genome.fa.s7.2.7.7.80.10.50.1000.163.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  163  of  290  ( 34714 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)
55782753--55782887	27	5.0	27	86	0	146	29	20	8	40	1.83
55782751--55782886	54	2.5	53	81	1	164	28	22	8	40	1.84
55782864--55783167	27	11.2	27	76	10	183	39	20	9	31	1.84
55782878--55783149	54	5.0	53	78	7	217	40	18	9	31	1.83
55782864--55783058	81	2.4	81	87	2	268	39	21	8	30	1.83
55782864--55783111	81	3.0	81	82	8	265	40	20	8	30	1.83
55783187--55783264	27	2.9	27	75	11	79	35	20	20	23	1.96
55784585--55784778	25	8.0	24	89	5	252	28	20	22	28	1.99
55787205--55787359	42	3.7	42	86	1	202	29	23	14	32	1.95
55787599--55787677	39	2.0	39	97	0	149	27	21	15	35	1.93
55797770--55797883	43	2.6	42	74	15	124	28	17	23	30	1.97
55813222--55813259	20	1.9	20	89	10	60	47	15	2	34	1.60
55813835--55813931	40	2.4	41	84	6	119	26	27	16	28	1.97
55814148--55814185	18	2.1	18	100	0	76	34	39	0	26	1.57
55827160--55827242	31	2.7	31	94	3	143	27	25	16	30	1.97
55827461--55827530	25	2.8	25	88	0	86	25	22	22	28	1.99
55828447--55828642	81	2.4	81	81	5	218	31	11	17	39	1.86
55828449--55828609	27	6.0	27	77	8	148	32	9	18	40	1.82
55828510--55828642	27	5.0	26	72	8	97	30	12	19	38	1.88
55828641--55828705	27	2.4	27	81	0	76	38	9	23	29	1.85
55830882--55830949	31	2.2	31	86	2	102	32	25	11	30	1.91
55830892--55830964	31	2.4	31	83	2	94	30	23	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55831175--55831253	25	3.2	24	82	10	88	24	20	22	32	1.97
55832062--55832126	27	2.4	27	79	5	69	21	23	18	36	1.95
55832180--55832265	27	3.1	27	76	17	86	36	9	15	39	1.79
55832242--55832366	27	4.7	26	77	8	117	28	6	21	43	1.77
55832244--55832399	81	1.9	81	83	5	199	28	9	19	41	1.83
55832270--55832385	27	4.3	27	78	4	99	27	9	22	40	1.85
55832398--55832462	27	2.4	27	84	0	76	38	7	24	29	1.83
55837061--55837163	51	2.0	51	92	0	170	29	24	21	25	1.99
55852065--55852142	33	2.4	32	80	6	84	34	17	20	26	1.95
55855751--55855870	62	1.9	62	96	0	222	25	32	24	17	1.97
55869612--55869912	39	7.7	40	89	6	408	25	22	27	24	2.00
55876988--55877171	79	2.3	81	81	7	216	25	21	27	25	1.99
55876987--55877171	40	4.7	40	80	6	207	24	21	27	25	1.99
55877034--55877204	79	2.2	79	78	12	181	28	19	26	26	1.99
55881434--55881525	44	2.1	45	93	2	159	21	19	28	30	1.98
55887138--55887174	18	2.1	18	89	0	56	29	2	16	51	1.58
55889356--55889470	44	2.6	43	83	6	133	19	18	29	33	1.95
55892164--55892228	31	2.1	31	100	0	130	21	10	12	55	1.67
55892367--55892426	29	2.1	29	93	0	102	13	18	15	53	1.73
55894218--55894258	20	2.0	20	95	0	73	31	9	21	36	1.86
55901104--55901132	15	1.9	15	100	0	58	34	13	13	37	1.85
55903219--55903311	26	3.5	26	88	1	123	47	8	12	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55905495--55905551	30	1.9	29	82	10	71	38	1	12	47	1.51
55908892--55909315	27	15.7	27	79	4	264	37	20	8	33	1.82
55909027--55909260	81	2.9	81	88	0	335	41	21	7	28	1.81
55909014--55909290	81	3.4	81	83	4	326	40	21	7	29	1.82
55909014--55909317	27	11.3	27	77	4	274	40	21	8	29	1.82
55910214--55910310	26	3.8	26	87	1	126	26	24	20	27	1.99
55910214--55910310	51	1.9	51	87	4	142	26	24	20	27	1.99
55910455--55910546	42	2.2	42	88	0	130	29	14	20	35	1.92
55910570--55910646	31	2.5	31	86	0	118	32	18	22	27	1.97
55920411--55920435	13	1.9	13	100	0	50	4	24	0	72	1.02
55933118--55933158	20	2.0	21	90	4	66	75	0	24	0	0.80
55933119--55933165	21	2.2	21	85	7	60	74	2	21	2	1.03
55935032--55935397	46	8.0	46	88	0	543	38	13	24	22	1.91
55935032--55935443	46	9.0	46	87	0	538	39	14	24	22	1.90
55935032--55935397	92	4.0	92	97	0	671	38	13	24	22	1.91
55944057--55944181	29	4.3	29	79	1	144	28	28	15	28	1.96
55944392--55944427	16	2.2	16	95	0	63	13	25	13	47	1.80
55945740--55945781	18	2.4	17	84	4	57	14	16	47	21	1.82
55945904--55945937	5	6.8	5	100	0	68	41	0	0	58	0.98
55945986--55946037	26	2.0	26	82	14	63	71	0	25	3	1.03
55951910--55951935	1	26.0	1	100	0	52	100	0	0	0	0.00
55952212--55952245	16	2.1	16	88	5	50	32	0	11	55	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55952626--55952670	16	3.0	16	81	15	60	53	2	0	44	1.13
55963377--55963403	10	2.7	10	100	0	54	18	11	29	40	1.85
55968026--55968191	43	3.8	43	79	1	152	33	24	16	25	1.96
55968026--55968191	87	1.9	87	81	3	201	33	24	16	25	1.96
55970641--55970853	106	2.0	106	99	0	417	38	14	18	29	1.90
55972041--55972161	62	2.0	59	88	4	179	50	4	3	41	1.40
55972590--55972619	9	3.2	9	95	4	51	43	0	0	56	0.99
55980333--55980375	11	3.8	11	81	3	50	32	0	2	65	1.06
55980393--55980464	30	2.4	30	83	4	83	63	6	0	29	1.20
55980496--55980543	24	2.0	23	92	4	78	37	29	4	29	1.76
55989122--55989146	13	1.9	13	100	0	50	92	0	8	0	0.40
55996135--55996302	84	2.0	84	98	0	327	19	27	18	35	1.95
55997072--55997720	324	2.0	324	100	0	1298	38	13	18	30	1.89
56004218--56004368	77	2.0	77	98	0	293	39	10	13	35	1.80
56005287--56005506	40	5.6	40	80	5	241	24	25	24	25	2.00
56008673--56008747	30	2.5	29	89	6	123	37	0	37	25	1.56
56014985--56015038	26	2.1	26	85	0	72	12	20	22	44	1.85
56030906--56031083	27	6.6	27	83	3	205	26	15	28	29	1.96
56030907--56031062	82	1.9	81	88	3	233	26	15	28	29	1.96
56030903--56031083	82	2.2	81	83	2	229	27	15	27	29	1.96
56034801--56035091	145	2.0	145	100	0	582	19	17	27	35	1.94
56039469--56039645	27	6.5	27	82	3	194	27	14	28	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56039470--56039625	82	1.9	81	86	3	224	26	14	28	29	1.95
56039466--56039645	82	2.2	81	81	3	218	27	15	27	30	1.96
56039972--56040035	32	2.0	32	93	0	110	21	7	43	26	1.80
56040870--56041026	79	2.0	79	98	0	305	35	15	21	28	1.94
56045632--56045922	147	2.0	149	86	6	412	41	4	11	42	1.60
56050427--56050531	53	2.0	53	82	0	129	38	19	22	20	1.94
56056718--56057027	46	6.7	46	86	0	406	19	23	14	42	1.88
56056733--56057028	138	2.1	138	89	1	450	18	23	14	42	1.87
56060971--56061038	29	2.3	29	85	5	93	27	30	13	27	1.94
56060860--56061187	174	1.9	174	96	0	602	30	24	14	29	1.95
56061140--56061218	29	2.7	30	82	13	110	30	30	13	25	1.94
56068944--56069121	27	6.6	27	84	3	205	29	28	15	26	1.96
56068965--56069120	82	1.9	81	88	3	233	29	28	15	26	1.96
56071968--56072055	42	2.1	42	91	0	140	36	19	13	30	1.90
56072200--56072421	26	8.8	26	86	6	314	26	22	22	28	1.99
56072238--56072378	72	2.0	72	95	0	255	25	24	20	29	1.99
56072212--56072404	98	2.0	98	93	0	332	26	22	20	30	1.99
56073325--56073967	27	23.7	27	75	5	267	31	8	21	38	1.84
56073627--56073973	190	1.8	190	81	6	434	30	7	21	40	1.81
56089727--56089911	79	2.3	82	83	7	229	24	27	22	24	2.00
56089708--56089911	40	5.1	40	81	8	229	24	27	22	25	2.00
56092801--56092868	29	2.3	29	85	5	93	27	30	13	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56092691--56093017	174	1.9	173	95	0	591	30	24	14	29	1.95
56092970--56093048	29	2.7	30	82	13	110	30	30	13	25	1.94
56102221--56102323	37	2.8	37	96	0	188	25	31	20	23	1.98
56102367--56102786	48	8.8	48	91	0	653	30	27	6	34	1.83
56118022--56118110	30	3.0	30	77	8	92	57	15	15	11	1.65
56118022--56118101	15	5.4	15	77	7	83	58	13	16	11	1.62
56118033--56118110	15	5.2	15	75	9	70	56	15	15	12	1.68
56121155--56121325	93	1.8	93	94	0	306	27	29	21	21	1.98
56121148--56121323	46	3.8	46	80	10	205	28	30	21	20	1.98
56123713--56123801	30	3.0	30	77	8	92	57	15	15	11	1.65

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