genome.fa.s12.2.7.7.80.10.50.1000.165.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  165  of  276  ( 33102 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)
54014808--54014932	38	3.3	38	98	0	241	32	26	13	28	1.94
54028203--54028313	40	2.7	41	83	2	143	36	24	14	25	1.93
54032037--54032137	40	2.5	40	91	0	166	34	24	17	22	1.96
54035631--54035825	40	4.9	40	87	3	277	25	28	21	25	1.99
54046057--54046200	38	3.8	38	89	1	200	30	25	21	22	1.99
54046059--54046216	76	2.1	78	85	4	214	29	25	21	23	1.99
54046059--54046228	38	4.4	38	84	8	170	30	26	20	22	1.99
54051823--54052090	46	5.7	46	74	13	190	27	19	29	23	1.98
54058249--54058281	17	1.9	17	100	0	66	54	15	0	30	1.41
54060757--54060790	15	2.3	15	100	0	68	17	35	20	26	1.95
54062185--54062407	27	8.3	27	87	0	275	24	18	21	35	1.96
54062185--54062412	54	4.2	53	86	4	305	25	19	20	35	1.96
54065177--54065238	26	2.4	27	78	10	67	53	11	8	27	1.64
54080737--54080995	39	6.6	39	83	8	284	25	21	27	25	1.99
54080799--54080995	75	2.6	76	87	7	265	24	20	27	26	1.99
54084287--54084506	46	4.8	46	98	0	422	19	25	30	25	1.98
54087421--54087508	30	3.0	30	81	8	99	10	15	15	57	1.64
54087430--54087509	15	5.4	15	80	7	92	10	16	13	60	1.59
54092913--54093000	30	3.0	30	81	8	99	10	15	15	57	1.64
54092922--54093001	15	5.4	15	80	7	92	10	16	13	60	1.59
54102992--54103907	38	24.1	38	99	0	1751	26	21	26	25	1.99
54106159--54107057	40	22.5	40	98	0	1723	22	22	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54108500--54108612	43	2.6	43	83	10	151	25	18	23	32	1.97
54115636--54115755	42	2.8	44	77	7	131	33	25	14	27	1.94
54119094--54119127	18	1.9	17	88	5	50	38	11	8	41	1.73
54121637--54121748	44	2.6	43	86	8	149	33	27	17	21	1.96
54132634--54132671	19	2.0	19	85	10	51	39	18	2	39	1.65
54136160--54136224	28	2.3	28	91	0	103	32	27	7	32	1.85
54136330--54136420	28	3.2	28	90	4	139	20	24	23	31	1.98
54136330--54136445	56	2.1	55	82	9	137	19	24	21	34	1.96
54136884--54136922	19	2.1	19	85	0	51	15	5	7	71	1.26
54137507--54137540	10	3.3	10	84	8	50	29	8	8	52	1.62
54142933--54142992	28	2.1	28	87	0	84	31	30	8	30	1.87
54143622--54143660	19	2.1	19	85	0	51	15	5	7	71	1.26
54145653--54145802	43	3.5	42	79	8	126	34	27	14	24	1.94
54146281--54146478	63	3.1	63	64	23	171	48	20	4	26	1.67
54146264--54146515	126	2.0	126	100	0	504	46	20	4	27	1.70
54150332--54150501	48	3.6	48	81	4	184	25	28	17	28	1.98
54150373--54150546	46	3.7	46	82	8	201	24	28	17	28	1.98
54150332--54150546	94	2.3	94	82	4	256	25	27	18	28	1.98
54157415--54157581	46	3.6	45	77	13	162	21	29	19	29	1.98
54169393--54169630	49	4.8	49	85	4	298	28	26	18	26	1.98
54169398--54169637	99	2.4	100	86	3	324	27	27	19	25	1.99
54171352--54171416	15	4.4	15	74	18	57	64	12	12	10	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54183007--54183063	30	1.9	30	92	0	96	22	40	26	10	1.86
54187228--54187485	40	6.5	40	95	1	439	24	22	27	25	2.00
54196236--54196413	40	4.5	40	90	2	261	24	23	28	24	2.00
54199778--54199807	3	9.7	3	92	7	51	33	3	0	63	1.11
54201392--54201417	6	4.3	6	100	0	52	15	0	0	84	0.62
54201395--54201446	20	2.5	20	84	3	68	15	3	0	80	0.85
54202429--54202480	4	13.2	4	91	4	88	50	23	0	26	1.50
54202436--54202480	23	2.0	23	100	0	90	51	22	0	26	1.49
54205851--54205935	39	2.2	39	95	0	152	28	17	24	29	1.97
54208007--54208126	43	2.9	41	73	13	100	25	20	25	28	1.99
54219656--54219725	28	2.5	28	90	4	106	27	12	27	32	1.93
54223446--54223634	40	4.8	40	86	1	247	24	22	26	26	2.00
54237405--54237512	54	2.0	54	89	3	164	26	25	22	25	2.00
54237474--54237577	39	2.6	39	89	1	154	25	27	21	25	1.99
54237474--54237630	40	4.0	40	81	9	160	24	27	22	25	2.00
54237474--54237630	79	2.0	80	82	6	194	24	27	22	25	2.00
54239215--54239344	64	2.0	66	95	3	237	26	25	17	30	1.97
54244950--54245127	27	6.6	27	84	3	205	29	28	15	26	1.96
54244971--54245126	82	1.9	81	88	3	233	29	28	15	26	1.96
54253429--54254288	46	18.7	46	99	0	1657	21	19	28	30	1.98
54260653--54260688	18	1.9	19	88	5	56	25	19	38	16	1.92
54260755--54260869	29	4.0	29	76	6	101	28	13	26	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54264401--54264443	19	2.3	19	88	8	61	51	9	4	34	1.55
54268898--54268924	12	2.2	12	100	0	54	25	44	22	7	1.79
54269864--54269911	16	2.8	18	78	12	64	72	0	10	16	1.10
54274693--54274752	28	2.2	28	84	3	77	28	25	23	23	2.00
54276991--54277112	43	2.9	42	76	10	122	27	23	16	31	1.96
54279217--54279268	27	1.9	27	84	7	70	32	1	13	51	1.52
54286875--54286919	22	2.0	22	95	0	81	37	11	35	15	1.83
54290086--54290324	117	2.0	118	98	0	462	43	10	21	24	1.84
54300980--54301105	42	3.0	42	79	1	144	30	26	16	25	1.97
54303927--54303984	30	2.0	29	93	3	98	31	24	17	27	1.97
54308215--54308335	42	2.9	42	78	0	125	28	26	14	30	1.95
54308301--54308505	90	2.3	90	85	5	263	31	24	16	27	1.96
54320206--54320418	108	2.0	107	94	0	372	39	8	23	27	1.84
54331745--54331954	28	7.6	27	90	5	312	30	28	14	26	1.95
54331745--54331954	83	2.5	82	90	3	330	30	28	14	26	1.95
54331745--54331954	55	3.8	55	91	3	323	30	28	14	26	1.95
54339976--54340127	27	5.6	27	88	3	214	30	29	12	26	1.93
54339975--54340148	55	3.1	55	89	0	249	31	31	12	25	1.92
54348680--54348727	24	2.0	23	92	8	78	54	14	4	27	1.59
54348760--54349336	69	8.4	69	73	4	324	35	22	20	22	1.96
54348731--54349336	138	4.4	138	74	4	463	34	21	20	22	1.96
54349357--54349553	58	3.4	59	80	8	237	35	16	9	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54349357--54349612	112	2.2	115	80	8	281	33	16	10	40	1.82
54351696--54351920	50	4.5	51	79	8	214	24	17	26	30	1.97
54351794--54351877	28	3.2	27	65	25	72	22	15	32	29	1.95
54351692--54351920	101	2.3	99	83	6	266	24	18	26	30	1.98
54355044--54355086	22	2.0	22	90	0	68	37	16	27	18	1.92
54355045--54355092	22	2.2	22	84	0	60	37	16	25	20	1.93
54356060--54356099	21	1.9	20	85	10	53	70	15	2	12	1.28
54356240--54356295	18	3.5	15	81	18	60	37	10	16	35	1.83
54356219--54356316	35	2.7	37	86	12	141	38	9	16	35	1.80
54356219--54356309	19	4.9	19	90	8	152	38	9	15	36	1.81
54356219--54356332	19	5.8	22	86	10	87	37	8	15	37	1.79
54356601--54356634	18	1.9	17	88	5	50	29	0	0	70	0.87
54360136--54360244	54	2.0	54	100	0	218	27	19	5	47	1.71
54360136--54360215	25	3.0	25	63	19	63	23	20	5	51	1.67
54361795--54363516	858	2.0	861	96	0	3200	31	14	26	27	1.95
54365872--54366399	78	6.8	78	89	0	770	32	18	23	24	1.97
54366339--54366576	45	5.3	44	75	5	210	31	17	26	25	1.97
54372486--54372744	40	6.5	40	86	4	310	27	26	20	25	1.99
54381419--54381464	23	2.0	23	84	12	60	45	10	6	36	1.65
54381426--54381470	23	2.0	23	82	8	56	40	13	8	37	1.76
54409177--54409355	85	2.1	85	98	0	349	26	27	8	37	1.85
54412510--54412564	19	3.1	17	81	7	65	34	14	10	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54417008--54417058	19	2.7	19	87	0	84	27	7	13	50	1.69
54417381--54417473	48	1.9	49	91	2	152	29	16	17	37	1.91
54428358--54428434	29	2.7	29	87	0	109	25	28	19	25	1.99
54428639--54428676	16	2.4	16	78	4	51	10	26	21	42	1.85
54428715--54428794	38	2.1	38	95	0	142	25	28	21	25	1.99
54431136--54431679	270	2.0	270	99	0	1079	34	20	17	28	1.95
54437774--54437820	18	2.6	18	86	3	58	25	14	19	40	1.90
54439787--54439823	18	2.1	18	100	0	74	27	10	16	45	1.80
54440149--54440196	19	2.4	19	79	6	51	45	2	2	50	1.25
54443294--54443354	30	2.0	30	100	0	122	32	19	16	31	1.94

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