genome.fa.s9.2.7.7.80.10.50.1000.133.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   280   281   282   283   284   

This is table  133  of  284  ( 34012 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)
44380516--44380575	30	2.0	31	83	9	79	58	3	25	13	1.50
44388502--44388693	40	4.8	40	92	1	226	27	27	21	23	1.99
44388473--44388692	80	2.8	80	81	4	248	28	27	20	23	1.99
44402586--44402644	29	2.0	29	100	0	118	42	13	6	37	1.71
44409600--44409722	42	2.9	42	75	11	117	29	26	15	29	1.96
44413487--44413532	22	2.1	22	100	0	92	13	19	13	54	1.71
44416930--44417041	43	2.6	42	80	5	136	30	24	13	32	1.93
44421621--44421651	14	2.1	15	94	5	55	29	16	19	35	1.93
44425931--44425999	27	2.6	27	90	0	102	26	14	28	30	1.95
44430595--44430689	48	2.0	47	100	0	181	27	21	10	40	1.86
44433445--44433611	39	4.3	39	92	0	253	24	19	27	28	1.99
44433464--44433676	78	2.7	78	81	5	200	23	20	26	28	1.99
44442720--44442762	18	2.4	18	96	0	77	30	20	11	37	1.89
44450934--44450973	21	2.0	21	90	9	66	17	5	30	47	1.69
44454810--44454946	48	2.8	48	80	9	163	26	18	29	24	1.98
44457338--44457381	23	2.0	22	86	4	61	54	20	0	25	1.45
44458024--44458132	43	2.6	43	84	5	134	31	27	19	22	1.97
44458677--44458728	28	1.9	28	84	7	72	28	23	3	44	1.71
44462772--44462992	40	5.6	40	86	2	295	29	25	21	23	1.99
44462772--44462992	79	2.8	80	88	3	313	29	25	21	23	1.99
44463265--44463849	293	2.0	292	93	1	1012	33	18	10	36	1.86
44463816--44464128	158	2.0	158	95	1	565	33	20	12	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44468327--44468511	40	4.7	40	81	6	207	25	27	22	24	2.00
44475433--44475530	48	2.0	48	88	0	142	23	25	15	35	1.94
44482463--44482614	69	2.2	69	96	1	279	45	18	4	31	1.70
44485809--44485925	60	2.0	60	96	0	216	23	24	11	40	1.87
44489313--44489390	40	2.0	40	86	0	111	28	29	10	32	1.90
44494172--44494267	29	3.3	29	88	1	140	31	28	13	27	1.94
44499470--44499533	26	2.4	27	89	2	94	37	25	9	28	1.87
44499682--44499742	27	2.3	27	82	0	68	24	24	14	36	1.93
44507014--44507089	40	1.9	40	86	0	107	25	26	22	26	2.00
44506868--44507313	223	2.0	223	99	0	874	30	23	17	28	1.97
44507237--44507416	40	4.5	40	80	6	188	23	26	22	27	2.00
44507725--44507803	29	2.7	29	86	5	106	27	32	15	24	1.95
44509699--44509777	37	2.1	37	88	0	113	25	30	18	25	1.98
44509896--44510701	49	16.5	49	95	2	1439	30	29	8	32	1.87
44514172--44514257	43	2.0	43	82	8	104	26	19	26	26	1.99
44520569--44520687	62	1.9	62	89	3	186	36	13	18	31	1.89
44531262--44531369	26	4.2	26	92	0	180	31	8	24	36	1.85
44534306--44534408	51	2.0	51	88	0	152	33	17	6	41	1.76
44548863--44548915	24	2.2	24	80	6	63	35	1	45	16	1.59
44550010--44550058	19	2.5	19	87	9	64	20	20	36	22	1.95
44550462--44550535	27	2.8	26	85	2	94	18	22	22	35	1.96
44553771--44553954	64	2.8	64	80	8	212	22	29	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44556186--44556223	19	2.0	19	85	10	51	21	44	23	10	1.83
44578861--44578910	25	2.0	25	84	3	66	38	2	2	58	1.21
44580973--44581010	19	2.1	19	85	5	51	31	2	10	55	1.48
44582346--44582427	35	2.3	35	83	8	96	56	3	2	37	1.30
44582975--44583032	29	2.0	30	86	3	82	22	1	12	63	1.37
44584220--44584255	19	1.9	19	88	5	56	66	0	0	33	0.92
44584357--44584407	23	2.3	23	80	10	61	33	3	0	62	1.13
44584412--44584462	25	2.0	25	100	0	102	31	11	19	37	1.88
44585273--44585497	51	4.4	49	73	18	172	40	12	24	23	1.88
44585281--44585502	54	4.3	52	72	13	170	40	12	23	23	1.89
44585971--44585995	11	2.3	11	100	0	50	0	8	16	76	1.02
44587259--44587294	18	2.0	18	100	0	72	38	11	16	33	1.84
44592258--44592313	28	2.0	28	100	0	112	32	14	14	39	1.86
44598507--44598680	46	3.8	45	82	3	168	33	21	16	28	1.95
44598506--44598694	92	2.1	92	80	4	220	34	21	16	26	1.95
44598534--44598697	46	3.6	45	77	6	132	35	21	17	25	1.95
44600877--44600941	27	2.4	27	86	0	94	40	6	26	27	1.80
44608224--44608274	20	2.5	20	84	6	59	25	0	11	62	1.29
44616270--44616454	79	2.3	82	83	7	229	24	27	22	24	2.00
44616251--44616454	40	5.1	40	81	8	229	24	27	22	25	2.00
44621821--44621894	29	2.6	29	89	4	105	25	16	32	25	1.96
44624287--44624379	28	3.3	28	92	0	141	33	11	25	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44624287--44624394	28	3.9	28	88	0	135	34	12	24	29	1.91
44624610--44624714	40	2.6	40	76	1	111	26	20	29	23	1.99
44630254--44630326	26	2.8	25	80	15	85	34	19	10	35	1.87
44635936--44636075	48	2.9	48	82	2	183	20	16	32	31	1.94
44648838--44648876	20	1.9	20	84	5	51	35	7	10	46	1.67
44655803--44655827	12	2.1	12	100	0	50	52	8	0	40	1.31
44655802--44655831	14	2.1	14	93	0	51	50	10	0	40	1.36
44656278--44656371	28	3.4	28	89	2	127	27	12	27	31	1.93
44656306--44656388	27	3.0	27	85	5	78	30	13	25	31	1.93
44662435--44662519	41	2.1	41	97	2	163	35	22	11	30	1.90
44670323--44670430	38	2.8	38	85	0	144	27	25	24	23	2.00
44691436--44691623	48	4.1	48	67	15	139	30	23	18	27	1.98
44691443--44691642	42	4.6	43	71	13	133	30	22	18	29	1.97
44693658--44693760	36	2.9	35	76	5	107	28	22	23	26	1.99
44695668--44695744	40	1.9	40	100	0	154	36	15	9	38	1.79
44698168--44698218	25	2.0	25	96	0	93	29	31	13	25	1.94
44700269--44700311	12	3.6	12	87	0	59	13	20	0	65	1.27
44700405--44700461	13	3.9	14	80	17	55	5	19	5	70	1.26
44701289--44701335	16	2.8	17	90	6	69	19	10	4	65	1.39
44701289--44701346	17	3.5	17	88	6	75	15	12	3	68	1.32
44724472--44724689	47	4.7	46	75	10	160	27	20	28	22	1.98
44724472--44724742	94	2.9	91	77	8	253	28	19	28	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44725427--44725451	13	1.9	13	100	0	50	28	24	32	16	1.96
44731938--44732117	49	3.7	47	79	8	202	26	21	28	22	1.99
44734054--44734161	37	2.9	37	91	0	180	26	29	21	22	1.99
44734280--44734501	47	4.7	49	86	5	312	27	30	8	33	1.87
44734280--44734501	96	2.3	96	93	1	376	27	30	8	33	1.87
44738045--44738189	57	2.5	58	78	4	141	33	22	16	28	1.95
44740174--44740210	19	1.9	19	88	0	56	29	5	8	56	1.51
44740492--44740536	21	2.1	22	83	4	56	46	11	8	33	1.70
44743726--44743859	32	4.1	32	84	6	144	32	11	20	35	1.88
44743726--44743859	65	2.1	65	81	5	155	32	11	20	35	1.88
44748945--44749042	27	3.5	28	87	2	126	27	13	27	31	1.94
44748973--44749055	27	3.0	27	85	5	87	31	12	24	32	1.91
44748945--44749056	28	4.0	27	81	6	89	29	12	25	33	1.92
44751840--44752049	40	5.3	39	89	4	242	25	21	27	25	1.99
44751787--44752049	120	2.2	120	82	4	309	25	21	27	25	1.99
44751788--44752084	80	3.7	80	81	6	230	26	21	27	24	1.99
44759977--44760090	59	1.9	59	85	3	158	35	17	20	27	1.95
44763709--44763870	67	2.5	66	80	6	186	29	14	32	24	1.95
44764228--44764253	13	2.0	13	100	0	52	30	0	7	61	1.24
44765673--44765714	21	2.0	21	95	0	75	19	14	26	40	1.89
44765633--44765754	61	2.0	61	96	0	226	21	18	27	32	1.97
44765694--44765854	40	4.1	40	88	2	236	22	21	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44765694--44765854	80	2.0	79	91	3	261	22	21	26	28	1.99
44781996--44782029	17	1.9	18	88	5	52	26	0	2	70	1.01
44782208--44782364	83	1.9	83	81	3	192	37	7	8	46	1.63
44782412--44782437	2	13.0	2	100	0	52	50	0	0	50	1.00
44784606--44784661	27	2.1	26	87	9	78	37	17	10	33	1.85
44789962--44790001	11	3.7	11	80	6	55	12	7	5	75	1.18
44789988--44790021	17	2.1	16	88	5	50	20	14	5	58	1.57
44791331--44791386	27	2.1	26	87	9	78	37	17	10	33	1.85
44791833--44791903	16	4.4	16	85	0	88	42	5	23	28	1.77
44792073--44792113	14	3.1	14	79	10	50	58	0	0	41	0.98

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   280   281   282   283   284