genome.fa.s9.2.7.7.80.10.50.1000.97.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  97  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)
32117551--32117595	21	2.0	23	83	8	58	51	2	2	44	1.26
32118196--32118279	43	1.9	44	92	2	143	36	9	2	51	1.48
32119087--32119135	23	2.1	24	88	3	73	36	0	2	61	1.08
32119087--32119137	22	2.3	23	83	10	61	39	0	1	58	1.09
32119109--32119173	29	2.2	30	86	2	87	35	0	6	58	1.23
32122683--32122863	63	2.9	63	78	4	213	30	32	6	30	1.83
32123584--32123663	39	2.1	39	97	0	151	30	26	12	31	1.93
32130113--32130160	20	2.3	22	75	17	57	50	0	2	47	1.12
32130122--32130161	20	2.0	20	90	4	64	50	0	2	47	1.14
32133342--32133491	61	2.5	60	86	8	205	38	11	24	26	1.89
32135987--32136061	28	2.6	29	78	8	80	68	2	5	24	1.24
32135995--32136064	20	3.6	19	77	14	63	67	1	5	25	1.21
32136624--32136665	22	1.9	22	90	0	66	9	14	16	59	1.60
32136629--32136673	22	2.0	22	86	0	63	13	15	15	55	1.69
32137993--32138027	14	2.5	14	90	0	52	51	8	11	28	1.67
32139134--32139172	12	3.5	11	86	10	53	53	0	0	46	1.00
32139683--32139742	31	1.9	31	89	0	93	38	8	23	30	1.84
32144708--32144751	21	2.1	21	91	0	70	29	20	29	20	1.98
32147279--32147307	4	7.2	4	100	0	58	75	0	24	0	0.80
32152726--32152766	19	2.2	20	86	8	59	39	2	4	53	1.35
32159546--32159724	96	1.9	96	82	6	229	44	19	13	22	1.85
32160290--32160335	4	12.8	4	82	17	57	78	0	21	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32160284--32160331	10	4.7	10	82	12	62	79	0	20	0	0.74
32160281--32160334	21	2.6	21	91	2	83	79	0	20	0	0.73
32160285--32160334	7	7.3	7	88	2	75	78	0	22	0	0.76
32164653--32164684	3	10.7	3	100	0	64	65	0	34	0	0.93
32175431--32175638	98	2.1	98	92	0	344	37	4	5	53	1.43
32177494--32177520	7	3.9	7	100	0	54	74	0	0	25	0.83
32187713--32187737	11	2.3	11	100	0	50	40	12	8	40	1.72
32188207--32189056	23	37.1	23	75	8	637	38	23	6	31	1.81
32188254--32188501	137	1.8	138	81	9	319	37	22	7	31	1.83
32188202--32189056	206	4.2	206	83	6	1111	38	23	6	31	1.81
32188207--32188977	229	3.4	227	87	4	991	37	23	6	31	1.81
32188647--32189056	183	2.2	183	91	1	653	39	24	5	31	1.78
32189982--32190197	23	9.4	23	73	10	174	38	21	6	33	1.78
32189994--32190165	91	1.9	92	84	6	233	38	22	5	33	1.78
32193688--32193739	8	6.9	8	82	12	74	32	0	0	67	0.91
32193681--32193739	15	3.9	15	80	6	66	35	0	0	64	0.94
32193688--32193739	22	2.3	22	96	3	95	32	0	0	67	0.91
32194857--32194907	16	3.2	16	78	13	52	11	1	33	52	1.49
32194962--32195096	40	3.3	40	86	2	173	19	20	24	35	1.96
32195755--32195795	19	2.2	19	86	0	55	39	14	12	34	1.84
32196406--32196437	9	3.8	9	84	16	50	62	0	0	37	0.95
32196406--32196437	16	1.9	17	93	6	57	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32196411--32196466	22	2.6	22	80	5	62	50	0	0	50	1.00
32196482--32196587	48	2.3	45	77	18	110	50	4	0	44	1.22
32196534--32196584	19	3.2	15	73	21	50	54	1	0	43	1.11
32201001--32201040	15	2.8	14	85	7	53	35	2	0	62	1.09
32203195--32203234	11	3.6	11	82	0	53	22	15	5	57	1.57
32203426--32203456	11	2.8	11	90	0	53	67	0	0	32	0.91
32205336--32205378	8	5.2	8	84	13	52	83	0	6	9	0.80
32205624--32205662	9	4.2	9	87	6	51	12	5	0	82	0.83
32205625--32205664	19	2.0	20	90	4	64	15	5	0	80	0.88
32206555--32206592	19	2.0	19	94	0	67	31	23	10	34	1.89
32209289--32209336	22	2.3	20	78	7	51	45	0	2	52	1.12
32213115--32213388	46	6.0	46	95	0	460	22	23	14	38	1.92
32223723--32223780	25	2.3	25	87	0	80	31	6	17	44	1.75
32229038--32229108	35	2.0	35	100	0	142	30	5	15	47	1.68
32236285--32236342	29	2.0	29	100	0	116	34	3	24	37	1.72
32240350--32240377	14	2.0	14	100	0	56	21	7	21	50	1.72
32256559--32256597	13	3.0	13	100	0	78	15	30	38	15	1.88
32258364--32258418	18	3.2	18	80	19	73	23	10	3	61	1.44
32258348--32258418	33	2.1	34	87	7	101	23	12	2	60	1.45
32258638--32258714	26	3.0	26	78	3	75	25	6	6	61	1.45
32267940--32267988	20	2.5	20	93	0	80	20	20	42	16	1.89
32268600--32268678	32	2.5	30	77	16	81	25	2	7	64	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32276476--32276523	22	2.2	23	78	14	57	35	0	2	62	1.07
32279466--32279492	3	9.0	3	100	0	54	0	0	66	33	0.92
32280468--32280500	17	1.9	17	100	0	66	24	6	24	45	1.75
32284998--32285048	24	2.0	27	85	11	72	45	7	0	47	1.32
32285007--32285059	24	2.2	25	82	3	63	37	7	0	54	1.29
32286084--32286240	79	2.0	79	98	0	305	35	9	21	34	1.86
32287038--32288010	39	24.9	39	99	0	1847	17	18	30	32	1.95
32295716--32295783	31	2.2	31	94	2	120	38	2	19	39	1.67
32295817--32296001	39	4.7	39	91	0	289	17	21	30	30	1.96
32298981--32299053	10	7.2	10	73	18	53	60	0	6	32	1.23
32299207--32299240	13	2.7	13	86	4	52	58	0	5	35	1.22
32299207--32299243	12	3.0	12	84	7	56	59	0	5	35	1.20
32299199--32299266	25	2.8	24	74	10	59	61	0	4	33	1.16
32299203--32299267	12	5.3	12	76	10	51	60	0	4	35	1.18
32300114--32300159	20	2.3	20	100	0	92	13	10	17	58	1.62
32300895--32301357	44	10.5	44	88	1	644	27	27	13	31	1.94
32313835--32313905	35	2.0	35	97	0	133	11	32	16	39	1.84
32314138--32315375	619	2.0	619	100	0	2476	28	25	17	28	1.97
32315770--32316283	257	2.0	258	97	0	967	37	21	18	22	1.94
32316967--32317000	13	2.7	13	86	4	52	58	0	5	35	1.22
32316967--32317003	12	3.0	12	84	7	56	59	0	5	35	1.20
32316959--32317026	25	2.8	24	74	10	59	61	0	4	33	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32316963--32317027	12	5.3	12	76	10	51	60	0	4	35	1.18
32322999--32323032	17	2.0	17	100	0	68	52	0	5	41	1.25
32323401--32323494	45	2.1	45	83	0	116	38	20	20	21	1.94
32325005--32325075	36	2.0	35	91	2	115	50	7	9	32	1.62
32327508--32327590	42	2.0	41	92	2	139	19	8	13	59	1.59
32335443--32335596	21	7.3	21	79	0	83	46	15	19	18	1.84
32335441--32335597	42	3.7	42	84	0	197	46	15	19	18	1.84
32335451--32335597	63	2.3	63	80	2	161	46	16	19	18	1.85
32336384--32336509	27	4.7	27	82	4	130	38	20	7	33	1.80
32336384--32336562	54	3.3	54	76	6	157	39	21	7	31	1.82
32336432--32336563	27	4.9	26	78	9	88	39	20	8	31	1.82
32336557--32336778	27	8.2	27	80	4	232	29	20	6	42	1.78
32336530--32336769	54	4.4	54	81	2	151	31	20	7	40	1.80
32336528--32336766	81	3.0	81	83	1	192	31	20	7	40	1.80
32336557--32336778	81	2.7	81	87	1	302	29	20	6	42	1.78
32336559--32336805	81	3.0	81	78	2	246	28	19	8	42	1.81
32337012--32337062	27	1.9	26	84	4	66	23	27	15	33	1.95
32337280--32337359	31	2.6	31	82	7	108	18	16	13	51	1.77
32337280--32337373	6	15.3	6	70	20	61	19	17	13	50	1.79
32339403--32339477	38	2.0	38	94	0	132	29	10	28	32	1.90
32341763--32341788	12	2.2	12	100	0	52	42	23	0	34	1.54
32351831--32351884	16	3.5	16	73	16	60	50	0	5	44	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32351836--32351897	31	2.0	31	84	12	83	50	0	4	45	1.23
32358162--32358219	24	2.5	23	83	5	64	48	5	10	36	1.60
32359355--32359473	51	2.3	54	82	4	145	18	19	19	42	1.89
32367987--32368103	46	2.5	46	90	0	189	37	25	13	23	1.91
32375514--32375609	48	2.0	48	100	0	192	29	20	25	25	1.99
32379543--32379659	56	2.1	56	100	0	234	46	18	13	21	1.84
32381857--32381908	24	2.2	24	89	0	77	55	9	1	32	1.43
32383827--32383878	24	2.2	24	89	0	77	55	9	1	32	1.43
32384612--32384649	20	1.9	20	89	10	60	47	2	0	50	1.15
32385302--32385340	16	2.4	17	83	12	55	17	0	28	53	1.44

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