genome.fa.s25.2.7.7.80.10.50.1000.123.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  123  of  297  ( 35593 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)
43396246--43396281	9	4.0	9	88	0	54	38	0	5	55	1.23
43399789--43400033	129	1.9	129	83	3	314	33	22	19	25	1.97
43399774--43400030	86	3.0	85	76	7	259	33	22	19	24	1.97
43399761--43400033	43	6.3	43	77	6	223	34	22	18	24	1.96
43400335--43400377	21	2.0	21	90	0	68	2	51	16	30	1.57
43400933--43400970	19	2.1	18	85	9	51	52	0	7	39	1.31
43406526--43406565	21	1.9	21	94	0	71	47	12	10	30	1.74
43406909--43407256	132	2.6	132	100	0	696	43	12	9	34	1.74
43407250--43407289	21	1.9	21	94	0	71	47	12	10	30	1.74
43406449--43407827	724	1.9	738	94	4	2453	42	11	10	35	1.76
43409962--43410067	51	2.1	51	82	7	126	52	2	14	30	1.55
43412766--43412816	12	4.3	11	79	16	57	39	1	0	58	1.09
43412805--43412836	15	2.1	15	94	0	55	31	9	0	59	1.29
43413687--43413728	14	3.0	14	89	0	57	47	21	0	30	1.51
43413886--43414005	41	2.9	41	96	0	222	15	27	24	32	1.96
43415270--43415517	128	1.9	128	90	0	397	24	18	32	24	1.97
43415269--43415517	43	5.8	43	88	0	374	24	18	32	24	1.97
43421544--43421671	9	13.6	9	76	9	121	31	0	21	46	1.57
43421544--43421671	57	2.2	57	84	0	166	31	0	21	46	1.57
43422350--43422399	23	2.2	23	100	0	100	34	16	16	34	1.90
43424889--43424918	14	2.1	15	93	6	53	36	0	13	50	1.42
43425211--43425454	122	2.0	122	97	0	461	43	15	20	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43427354--43427613	41	6.6	40	72	15	193	26	18	23	31	1.98
43427389--43427529	72	2.0	71	83	4	176	27	17	24	31	1.97
43427461--43427613	40	3.8	40	80	8	166	24	18	23	32	1.97
43427367--43427572	112	1.8	114	84	3	281	28	18	22	31	1.97
43427763--43427844	43	1.9	42	82	9	103	57	10	2	29	1.46
43428210--43428351	7	19.1	7	70	20	60	64	2	2	29	1.22
43428211--43428267	29	1.9	29	89	10	89	61	0	3	35	1.13
43428231--43428313	26	3.3	25	77	14	82	61	1	4	32	1.25
43428265--43428320	26	2.2	26	80	6	60	64	3	3	28	1.27
43428377--43428441	25	2.7	24	75	15	64	63	0	1	35	1.04
43430910--43430936	13	2.1	13	100	0	54	59	25	0	14	1.36
43435299--43435364	30	2.2	31	91	5	116	31	19	3	45	1.66
43435330--43436945	626	2.6	619	88	4	2336	34	17	14	33	1.90
43438649--43438712	18	3.6	18	76	16	78	39	14	4	42	1.66
43438644--43438718	36	2.1	36	97	0	141	45	13	5	36	1.66
43439268--43439308	17	2.4	17	88	8	57	53	0	0	46	1.00
43442982--43443015	13	2.6	13	90	0	50	41	11	8	38	1.73
43444083--43444117	17	2.1	17	100	0	70	22	5	25	45	1.74
43444085--43444123	17	2.4	16	91	8	62	25	5	23	46	1.73
43450011--43450059	19	2.4	21	76	13	57	69	2	4	24	1.17
43450019--43450069	20	2.6	20	84	9	61	68	0	3	27	1.07
43450092--43450149	17	3.5	17	83	6	66	43	3	27	25	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43452421--43452450	15	2.0	15	93	0	51	0	23	0	76	0.78
43454067--43454219	46	3.3	46	77	5	166	41	18	12	27	1.86
43459210--43459264	27	2.0	27	96	0	101	25	20	3	50	1.64
43461899--43461964	33	2.0	34	91	5	109	21	39	22	16	1.92
43468105--43468186	26	3.2	26	94	3	139	35	24	7	32	1.83
43472398--43472446	15	3.3	15	82	5	73	51	6	0	42	1.27
43472398--43472453	14	3.9	14	76	6	58	48	8	0	42	1.34
43472398--43472462	29	2.2	31	86	5	89	49	10	0	40	1.38
43478329--43478368	10	3.9	10	87	6	62	32	17	17	32	1.93
43478328--43478368	21	2.0	21	95	0	73	34	17	17	31	1.93
43478413--43478482	25	2.8	25	88	0	104	28	25	21	24	1.99
43478463--43478509	25	2.0	24	83	8	60	29	21	23	25	1.99
43480621--43480760	27	5.2	27	77	11	153	17	22	23	36	1.95
43480617--43480760	54	2.7	54	88	6	220	16	22	23	36	1.94
43481338--43481421	31	2.7	31	90	1	134	34	17	23	23	1.96
43483063--43483269	46	4.6	45	81	4	222	32	20	15	30	1.94
43483081--43483150	23	3.0	23	62	15	54	35	15	14	34	1.88
43483149--43483214	21	3.0	21	72	8	69	31	24	13	30	1.94
43487810--43487868	16	3.6	16	82	8	66	69	0	6	23	1.12
43487807--43487854	21	2.3	21	85	7	62	70	0	8	20	1.12
43490053--43490138	41	2.1	41	97	0	163	33	6	33	25	1.83
43494940--43495037	47	2.0	51	82	13	125	24	9	3	63	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43495128--43495182	14	3.8	13	80	17	56	29	7	0	63	1.21
43495459--43495548	3	28.3	3	75	14	74	28	5	2	63	1.29
43495487--43495567	6	11.9	7	73	21	50	32	4	0	62	1.16
43496018--43496091	3	25.0	3	75	8	62	32	8	1	58	1.36
43508109--43508195	43	2.0	44	88	2	131	35	21	20	21	1.96
43508334--43508446	42	2.6	42	81	2	118	38	22	18	21	1.94
43513104--43513214	47	2.4	47	80	6	127	36	21	15	26	1.93
43514466--43514512	5	9.6	5	77	13	53	76	2	0	21	0.89
43517777--43518034	46	5.6	46	75	4	180	48	13	18	18	1.80
43520580--43520611	13	2.5	13	94	0	55	31	0	12	56	1.37
43520706--43520947	50	4.7	50	85	3	304	26	24	28	19	1.99
43520706--43520955	100	2.4	103	88	5	371	26	24	28	20	1.99
43523420--43523467	26	1.9	24	87	8	69	64	6	0	29	1.18
43524971--43525014	18	2.4	18	84	0	61	45	4	50	0	1.22
43534827--43535241	116	3.6	116	100	0	830	43	11	9	35	1.73
43535992--43536095	39	2.6	39	87	1	145	39	19	24	17	1.92
43538686--43538726	16	2.6	16	80	11	57	34	0	2	63	1.08
43539415--43539452	14	2.7	14	91	0	58	50	2	7	39	1.46
43543268--43543349	41	2.0	41	97	0	155	42	26	15	14	1.86
43559880--43560433	45	12.4	44	67	14	170	29	21	18	29	1.97
43560003--43560391	89	4.3	89	74	8	311	29	23	18	28	1.98
43559730--43560391	44	14.7	44	68	12	263	29	22	18	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43559769--43560349	317	1.8	316	86	1	840	29	21	18	30	1.97
43560000--43560662	45	14.8	45	68	11	119	28	22	19	29	1.98
43560732--43560923	64	3.0	64	88	1	251	37	17	17	28	1.92
43561669--43561771	53	2.0	52	90	1	161	53	9	14	22	1.70
43571301--43571428	35	3.5	35	88	5	166	34	25	9	30	1.88
43578771--43578897	35	3.6	35	86	4	159	33	25	12	28	1.92
43580808--43580909	24	4.0	24	77	16	82	60	3	2	32	1.30
43582430--43582487	29	2.0	29	90	6	91	55	10	24	10	1.65
43591447--43591505	17	3.4	17	74	21	68	32	3	3	61	1.29
43591443--43591513	35	2.0	35	100	0	142	32	2	5	59	1.35
43601481--43602064	289	2.0	289	99	0	1150	36	15	17	29	1.91
43602928--43603885	141	6.9	140	85	3	1075	27	15	22	33	1.95
43602950--43603885	281	3.4	277	84	3	1084	27	15	22	33	1.95
43602946--43603779	422	2.0	421	86	4	1162	27	16	22	33	1.95
43604035--43604111	7	11.4	7	79	8	61	20	0	37	41	1.53
43605111--43605172	29	2.1	29	96	0	115	29	16	16	38	1.90
43615828--43615961	46	3.0	44	82	6	144	35	12	23	27	1.91
43615828--43615942	44	2.6	45	84	5	144	36	13	22	27	1.91
43628080--43628142	18	3.3	18	68	12	54	15	25	23	34	1.95
43630570--43630656	45	1.9	45	92	0	147	32	8	19	40	1.81
43631054--43631144	36	2.5	37	82	8	114	28	17	13	40	1.87
43631085--43631153	37	1.9	35	85	5	93	26	14	13	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43631012--43631480	73	6.4	73	78	2	377	28	20	14	36	1.92
43631053--43631433	146	2.6	145	83	3	426	27	20	14	37	1.92
43631194--43631469	38	7.5	37	76	10	154	27	21	15	35	1.94
43631099--43631500	220	1.8	219	80	3	486	27	20	15	36	1.93
43632395--43632475	26	3.1	25	77	7	81	27	11	4	56	1.54
43633924--43633962	18	2.0	20	90	9	64	46	5	5	43	1.48
43638878--43638928	23	2.2	23	86	6	68	43	9	0	47	1.36
43639193--43639234	21	2.0	21	90	0	66	42	0	0	57	0.99
43665621--43665652	16	2.0	16	93	0	55	25	34	6	34	1.81
43676698--43676737	15	2.7	15	81	14	55	25	27	2	45	1.66

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297