genome.fa.s25.2.7.7.80.10.50.1000.294.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  294  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)
99900154--99900274	40	2.9	40	79	9	109	33	28	13	23	1.93
99907409--99907442	17	2.0	17	100	0	68	41	5	17	35	1.74
99907560--99907634	17	4.0	18	76	11	62	61	2	1	34	1.18
99909328--99909545	46	4.8	45	78	7	192	25	20	31	23	1.98
99909328--99909582	90	2.8	90	79	5	262	25	19	30	24	1.98
99911855--99911911	9	5.9	9	73	15	51	35	8	21	35	1.84
99911853--99911915	20	3.2	20	95	0	117	36	12	19	31	1.89
99911968--99912092	24	5.2	24	88	3	173	31	24	19	25	1.98
99911968--99912092	47	2.6	48	84	5	173	31	24	19	25	1.98
99919165--99919228	32	2.0	32	100	0	128	31	9	34	25	1.87
99921476--99921532	9	5.9	9	73	15	51	35	8	21	35	1.84
99921474--99921544	20	3.5	20	94	0	124	35	11	21	32	1.89
99921485--99921539	11	5.4	11	70	16	55	36	12	20	30	1.90
99921589--99921695	24	4.4	24	96	1	178	29	22	21	26	1.99
99921902--99921965	31	2.1	31	90	0	101	35	15	23	25	1.94
99923532--99923599	35	1.9	35	96	0	127	41	7	26	25	1.81
99925009--99925072	31	2.1	31	85	8	87	56	10	6	26	1.57
99925102--99925144	22	2.0	22	85	0	59	58	11	11	18	1.63
99927468--99927499	16	2.0	16	93	0	55	46	6	3	43	1.44
99942073--99942162	40	2.2	40	92	0	153	37	21	21	20	1.94
99942073--99942197	40	3.1	40	84	2	135	36	20	17	24	1.94
99942940--99942974	15	2.4	14	90	4	52	20	0	34	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99942983--99943056	14	5.2	14	73	4	60	18	4	40	36	1.70
99943205--99943230	7	3.7	7	100	0	52	15	0	38	46	1.46
99943256--99943302	15	3.1	15	84	0	58	21	0	25	53	1.46
99944172--99944275	40	2.6	40	83	10	117	35	11	21	31	1.89
99944556--99944601	3	15.7	3	90	4	76	67	0	32	0	0.91
99944594--99944637	20	2.5	16	80	20	52	45	0	54	0	0.99
99948128--99948157	8	3.8	8	95	0	51	26	20	10	43	1.83
99949106--99949252	43	3.5	43	78	1	154	27	17	25	29	1.97
99949138--99949259	41	2.9	41	80	4	129	29	17	24	28	1.97
99960766--99960890	46	2.7	45	83	2	151	36	27	19	17	1.94
99966001--99966364	49	7.6	49	93	3	573	32	7	29	29	1.85
99966483--99966561	37	2.1	37	90	0	122	25	20	30	24	1.98
99973803--99974252	47	9.6	47	96	0	801	32	8	30	28	1.87
99974373--99974449	37	2.1	37	90	0	118	22	19	32	25	1.97
99987410--99987492	41	2.0	41	97	0	157	25	21	8	44	1.80
99989816--99989851	7	5.1	7	100	0	72	58	0	0	41	0.98
99991208--99991269	27	2.3	26	78	8	70	37	0	11	51	1.38
99994940--99994986	15	3.3	14	82	11	60	21	2	0	76	0.89
99995769--99995951	97	1.9	97	87	4	271	28	14	25	30	1.95
99996557--99996618	27	2.3	26	78	8	70	37	0	11	51	1.38
99996614--99996645	10	3.3	10	95	4	57	31	6	0	62	1.20
100007242--100007273	10	3.3	10	95	4	57	31	6	0	62	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100012611--100012652	21	2.0	21	85	0	57	40	2	11	45	1.54
100013264--100013350	25	3.5	25	90	0	138	20	21	19	37	1.94
100013264--100013391	25	5.4	23	82	4	98	19	22	19	38	1.94
100014017--100014055	19	2.1	19	85	4	53	38	0	15	46	1.46
100016368--100016413	19	2.4	19	92	0	74	30	23	6	39	1.80
100016435--100016608	3	58.0	3	98	0	339	67	0	32	0	0.91
100020177--100020395	46	4.6	46	73	12	160	28	20	30	21	1.98
100021801--100021833	18	1.9	17	88	11	50	24	45	24	6	1.75
100026237--100026715	48	9.9	48	76	8	377	26	28	18	27	1.98
100026235--100026715	144	3.3	144	83	5	544	26	28	18	27	1.98
100035534--100035594	30	2.0	30	87	0	86	37	8	24	29	1.84
100039358--100039443	27	3.2	27	75	6	93	32	22	11	33	1.90
100041447--100041709	40	6.6	40	88	3	325	24	20	27	26	1.99
100041486--100041744	80	3.3	80	85	3	256	25	20	27	25	1.99
100049399--100049661	40	6.6	40	88	3	325	24	20	27	26	1.99
100049438--100049696	80	3.3	80	85	3	256	25	20	27	25	1.99
100053651--100053683	11	2.8	12	86	4	50	36	3	12	48	1.56
100055985--100056114	42	3.0	43	69	15	113	46	10	8	34	1.69
100073019--100073044	12	2.2	12	100	0	52	15	23	30	30	1.95
100073956--100074057	37	2.8	37	84	0	123	43	26	11	18	1.85
100082279--100082377	41	2.5	40	81	3	117	37	20	30	12	1.89
100083380--100083419	13	3.0	14	82	17	50	40	5	0	55	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100086393--100086493	49	2.1	49	96	0	184	33	19	8	37	1.83
100088837--100088901	9	7.1	9	78	1	67	47	0	1	50	1.10
100088849--100088896	18	2.7	18	100	0	96	45	0	0	54	0.99
100089171--100089231	18	3.3	17	77	18	59	31	0	0	68	0.89
100093765--100093891	45	2.8	45	91	1	202	21	22	29	26	1.99
100116176--100116208	15	2.1	16	94	5	59	57	0	33	9	1.30
100118157--100118290	44	3.1	42	80	8	135	23	14	26	35	1.93
100118157--100118269	44	2.7	41	81	9	136	23	14	26	35	1.93
100118157--100118290	42	3.1	42	78	10	128	23	14	26	35	1.93
100118210--100118303	42	2.2	42	80	1	107	27	18	23	30	1.97
100139720--100139807	44	2.0	44	82	4	106	26	15	26	31	1.96
100143923--100143975	27	2.0	27	96	0	97	45	20	15	18	1.85
100144158--100144269	27	4.2	26	78	7	116	38	21	22	17	1.93
100145706--100145770	24	2.7	24	95	0	112	21	40	6	32	1.78
100152030--100152141	27	4.2	26	78	7	107	38	20	22	18	1.93
100152379--100152418	16	2.5	16	87	0	53	37	5	25	32	1.77
100156423--100156487	32	2.0	32	93	0	112	16	23	7	52	1.70
100156689--100156715	12	2.2	12	100	0	54	59	33	0	7	1.25
100159746--100159771	13	2.0	13	100	0	52	30	0	61	7	1.24
100159706--100159811	53	2.0	53	88	0	158	43	5	41	9	1.61
100161281--100161354	24	3.1	24	94	0	121	21	41	5	31	1.76
100164962--100165137	89	2.0	89	98	0	343	30	19	10	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100165142--100165286	73	2.0	73	97	0	272	39	9	7	43	1.66
100165606--100165634	13	2.2	13	100	0	58	51	17	0	31	1.45
100172519--100172746	40	5.7	40	95	0	366	22	27	20	29	1.98
100178458--100178542	44	1.9	44	80	4	100	22	20	28	29	1.98
100179928--100179952	13	1.9	13	100	0	50	16	32	32	20	1.94
100185960--100186073	56	2.0	56	100	0	228	41	3	15	39	1.65
100186454--100186545	44	2.1	45	93	2	159	22	18	27	31	1.97
100204945--100204972	8	3.5	8	100	0	56	25	0	39	35	1.56
100204963--100205085	61	2.0	61	92	3	203	21	18	14	45	1.85
100208576--100208642	33	2.0	33	97	0	125	40	19	7	32	1.79
100210383--100210497	57	2.0	56	88	5	169	31	17	17	33	1.93
100212195--100212272	41	1.9	41	89	5	122	26	21	20	30	1.98
100215194--100215315	6	19.8	6	70	14	70	49	13	18	19	1.79
100215194--100215315	37	3.5	37	73	13	121	49	13	18	19	1.79
100215206--100215315	31	3.4	31	74	14	103	47	13	19	20	1.82
100215749--100215889	27	5.2	27	86	0	183	26	20	17	34	1.95
100217952--100218013	6	10.2	6	74	10	54	50	12	19	17	1.78
100217952--100218045	37	2.5	37	82	0	107	48	11	19	20	1.79
100217964--100218073	31	3.4	31	70	14	85	47	11	19	21	1.81
100218511--100218645	27	5.0	27	87	0	180	24	21	19	34	1.96
100220638--100220722	34	2.5	34	98	0	161	27	25	23	23	2.00
100221308--100221421	27	4.2	27	78	4	131	27	17	16	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100221281--100221414	54	2.5	54	84	4	189	25	20	17	37	1.93
100224343--100224367	5	5.0	5	100	0	50	80	0	0	20	0.72
100258982--100259086	40	2.6	41	80	8	126	23	23	27	24	2.00
100260440--100260542	47	2.2	47	92	0	170	27	25	12	34	1.92
100260639--100260722	44	1.9	44	82	4	107	25	23	13	38	1.91
100267009--100267215	103	2.0	103	96	0	378	33	18	22	25	1.97
100270016--100270193	27	6.6	27	84	3	205	29	28	15	26	1.96
100270037--100270192	82	1.9	81	88	3	233	29	28	15	26	1.96
100273951--100274183	102	2.3	102	93	1	387	25	13	26	34	1.93
100273951--100274189	50	4.7	50	77	9	234	25	13	26	34	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   291   292   293   294   295   296   297