genome.fa.s7.2.7.7.80.10.50.1000.100.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  100  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)
34233508--34233555	14	3.4	14	75	16	53	33	2	8	56	1.41
34234076--34234124	23	2.2	23	85	10	66	38	0	2	59	1.09
34238277--34238486	40	5.3	39	87	5	233	24	21	28	25	1.99
34238224--34238486	120	2.2	120	81	4	300	25	21	27	25	1.99
34238277--34238521	80	3.1	80	81	3	228	25	21	28	24	1.99
34246227--34246436	40	5.3	39	87	5	233	24	21	28	25	1.99
34246174--34246436	120	2.2	120	81	4	300	25	21	27	25	1.99
34246227--34246471	80	3.1	80	81	3	228	25	21	28	24	1.99
34249815--34249975	78	2.0	81	93	6	283	42	4	2	50	1.37
34249998--34250055	28	2.3	23	78	18	62	55	3	0	41	1.17
34259116--34259164	25	1.9	26	88	12	75	71	0	26	2	0.97
34259246--34259388	43	3.5	43	80	9	183	33	4	12	49	1.60
34259280--34259312	16	2.1	16	100	0	66	24	0	12	63	1.28
34259246--34259388	40	3.5	40	82	11	175	33	4	12	49	1.60
34259857--34259889	16	2.1	16	100	0	66	42	15	24	18	1.88
34265863--34266534	151	4.5	151	94	1	1082	27	7	7	56	1.56
34266570--34266635	16	4.2	16	74	3	62	24	3	3	69	1.16
34266807--34266849	21	2.0	21	100	0	86	67	9	0	23	1.19
34267053--34267093	21	2.0	20	90	4	64	0	34	0	65	0.93
34274155--34274228	15	4.7	15	75	11	67	36	1	1	60	1.13
34276682--34276706	13	1.9	13	100	0	50	40	0	0	60	0.97
34276641--34276719	38	2.0	40	81	13	94	45	1	2	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34276909--34276945	13	2.8	13	91	0	56	72	0	27	0	0.84
34280798--34280969	93	1.8	93	96	0	317	27	29	21	20	1.98
34280791--34280966	46	3.8	46	79	12	216	28	29	21	20	1.98
34285519--34285807	143	2.0	143	97	0	551	32	19	20	27	1.97
34285811--34285994	42	4.3	42	86	2	226	31	24	17	26	1.97
34285857--34286149	154	1.9	152	85	5	401	30	23	18	27	1.97
34285899--34286106	111	1.9	111	84	6	278	30	22	18	28	1.97
34286007--34286249	42	5.7	42	86	3	344	30	25	18	26	1.98
34285779--34286192	196	2.1	194	86	4	573	30	23	18	27	1.98
34286010--34286252	128	1.9	129	89	2	382	30	25	18	26	1.98
34286009--34286249	86	2.8	84	87	4	349	30	24	18	26	1.98
34292214--34292302	18	5.1	18	73	10	67	35	1	16	46	1.55
34292312--34292337	13	2.0	13	100	0	52	38	7	0	53	1.30
34294901--34294942	18	2.3	18	88	8	59	38	0	30	30	1.58
34295899--34295948	21	2.3	22	83	10	59	44	28	4	24	1.72
34296130--34296172	22	2.0	22	86	9	61	39	37	0	23	1.55
34296185--34296252	22	3.1	21	74	17	59	50	27	0	22	1.49
34296194--34296236	14	3.1	14	80	12	52	48	32	0	18	1.48
34296197--34296294	50	2.0	50	84	8	128	50	26	1	22	1.56
34296262--34296351	7	12.6	7	77	6	65	51	23	2	23	1.60
34296213--34296337	14	8.7	14	69	16	60	50	24	1	24	1.58
34296373--34296467	41	2.3	41	87	3	129	18	24	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34296473--34296504	14	2.3	14	94	0	55	25	0	31	43	1.55
34297086--34297323	41	5.8	41	77	7	144	28	24	20	27	1.99
34297126--34297323	82	2.4	82	87	0	279	27	24	20	27	1.99
34297257--34297391	68	2.0	68	86	2	191	28	22	20	28	1.99
34297325--34297476	41	3.7	41	81	3	180	26	21	19	32	1.97
34297179--34297466	150	1.9	150	87	1	416	27	22	19	29	1.98
34297325--34297476	82	1.9	82	84	0	205	26	21	19	32	1.97
34298716--34298748	9	3.7	9	91	0	57	42	21	9	27	1.83
34298751--34298801	10	5.1	10	74	9	50	31	7	0	60	1.25
34307887--34307934	20	2.4	20	76	13	53	29	2	2	66	1.14
34308862--34308909	25	2.0	24	84	12	62	39	0	2	58	1.10
34308874--34308926	18	2.9	19	81	15	60	37	0	3	58	1.16
34308878--34308932	19	3.0	18	76	5	56	34	0	3	61	1.13
34309265--34309325	28	2.2	27	88	2	86	59	6	3	31	1.39
34310100--34310151	17	3.1	17	77	5	52	42	0	1	55	1.10
34312579--34312678	9	10.7	9	69	18	53	69	1	3	27	1.10
34312602--34312646	20	2.2	20	88	7	65	64	2	4	28	1.25
34312629--34312667	17	2.4	17	86	4	53	71	0	2	25	0.98
34312622--34312671	25	2.0	25	88	0	73	70	0	2	28	0.99
34312891--34312954	9	6.9	9	77	10	58	29	0	4	65	1.13
34312891--34312933	19	2.3	19	88	4	61	30	0	0	69	0.88
34312890--34312944	27	2.0	29	85	7	78	30	0	3	65	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34312956--34313017	28	2.1	30	82	11	76	38	1	1	58	1.18
34313679--34313726	23	2.2	23	85	10	66	47	0	2	50	1.12
34314450--34314481	7	4.6	7	100	0	64	43	31	0	25	1.55
34316214--34316283	21	3.2	22	78	8	63	38	0	5	55	1.24
34316230--34316282	22	2.6	20	82	8	63	33	0	7	58	1.26
34316211--34316283	20	3.4	20	73	17	58	39	0	5	54	1.23
34317089--34317159	35	2.0	35	91	0	115	28	25	11	35	1.90
34321505--34321572	33	2.1	32	83	8	84	26	29	14	29	1.95
34322249--34322318	35	2.0	35	88	5	106	25	24	14	35	1.93
34323764--34323793	8	3.9	8	95	4	53	36	13	0	50	1.42
34324275--34324304	15	2.0	15	93	0	51	23	16	6	53	1.66
34326041--34326069	7	4.1	7	100	0	58	86	0	0	13	0.58
34326594--34326623	7	4.3	7	95	0	51	66	3	13	16	1.37
34332231--34332271	13	3.3	13	73	13	50	41	21	2	34	1.67
34332224--34332271	24	2.0	24	100	0	96	37	20	4	37	1.72
34333759--34333877	43	2.8	42	76	8	114	26	28	19	26	1.99
34333844--34333936	48	1.9	48	93	0	159	25	30	20	23	1.99
34346517--34346571	27	2.0	27	100	0	110	27	14	10	47	1.78
34348033--34348124	44	2.1	44	85	4	123	32	22	21	22	1.98
34353536--34353650	47	2.4	48	76	15	121	16	20	21	40	1.91
34353619--34353744	24	5.2	24	68	11	78	19	23	21	36	1.95
34363086--34363153	31	2.2	31	97	2	127	39	14	5	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34363372--34363419	15	3.2	15	77	11	53	37	16	0	45	1.48
34376428--34376475	25	1.9	25	95	0	87	33	14	12	39	1.84
34378329--34378382	20	2.7	20	85	0	72	12	31	33	22	1.92
34380632--34380947	39	8.1	39	96	0	578	21	24	30	23	1.99
34383296--34383459	42	3.9	42	78	7	145	28	24	15	31	1.96
34390770--34390856	36	2.3	38	80	13	115	39	9	14	36	1.79
34390781--34390852	36	2.0	36	100	0	144	33	11	16	38	1.84
34396737--34396996	45	5.9	46	73	12	181	25	16	26	31	1.97
34408118--34408159	22	1.9	22	100	0	84	40	14	7	38	1.73
34408916--34409081	49	3.4	49	78	4	167	23	27	21	27	1.99
34409110--34409311	46	4.4	46	78	6	212	21	27	20	30	1.98
34409143--34409314	91	1.9	92	92	1	292	19	28	21	30	1.98
34415594--34415856	48	5.5	48	84	1	348	22	17	31	28	1.96
34415597--34415951	96	3.8	95	78	7	332	24	17	29	28	1.97
34415647--34415907	144	1.8	144	79	3	310	23	18	29	28	1.97
34417744--34417773	12	2.5	12	100	0	60	43	6	50	0	1.28
34426542--34426809	48	5.6	48	83	5	335	24	16	32	27	1.96
34428980--34429070	27	3.4	27	92	0	146	26	20	18	34	1.96
34432312--34432361	24	2.1	24	92	0	82	26	28	14	32	1.94
34433103--34433229	51	2.5	51	84	2	157	24	23	11	40	1.87
34438514--34438625	56	2.0	56	85	0	152	34	9	13	41	1.77
34448141--34448183	14	3.1	13	83	6	50	39	4	13	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34450600--34450667	34	2.0	34	91	5	111	30	16	26	26	1.96
34454038--34454135	34	2.9	33	87	3	126	22	24	27	25	2.00
34460412--34460513	40	2.5	40	82	6	143	32	28	15	23	1.95
34460985--34461024	21	2.0	20	85	5	53	50	25	0	25	1.50
34468238--34468288	6	8.3	6	85	10	59	17	1	1	78	0.94
34468248--34468288	19	2.2	19	90	0	64	14	2	2	80	0.92
34481199--34481399	61	3.3	61	80	2	233	32	14	25	27	1.95
34491370--34491677	154	2.0	154	92	1	519	30	24	17	27	1.97
34494804--34494875	36	2.0	36	97	0	135	29	27	20	22	1.99
34528621--34528668	21	2.2	21	92	3	78	58	0	27	14	1.37

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