genome.fa.s25.2.7.7.80.10.50.1000.89.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   291   292   293   294   295   296   297   

This is table  89  of  297  ( 35593 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)
32209002--32209070	34	2.0	34	94	0	120	15	28	11	43	1.82
32210922--32211003	42	2.0	42	92	0	137	40	10	24	24	1.87
32218252--32218281	15	2.0	15	93	0	51	50	33	13	3	1.58
32218888--32218969	41	2.0	41	97	0	155	28	21	28	21	1.99
32222363--32222404	18	2.3	18	91	0	66	40	2	11	45	1.54
32225933--32226082	27	5.6	27	79	7	153	34	9	18	38	1.82
32225935--32226155	80	2.8	80	81	6	207	33	11	18	37	1.86
32225957--32226155	53	3.7	53	76	8	165	33	12	17	37	1.86
32225963--32226155	80	2.4	80	81	6	212	33	11	17	37	1.86
32225926--32226155	27	8.6	26	76	9	151	32	11	18	37	1.87
32226472--32226534	28	2.2	28	85	0	81	28	36	15	19	1.92
32229363--32229693	27	11.3	27	75	15	155	29	12	17	39	1.87
32229380--32229513	66	2.0	67	94	1	234	30	13	15	40	1.86
32229456--32229532	28	2.8	27	94	3	136	33	14	12	38	1.84
32229360--32229612	94	2.7	94	93	0	418	30	13	16	39	1.87
32229551--32229636	28	3.1	28	85	6	113	30	11	16	41	1.83
32229563--32230025	27	17.3	27	80	8	434	30	9	20	39	1.84
32229591--32230025	53	8.2	53	82	7	445	30	9	20	39	1.84
32229591--32230025	80	5.4	80	84	5	515	30	9	20	39	1.84
32237113--32237975	46	18.7	46	96	2	1556	22	19	27	30	1.98
32238200--32238237	19	2.0	20	85	15	53	34	2	23	39	1.69
32243530--32243573	22	2.0	22	95	0	79	34	13	22	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32247907--32248132	49	4.6	49	82	3	281	29	26	18	26	1.98
32252474--32252582	37	2.9	37	90	0	164	26	28	19	25	1.99
32252744--32253174	98	4.3	100	78	13	383	27	27	11	32	1.92
32252793--32253217	51	8.5	51	84	9	477	27	28	12	31	1.93
32252984--32253235	47	5.3	47	87	3	369	26	29	13	29	1.94
32252798--32253306	256	2.0	255	91	3	817	27	28	12	31	1.93
32252984--32253234	98	2.6	94	85	4	349	27	29	13	29	1.94
32253176--32253298	64	1.9	64	93	0	210	26	28	13	30	1.94
32253118--32253321	111	1.8	112	85	3	288	30	28	11	29	1.91
32255489--32255667	85	2.1	85	96	0	331	26	29	8	36	1.86
32256985--32257090	52	2.0	52	100	0	212	47	18	11	22	1.81
32259603--32259659	28	2.0	28	96	0	105	33	31	8	26	1.87
32261487--32261576	26	3.7	24	77	12	78	26	24	17	31	1.97
32261746--32261787	18	2.3	19	79	4	50	33	4	21	40	1.74
32264252--32264420	46	3.7	46	75	10	182	20	17	30	31	1.96
32269771--32269946	46	3.8	46	75	14	173	21	18	28	31	1.97
32269767--32269938	93	1.8	93	88	4	267	21	18	29	30	1.97
32277237--32277324	37	2.4	37	100	0	176	29	14	22	32	1.94
32277923--32278186	119	2.2	121	85	4	358	25	22	27	25	2.00
32277924--32278186	40	6.6	40	84	8	315	25	22	27	24	2.00
32277976--32278184	79	2.6	79	95	2	366	24	22	28	24	1.99
32279299--32279719	226	1.9	226	96	1	790	35	13	21	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32291343--32291394	6	9.5	6	83	12	60	80	0	0	19	0.71
32291345--32291402	16	3.7	16	82	13	75	75	0	0	24	0.80
32291352--32291400	10	4.6	11	87	10	59	77	0	0	22	0.77
32291344--32291394	22	2.4	22	87	9	70	80	0	0	19	0.71
32291344--32291394	10	4.8	10	80	20	59	80	0	0	19	0.71
32291907--32291991	39	2.2	39	95	0	152	28	17	24	29	1.97
32292107--32292255	74	2.0	74	98	0	289	36	12	19	31	1.88
32304466--32304508	16	2.8	15	75	6	50	41	0	18	39	1.51
32312134--32312265	43	3.1	42	80	12	169	31	28	16	24	1.96
32316787--32316987	38	5.2	38	83	4	188	21	21	26	30	1.98
32316800--32316987	76	2.4	77	84	5	236	22	22	25	29	1.99
32324395--32324522	43	3.0	43	76	8	143	28	27	17	26	1.97
32325202--32325324	59	2.1	59	98	0	237	43	17	13	25	1.86
32327600--32327674	37	2.0	37	97	0	141	48	1	21	29	1.59
32329290--32329357	34	2.0	34	86	11	95	23	23	20	32	1.98
32335910--32335949	17	2.4	17	100	0	80	30	27	10	32	1.89
32338228--32338266	20	2.1	18	86	13	53	48	17	28	5	1.68
32344506--32344538	17	2.0	17	88	5	50	27	9	12	51	1.69
32344766--32344809	21	2.1	21	95	0	79	38	22	9	29	1.85
32345949--32345999	20	2.7	19	82	14	54	41	0	21	37	1.54
32346651--32346862	46	4.5	47	83	8	236	29	19	28	22	1.98
32346653--32346862	94	2.2	94	88	1	305	29	20	28	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32346651--32347011	49	7.6	48	72	14	150	27	18	28	24	1.98
32348889--32348958	31	2.3	31	92	0	113	25	24	14	35	1.93
32349179--32349248	25	2.8	26	89	4	108	24	21	27	27	1.99
32349294--32349333	10	3.9	10	93	6	71	30	20	17	32	1.95
32349294--32349334	21	2.0	21	100	0	82	29	19	17	34	1.94
32349373--32349423	25	2.0	25	92	0	84	25	19	23	31	1.98
32362147--32362188	19	2.2	19	87	8	59	76	0	21	2	0.90
32372078--32372294	46	4.7	46	93	0	362	29	28	20	21	1.98
32372091--32372588	249	2.0	249	93	0	852	28	29	20	22	1.98
32372340--32372543	46	4.4	46	98	0	381	26	31	24	18	1.97
32379986--32380063	24	3.2	24	88	0	120	19	39	3	37	1.70
32382135--32382292	43	3.7	44	72	12	130	25	17	24	32	1.96
32384016--32384137	40	3.0	41	75	7	124	41	18	25	14	1.88
32384118--32384237	20	6.0	20	66	18	52	42	16	26	14	1.86
32384062--32384255	100	1.9	100	86	2	273	42	18	25	14	1.88
32392172--32392254	31	2.7	31	90	3	125	24	25	14	36	1.93
32392598--32392648	25	2.0	25	92	0	84	27	17	23	31	1.97
32400035--32400117	31	2.7	31	90	3	125	22	25	15	36	1.94
32400338--32400407	25	2.8	25	97	0	131	24	22	27	25	2.00
32400453--32400492	10	3.9	10	93	6	71	30	20	17	32	1.95
32400453--32400493	21	2.0	21	100	0	82	29	19	17	34	1.94
32401984--32402066	31	2.7	31	90	3	125	22	25	15	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32402287--32402356	25	2.8	25	97	0	131	24	22	27	25	2.00
32402402--32402441	10	3.9	10	93	6	71	30	20	17	32	1.95
32402402--32402442	21	2.0	21	100	0	82	29	19	17	34	1.94
32404312--32404355	22	2.0	22	90	0	70	40	2	2	54	1.25
32408095--32408407	46	6.8	46	94	0	520	23	24	14	38	1.92
32412659--32412764	43	2.5	43	83	6	117	28	26	19	25	1.99
32415134--32415186	18	2.9	18	81	13	56	32	1	0	66	1.03
32415366--32415405	21	1.9	21	85	10	55	30	5	0	65	1.14
32415366--32415438	10	7.2	10	72	18	53	32	5	0	61	1.19
32415457--32415492	7	5.0	7	86	6	54	30	2	0	66	1.06
32415457--32415497	15	2.8	14	82	10	55	31	2	2	63	1.20
32429364--32429778	44	9.7	44	84	5	546	28	14	28	28	1.95
32429584--32429646	33	1.9	33	93	0	108	28	17	28	25	1.97
32429364--32429987	121	5.0	121	76	10	522	28	15	28	28	1.96
32429466--32429935	165	2.8	165	92	0	771	27	15	28	28	1.96
32429745--32429811	33	2.0	33	97	0	125	26	17	29	25	1.98
32429778--32430024	44	5.6	44	87	0	343	29	15	28	26	1.96
32429613--32430024	132	3.2	132	81	8	481	28	15	28	26	1.96
32431632--32431684	18	2.9	18	81	13	56	32	1	0	66	1.03
32431868--32431907	21	1.9	21	85	10	55	30	5	0	65	1.14
32431868--32431940	10	7.2	10	72	18	53	32	5	0	61	1.19
32431958--32431993	7	5.0	7	86	6	54	30	2	0	66	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32431958--32431998	15	2.8	14	82	10	55	31	2	2	63	1.20
32436542--32436585	22	2.0	22	86	0	61	38	0	2	59	1.10
32445117--32445164	19	2.6	19	93	3	80	45	8	4	41	1.53
32451051--32451110	27	2.2	27	84	0	84	23	33	28	15	1.94
32451204--32451242	18	2.2	18	86	9	53	69	0	30	0	0.89
32451356--32451411	27	2.1	27	93	0	94	23	30	32	14	1.94
32455204--32455277	36	2.1	36	100	0	148	45	21	5	27	1.73
32458669--32458751	20	4.4	20	68	20	54	31	2	1	65	1.13
32458652--32458775	54	2.3	54	94	0	212	33	1	1	62	1.14
32460213--32460270	30	1.9	30	89	0	89	36	44	6	12	1.68

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   291   292   293   294   295   296   297