	7	11	44	1.68
46881643--46881699	18	3.2	18	92	0	96	31	17	24	26	1.97
46890322--46890462	47	3.0	46	85	1	174	30	27	17	24	1.97
46892629--46892926	52	5.9	52	85	5	321	29	28	17	24	1.97
46895700--46895733	12	2.8	12	90	0	50	20	11	50	17	1.77
46896278--46896308	13	2.4	13	94	0	53	48	3	9	38	1.52
46903936--46904057	60	2.0	60	88	0	181	26	12	29	31	1.92
46919354--46919400	24	2.0	24	87	8	69	36	4	4	55	1.39
46920938--46920982	23	2.0	22	83	8	56	57	8	8	24	1.57
46922385--46922530	47	3.1	47	83	3	168	22	17	29	30	1.97
46929612--46929637	2	13.0	2	100	0	52	50	0	50	0	1.00
46939606--46939639	18	1.9	17	94	5	59	41	0	0	58	0.98
46945111--46945147	19	1.9	20	84	15	51	62	5	16	16	1.51
46951729--46951769	21	2.0	21	90	0	64	19	29	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46958109--46958139	15	2.1	15	100	0	62	32	16	12	38	1.86
46961885--46961958	38	1.9	38	88	0	112	36	8	22	32	1.84
46988967--46988992	13	2.0	13	100	0	52	76	0	23	0	0.78
46988968--46989002	17	2.1	17	88	0	52	71	0	28	0	0.86
46991245--46991402	79	2.0	79	100	0	316	31	15	8	44	1.77
46992402--46992501	22	4.4	22	74	12	87	39	19	25	17	1.92
46992444--46992601	25	6.5	24	81	7	176	34	18	25	21	1.96
46992402--46992527	47	2.7	46	87	6	184	37	19	24	19	1.94
46992438--46992589	47	3.2	46	80	9	169	32	18	25	23	1.97
47000426--47000457	15	2.1	16	94	5	57	25	0	0	75	0.81
47000794--47000870	19	3.9	19	74	6	73	57	3	0	38	1.17
47001984--47002027	4	11.0	4	100	0	88	50	25	0	25	1.50
47003542--47003582	21	2.0	21	90	0	64	21	29	21	26	1.99
47014084--47014116	18	1.9	17	88	11	50	39	6	3	51	1.42
47017550--47017700	53	2.8	53	89	4	214	29	27	16	25	1.97
47025068--47025218	53	2.8	53	89	4	214	29	27	16	25	1.97
47039721--47039896	20	8.9	20	68	19	104	56	2	6	34	1.39
47039846--47039902	20	2.8	21	84	5	82	56	1	8	33	1.41
47040101--47040149	10	4.9	10	76	0	53	34	0	0	65	0.93
47040105--47040150	20	2.4	19	82	7	65	32	0	0	67	0.91
47040125--47040194	34	2.2	31	87	7	95	32	5	1	60	1.29
47040182--47040276	30	3.1	29	80	14	93	31	5	2	61	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47040204--47040276	10	7.2	10	74	14	53	32	5	1	60	1.28
47040230--47040281	20	2.6	21	85	11	65	36	3	0	59	1.16
47040400--47040443	17	2.4	19	85	11	56	72	0	4	22	1.02
47045923--47045968	3	15.3	3	95	0	74	63	0	36	0	0.95
47048054--47048302	124	2.0	124	97	0	471	28	22	17	31	1.96
47048353--47048423	34	2.1	34	100	0	142	38	21	16	23	1.93
47049648--47051033	479	2.9	479	98	0	2657	33	12	21	32	1.90
47054042--47054114	38	1.9	38	94	0	128	30	23	9	36	1.87
47056642--47056718	32	2.4	32	84	4	93	22	2	22	53	1.58
47058954--47059012	24	2.5	24	88	5	84	27	13	28	30	1.94
47061780--47061849	24	2.9	24	86	0	104	22	12	31	32	1.92
47063896--47063939	19	2.2	20	92	4	72	52	13	9	25	1.70
47063923--47063960	14	2.7	14	88	8	51	39	15	5	39	1.70
47066678--47066749	31	2.3	31	83	4	92	34	0	4	61	1.16
47066689--47066748	23	2.7	22	72	20	54	35	0	1	63	1.05
47066758--47066782	2	12.5	2	100	0	50	0	0	48	52	1.00
47069012--47069054	18	2.3	19	80	15	54	27	0	2	69	1.00
47069510--47069548	18	2.2	18	95	0	69	51	7	5	35	1.53
47069600--47069655	20	2.7	21	86	10	71	58	7	0	33	1.25
47074690--47074733	21	2.1	21	91	0	70	20	29	20	29	1.98
47078205--47078280	38	2.0	38	97	0	143	18	22	13	46	1.83
47092147--47092217	30	2.4	29	75	15	72	47	9	0	42	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47092591--47092615	7	3.6	7	100	0	50	44	0	0	56	0.99
47093786--47093828	13	3.2	13	83	3	59	41	6	20	30	1.79
47097819--47097853	18	1.9	18	88	11	54	28	2	8	60	1.41
47097837--47097875	19	2.0	19	85	5	51	41	0	5	53	1.23
47109369--47109406	17	2.4	17	86	8	53	39	0	5	55	1.23
47115828--47115868	9	4.2	10	76	17	50	51	0	0	48	1.00
47115831--47115874	20	2.4	18	75	17	54	47	0	0	52	1.00
47118629--47118669	18	2.3	18	95	0	73	56	0	7	36	1.27
47124520--47124559	5	8.0	5	100	0	80	40	0	0	60	0.97
47125592--47125660	27	2.4	28	79	15	79	39	36	5	18	1.75

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