genome.fa.s7.2.7.7.80.10.50.1000.92.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  92  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)
30961482--30961690	55	3.9	53	79	7	199	23	25	16	34	1.95
30961482--30961682	108	1.8	110	86	4	291	23	25	17	33	1.96
30965774--30965941	40	4.2	40	82	8	148	27	27	20	24	1.99
30965811--30965941	40	3.3	40	89	2	201	28	27	20	23	1.99
30965774--30965993	80	2.8	79	78	12	218	26	27	21	25	1.99
30967054--30967170	56	2.1	56	96	0	216	25	23	7	42	1.81
30973698--30973841	40	3.6	40	82	10	152	27	27	20	24	1.99
30978524--30978558	3	11.7	3	100	0	70	68	0	0	31	0.90
30979039--30979070	15	2.1	15	100	0	64	31	18	18	31	1.95
30982258--30982428	66	2.6	66	85	0	225	20	27	26	25	1.99
30985282--30985327	16	2.8	17	77	12	51	58	4	2	34	1.30
30986354--30986386	3	11.3	3	87	6	50	27	0	0	72	0.85
30992528--30992812	67	4.3	67	76	5	245	32	15	24	27	1.95
30992528--30992828	134	2.2	134	82	3	365	33	15	24	26	1.95
30994153--30994225	13	5.5	13	73	3	65	34	19	4	42	1.70
30994153--30994225	27	2.8	26	72	4	74	34	19	4	42	1.70
30999161--30999200	21	1.9	21	85	10	55	35	7	22	35	1.82
30999705--30999767	27	2.3	28	88	2	101	25	11	33	30	1.90
30999705--30999778	27	2.7	27	83	10	89	25	10	32	31	1.90
31007272--31007305	18	1.9	18	88	5	52	41	11	17	29	1.85
31007801--31008022	49	4.7	49	75	10	210	25	26	20	27	1.99
31007856--31008023	93	1.8	92	83	3	221	26	27	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31007951--31008117	46	3.6	46	78	9	144	26	26	17	28	1.98
31010912--31011109	51	3.9	51	87	1	272	30	25	11	32	1.90
31011133--31011248	52	2.1	54	85	6	155	27	24	13	34	1.93
31011133--31011276	28	5.4	27	82	12	165	27	25	13	34	1.94
31017329--31017526	51	3.9	51	94	0	342	29	24	12	32	1.92
31023679--31023800	47	2.6	47	90	0	190	36	13	23	26	1.93
31023779--31023973	55	3.6	54	83	4	232	37	15	23	23	1.93
31023779--31023996	54	4.0	54	82	4	224	39	14	23	22	1.91
31025333--31025780	219	2.0	219	98	0	860	31	18	15	34	1.92
31030614--31030666	25	2.1	25	92	0	88	30	11	16	41	1.84
31035532--31035562	16	1.9	16	100	0	62	16	6	25	51	1.68
31047202--31047279	39	2.0	39	97	0	147	41	6	20	32	1.78
31049797--31049837	21	2.0	21	86	9	59	46	17	24	12	1.82
31053308--31053350	18	2.4	18	92	3	70	34	18	0	46	1.50
31055057--31055169	27	4.2	26	83	7	120	37	15	21	25	1.93
31055054--31055163	54	2.0	54	89	3	168	38	16	20	25	1.92
31063132--31063316	79	2.3	81	83	7	227	24	22	27	24	2.00
31063133--31063316	40	4.6	40	82	9	207	25	22	27	24	2.00
31063185--31063349	79	2.1	79	83	6	201	26	21	27	24	1.99
31069718--31069811	25	3.8	25	92	1	154	25	25	24	24	2.00
31069793--31069838	25	1.9	24	82	8	58	26	21	23	28	1.99
31069719--31069836	50	2.4	51	77	13	131	25	24	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31070014--31070150	31	4.4	31	86	0	184	29	15	26	28	1.96
31070014--31070193	31	6.0	28	78	8	112	31	16	25	27	1.97
31073273--31073741	250	1.9	250	82	3	604	37	18	19	24	1.94
31079295--31079330	17	2.1	17	89	5	54	36	11	2	50	1.53
31079356--31079398	18	2.4	18	92	3	70	34	20	0	44	1.52
31082615--31082660	19	2.3	20	77	3	58	34	8	4	52	1.52
31085224--31085269	19	2.3	20	77	3	58	34	8	4	52	1.52
31087423--31087481	30	2.0	30	82	0	73	40	6	27	25	1.80
31087702--31087747	18	2.3	20	82	14	60	36	0	15	47	1.45
31088101--31088330	50	4.6	50	74	11	184	26	16	25	31	1.96
31088539--31088570	16	2.0	16	93	0	55	46	0	18	34	1.49
31089827--31090323	251	2.0	250	96	0	922	22	24	25	26	2.00
31098201--31098240	21	1.9	21	84	0	53	30	10	25	35	1.88
31098726--31098801	27	2.8	28	87	4	118	26	13	34	26	1.93
31107279--31107312	18	1.9	18	88	5	52	41	11	17	29	1.85
31113530--31113555	3	8.7	3	100	0	52	65	0	0	34	0.93
31128969--31129046	28	2.8	26	78	9	66	41	3	0	55	1.18
31129132--31129248	58	2.0	58	98	0	225	37	7	3	51	1.48
31133141--31133184	21	2.0	21	82	8	52	27	11	25	36	1.90
31134297--31134326	3	10.0	3	92	0	51	33	3	0	63	1.11
31141619--31141686	16	4.2	16	90	0	109	26	0	38	35	1.57
31141667--31141776	45	2.6	41	78	9	116	32	5	29	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31141902--31141943	15	2.7	16	82	14	52	52	2	0	45	1.13
31141911--31141952	15	2.9	15	82	10	52	52	0	0	47	1.00
31141905--31142168	120	2.2	121	93	3	446	50	4	2	42	1.38
31142021--31142072	15	3.6	15	80	12	56	53	1	0	44	1.11
31141950--31142137	61	3.1	61	68	14	181	49	6	2	41	1.42
31149751--31149831	42	1.9	42	82	0	99	20	38	19	20	1.94
31153312--31153411	51	2.0	51	84	4	130	34	25	16	25	1.95
31157350--31157391	17	2.4	17	80	11	50	59	2	4	33	1.31
31158853--31158903	20	2.5	21	75	12	54	41	3	3	50	1.39
31159923--31159984	32	1.9	32	93	0	106	51	12	4	30	1.61
31159933--31160001	32	2.2	32	86	0	93	53	15	4	26	1.61
31165016--31165045	16	1.9	15	100	0	51	26	6	0	66	1.16
31170002--31170111	42	2.6	42	82	0	121	26	26	20	27	1.99
31170044--31170256	48	4.6	48	77	7	215	27	27	16	28	1.97
31177679--31177724	24	1.9	24	91	8	76	65	2	0	32	1.05
31178440--31178510	4	16.5	4	72	18	54	18	5	4	71	1.22
31178441--31178505	23	2.9	22	76	13	62	18	6	4	70	1.26
31178526--31178640	57	2.1	55	83	9	144	36	0	3	59	1.21
31178589--31178642	21	2.5	22	82	8	76	37	1	0	61	1.07
31178582--31178646	21	3.0	22	77	18	75	36	1	1	60	1.16
31178882--31178925	19	2.3	19	88	4	61	40	2	9	47	1.48
31183596--31183859	40	6.7	40	87	7	353	25	28	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31193828--31193857	15	2.0	15	93	0	51	20	0	23	56	1.42
31194436--31194562	43	3.0	42	80	4	130	23	16	27	32	1.96
31197508--31197556	19	2.3	21	86	13	66	55	0	0	44	0.99
31197625--31197694	10	7.2	9	75	12	59	70	4	0	25	1.06
31197618--31197706	29	3.1	28	80	6	97	64	4	0	31	1.14
31197792--31197830	21	1.9	21	94	5	71	69	0	0	30	0.89
31197929--31197984	9	6.2	9	71	8	51	71	3	3	21	1.17
31198475--31198513	16	2.4	17	82	4	53	30	5	0	64	1.15
31206395--31206424	9	3.3	9	100	0	60	50	10	10	30	1.69
31206417--31206451	18	1.9	18	88	0	52	37	0	20	42	1.52
31206717--31206748	16	2.0	16	100	0	64	43	12	12	31	1.80
31208555--31208768	46	4.6	46	80	10	188	28	16	29	24	1.97
31208513--31208768	47	5.5	45	76	14	186	29	16	29	24	1.97
31222755--31223073	114	2.8	114	92	1	520	40	9	14	36	1.78
31235422--31235593	93	1.8	93	94	0	308	27	30	21	20	1.98
31235414--31235589	46	3.8	46	81	10	214	28	29	21	21	1.98
31237975--31238063	30	3.0	30	80	8	101	57	15	16	10	1.65
31237975--31238054	15	5.4	15	80	7	92	58	13	17	10	1.62
31237986--31238063	15	5.2	15	78	9	79	56	15	16	11	1.67
31241017--31241187	93	1.8	93	94	0	306	28	29	21	20	1.98
31241009--31241184	46	3.8	46	80	12	216	28	29	21	20	1.98
31244415--31244459	18	2.3	20	85	7	58	37	15	4	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31244424--31244478	28	2.0	28	85	0	74	38	14	7	40	1.74
31244458--31244524	18	3.7	18	93	0	116	41	16	8	32	1.79
31244464--31244540	36	2.1	36	87	0	109	38	18	11	31	1.86
31244604--31244773	47	3.7	43	72	18	116	34	26	19	20	1.96
31245749--31245785	17	2.2	17	95	0	65	0	29	0	70	0.88
31245749--31245785	8	4.3	9	90	10	60	0	29	0	70	0.88
31245919--31245969	24	2.1	25	81	3	59	37	5	5	50	1.51
31247389--31247433	15	2.9	15	83	6	63	57	13	13	15	1.65
31249474--31249518	16	2.9	15	87	6	72	60	13	11	15	1.60
31250773--31250805	13	2.5	13	100	0	66	27	33	33	6	1.81

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