genome.fa.s7.2.7.7.80.10.50.1000.144.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  144  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)
49070346--49070401	21	2.8	21	83	5	62	39	30	3	26	1.73
49070410--49070751	115	3.0	116	86	4	471	45	27	0	26	1.60
49074715--49074776	23	2.6	23	87	5	79	45	25	1	27	1.63
49074730--49075328	29	19.7	29	85	8	721	45	30	0	24	1.55
49074715--49074791	23	3.1	23	73	20	64	46	25	1	25	1.60
49075222--49075311	23	3.6	24	79	18	96	44	33	0	22	1.53
49075274--49075317	6	7.5	6	85	10	56	38	43	0	18	1.50
49075273--49075317	23	1.9	24	95	4	83	40	42	0	17	1.50
49075328--49075654	56	5.9	54	81	9	410	34	12	6	45	1.69
49075327--49075663	110	3.0	110	95	1	584	34	12	6	45	1.68
49075646--49075670	10	2.5	10	100	0	50	44	8	0	48	1.32
49078427--49078864	126	3.5	126	90	2	727	33	21	15	29	1.94
49080856--49080946	26	3.7	24	80	14	105	27	3	1	68	1.12
49083844--49083904	25	2.4	25	78	5	70	45	1	3	49	1.28
49093147--49093231	46	1.9	45	81	13	106	30	5	3	60	1.38
49093363--49093427	27	2.4	28	82	7	71	32	9	4	53	1.53
49093812--49094184	186	2.0	186	100	0	746	32	13	15	38	1.86
49095165--49095200	17	2.1	17	94	0	63	19	16	19	44	1.87
49098255--49098292	17	2.2	17	86	9	51	71	0	15	13	1.16
49098275--49098319	14	3.3	14	82	14	58	71	0	20	8	1.12
49098274--49098312	21	1.9	21	94	5	71	71	0	20	7	1.10
49099606--49100266	44	15.0	44	79	4	672	31	13	22	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49100160--49100318	44	3.6	43	69	20	130	31	15	23	29	1.95
49099606--49100267	133	5.0	133	88	2	920	30	13	23	32	1.93
49101132--49101216	46	1.9	45	81	13	106	30	5	3	60	1.38
49101339--49101403	27	2.4	28	82	7	71	32	9	4	53	1.53
49104186--49104218	13	2.5	13	90	9	50	54	15	3	27	1.55
49104507--49104606	48	2.1	48	100	0	200	56	4	10	30	1.51
49105834--49105882	25	2.0	25	91	0	80	46	4	0	48	1.20
49122762--49122805	22	2.0	23	86	13	65	36	20	2	40	1.65
49123416--49123487	17	4.2	17	87	3	92	44	15	6	33	1.73
49123398--49123500	34	3.0	34	84	7	120	45	14	5	33	1.69
49123433--49123498	17	3.9	17	87	0	96	43	15	4	36	1.67
49124166--49124236	18	3.9	18	77	0	79	42	22	7	28	1.79
49124163--49124244	36	2.3	36	84	0	101	43	21	7	26	1.79
49124518--49124617	29	3.3	29	87	4	137	44	19	5	32	1.72
49128131--49128185	22	2.5	22	81	0	74	21	32	16	29	1.95
49130559--49130606	25	1.9	25	86	0	69	37	22	22	16	1.94
49139115--49139139	11	2.3	11	100	0	50	52	16	8	24	1.70
49142218--49142331	48	2.4	47	82	10	142	34	22	16	26	1.95
49144619--49144670	24	2.2	24	89	0	77	55	9	1	32	1.43
49146591--49146642	24	2.2	24	89	0	77	55	9	1	32	1.43
49148642--49148691	21	2.4	21	96	0	91	58	8	10	24	1.57
49149955--49150050	33	2.9	32	75	13	88	26	22	16	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49154966--49155000	17	2.1	17	94	0	61	34	14	14	37	1.86
49158357--49158396	21	1.9	21	94	0	71	47	22	0	30	1.52
49163341--49163476	2	68.0	2	100	0	272	50	0	50	0	1.00
49165559--49165659	25	4.0	25	100	0	202	31	23	7	36	1.84
49171238--49171305	31	2.2	30	80	10	75	39	11	11	36	1.79
49171258--49171321	31	2.1	31	93	0	110	34	9	12	43	1.75
49171916--49171951	18	2.0	18	88	0	54	61	0	2	36	1.11
49184613--49184654	18	2.3	19	80	12	52	59	2	0	38	1.10
49184662--49184741	32	2.6	30	84	11	92	33	16	17	32	1.92
49186372--49186473	50	2.0	50	86	3	143	44	13	4	37	1.66
49188792--49188827	18	2.0	18	88	0	54	8	11	5	75	1.19
49194472--49194521	23	2.2	23	85	0	64	34	20	26	20	1.96
49195531--49195595	16	4.4	15	76	14	55	0	26	4	69	1.08
49217576--49217982	44	9.2	44	90	1	566	27	19	26	26	1.99
49230771--49230809	19	2.1	19	85	0	51	53	0	2	43	1.14
49233428--49233478	3	17.0	3	95	0	93	64	0	1	33	1.05
49240239--49240291	17	3.5	15	75	25	58	49	15	0	35	1.45
49240269--49240315	24	2.0	24	84	16	62	51	17	0	31	1.46
49241101--49241132	8	4.0	8	100	0	64	50	0	0	50	1.00
49244052--49244104	24	2.2	24	93	0	88	50	7	1	39	1.41
49251372--49251863	51	10.1	51	76	10	458	30	24	16	29	1.96
49251380--49251848	92	4.9	92	80	6	497	30	24	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49251882--49251921	14	2.9	14	84	0	53	32	7	17	42	1.77
49251905--49251944	20	2.0	20	90	0	62	27	10	12	50	1.72
49251890--49251956	34	1.9	35	90	3	109	31	8	13	46	1.74
49251884--49251960	14	5.0	15	71	20	52	32	9	15	42	1.78
49251935--49252021	33	2.7	32	74	15	88	26	9	19	44	1.80
49256426--49256465	14	2.9	14	84	0	53	32	7	17	42	1.77
49256449--49256488	20	2.0	20	90	0	62	27	10	12	50	1.72
49256434--49256500	34	1.9	35	90	3	109	31	8	13	46	1.74
49256428--49256504	14	5.0	15	71	20	52	32	9	15	42	1.78
49256479--49256565	33	2.7	32	74	15	88	26	9	19	44	1.80
49259068--49259353	51	5.6	51	89	0	419	28	24	16	29	1.97
49259068--49259356	103	2.8	103	88	1	456	29	24	16	29	1.97
49260556--49260690	53	2.6	53	80	5	168	12	25	17	45	1.83
49261115--49261179	17	4.0	15	83	15	69	3	4	6	86	0.79
49261115--49261178	8	7.6	8	78	16	58	3	4	6	85	0.80
49261115--49261179	10	6.2	10	76	13	51	3	4	6	86	0.79
49270425--49270458	18	1.9	17	88	5	50	52	5	8	32	1.56
49271110--49271175	24	2.8	22	80	11	69	54	3	4	37	1.36
49271081--49271181	23	4.3	23	74	14	75	52	3	4	38	1.42
49274185--49274283	28	3.6	27	84	9	119	31	12	28	28	1.92
49277203--49277258	27	2.1	27	89	0	85	33	23	23	19	1.97
49277559--49277702	27	5.3	27	72	14	91	26	10	24	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49277627--49277684	26	2.2	27	81	3	64	29	8	24	37	1.85
49277694--49277771	27	2.9	27	88	7	122	35	7	17	38	1.79
49282671--49283005	27	12.5	27	85	1	370	20	17	19	43	1.88
49287425--49287523	42	2.3	43	84	1	119	31	24	16	28	1.96
49294770--49294796	2	13.5	2	100	0	54	0	51	0	48	1.00
49312232--49312262	16	1.9	16	93	0	53	22	0	0	77	0.77
49312235--49312280	14	3.1	15	78	15	51	28	0	0	71	0.86
49317293--49317340	22	2.2	21	85	3	60	29	4	6	60	1.40
49317608--49317702	29	3.4	27	72	13	77	31	12	1	54	1.45
49322097--49322171	37	2.1	36	85	11	102	73	9	10	6	1.25
49324477--49324501	11	2.3	11	100	0	50	88	0	12	0	0.53
49330165--49330218	9	5.8	10	75	14	53	35	1	0	62	1.06
49330167--49330213	18	2.6	19	83	10	62	34	2	0	63	1.06
49330262--49330346	24	3.8	22	77	13	75	38	4	2	54	1.34
49330392--49330424	17	2.0	17	88	5	50	24	3	0	72	0.98
49335364--49335427	12	5.2	12	81	3	56	84	1	6	7	0.84
49335387--49335430	18	2.4	18	80	0	61	79	0	11	9	0.93
49335691--49335910	108	2.0	107	83	4	273	26	15	7	49	1.72
49337290--49337502	44	4.8	44	75	11	161	30	17	21	29	1.96
49337749--49337859	45	2.6	44	79	9	113	30	18	20	30	1.96
49339865--49339949	24	3.8	22	77	13	75	38	4	2	54	1.34
49341389--49341465	5	15.4	5	73	16	54	41	1	1	55	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49341430--49341477	21	2.3	20	89	10	78	39	0	0	60	0.97
49346410--49346445	13	2.8	12	91	8	54	0	11	2	86	0.68
49354478--49354521	21	2.1	21	91	0	70	45	13	4	36	1.64
49360662--49360707	23	2.0	23	83	4	58	47	23	6	21	1.74
49360824--49361029	108	1.9	108	88	2	315	28	24	14	32	1.95
49370307--49370339	7	4.7	7	92	0	57	72	3	12	12	1.23
49373148--49373180	6	5.5	6	100	0	66	18	0	33	48	1.48
49382640--49382737	6	16.3	6	100	0	196	17	16	16	50	1.79
49385490--49385537	20	2.4	20	86	6	62	6	16	2	75	1.11
49386503--49386533	14	2.2	14	94	0	53	38	9	19	32	1.84

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