genome.fa.s12.2.7.7.80.10.50.1000.157.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  157  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)
51061558--51061628	35	2.0	35	100	0	142	52	19	14	14	1.75
51064021--51065155	567	2.0	567	100	0	2270	26	8	23	41	1.83
51066587--51066643	21	2.5	22	81	16	55	28	3	3	64	1.26
51066546--51066651	49	2.1	54	84	8	141	28	4	5	61	1.39
51066557--51066669	49	2.2	51	81	6	131	25	7	4	62	1.39
51066587--51066680	22	4.0	22	70	12	71	25	5	5	63	1.37
51068315--51068368	17	2.9	19	89	10	94	38	11	14	35	1.82
51068330--51068377	19	2.5	19	75	25	55	41	8	16	33	1.78
51068315--51068391	17	3.8	22	83	13	71	37	9	15	37	1.79
51070731--51070811	41	2.0	41	92	0	135	29	17	19	33	1.95
51070957--51071136	79	2.3	80	80	7	197	25	27	22	25	2.00
51070933--51071136	40	5.1	40	79	8	211	25	27	21	25	1.99
51079058--51079242	79	2.3	81	80	8	209	25	27	22	23	2.00
51079039--51079242	40	5.1	40	80	8	220	25	27	22	24	2.00
51085890--51085961	16	4.3	17	83	3	85	81	0	13	4	0.82
51085893--51085961	24	2.8	26	85	14	101	81	0	14	4	0.84
51085891--51085961	9	8.6	8	76	17	74	81	0	14	4	0.83
51085935--51085963	14	2.0	15	93	6	51	75	0	17	6	1.01
51086819--51087153	44	7.6	44	75	11	260	30	17	23	27	1.97
51086820--51087143	88	3.7	88	78	8	363	29	18	24	27	1.98
51087123--51087658	206	2.6	206	91	1	844	30	18	22	29	1.97
51088046--51088083	17	2.5	15	80	19	51	39	10	15	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51088046--51088124	19	4.2	19	83	9	108	37	12	16	32	1.86
51088049--51088141	19	4.8	21	82	6	67	35	12	17	34	1.88
51088809--51088977	84	2.0	84	95	2	304	29	8	15	46	1.75
51090759--51090827	20	3.5	20	70	20	65	31	0	21	46	1.52
51091133--51091512	126	3.0	125	87	2	548	34	18	20	27	1.96
51092935--51093315	126	3.0	126	86	2	541	35	17	19	27	1.95
51094777--51094860	41	2.0	41	86	0	114	33	20	21	25	1.97
51096338--51097097	126	6.0	126	97	0	1387	33	18	21	26	1.96
51102208--51102233	12	2.2	12	100	0	52	46	15	0	38	1.46
51102496--51102601	53	2.0	53	98	0	203	33	14	9	42	1.77
51102843--51102931	44	2.0	43	95	2	160	22	20	10	47	1.80
51103717--51103774	22	2.6	22	84	7	73	43	17	3	36	1.66
51103730--51103835	19	5.5	19	80	11	101	38	15	7	38	1.75
51103765--51103834	35	2.0	36	91	2	115	35	14	8	41	1.76
51103785--51103822	17	2.5	15	87	12	51	34	15	10	39	1.82
51103753--51103834	19	4.5	19	84	9	116	36	14	8	40	1.77
51106375--51106671	47	6.3	47	92	0	477	33	9	29	27	1.88
51108047--51108542	261	1.9	261	86	2	719	27	22	16	32	1.96
51108374--51109127	205	3.7	205	96	0	1346	29	21	18	29	1.97
51110075--51110127	8	6.8	8	77	10	56	11	3	0	84	0.73
51110068--51110127	23	2.8	21	75	12	61	11	5	1	81	0.91
51110075--51110125	23	2.3	23	86	10	70	11	3	0	84	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51111429--51111599	93	1.8	93	92	0	288	21	19	29	29	1.98
51111433--51111738	139	2.2	139	96	0	567	21	19	28	30	1.98
51111572--51111831	93	2.8	93	97	0	475	22	19	28	29	1.98
51111433--51111839	139	2.9	136	88	5	482	22	19	28	29	1.98
51117192--51117367	46	3.8	46	76	12	198	22	19	27	30	1.98
51117189--51117359	93	1.8	93	92	0	288	22	20	27	29	1.99
51124168--51124233	19	3.2	21	87	6	64	34	21	9	34	1.85
51124185--51124263	19	4.2	19	90	9	126	35	16	10	37	1.82
51124207--51124263	17	3.5	15	88	11	53	35	15	10	38	1.82
51124185--51124263	36	2.1	39	90	9	128	35	16	10	37	1.82
51126397--51126778	126	3.0	126	89	1	559	27	19	18	34	1.95
51131652--51131709	20	3.0	20	82	2	73	32	22	6	37	1.81
51131853--51131908	23	2.3	24	87	9	87	33	14	23	28	1.94
51131853--51131955	23	4.4	23	79	10	86	33	14	25	27	1.94
51135496--51135623	29	4.5	28	88	2	175	32	25	12	28	1.92
51135495--51135623	57	2.3	57	87	2	188	32	26	12	28	1.92
51139493--51139605	59	1.9	59	87	0	163	25	23	28	22	1.99
51154259--51154329	25	2.9	24	85	6	79	36	1	0	61	1.05
51154260--51154329	5	14.0	5	73	16	56	37	1	0	61	1.05
51159260--51159354	50	1.9	50	91	0	154	41	15	11	31	1.83
51161564--51161610	6	7.7	6	87	2	58	42	14	23	19	1.88
51161590--51161735	45	3.2	45	95	0	256	40	18	18	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51162450--51162483	18	1.9	18	94	5	61	0	20	0	79	0.73
51165142--51165176	18	1.9	18	88	0	52	37	20	8	34	1.83
51168175--51168222	19	2.5	19	83	10	53	33	6	2	58	1.35
51169784--51169825	17	2.4	18	80	8	50	76	4	0	19	0.96
51169820--51169864	8	5.6	8	89	0	72	62	0	2	35	1.08
51169813--51169865	24	2.2	24	83	6	72	64	1	1	32	1.15
51170303--51170332	12	2.5	12	100	0	60	80	0	0	20	0.72
51172186--51172287	43	2.4	43	88	3	143	44	15	6	33	1.73
51176986--51177032	22	2.1	23	84	4	60	17	10	14	57	1.65
51180811--51180870	31	1.9	31	96	0	111	46	21	18	13	1.83
51185328--51185360	6	5.7	6	85	7	50	84	0	0	15	0.61
51192775--51192807	12	2.8	12	86	4	50	24	0	3	72	0.98
51194463--51194500	20	1.9	20	100	0	76	36	21	7	34	1.82
51195858--51195922	33	1.9	35	81	6	80	26	24	13	35	1.93
51196742--51196792	7	7.6	7	81	18	56	0	25	0	74	0.82
51196742--51196788	6	7.7	6	83	7	51	0	25	0	74	0.82
51196742--51196786	13	3.5	13	82	17	58	0	26	0	73	0.84
51196742--51196795	10	5.0	11	72	20	51	0	24	0	75	0.80
51196802--51196853	5	10.4	5	100	0	104	59	0	0	40	0.97
51196870--51196896	14	1.9	14	100	0	54	59	0	0	40	0.98
51202445--51202521	11	6.9	11	80	2	73	3	3	32	59	1.34
51202445--51202538	23	4.2	22	79	4	98	4	4	30	60	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51202748--51202797	26	2.0	25	84	4	64	28	0	8	64	1.22
51204442--51204488	11	4.2	11	81	13	51	23	0	6	70	1.10
51208191--51208261	23	3.2	23	69	25	62	39	9	9	40	1.72
51208195--51208261	21	3.0	22	70	23	59	38	8	10	41	1.71
51217343--51217736	110	3.6	109	86	5	528	58	14	1	25	1.44
51219421--51219464	22	2.0	22	82	8	54	40	4	0	54	1.21
51222207--51222257	17	2.9	17	88	2	75	13	31	41	13	1.84
51222698--51222773	40	1.9	40	83	0	98	18	14	32	34	1.91
51222697--51222792	40	2.5	39	77	6	97	18	12	35	33	1.89
51224948--51224996	20	2.5	20	79	0	53	38	12	14	34	1.83
51224961--51225002	20	2.1	20	95	0	75	40	7	9	42	1.65
51225029--51225063	18	1.9	18	88	0	52	42	8	20	28	1.81
51225218--51225260	20	2.2	20	91	8	70	37	4	11	46	1.61
51225361--51225391	16	1.9	16	93	0	53	45	19	3	32	1.66
51236030--51236105	28	2.7	29	74	15	86	34	1	1	63	1.11
51238234--51238314	39	2.1	39	95	0	144	25	30	23	19	1.98
51241248--51241364	25	4.8	25	72	18	104	12	10	24	52	1.71
51241794--51241857	23	2.7	24	78	9	69	50	0	3	46	1.17
51245450--51245516	21	3.2	20	70	4	53	37	20	25	16	1.93
51248526--51248625	42	2.4	42	88	5	141	49	18	21	12	1.79
51248554--51248635	41	2.0	42	90	2	130	50	19	19	10	1.77
51248632--51248735	21	5.0	21	72	12	88	45	15	18	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51248525--51248725	104	1.9	105	80	1	233	47	17	18	15	1.82
51248609--51248744	42	3.2	42	80	0	146	48	14	16	19	1.81
51250805--51250894	39	2.3	39	98	0	171	17	17	30	34	1.94
51252257--51252306	22	2.2	23	89	3	75	18	16	20	46	1.85
51257072--51257117	23	2.0	24	91	4	76	50	0	0	50	1.00
51257069--51257118	26	1.9	26	84	8	66	52	0	0	48	1.00
51267144--51267187	9	4.7	9	80	8	52	38	2	36	22	1.67
51267150--51267186	19	1.9	19	100	0	74	37	0	40	21	1.54
51267963--51268111	56	2.7	56	87	6	230	46	14	8	31	1.73
51270076--51270357	141	2.0	141	100	0	564	40	20	11	27	1.87

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