genome.fa.s9.2.7.7.80.10.50.1000.169.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  169  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)
56754190--56754284	40	2.4	40	85	0	127	22	16	25	35	1.95
56761227--56761345	47	2.5	47	87	0	166	27	31	8	32	1.86
56761570--56761661	39	2.3	39	88	5	132	25	28	22	23	2.00
56761551--56761711	40	4.1	40	79	10	170	24	27	22	25	2.00
56764206--56764283	39	2.0	39	100	0	156	25	23	2	48	1.63
56767310--56767436	39	3.3	39	85	2	175	31	18	26	23	1.97
56767309--56767462	77	2.0	76	82	3	184	30	19	27	22	1.98
56774989--56775152	42	3.9	42	80	9	172	28	14	28	28	1.95
56782471--56782633	42	3.9	42	79	7	170	28	12	26	31	1.92
56784833--56784951	54	2.2	55	92	3	204	38	20	3	37	1.69
56786328--56786468	27	5.2	27	83	5	151	26	14	19	39	1.91
56786451--56786739	27	10.7	27	82	5	318	29	7	22	41	1.80
56786326--56786495	81	2.1	81	78	4	182	27	12	19	40	1.88
56790863--56790902	21	2.0	20	85	5	53	20	2	27	50	1.61
56790943--56791249	141	2.2	141	96	0	560	37	6	22	33	1.81
56793314--56793477	42	3.9	42	82	9	181	28	14	28	28	1.95
56793322--56793477	85	1.8	84	84	4	215	28	14	28	28	1.95
56793978--56794377	200	2.0	200	99	0	791	26	6	27	40	1.79
56797624--56797732	54	2.0	54	98	0	209	38	28	3	29	1.74
56797883--56798101	40	5.5	40	81	6	214	26	26	20	26	1.99
56802278--56802502	40	5.7	40	88	3	285	28	28	19	22	1.98
56809930--56810189	129	2.0	127	93	1	439	42	7	18	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56822647--56822840	47	4.1	47	88	0	271	33	11	28	26	1.91
56822720--56822796	25	3.2	25	63	29	67	28	14	33	23	1.94
56822667--56822977	94	3.3	94	81	8	267	35	9	27	27	1.89
56822811--56822993	98	1.9	95	87	5	269	36	6	26	31	1.82
56822810--56822993	48	3.8	48	85	6	264	35	6	26	31	1.82
56823139--56823210	37	1.9	37	91	0	117	23	19	29	27	1.98
56828929--56828961	9	3.8	9	92	8	59	54	21	12	12	1.69
56828927--56828961	17	2.1	17	100	0	70	51	25	11	11	1.71
56831178--56831279	43	2.4	43	85	1	116	24	16	28	30	1.97
56831194--56831279	43	2.0	43	88	0	127	24	18	29	27	1.98
56841071--56841156	43	2.0	43	93	0	145	23	19	29	27	1.98
56849191--56849343	28	5.5	28	89	1	220	32	28	13	25	1.94
56849191--56849343	83	1.8	83	87	2	227	32	28	13	25	1.94
56854126--56854291	89	1.9	90	88	1	253	39	16	18	24	1.91
56854122--56854291	45	3.8	45	86	1	234	39	17	19	24	1.92
56854126--56854322	89	2.2	89	82	5	227	41	16	18	23	1.90
56854171--56854423	45	5.6	45	78	8	149	41	16	20	20	1.90
56857746--56858059	48	6.5	48	80	7	307	29	18	28	23	1.98
56857743--56858059	96	3.3	95	83	5	381	29	18	29	23	1.98
56857746--56858059	144	2.2	144	82	3	380	29	18	28	23	1.98
56866438--56866568	65	2.0	65	93	0	226	35	16	12	35	1.87
56878265--56878526	39	6.7	40	85	7	301	25	22	27	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56878317--56878559	78	3.1	79	84	7	239	26	21	27	24	1.99
56879314--56879371	29	2.0	29	100	0	116	51	10	10	27	1.68
56883915--56884075	47	3.4	47	81	10	195	22	29	16	31	1.96
56886175--56886247	35	2.1	35	94	0	128	36	10	24	27	1.89
56891824--56892085	39	6.7	40	87	7	328	25	22	27	24	2.00
56895143--56895200	29	2.0	29	100	0	116	51	10	10	27	1.68
56899227--56899441	45	4.8	45	82	0	250	38	15	19	26	1.91
56899274--56899464	90	2.1	90	82	3	224	40	14	19	25	1.90
56899421--56899610	45	4.2	43	76	11	141	45	11	20	22	1.83
56899227--56899480	135	1.9	135	81	3	314	40	14	18	25	1.90
56899498--56899610	45	2.5	45	91	0	181	46	11	19	23	1.82
56901843--56901985	70	2.0	70	87	2	207	33	30	10	25	1.89
56926528--56926579	24	2.1	25	89	10	81	11	25	11	51	1.71
56928214--56928365	40	3.8	40	89	2	207	25	28	21	24	1.99
56931548--56931716	43	4.0	43	75	9	166	28	28	18	24	1.98
56932844--56932872	14	2.0	15	93	6	51	51	20	0	27	1.47
56937402--56937515	38	2.8	40	82	5	133	28	16	27	27	1.97
56937347--56937522	42	4.1	42	76	10	130	28	14	27	28	1.95
56941058--56941104	19	2.3	19	85	10	58	25	10	14	48	1.76
56947787--56947839	26	2.0	26	85	3	70	26	20	24	28	1.99
56948098--56948185	32	2.8	32	83	0	104	23	19	27	29	1.98
56956416--56956609	50	3.9	49	74	6	158	25	17	27	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56959616--56959680	15	4.5	15	77	12	73	9	13	13	63	1.53
56961817--56961994	50	3.6	49	81	7	198	25	18	26	28	1.98
56965013--56965077	15	4.5	15	77	12	73	9	13	13	63	1.53
56967214--56967391	50	3.6	49	81	7	198	25	18	26	28	1.98
56970499--56970781	50	5.6	50	80	3	307	32	26	16	24	1.97
56970499--56970779	101	2.8	100	81	2	319	32	26	16	24	1.96
56972992--56973051	30	2.0	30	87	6	86	28	25	6	40	1.80
56980063--56980139	22	3.5	22	89	5	111	25	25	18	29	1.98
56980063--56980189	22	5.4	23	78	10	89	27	25	15	31	1.96
56990242--56990267	13	2.0	13	100	0	52	38	15	7	38	1.76
56991562--56991614	26	2.0	26	92	0	88	22	24	9	43	1.83
56992229--56992262	18	1.9	18	88	5	52	35	29	11	23	1.90
56993509--56993587	40	2.0	39	85	2	104	27	31	22	17	1.97
56998807--56999730	49	19.0	49	98	0	1743	30	8	30	29	1.87
56999851--56999929	37	2.1	37	85	0	104	25	17	30	26	1.97
57002995--57003121	47	2.7	48	78	14	149	29	29	18	22	1.97
57017063--57017125	27	2.3	27	86	5	92	28	9	19	42	1.82
57022992--57023024	5	6.4	5	96	3	57	78	3	0	18	0.87
57043617--57043692	24	3.2	24	88	0	116	34	2	39	23	1.69
57045057--57045167	27	4.1	27	89	1	152	16	24	21	37	1.93
57051431--57051531	24	4.2	24	89	5	150	31	1	41	24	1.66
57052156--57052406	123	2.0	123	99	0	493	26	11	30	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57053059--57053163	27	3.9	27	82	5	115	18	23	20	37	1.94
57053059--57053167	54	2.0	53	84	5	139	17	23	20	38	1.93
57054286--57054459	83	2.1	82	96	2	330	28	7	25	37	1.83
57058781--57058936	40	3.9	40	89	2	226	27	27	22	22	1.99
57066660--57066863	40	5.1	40	91	1	304	29	28	20	21	1.98
57070381--57070642	39	6.7	40	88	7	337	24	27	22	25	2.00
57074050--57074111	31	2.0	31	96	0	115	22	27	22	27	1.99
57074271--57074669	202	2.0	202	89	2	622	28	22	20	28	1.99
57078222--57078483	39	6.7	40	88	7	337	24	27	22	25	2.00
57089372--57089430	30	1.9	31	89	3	93	40	8	22	28	1.83
57095340--57095470	46	2.8	49	75	11	139	30	28	17	23	1.97
57098952--57099566	307	2.0	307	99	0	1221	34	12	18	34	1.88
57106959--57107010	23	2.3	23	100	0	104	61	15	5	17	1.52
57110620--57110882	40	6.6	40	88	3	325	24	20	27	26	1.99
57110659--57110917	80	3.3	80	85	3	256	25	20	27	25	1.99
57119457--57119804	40	8.7	40	97	0	651	30	20	27	22	1.98
57130082--57130106	13	1.9	13	100	0	50	24	24	8	44	1.80
57135364--57135458	24	3.8	25	85	9	113	26	23	24	26	2.00
57143400--57143470	25	2.8	27	83	8	87	26	21	22	29	1.99
57150541--57150604	33	1.9	33	87	0	92	25	23	21	29	1.99
57150787--57150841	27	2.0	27	85	0	74	40	16	21	21	1.91
57150983--57151047	27	2.4	27	89	0	94	30	21	13	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57151004--57151293	27	10.6	27	81	6	334	24	22	18	34	1.96
57151178--57151240	32	2.0	31	84	3	81	23	26	14	34	1.93
57157877--57158037	35	4.6	35	79	3	173	26	9	21	42	1.83
57162517--57162541	13	1.9	13	100	0	50	44	0	8	48	1.32
57165877--57165926	24	2.1	24	96	0	91	38	32	26	4	1.75
57167948--57168025	5	15.8	5	72	19	58	16	2	2	78	0.98
57167943--57167993	13	3.7	13	82	10	57	13	0	3	82	0.81
57167943--57168005	29	2.2	28	91	5	99	14	1	3	80	0.90
57167946--57168026	40	2.0	41	85	7	112	16	2	3	77	1.01
57178020--57178149	50	2.6	49	86	3	172	23	16	30	30	1.96

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