genome.fa.s7.2.7.7.80.10.50.1000.113.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  113  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)
38396473--38396520	22	2.2	21	85	7	60	50	31	0	18	1.48
38399668--38399699	15	2.1	15	100	0	64	43	12	0	43	1.42
38404282--38404306	12	2.1	12	100	0	50	16	0	0	84	0.63
38412144--38412198	20	2.7	21	77	13	60	61	0	7	30	1.23
38414105--38414150	22	2.1	22	100	0	92	30	8	13	47	1.72
38415233--38415274	22	1.9	22	90	9	68	26	11	9	52	1.68
38416915--38417034	47	2.5	49	77	9	131	35	20	21	22	1.96
38417006--38417128	47	2.6	47	94	0	219	36	13	23	26	1.92
38417106--38417323	54	4.0	54	81	7	235	38	15	23	22	1.92
38422108--38422138	14	2.2	14	94	0	53	61	0	0	38	0.96
38423513--38423608	40	2.5	38	75	6	102	34	37	12	15	1.85
38433573--38433682	26	4.2	26	93	4	177	35	5	23	35	1.78
38435300--38435412	27	4.2	27	82	3	120	16	23	23	37	1.94
38435302--38435408	54	2.0	54	87	3	153	17	22	22	37	1.94
38443486--38443539	21	2.6	21	100	0	108	7	22	16	53	1.67
38443495--38443535	12	3.7	12	75	18	52	9	19	19	51	1.74
38450483--38450530	18	2.7	18	75	15	55	35	0	0	64	0.94
38453609--38453654	16	2.8	16	90	9	67	34	0	0	65	0.93
38453604--38453654	18	3.0	18	83	11	63	33	0	0	66	0.92
38462164--38462229	23	3.0	23	77	6	82	42	22	19	15	1.88
38462602--38462658	15	3.9	14	80	11	69	49	12	3	35	1.58
38463048--38463100	19	2.9	19	76	15	58	30	5	7	56	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38463174--38463214	20	2.0	20	90	9	66	48	4	0	46	1.23
38464533--38464557	13	1.9	13	100	0	50	48	32	0	20	1.50
38466036--38466082	12	3.9	12	77	8	51	14	2	17	65	1.36
38466035--38466082	24	2.0	25	84	12	64	14	2	16	66	1.34
38467245--38467292	13	3.7	13	80	0	60	25	8	29	37	1.85
38468524--38468550	12	2.2	12	100	0	54	14	14	22	48	1.81
38468605--38469571	41	23.6	41	98	0	1837	32	24	21	21	1.98
38472278--38472500	40	5.6	40	84	3	236	26	27	21	24	1.99
38472278--38472500	120	1.9	119	80	8	265	26	27	21	24	1.99
38480192--38480454	40	6.6	40	87	3	316	27	27	20	24	1.99
38481520--38481722	101	2.0	102	98	1	392	20	23	9	46	1.80
38483695--38483728	16	2.1	16	100	0	68	20	29	11	38	1.88
38485568--38485596	14	2.1	14	93	6	51	34	0	6	58	1.25
38486011--38486065	21	2.6	21	85	0	83	27	18	50	3	1.63
38486450--38486529	42	1.9	42	84	5	108	33	28	12	25	1.92
38488928--38488975	21	2.3	21	74	0	51	22	22	8	45	1.79
38489519--38489552	16	2.1	17	88	5	52	41	0	0	58	0.98
38496613--38496718	25	4.2	25	75	6	90	34	20	24	19	1.96
38502363--38502412	20	2.5	20	83	3	64	40	12	2	46	1.52
38506745--38506783	21	1.9	20	84	5	51	41	15	0	43	1.46
38524689--38524739	25	2.0	25	92	0	84	31	21	17	29	1.96
38525494--38525671	45	3.9	45	87	1	230	21	15	28	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38525494--38525702	45	4.7	44	86	2	186	22	14	28	34	1.94
38525580--38525783	43	4.7	42	78	6	124	24	15	27	32	1.95
38527348--38527499	39	4.2	39	76	17	164	26	28	20	23	1.99
38542561--38542629	21	3.3	21	93	0	111	13	21	18	46	1.83
38542465--38542598	72	1.9	71	82	1	169	15	19	23	41	1.90
38543634--38543672	20	2.0	20	84	0	51	38	12	2	46	1.56
38545072--38545200	48	2.6	48	90	2	186	31	21	25	21	1.98
38545072--38545386	49	6.5	49	78	10	285	28	20	27	24	1.99
38548701--38548732	15	2.1	15	94	0	55	18	9	6	65	1.42
38551989--38552117	49	2.6	49	82	2	152	23	27	20	29	1.99
38556293--38556727	85	5.1	85	98	0	816	38	8	26	26	1.85
38563301--38563734	85	5.1	85	98	0	814	38	8	26	26	1.85
38569758--38569920	44	3.6	44	73	11	166	26	26	20	25	1.99
38569611--38569924	93	3.3	93	91	3	477	24	26	20	28	1.99
38569566--38569874	49	6.4	49	74	10	262	23	25	20	29	1.99
38583238--38583300	12	5.1	12	74	24	51	50	1	1	46	1.20
38583165--38583295	59	2.2	58	83	4	165	42	3	3	50	1.36
38584966--38585049	41	2.0	41	97	0	159	32	15	17	34	1.92
38587130--38587584	226	2.0	226	100	0	910	37	20	10	31	1.87
38591314--38591371	18	3.4	18	88	6	77	29	8	24	37	1.85
38592280--38592345	28	2.4	28	82	2	80	36	21	22	19	1.95
38594984--38595036	28	1.9	27	88	3	79	32	20	26	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38598996--38599091	50	1.9	50	95	0	174	29	17	26	27	1.98
38604514--38604577	34	1.9	33	87	3	92	20	23	25	31	1.98
38607267--38607416	67	2.2	67	81	8	171	32	17	28	21	1.96
38607291--38607474	67	2.8	64	77	8	194	29	17	29	22	1.97
38614565--38614652	23	3.8	23	79	5	97	20	19	18	42	1.90
38621817--38621878	22	2.8	22	77	0	70	29	25	27	17	1.98
38624427--38624460	14	2.3	15	95	5	61	76	0	0	23	0.79
38624427--38624460	5	7.0	5	86	6	52	76	0	0	23	0.79
38625048--38625083	4	8.8	4	87	6	54	27	0	0	72	0.85
38640991--38641069	29	2.7	27	86	9	104	26	16	29	27	1.97
38641022--38641348	173	1.9	174	93	0	566	30	14	24	31	1.94
38644389--38644425	19	1.9	19	100	0	74	16	16	16	51	1.77
38665076--38665113	18	2.2	18	86	9	53	68	0	7	23	1.16
38669928--38669960	11	3.1	11	91	4	50	42	3	0	54	1.15
38670135--38670160	13	2.0	13	100	0	52	92	0	7	0	0.39
38675927--38675997	34	2.1	34	81	0	79	25	11	25	38	1.89
38677155--38677297	72	2.0	71	92	0	232	36	10	18	34	1.85
38677952--38677977	13	2.0	13	100	0	52	84	0	0	15	0.62
38680558--38680650	42	2.2	42	79	7	109	31	22	16	30	1.95
38681738--38681763	13	2.0	13	100	0	52	53	15	0	30	1.42
38683150--38683269	44	2.7	44	79	3	116	28	19	19	33	1.96
38683300--38683412	51	2.2	52	90	3	176	31	13	16	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38683189--38684093	44	19.8	45	70	11	314	29	18	17	34	1.94
38683418--38683595	96	1.9	96	83	1	232	30	20	17	31	1.95
38683709--38684144	94	4.8	93	71	16	284	30	18	17	33	1.94
38683696--38684095	182	2.2	183	84	1	509	30	19	17	33	1.94
38683960--38684095	45	3.0	44	83	5	175	30	17	15	36	1.91
38683696--38684150	182	2.5	182	82	3	470	30	19	17	33	1.94
38687147--38687175	12	2.3	13	94	5	51	58	13	6	20	1.58
38688010--38688130	43	2.8	42	78	10	138	30	14	23	31	1.95
38701807--38701832	13	2.0	13	100	0	52	84	0	0	15	0.62
38701992--38702045	4	13.8	4	80	3	56	68	1	5	24	1.21
38706139--38706227	29	3.1	29	86	1	117	23	12	31	32	1.92
38712346--38713212	140	6.2	140	100	0	1734	27	17	31	23	1.97
38723567--38724470	94	9.6	94	99	0	1767	31	19	28	20	1.97
38723570--38724684	94	11.8	97	92	3	413	30	18	29	21	1.97
38729807--38729853	20	2.3	20	78	10	51	21	8	8	61	1.51
38731344--38731489	40	3.7	40	77	7	118	27	28	21	23	1.99
38739153--38739384	40	5.8	40	91	0	374	22	27	20	29	1.98
38742523--38742566	22	2.0	22	95	4	81	13	13	22	50	1.77
38752019--38752090	36	2.0	36	94	0	126	29	45	0	25	1.53
38755110--38755158	21	2.3	21	96	3	89	42	2	4	51	1.32
38755604--38755676	32	2.5	28	75	16	83	38	10	9	41	1.73
38755616--38755682	32	2.1	32	94	0	116	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)
38755750--38755782	5	6.6	5	100	0	66	81	0	18	0	0.68
38760188--38760225	18	2.1	19	90	5	60	52	5	21	21	1.66
38769171--38769330	35	4.6	35	84	0	203	38	15	21	25	1.92
38771563--38771596	9	3.8	9	84	0	50	0	23	0	76	0.79
38772380--38772642	140	1.9	140	87	1	393	31	21	19	27	1.97
38773279--38773313	17	2.1	17	88	0	52	42	20	5	31	1.75
38777606--38777644	19	2.1	19	100	0	78	15	25	38	20	1.92
38781663--38781710	24	1.9	24	87	8	69	66	0	4	29	1.10
38781850--38781921	36	2.0	36	97	0	135	30	9	19	40	1.84
38784570--38784595	13	2.0	13	100	0	52	69	0	15	15	1.20

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