genome.fa.s7.2.7.7.80.10.50.1000.112.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  112  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)
38148267--38148517	109	2.3	110	87	4	357	29	5	12	52	1.61
38152672--38152902	48	4.9	48	71	12	181	27	19	25	27	1.99
38154637--38154700	33	2.0	32	100	0	119	32	34	18	12	1.88
38163485--38163771	144	2.0	140	89	3	430	36	16	5	41	1.71
38170487--38170601	46	2.5	47	84	9	148	26	24	18	31	1.97
38170520--38170596	22	3.3	23	87	8	104	27	25	19	27	1.99
38170498--38170601	23	4.5	23	82	8	122	25	24	18	32	1.97
38175186--38175241	20	2.8	20	78	2	60	33	21	16	28	1.95
38177396--38177422	3	9.0	3	100	0	54	66	0	0	33	0.92
38182058--38182103	12	3.8	12	82	0	56	15	19	19	45	1.85
38182056--38182103	24	2.0	24	91	0	78	18	18	18	43	1.88
38182071--38182114	12	3.8	11	85	8	52	20	18	13	47	1.82
38192332--38192397	33	2.0	33	100	0	132	39	3	15	42	1.62
38195840--38195927	6	14.3	6	73	17	74	47	14	18	19	1.82
38195849--38195927	31	2.5	31	91	0	122	48	13	18	18	1.81
38196347--38196522	27	6.6	27	89	1	273	23	21	21	34	1.97
38196397--38196632	27	8.8	27	87	5	168	25	14	22	37	1.92
38196347--38196549	80	2.5	81	87	2	266	24	19	21	34	1.96
38196347--38196568	107	2.1	108	83	5	281	25	18	21	34	1.96
38196505--38196659	54	2.9	54	83	1	177	29	8	21	40	1.82
38196347--38196594	107	2.3	108	81	6	245	26	18	20	34	1.96
38196505--38196659	81	1.9	81	84	5	206	29	8	21	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38196507--38196664	27	5.9	27	84	3	129	30	8	20	40	1.82
38196661--38196931	27	10.0	27	89	1	382	41	9	21	27	1.84
38196661--38196931	81	3.3	81	93	0	425	41	9	21	27	1.84
38196944--38197011	27	2.5	27	80	4	84	30	8	22	38	1.84
38201623--38201655	17	1.9	17	88	11	50	15	42	27	15	1.86
38205818--38205855	18	2.1	19	85	5	51	68	2	7	21	1.28
38206428--38206499	3	25.0	3	73	10	53	29	4	2	63	1.27
38219262--38219438	65	2.6	65	79	12	167	28	15	20	35	1.93
38219355--38219537	92	2.0	93	93	1	314	28	15	16	39	1.89
38219327--38219710	167	2.3	167	83	9	469	27	16	19	36	1.93
38219447--38219604	75	2.1	76	88	3	230	31	17	18	32	1.94
38219521--38219901	94	4.2	89	77	9	351	27	16	17	38	1.91
38219521--38219888	179	2.0	180	84	3	477	27	16	17	38	1.91
38219783--38219818	14	2.7	13	83	8	54	30	13	8	47	1.73
38219529--38219955	88	4.7	89	77	8	357	28	15	18	36	1.92
38221069--38221298	3	76.3	3	67	18	70	25	6	4	62	1.40
38221400--38221448	3	17.0	3	79	8	57	30	2	2	65	1.15
38221413--38221448	17	2.1	17	94	0	63	33	0	0	66	0.92
38221499--38221524	3	8.7	3	100	0	52	34	0	0	65	0.93
38221624--38221730	25	4.3	24	77	17	112	30	5	4	58	1.41
38221989--38222031	19	2.3	19	84	8	52	39	0	0	60	0.97
38221954--38222093	22	6.5	22	70	21	57	36	2	5	55	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38234623--38234803	50	3.6	51	80	5	174	30	26	17	25	1.97
38236128--38236196	15	4.6	15	79	0	75	10	17	14	57	1.63
38236123--38236207	15	5.8	14	75	5	62	8	17	17	56	1.65
38249854--38249917	33	2.0	30	88	8	92	26	23	21	23	1.97
38255210--38255255	23	2.0	23	91	0	74	34	17	10	36	1.85
38258866--38258895	12	2.6	11	94	5	51	53	6	0	40	1.27
38258852--38258920	21	3.3	21	80	9	61	49	10	0	40	1.37
38259245--38259382	69	2.0	69	98	0	267	46	1	7	44	1.41
38259796--38259829	17	2.0	17	100	0	68	29	5	17	47	1.71
38263353--38263379	13	2.1	13	100	0	54	29	37	0	33	1.58
38267193--38267239	19	2.5	19	86	6	60	8	14	8	68	1.39
38267743--38267795	27	2.0	27	88	0	79	50	9	18	20	1.74
38270861--38271338	237	2.0	237	99	0	947	33	20	14	31	1.92
38272628--38272679	24	2.2	24	92	0	86	50	9	1	38	1.46
38274543--38274569	13	2.1	13	100	0	54	29	37	0	33	1.58
38274969--38274993	8	3.1	8	100	0	50	60	12	0	28	1.32
38277564--38277627	20	3.4	18	80	16	67	39	6	9	45	1.62
38287573--38287638	29	2.2	30	94	2	116	13	40	27	18	1.88
38293916--38294108	56	3.4	57	79	7	182	32	22	15	30	1.94
38293913--38294162	57	4.4	56	75	10	215	31	21	17	29	1.96
38308941--38309019	28	2.8	28	86	0	104	34	11	25	29	1.91
38311017--38311317	28	10.6	29	75	5	211	18	18	34	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38310987--38311288	57	5.3	57	91	2	473	18	19	34	28	1.95
38311103--38311372	142	1.9	143	91	1	443	18	18	33	28	1.95
38311246--38311370	57	2.2	57	88	0	178	19	17	33	29	1.95
38316315--38316393	28	2.8	28	86	0	104	34	11	25	29	1.91
38318363--38318545	28	6.5	28	75	5	170	18	19	32	29	1.95
38318363--38318545	85	2.2	85	92	0	303	18	19	32	29	1.95
38318449--38318573	57	2.2	57	88	0	178	19	17	33	29	1.95
38323518--38323584	28	2.4	28	87	0	89	32	11	26	28	1.92
38323535--38323596	28	2.2	28	85	0	88	37	9	25	27	1.87
38328387--38328419	3	11.0	3	100	0	66	33	33	0	33	1.58
38331530--38331590	20	3.2	19	80	19	74	36	8	11	44	1.71
38338319--38338355	12	3.0	13	84	11	51	29	40	18	10	1.85
38344303--38344352	24	2.1	24	100	0	100	34	16	14	36	1.88
38347464--38347610	18	8.2	18	66	12	70	22	17	25	34	1.96
38354802--38354873	20	3.6	19	71	22	51	25	1	2	70	1.08
38354838--38354876	21	1.9	20	89	5	60	25	2	2	69	1.14
38354828--38354889	20	3.1	20	82	15	67	22	1	4	70	1.14
38355278--38355318	20	2.0	22	85	9	59	24	31	0	43	1.54
38357020--38357140	30	4.0	30	80	2	127	30	39	17	12	1.86
38357499--38357541	21	2.0	22	82	13	54	32	44	16	6	1.74
38360847--38361116	127	2.1	126	86	2	371	29	17	16	36	1.92
38361175--38361304	64	2.1	62	91	5	208	42	13	2	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38361191--38361334	64	2.4	59	86	9	186	40	12	2	45	1.54
38361343--38361395	16	3.6	14	78	12	54	49	30	0	20	1.50
38363739--38363814	3	25.7	3	79	2	73	31	6	0	61	1.21
38364263--38365031	155	5.0	155	94	2	1352	20	13	9	56	1.64
38364263--38365029	308	2.5	308	98	0	1480	20	13	9	56	1.64
38366701--38366740	11	3.6	11	82	0	53	20	10	10	60	1.57
38366957--38366989	11	2.9	12	86	13	52	66	0	0	33	0.92
38367254--38367465	45	4.7	45	81	5	232	28	16	18	35	1.93
38367254--38367459	90	2.3	89	84	5	281	28	16	18	36	1.93
38371160--38371263	51	2.0	52	94	1	183	32	11	24	31	1.91
38373234--38373264	16	1.9	16	93	0	53	29	0	3	67	1.06
38373360--38373470	48	2.3	47	81	10	134	36	8	4	51	1.52
38373385--38373492	48	2.3	45	79	16	114	31	6	6	55	1.51
38375731--38375773	22	1.9	23	85	4	61	20	2	6	69	1.23
38375878--38375979	31	3.2	30	80	11	107	33	6	1	57	1.36
38375942--38376017	14	5.5	14	68	14	50	34	2	2	60	1.24
38380755--38380803	19	2.5	20	75	12	50	79	2	14	4	0.97
38381344--38381421	14	5.4	14	73	18	54	78	2	6	12	1.05
38381379--38381433	26	2.1	26	83	6	67	78	0	14	7	0.96
38382458--38382493	16	2.2	16	95	0	63	61	8	5	25	1.46
38382524--38382714	63	3.0	64	87	1	276	28	17	15	38	1.91
38383072--38383840	177	4.4	177	86	2	989	30	17	23	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38383318--38383413	44	2.2	45	81	9	108	28	15	25	31	1.96
38383072--38383840	352	2.2	353	86	2	1066	30	17	23	27	1.97
38384967--38385012	22	2.1	22	84	11	60	23	2	4	69	1.17
38385112--38385213	31	3.2	30	80	11	107	33	6	1	57	1.36
38385176--38385251	14	5.5	14	68	14	50	34	2	2	60	1.24
38391279--38391318	7	5.7	7	100	0	80	27	0	15	57	1.38
38391912--38391950	18	2.2	18	95	0	69	23	25	10	41	1.86
38395383--38395762	126	3.0	126	90	0	591	29	18	17	35	1.94
38396294--38396375	19	4.4	19	85	10	107	43	19	0	36	1.51
38396294--38396383	39	2.4	38	87	7	123	42	20	0	37	1.52

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