genome.fa.s25.2.7.7.80.10.50.1000.140.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  140  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)
48174494--48174693	86	2.3	88	93	2	341	39	21	8	31	1.82
48174824--48174874	18	2.6	19	81	12	59	72	1	1	23	1.05
48174861--48174912	19	2.7	19	71	14	52	61	0	5	32	1.20
48174832--48174912	10	8.3	10	72	10	60	65	1	4	28	1.21
48174793--48174928	17	7.3	18	69	13	62	61	1	2	33	1.20
48178659--48178772	47	2.4	47	81	9	135	27	28	17	27	1.98
48178769--48179149	190	2.0	190	100	0	762	34	21	11	32	1.88
48179538--48179603	13	5.1	13	87	7	98	36	22	7	33	1.83
48182020--48182178	74	2.2	69	82	9	212	30	13	25	31	1.93
48182038--48182214	74	2.4	73	90	1	266	32	15	23	28	1.95
48195210--48195257	24	2.0	24	87	0	69	43	12	35	8	1.73
48195216--48195270	24	2.3	24	93	0	92	41	9	38	10	1.72
48195216--48195291	24	3.2	24	85	7	75	39	9	39	11	1.74
48210158--48210207	25	2.0	25	100	0	100	48	8	12	32	1.69
48211899--48211939	20	2.0	21	90	4	66	29	19	26	24	1.98
48212009--48212080	30	2.4	30	81	9	76	54	1	22	22	1.53
48219587--48219732	45	3.4	44	78	7	156	26	16	23	32	1.96
48219915--48219952	18	2.1	19	90	5	60	50	0	15	34	1.45
48228427--48228556	66	1.9	68	84	10	176	33	15	30	20	1.94
48230263--48230312	25	2.0	25	88	0	73	30	24	20	26	1.98
48230686--48230749	31	2.1	31	90	0	101	37	14	25	23	1.92
48236948--48236995	25	1.9	25	86	0	69	33	25	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48237043--48237098	11	5.5	11	71	16	57	35	12	19	32	1.89
48237032--48237098	20	3.3	20	93	0	116	34	11	20	32	1.90
48237149--48237195	25	1.9	24	83	12	60	27	23	23	25	2.00
48237389--48237452	31	2.1	31	93	0	110	37	15	23	23	1.93
48242677--48242813	40	3.4	40	89	0	202	33	26	16	23	1.96
48243279--48243321	20	2.2	20	87	8	61	48	25	0	25	1.51
48252439--48252524	24	3.6	24	82	3	102	30	32	16	20	1.95
48253105--48253139	2	17.5	2	100	0	70	51	48	0	0	1.00
48253863--48253896	17	2.0	17	94	0	59	38	5	0	55	1.24
48268722--48268983	39	6.7	40	87	7	337	25	22	27	24	2.00
48276566--48276611	24	2.0	23	91	8	67	32	8	30	26	1.86
48279136--48280688	47	32.7	47	97	1	2607	32	8	28	30	1.86
48280807--48280885	37	2.1	37	86	4	106	26	18	29	25	1.98
48291925--48291949	13	1.9	13	100	0	50	40	4	16	40	1.67
48293340--48293426	34	2.5	35	81	10	99	31	6	16	45	1.73
48296818--48296861	18	2.4	18	78	14	54	27	36	9	27	1.87
48306411--48306462	19	2.7	19	87	0	77	32	11	28	26	1.91
48307019--48307077	29	2.0	29	86	0	82	8	16	32	42	1.79
48311590--48311631	21	2.0	21	100	0	84	28	23	23	23	2.00
48311887--48311924	19	2.0	19	100	0	76	42	10	31	15	1.81
48327205--48327356	76	2.0	76	82	0	187	26	29	16	26	1.97
48333506--48333583	29	2.7	28	82	11	95	26	14	29	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48333536--48333863	174	1.9	174	94	0	584	30	14	24	30	1.95
48334198--48334332	69	2.0	69	96	0	252	8	25	24	42	1.82
48339168--48339292	43	2.9	42	75	11	128	24	18	26	31	1.98
48342588--48342845	40	6.5	40	90	4	337	24	27	24	24	2.00
48346353--48346377	12	2.1	12	100	0	50	40	16	12	32	1.84
48346614--48346642	15	2.0	15	93	6	51	48	3	0	48	1.18
48367257--48367310	22	2.5	22	93	3	92	22	20	37	20	1.95
48368373--48368542	47	3.6	47	81	7	159	24	30	16	28	1.96
48368369--48368542	94	1.8	94	85	8	246	24	31	17	27	1.97
48371165--48371236	34	2.1	34	85	10	94	26	23	20	29	1.99
48381597--48381767	46	3.7	46	76	9	168	30	19	26	22	1.98
48381639--48381811	94	1.8	94	83	2	231	29	17	29	23	1.97
48381597--48381811	48	4.6	47	77	6	188	30	18	27	23	1.98
48381831--48381949	49	2.4	49	84	4	150	26	21	28	22	1.99
48387046--48387233	40	4.7	40	94	0	304	29	21	27	21	1.99
48402507--48402648	71	2.0	71	98	0	275	26	32	20	20	1.97
48409574--48409703	47	2.8	47	85	2	163	33	27	16	22	1.95
48416340--48416517	27	6.6	27	82	3	196	26	14	28	30	1.95
48416341--48416496	82	1.9	81	86	3	224	26	14	28	30	1.95
48416337--48416517	82	2.2	81	82	2	220	27	14	27	30	1.95
48427278--48427323	13	3.4	14	80	19	62	80	6	0	13	0.89
48427279--48427321	9	4.8	9	83	16	54	81	6	0	11	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48428462--48428781	64	5.0	64	97	0	577	30	18	13	36	1.90
48429095--48429194	44	2.2	45	87	1	139	26	23	22	29	1.99
48429136--48429612	176	2.7	176	85	1	652	28	16	25	28	1.97
48431350--48432062	371	1.9	371	97	0	1347	30	12	12	44	1.80
48442075--48442129	28	2.0	26	80	19	60	43	16	20	20	1.88
48448078--48448175	50	2.0	50	93	0	169	26	25	12	35	1.91
48452299--48452337	14	2.8	14	88	0	60	23	33	10	33	1.88
48458857--48458951	27	3.5	27	86	0	127	28	16	27	27	1.97
48459428--48459747	28	11.5	28	96	0	556	25	14	29	31	1.95
48468366--48468393	3	9.3	3	100	0	56	67	0	32	0	0.91
48469496--48469532	20	1.9	20	88	5	58	56	5	0	37	1.22
48472397--48472619	40	5.6	39	86	3	250	27	27	20	24	1.99
48478747--48478853	40	2.7	40	95	0	187	21	27	20	30	1.98
48483727--48483876	41	3.7	41	84	1	212	28	27	23	21	1.99
48486472--48486530	17	3.4	17	71	2	55	1	28	3	66	1.18
48486580--48486704	5	25.0	5	100	0	250	60	0	0	40	0.97
48492624--48492673	20	2.5	20	78	15	57	54	8	8	30	1.58
48495754--48495853	52	1.9	52	100	0	200	41	17	15	27	1.88
48495942--48496016	30	2.4	31	84	4	89	50	2	1	45	1.24
48501127--48501160	15	2.3	15	89	0	50	47	8	0	44	1.34
48505816--48505853	20	1.9	20	88	0	58	23	23	5	47	1.72
48507645--48507702	27	2.1	27	93	0	98	24	25	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48512276--48512402	49	2.6	49	87	3	184	19	28	21	30	1.98
48516220--48516263	13	3.5	12	78	9	52	70	9	6	13	1.33
48529275--48529319	13	3.5	13	96	0	81	2	22	44	31	1.65
48536624--48536671	13	3.5	13	78	16	53	79	0	4	16	0.89
48536624--48536671	7	7.0	7	83	7	55	79	0	4	16	0.89
48542204--48542259	3	19.0	3	82	10	62	33	1	3	60	1.24
48545503--48545589	27	3.2	27	80	9	106	16	25	25	33	1.96
48549214--48549246	17	2.0	17	88	5	50	54	18	6	21	1.64
48557473--48557506	17	2.0	17	100	0	68	47	23	0	29	1.52
48557975--48558034	25	2.5	23	77	17	59	43	1	3	51	1.28
48560819--48560977	43	3.7	43	69	15	114	31	22	17	28	1.97
48571491--48571794	40	7.6	40	94	1	459	24	20	28	26	1.99
48571452--48571794	80	4.3	80	90	1	458	23	20	28	27	1.99
48571452--48571794	120	2.9	119	88	3	476	23	20	28	27	1.99
48579568--48579777	40	5.3	39	89	4	242	25	21	27	25	1.99
48579515--48579777	120	2.2	120	82	4	309	25	21	27	25	1.99
48579516--48579812	80	3.7	80	81	6	230	26	21	27	24	1.99
48589052--48589380	48	6.9	48	80	0	345	26	27	18	27	1.98
48589051--48589380	96	3.4	96	85	5	425	26	27	18	27	1.98
48593319--48593443	43	2.9	43	78	10	148	32	25	17	24	1.97
48599650--48599678	5	5.8	5	100	0	58	58	0	0	41	0.98
48603279--48603366	44	2.0	44	84	4	115	30	25	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48608340--48608372	16	2.1	16	88	11	50	33	6	24	36	1.80
48611697--48611739	18	2.3	19	84	8	52	46	6	6	39	1.58
48623389--48624395	495	2.0	498	86	3	1385	29	21	23	24	1.99
48625576--48625600	13	1.9	13	100	0	50	8	52	24	16	1.70
48630760--48630799	19	2.1	19	100	0	80	27	20	7	45	1.78
48630884--48630963	40	2.0	40	97	0	151	36	20	13	30	1.91
48632233--48632374	49	2.9	49	83	7	187	28	26	19	25	1.99
48650434--48650466	17	1.9	18	88	11	52	45	0	12	42	1.41
48652904--48652940	19	1.9	19	94	0	65	62	0	32	5	1.18
48654428--48654469	17	2.5	17	76	7	50	59	4	2	33	1.31

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