genome.fa.s7.2.7.7.80.10.50.1000.14.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  14  of  290  ( 34714 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)
4144178--4144207	14	2.1	14	100	0	60	26	13	26	33	1.93
4144201--4144390	43	4.5	43	83	5	217	26	15	25	31	1.96
4147699--4148207	140	3.6	140	82	2	581	27	19	21	31	1.97
4150393--4150432	19	2.2	18	90	4	62	45	12	2	40	1.56
4155065--4155104	19	2.2	18	95	4	71	42	15	0	42	1.46
4155956--4156070	43	2.7	43	81	5	135	29	25	15	29	1.96
4164097--4164150	19	2.8	20	83	8	60	25	35	1	37	1.67
4164097--4164150	10	5.7	10	80	12	60	25	35	1	37	1.67
4164097--4164150	9	5.8	9	84	4	54	25	35	1	37	1.67
4168554--4168710	86	1.8	85	81	9	194	22	17	26	33	1.96
4168601--4168710	42	2.6	43	80	1	132	24	17	26	31	1.97
4170896--4171315	210	2.0	210	96	0	770	29	25	14	30	1.95
4172692--4172739	24	2.0	24	91	0	78	39	8	16	35	1.79
4176534--4176641	26	4.2	26	90	0	162	34	22	8	35	1.84
4182642--4182675	13	2.6	13	90	0	50	55	17	0	26	1.42
4199936--4200880	40	23.6	40	96	1	1639	23	27	22	26	1.99
4210471--4210675	43	4.8	43	78	4	207	26	16	27	29	1.97
4213125--4213154	16	1.9	16	93	6	53	50	20	0	30	1.49
4215315--4215400	25	3.4	25	91	0	145	30	22	22	25	1.99
4215315--4215421	50	2.1	50	84	0	133	31	21	21	25	1.98
4223255--4223439	79	2.3	82	83	7	229	24	27	22	24	2.00
4223236--4223439	40	5.1	40	81	8	229	24	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4231516--4231553	14	2.9	13	81	11	51	57	10	13	18	1.63
4232279--4232386	40	2.7	38	80	11	117	25	17	25	31	1.97
4240937--4241459	261	2.0	261	93	1	897	31	21	18	28	1.97
4241826--4241863	14	2.9	13	81	11	51	18	13	10	57	1.63
4243602--4243663	17	3.4	17	73	16	61	32	1	27	38	1.66
4243598--4243672	38	2.0	38	97	0	141	33	2	26	37	1.71
4243609--4243670	19	3.3	19	70	17	65	33	3	25	37	1.72
4247501--4247571	20	3.7	20	90	7	103	38	9	18	33	1.84
4247520--4247558	11	3.7	11	80	13	55	35	10	20	33	1.86
4247625--4248619	26	38.3	26	98	0	1897	27	19	23	30	1.98
4256411--4256467	9	5.8	10	76	15	57	36	8	19	35	1.83
4256410--4256484	20	3.8	20	91	6	111	37	9	18	34	1.83
4256429--4256484	11	5.5	11	71	16	57	37	10	19	32	1.86
4256529--4257327	26	30.7	26	99	0	1580	27	19	23	30	1.98
4258998--4259046	24	1.9	26	88	12	75	48	10	4	36	1.56
4259336--4259366	14	2.1	15	94	5	55	25	29	0	45	1.54
4264052--4264078	12	2.2	12	100	0	54	22	33	29	14	1.94
4266673--4266728	26	2.2	26	78	9	62	41	3	25	30	1.72
4269484--4269519	18	2.0	18	100	0	72	11	16	33	38	1.84
4269580--4269678	34	2.9	34	80	7	121	25	23	24	27	2.00
4272364--4272586	79	2.8	79	82	9	276	25	26	22	25	2.00
4272364--4272586	39	5.7	40	85	8	266	25	26	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4272364--4272584	118	1.9	119	81	13	278	24	27	22	25	2.00
4275603--4275669	34	2.0	34	90	0	107	26	32	5	34	1.81
4278772--4278865	34	2.8	34	80	7	120	23	24	25	26	2.00
4281436--4281692	43	6.0	43	80	6	236	25	17	26	30	1.97
4281452--4281675	86	2.6	86	83	4	285	26	18	26	28	1.98
4281452--4281698	84	2.9	87	80	7	292	25	17	26	29	1.97
4281860--4281903	19	2.3	18	84	7	52	47	2	15	34	1.58
4282969--4282996	2	14.0	2	100	0	56	0	0	50	50	1.00
4284729--4284781	17	3.2	16	74	10	52	26	3	7	62	1.39
4289522--4289579	29	2.0	29	100	0	116	31	13	13	41	1.84
4293358--4293448	33	2.8	33	96	0	164	31	17	25	25	1.97
4295563--4295831	46	5.7	47	78	11	225	24	30	18	26	1.98
4303240--4303455	46	4.6	46	80	12	219	23	28	19	28	1.98
4303240--4303460	94	2.4	91	82	10	252	23	28	19	28	1.98
4306602--4306679	22	3.5	22	81	6	93	25	19	19	35	1.95
4306630--4306692	24	2.5	24	85	14	92	28	20	14	36	1.92
4309065--4309163	29	3.4	29	87	2	146	26	26	20	27	1.99
4309396--4309441	24	1.9	24	90	0	74	10	21	15	52	1.73
4319443--4319522	22	3.6	22	83	8	108	25	21	18	35	1.96
4319454--4319532	23	3.4	24	84	8	92	25	22	16	35	1.95
4333332--4333365	17	2.0	17	94	0	59	29	8	41	20	1.82
4338069--4338138	32	2.2	32	84	0	86	34	24	21	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4338624--4338821	27	7.3	27	76	7	172	32	11	15	40	1.83
4338635--4338822	54	3.5	54	81	5	211	33	10	16	39	1.82
4338639--4338822	81	2.3	82	81	8	207	33	9	16	40	1.81
4340494--4340528	16	2.2	16	89	0	52	51	14	22	11	1.74
4340740--4340853	29	4.0	29	85	6	144	26	15	29	28	1.96
4340752--4340862	57	1.9	58	88	1	170	26	16	30	27	1.96
4344384--4344446	32	2.0	32	87	0	90	33	20	22	23	1.97
4344939--4345000	27	2.3	27	86	10	83	32	16	12	38	1.86
4344979--4345222	27	9.1	27	78	7	228	30	8	18	42	1.80
4344952--4345216	81	3.3	81	80	4	259	31	9	18	41	1.81
4345487--4345556	35	2.0	35	100	0	140	22	34	25	17	1.96
4350874--4351005	48	2.8	48	85	2	176	20	15	28	35	1.94
4355913--4355937	11	2.3	11	100	0	50	8	0	0	92	0.40
4359691--4359716	9	2.9	9	100	0	52	46	7	11	34	1.69
4367861--4367906	20	2.3	20	100	0	92	47	8	10	32	1.69
4371272--4371331	30	2.0	30	90	0	93	30	25	6	38	1.81
4371432--4371460	13	2.2	13	100	0	58	31	6	20	41	1.79
4381317--4381406	34	2.6	34	85	1	108	28	22	24	24	1.99
4385687--4385726	21	1.9	21	85	10	55	37	5	25	32	1.77
4387008--4387117	39	2.8	38	87	2	130	30	18	25	26	1.98
4387042--4387123	39	2.1	39	95	0	146	25	21	26	25	2.00
4403451--4403491	19	2.3	19	87	8	59	12	26	43	17	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4406104--4406145	13	3.2	13	86	3	57	54	14	2	28	1.52
4412150--4412219	27	2.6	27	95	2	113	31	28	12	27	1.93
4412150--4412247	28	3.5	28	90	2	135	31	28	13	26	1.94
4418149--4418206	28	2.1	27	96	3	107	25	10	27	36	1.89
4421078--4421153	34	2.2	34	83	0	98	32	21	19	26	1.97
4423208--4423249	13	3.2	13	86	3	57	54	14	2	28	1.52
4424662--4424701	20	1.9	22	90	10	66	40	12	7	40	1.71
4431193--4431240	20	2.4	20	92	0	78	18	33	29	18	1.95
4431202--4431244	20	2.2	20	100	0	86	13	27	34	23	1.93
4439425--4439567	40	3.6	40	93	0	232	27	23	28	20	1.99
4439425--4439594	80	2.1	80	87	1	243	26	21	28	23	1.99
4447498--4447530	16	2.0	17	88	5	50	48	6	12	33	1.65
4454404--4454625	48	4.6	48	99	0	435	35	8	27	29	1.85
4454798--4454900	37	2.8	37	93	0	170	24	19	31	25	1.98
4457797--4457833	5	7.6	5	93	6	67	18	0	0	81	0.70
4458472--4458526	16	3.4	16	73	16	51	12	10	7	69	1.37
4459841--4459874	15	2.2	16	89	5	52	50	0	5	44	1.26
4460955--4461004	24	2.1	24	96	0	91	42	0	6	52	1.26
4474065--4474271	53	3.8	54	79	6	222	23	24	17	35	1.95
4474065--4474260	108	1.8	109	83	3	261	23	24	17	34	1.96
4475840--4476065	46	4.8	48	76	14	188	27	16	30	25	1.97
4475978--4476104	50	2.6	50	84	10	163	28	18	26	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4480000--4480038	6	6.5	6	96	0	60	5	0	10	84	0.76
4486485--4486656	67	2.6	66	83	7	179	32	16	28	22	1.96
4487003--4487040	19	2.0	19	94	0	67	36	21	18	23	1.95
4489940--4489976	16	2.3	16	100	0	74	24	13	10	51	1.73
4492036--4492096	30	2.0	30	87	3	86	32	24	6	36	1.81
4498299--4498468	46	3.7	45	80	12	193	28	27	20	22	1.99
4498304--4498474	93	1.8	93	92	0	288	28	28	21	22	1.99
4498347--4498490	46	3.1	45	71	18	118	29	27	19	22	1.98
4503133--4503257	29	4.3	29	83	1	153	28	29	16	26	1.96
4520465--4520622	43	3.7	42	82	5	165	34	27	16	20	1.94

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