genome.fa.s7.2.7.7.80.10.50.1000.147.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  147  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)
50052976--50053083	43	2.5	42	79	2	135	32	12	23	31	1.92
50053171--50053221	20	2.6	20	84	3	68	37	1	27	33	1.68
50055097--50055249	46	3.3	45	73	10	128	30	19	26	22	1.98
50058601--50058643	21	2.0	21	90	0	68	39	20	9	30	1.84
50073340--50073411	33	2.1	34	82	7	85	26	23	23	26	2.00
50073769--50073828	28	2.1	28	81	0	66	28	18	21	31	1.97
50076830--50076901	33	2.1	34	82	7	85	26	23	23	26	2.00
50077259--50077318	28	2.1	28	81	0	66	28	18	21	31	1.97
50088973--50089012	20	2.0	20	85	0	53	25	22	25	27	2.00
50089000--50089132	50	2.7	50	85	3	180	32	26	16	24	1.96
50092563--50092648	42	2.0	42	95	0	154	41	19	5	32	1.75
50098333--50098510	27	6.6	26	82	6	178	26	15	28	29	1.96
50098334--50098489	82	1.9	81	86	3	224	26	16	28	28	1.97
50098330--50098510	82	2.2	81	82	2	220	27	16	27	29	1.97
50098415--50098521	27	3.9	27	85	1	70	26	14	28	30	1.95
50106315--50106366	27	1.9	27	92	0	86	42	15	25	17	1.88
50106413--50106450	14	2.9	13	81	11	51	18	13	10	57	1.63
50114722--50114759	14	2.9	13	81	11	51	18	13	10	57	1.63
50118288--50118316	13	2.1	14	93	6	51	20	0	6	72	1.07
50130008--50130056	22	2.2	22	85	7	64	30	22	24	22	1.99
50130216--50130324	41	2.7	41	95	0	200	26	29	22	21	1.99
50130544--50130601	29	2.0	29	96	0	107	24	18	13	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50130548--50130609	29	2.2	29	88	5	92	25	19	17	37	1.94
50130661--50130868	27	7.7	26	75	7	130	27	7	18	45	1.77
50130860--50130918	27	2.2	27	81	6	66	33	16	15	33	1.91
50130670--50130892	54	4.1	54	73	5	162	30	8	18	42	1.81
50130623--50130877	81	3.1	79	73	5	222	30	10	17	41	1.83
50130872--50130928	27	2.1	28	83	9	73	31	21	15	31	1.94
50137134--50137209	32	2.3	32	93	4	125	42	18	13	26	1.87
50138872--50138903	16	2.0	16	93	0	55	50	34	6	9	1.60
50140381--50140499	29	4.2	29	84	2	143	29	14	27	28	1.95
50140396--50140504	57	1.9	58	88	1	166	27	16	29	26	1.97
50142226--50142271	20	2.3	20	88	3	67	15	28	13	43	1.83
50142765--50142830	21	3.2	21	64	12	55	48	10	4	36	1.58
50142767--50142847	41	2.0	41	97	0	153	44	13	4	37	1.66
50145326--50145610	48	5.9	48	79	0	311	27	26	17	28	1.98
50145328--50145610	96	2.9	95	91	3	451	26	26	18	28	1.98
50147381--50147436	18	2.9	19	77	17	62	33	1	1	62	1.16
50151603--50151960	93	3.8	93	98	0	682	29	29	20	20	1.98
50151596--50151960	46	7.8	49	75	16	364	29	29	20	20	1.98
50155760--50155911	44	3.5	44	87	7	229	23	21	30	25	1.99
50158018--50158088	28	2.5	28	97	0	133	22	21	29	26	1.99
50159906--50159930	7	3.6	7	100	0	50	12	12	0	76	1.04
50166269--50166532	46	5.6	49	77	13	209	23	28	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50166269--50166581	46	6.6	45	75	13	158	23	28	20	28	1.98
50166274--50166581	140	2.2	142	81	10	346	23	28	19	28	1.98
50166779--50166809	15	2.1	15	100	0	62	38	6	22	32	1.80
50166940--50166996	30	1.9	30	96	0	105	29	24	12	33	1.92
50168819--50168951	49	2.7	48	79	6	142	20	24	24	30	1.98
50170529--50170662	66	2.0	66	98	0	259	36	13	14	35	1.85
50170787--50170879	24	3.9	24	76	16	86	27	21	23	26	1.99
50172532--50172577	24	1.9	24	81	0	56	54	4	4	36	1.40
50173114--50173312	51	3.9	51	86	3	285	30	24	13	31	1.94
50173348--50173415	24	2.8	24	95	0	118	23	22	17	36	1.94
50174635--50174712	15	5.1	15	79	4	75	42	10	16	30	1.82
50174638--50174697	31	2.0	30	83	3	75	43	10	16	30	1.81
50180050--50180191	48	2.9	47	80	11	162	33	28	15	22	1.95
50186726--50186792	34	2.0	33	91	2	107	19	22	25	32	1.97
50195488--50195540	22	2.4	22	93	0	88	20	22	39	16	1.92
50197088--50197310	39	5.7	40	83	9	248	25	26	21	26	2.00
50197088--50197303	79	2.7	80	80	11	239	25	25	21	26	1.99
50203985--50204099	58	2.0	58	98	0	221	26	15	31	26	1.96
50211737--50211785	20	2.4	21	89	3	73	38	10	16	34	1.82
50211833--50211902	25	2.8	25	91	0	104	27	21	22	28	1.99
50211832--50211915	25	3.4	25	81	12	86	29	20	22	27	1.98
50212124--50212199	31	2.5	31	86	0	116	34	17	26	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50219759--50219828	25	2.8	25	91	0	104	28	25	21	24	1.99
50220050--50220128	30	2.6	31	87	2	115	31	21	27	18	1.97
50222442--50222542	29	3.5	29	87	0	148	30	29	11	27	1.92
50222766--50222796	16	1.9	16	93	0	53	16	19	19	45	1.86
50223245--50223319	36	2.1	36	94	0	132	45	17	21	16	1.85
50224076--50224199	29	4.3	29	84	1	151	29	29	14	25	1.95
50224409--50224466	16	3.6	16	78	0	71	12	22	17	48	1.80
50224538--50224633	46	2.1	46	100	0	192	39	26	7	27	1.82
50224552--50224623	22	3.2	22	65	27	60	40	25	5	29	1.78
50228704--50228827	29	4.3	29	86	1	160	29	29	15	25	1.96
50228886--50228919	18	1.9	18	88	5	52	20	41	23	14	1.89
50234866--50234917	27	1.9	27	92	0	86	38	19	13	28	1.89
50235189--50235254	34	1.9	34	87	6	98	27	19	19	33	1.96
50236456--50236546	34	2.7	34	84	3	121	25	24	25	25	2.00
50238967--50239139	46	3.8	45	76	10	197	32	28	17	21	1.96
50238972--50239140	93	1.8	93	93	0	293	31	28	17	21	1.96
50243056--50243269	119	1.8	118	93	1	374	34	6	20	38	1.78
50244295--50244394	6	16.3	6	68	15	62	48	16	18	18	1.82
50244321--50244387	19	3.6	19	72	11	66	46	16	19	17	1.85
50244304--50244387	37	2.3	37	87	0	114	48	14	19	17	1.81
50244514--50244648	27	5.0	26	76	11	119	37	19	22	20	1.95
50244511--50244647	55	2.5	53	81	6	168	37	20	22	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50244770--50244821	27	1.9	27	84	7	70	36	17	23	23	1.95
50244805--50244863	22	2.7	22	81	0	64	32	22	25	20	1.98
50245240--50245512	81	3.4	81	90	2	395	25	18	19	36	1.94
50245240--50245507	27	9.9	27	86	0	347	25	18	19	36	1.94
50245500--50245570	27	2.6	27	93	0	115	19	5	25	49	1.70
50250419--50250486	27	2.5	27	90	0	109	33	17	20	27	1.95
50250472--50250844	27	13.9	27	77	8	120	39	19	9	31	1.84
50250472--50250557	26	3.2	26	85	6	93	38	16	10	34	1.83
50250574--50250729	54	2.9	53	78	8	172	39	21	8	29	1.84
50250550--50250703	81	1.9	81	80	7	179	39	22	9	28	1.85
50250598--50250755	54	2.9	53	79	10	176	40	19	9	30	1.83
50250523--50250783	27	9.7	26	78	10	127	41	19	8	29	1.82
50250765--50250859	27	3.5	27	77	9	77	41	17	9	31	1.82
50253652--50253755	49	2.1	49	96	1	190	41	9	18	30	1.82
50258392--50258424	16	2.1	16	100	0	66	48	6	18	27	1.71
50258592--50259406	40	20.4	40	99	0	1612	22	20	29	27	1.98
50266080--50266135	29	2.0	29	96	3	105	37	16	32	14	1.88
50267181--50267213	16	2.1	16	94	0	57	45	6	21	27	1.75
50270169--50270280	27	4.2	26	82	7	125	14	25	22	38	1.91
50270169--50270280	54	2.1	54	85	9	149	14	25	22	38	1.91
50281120--50281230	45	2.5	45	82	8	145	21	13	29	35	1.92
50293204--50293388	73	2.5	73	83	0	235	31	23	21	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50295447--50295568	46	2.6	46	84	5	136	36	16	22	24	1.94
50299719--50299833	44	2.6	44	85	2	149	35	13	22	27	1.92
50299719--50299852	46	3.0	45	82	4	153	35	14	23	26	1.93
50308991--50309022	16	2.0	16	93	0	55	43	15	25	15	1.86
50309236--50309411	29	6.1	29	87	2	248	26	13	30	29	1.94
50309236--50309411	57	3.1	57	89	0	271	26	13	30	29	1.94
50314718--50314934	40	5.5	40	84	6	255	23	23	28	24	1.99
50314718--50314934	79	2.7	80	80	10	250	23	23	28	24	1.99
50314718--50314934	119	1.8	119	83	7	289	23	23	28	24	1.99
50317117--50317269	29	5.3	29	86	0	202	26	15	29	28	1.96

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