genome.fa.s7.2.7.7.80.10.50.1000.229.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  229  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)
79150130--79150404	135	2.0	135	97	0	516	22	10	29	36	1.89
79155323--79155402	42	1.9	42	97	0	151	26	21	31	21	1.98
79165213--79165294	24	3.2	27	60	19	66	31	19	7	41	1.79
79166129--79166193	32	2.0	32	93	0	112	16	9	27	46	1.78
79166262--79166431	40	4.3	40	85	0	207	24	30	21	23	1.99
79167345--79167421	39	2.0	39	94	0	136	32	32	10	24	1.89
79173794--79174058	40	6.7	40	85	5	277	26	28	21	24	1.99
79173761--79174058	80	3.7	80	78	9	245	25	28	21	25	1.99
79173990--79174067	40	1.9	41	82	10	97	26	28	20	24	1.99
79182284--79182317	15	2.3	15	89	0	50	26	38	11	23	1.89
79187810--79187849	21	2.0	20	85	5	53	37	2	20	40	1.66
79188489--79188638	43	3.5	44	85	8	202	25	18	25	30	1.98
79199964--79200062	22	4.4	23	81	11	116	25	21	19	34	1.96
79199964--79200062	45	2.2	45	82	7	121	25	21	19	34	1.96
79205127--79205238	26	4.3	26	70	10	75	22	12	25	39	1.89
79208601--79208903	40	7.6	40	89	2	405	27	27	20	24	1.99
79226699--79226882	40	4.5	42	84	7	229	26	26	22	24	2.00
79226724--79226876	83	1.8	83	90	2	245	25	28	22	23	1.99
79229973--79230071	29	3.4	29	76	2	101	27	14	25	33	1.94
79231381--79231500	43	2.9	41	77	13	118	25	21	26	26	2.00
79231376--79231500	42	3.0	41	77	12	128	26	20	26	26	1.99
79231381--79231537	85	1.8	85	84	8	212	27	21	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79233617--79233684	22	3.1	22	91	0	118	33	25	13	27	1.93
79235199--79235238	16	2.5	16	84	11	55	55	2	0	42	1.13
79235365--79235437	32	2.3	31	83	4	92	46	8	4	41	1.53
79235515--79235675	82	1.9	83	92	3	270	24	13	9	52	1.70
79236082--79236120	20	2.0	20	84	0	51	30	17	12	38	1.88
79249837--79249878	14	2.9	14	85	3	57	33	2	0	64	1.07
79249837--79249870	10	3.5	10	88	8	52	32	0	0	67	0.91
79253042--79253216	46	3.8	46	76	13	187	28	28	21	22	1.99
79253049--79253220	93	1.8	93	93	0	299	27	27	21	22	1.99
79258202--79258291	45	2.0	44	95	2	162	27	26	18	25	1.98
79266154--79266308	42	3.7	42	85	3	195	30	23	15	30	1.95
79266154--79266308	85	1.8	84	84	4	213	30	23	15	30	1.95
79269658--79269733	37	2.1	37	94	0	134	42	22	10	25	1.85
79271140--79271476	182	1.9	182	96	0	620	25	10	28	35	1.90
79272812--79272871	27	2.3	27	79	2	68	21	21	20	36	1.95
79275522--79275583	31	2.0	32	87	3	90	20	24	19	35	1.96
79280959--79281084	46	2.7	46	95	2	218	20	21	27	30	1.98
79288496--79288671	46	3.8	46	79	12	216	20	21	29	28	1.98
79288493--79288664	93	1.8	93	96	0	317	20	21	29	27	1.98
79292005--79292321	47	6.7	49	73	13	236	23	29	20	26	1.98
79292005--79292318	94	3.3	95	78	10	331	23	29	19	26	1.98
79294169--79294323	42	3.7	42	86	3	204	30	23	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79294169--79294323	85	1.8	84	84	4	213	30	23	16	29	1.96
79300723--79300761	19	2.2	18	86	9	53	43	12	0	43	1.42
79305506--79305637	64	2.1	64	97	1	248	32	4	21	41	1.73
79307958--79308135	40	4.5	41	82	8	208	25	28	22	23	1.99
79314531--79314694	42	3.9	40	77	7	148	31	14	24	29	1.95
79314748--79314782	12	2.9	12	86	0	52	34	14	25	25	1.94
79316578--79316607	13	2.3	13	100	0	60	40	6	20	33	1.78
79318040--79318068	14	2.0	15	93	6	51	27	0	20	51	1.47
79319159--79319271	45	2.5	45	88	0	154	23	15	23	36	1.94
79319166--79319299	45	3.0	45	85	0	151	22	15	23	38	1.93
79319159--79319311	45	3.4	44	83	1	144	22	14	24	37	1.92
79326997--79327230	45	5.2	45	86	0	306	24	16	26	32	1.96
79330027--79330078	27	2.0	26	88	3	77	17	25	21	36	1.94
79332840--79333062	40	5.6	40	86	3	245	24	20	27	26	1.99
79332915--79333097	79	2.3	80	82	1	226	25	20	27	25	1.99
79335614--79335651	19	2.0	19	89	0	58	31	10	23	34	1.89
79337585--79337623	21	1.9	20	89	5	60	46	20	0	33	1.51
79337692--79337717	10	2.6	10	100	0	52	19	30	26	23	1.98
79342357--79342501	27	5.4	27	85	0	182	26	20	17	35	1.95
79344663--79344763	51	2.0	50	88	3	141	20	17	18	41	1.89
79349094--79349204	43	2.6	43	75	12	104	28	19	22	28	1.98
79356423--79356472	4	12.5	4	91	0	82	26	4	24	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79368705--79368770	21	3.2	21	73	4	71	39	15	1	43	1.55
79368694--79368775	41	2.0	41	97	0	155	41	13	1	43	1.51
79368703--79368767	20	3.2	20	70	12	60	41	13	1	43	1.54
79374686--79374719	17	1.9	18	94	5	61	35	5	5	52	1.50
79379707--79379751	19	2.3	20	82	17	60	31	2	4	62	1.27
79406936--79407230	148	2.0	148	95	0	527	20	24	16	38	1.92
79414485--79414543	24	2.5	24	88	0	91	32	16	20	30	1.95
79414365--79414622	130	2.0	129	82	0	318	31	15	17	36	1.90
79420579--79420612	9	4.0	8	88	11	50	23	23	0	52	1.47
79420579--79420612	4	8.0	4	87	12	50	23	23	0	52	1.47
79420579--79420616	13	2.9	13	100	0	76	23	21	0	55	1.44
79422794--79423248	47	9.7	45	74	13	357	28	20	29	22	1.98
79422797--79423248	94	4.8	93	87	7	587	28	20	28	22	1.98
79422794--79423248	141	3.2	138	76	11	401	28	20	29	22	1.98
79425992--79426253	47	5.6	47	74	12	270	27	29	19	23	1.98
79425946--79426302	93	3.8	93	97	0	653	28	29	19	22	1.98
79425938--79426298	46	7.8	45	74	12	311	28	29	19	22	1.98
79427729--79427997	48	5.6	47	88	5	371	26	17	29	26	1.98
79427729--79427997	96	2.8	96	91	1	423	26	17	29	26	1.98
79427729--79427994	144	1.8	144	88	4	410	26	17	29	26	1.98
79429284--79429344	27	2.3	26	82	2	68	37	19	21	21	1.94
79430032--79430085	26	2.0	27	86	10	76	35	16	24	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79430086--79430285	27	7.4	27	86	0	256	25	23	19	33	1.97
79432653--79432836	40	4.6	41	79	8	173	33	23	15	27	1.95
79434336--79434635	150	2.0	150	100	0	600	32	21	13	32	1.92
79434597--79434675	37	2.1	37	88	4	115	25	30	18	25	1.98
79434794--79435050	47	5.5	47	93	0	397	27	29	9	33	1.88
79448662--79448843	27	6.7	27	85	7	228	41	17	15	25	1.89
79448662--79448839	81	2.2	80	88	6	261	41	17	15	24	1.89
79458447--79458479	15	2.1	16	88	5	50	66	0	12	21	1.23
79460180--79460294	31	3.7	31	95	1	205	27	26	16	28	1.97
79460515--79460585	25	2.8	26	89	6	101	25	26	23	23	2.00
79462454--79462588	40	3.3	40	80	7	157	24	22	28	25	1.99
79464314--79464434	27	4.4	27	79	10	104	32	7	17	42	1.77
79464389--79464549	27	6.1	26	78	7	148	29	9	19	41	1.83
79464307--79464497	56	3.5	54	74	11	140	31	9	17	41	1.81
79464400--79464521	53	2.3	53	83	5	174	29	8	20	41	1.81
79464411--79464551	53	2.7	53	82	4	142	30	11	17	40	1.85
79464373--79464549	80	2.2	81	78	14	206	28	9	19	42	1.82
79464557--79464750	27	7.2	27	89	0	235	38	7	24	28	1.83
79464557--79464750	81	2.4	81	88	0	271	38	7	24	28	1.83
79468077--79468112	15	2.4	15	95	0	63	52	8	19	19	1.70
79471702--79471736	15	2.2	16	90	5	54	68	0	11	20	1.20
79476165--79476231	29	2.3	29	86	0	98	25	16	28	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79491606--79491650	23	2.0	23	95	0	81	26	24	22	26	2.00
79495918--79496796	28	31.5	28	97	0	1579	31	28	14	25	1.95
79497120--79497370	104	2.4	103	84	6	258	42	19	6	31	1.77
79500011--79500340	27	12.3	27	91	0	491	25	21	20	33	1.97
79500324--79500502	54	3.3	53	73	6	128	28	7	21	41	1.81
79500327--79500477	81	1.9	81	83	2	196	28	7	20	43	1.80
79500442--79500502	26	2.3	26	85	2	77	26	6	24	42	1.79
79500325--79500502	27	6.7	26	74	8	115	28	7	21	42	1.81
79509666--79509692	13	2.1	13	100	0	54	14	22	22	40	1.90
79511071--79511332	28	9.4	28	91	1	384	32	29	13	24	1.93

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