genome.fa.s7.2.7.7.80.10.50.1000.127.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  127  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)
43237867--43238136	94	2.9	91	78	10	271	24	28	18	29	1.98
43241582--43241613	15	2.1	15	100	0	64	25	6	18	50	1.70
43243084--43243114	7	4.4	7	100	0	62	32	29	12	25	1.93
43247215--43247280	26	2.6	25	80	15	91	40	21	24	13	1.89
43249051--43249161	45	2.5	45	91	2	179	41	18	18	20	1.91
43250266--43250296	3	10.3	3	100	0	62	67	0	0	32	0.91
43250541--43250612	26	2.8	26	81	8	85	58	1	1	38	1.15
43250549--43250603	20	2.7	20	81	16	67	56	1	1	40	1.21
43252296--43252347	13	3.7	13	72	18	50	7	32	40	19	1.80
43252382--43252413	13	2.5	13	94	0	55	25	34	31	9	1.87
43253352--43253462	33	3.4	33	78	0	105	27	23	14	34	1.94
43253451--43253624	33	5.3	33	87	4	212	29	20	10	39	1.87
43253385--43253622	98	2.4	96	77	10	241	31	21	10	36	1.88
43254300--43254346	21	2.2	22	82	17	64	34	17	0	48	1.47
43261516--43261563	18	2.8	18	81	12	57	31	14	6	47	1.69
43273563--43273669	42	2.6	41	82	4	117	31	23	14	30	1.94
43275702--43275757	16	3.3	17	80	14	62	78	1	8	10	1.03
43285512--43285547	18	2.0	18	100	0	72	11	16	44	27	1.82
43286323--43286356	18	1.9	18	88	5	52	14	20	47	17	1.83
43292921--43292970	22	2.3	22	86	6	66	22	4	10	64	1.41
43297155--43297196	22	1.9	23	85	9	61	40	7	7	45	1.59
43304664--43304754	45	2.0	45	85	2	121	37	28	6	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43307980--43308119	39	3.6	39	99	0	271	34	30	4	30	1.77
43308148--43308249	16	6.2	16	95	4	186	37	38	0	24	1.56
43308148--43308249	33	3.1	33	98	1	197	37	38	0	24	1.56
43308148--43308249	49	2.1	49	96	3	188	37	38	0	24	1.56
43309413--43309511	7	13.9	7	77	12	78	42	2	0	55	1.11
43309417--43309511	36	2.6	36	94	0	172	43	2	0	54	1.12
43311228--43311253	12	2.2	12	100	0	52	38	0	0	61	0.96
43315940--43315992	26	2.0	27	85	7	74	24	15	22	37	1.92
43320839--43320866	12	2.3	12	100	0	56	14	53	21	10	1.70
43324053--43324136	26	3.2	26	96	0	150	36	25	4	33	1.77
43325106--43325143	20	1.9	20	94	0	67	52	7	0	39	1.31
43325161--43325258	48	2.1	47	96	1	178	58	9	6	26	1.53
43327989--43328151	43	3.8	43	82	6	170	33	25	16	25	1.96
43327989--43328151	86	1.9	85	83	6	213	33	25	16	25	1.96
43335963--43336088	42	3.0	42	82	5	155	32	24	19	23	1.97
43337320--43337388	21	3.2	21	87	4	93	33	26	24	15	1.95
43337356--43337400	23	2.0	23	86	0	63	37	24	22	15	1.93
43337716--43337754	18	2.1	19	90	4	62	48	10	0	41	1.37
43339070--43339119	5	10.0	5	82	8	66	56	2	0	42	1.11
43341258--43341373	29	4.0	29	78	4	119	28	29	14	27	1.95
43341584--43341628	16	2.8	17	86	10	67	11	24	20	44	1.83
43341584--43341630	8	5.9	8	82	0	58	10	25	21	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43344174--43344213	18	2.3	18	91	4	64	57	0	5	37	1.21
43350674--43350717	22	1.9	24	90	9	74	70	15	13	0	1.17
43355730--43355817	40	2.2	41	80	13	103	39	14	7	37	1.76
43355741--43355818	40	1.9	41	84	7	106	39	15	8	35	1.79
43355742--43355837	20	4.8	19	77	7	75	37	15	9	37	1.80
43356003--43356117	23	4.9	24	76	11	87	35	18	21	24	1.95
43378196--43378252	22	2.8	21	77	12	57	61	5	0	33	1.18
43378718--43378769	3	17.3	3	77	0	50	32	34	1	30	1.69
43378769--43378800	3	10.7	3	100	0	64	34	0	0	65	0.93
43379789--43379886	43	2.3	42	80	13	103	41	9	0	48	1.35
43380422--43380471	22	2.2	24	78	10	59	56	4	4	36	1.37
43380428--43380477	22	2.2	23	85	3	66	60	4	4	32	1.34
43381364--43381397	7	4.7	7	89	7	50	76	0	2	20	0.92
43381639--43381678	20	2.1	19	95	4	71	32	5	0	62	1.17
43383622--43383763	71	2.0	71	95	0	257	42	4	19	33	1.73
43383749--43383779	2	15.5	2	100	0	62	48	0	51	0	1.00
43383785--43384010	114	2.0	114	99	0	443	40	7	26	24	1.83
43386396--43386440	20	2.1	22	84	8	58	42	0	11	46	1.39
43391747--43391786	5	8.0	5	100	0	80	40	0	0	60	0.97
43391824--43391871	21	2.4	19	78	18	53	70	4	20	4	1.21
43391801--43391885	26	3.3	27	72	11	79	69	3	22	4	1.23
43391856--43391891	15	2.2	17	90	9	58	69	0	30	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43393007--43393045	20	2.0	20	85	10	53	33	0	23	43	1.54
43394559--43394743	40	4.6	40	85	2	228	35	26	15	23	1.94
43394570--43394743	80	2.2	80	87	3	251	34	26	15	23	1.95
43400677--43400743	24	3.0	22	77	12	64	29	19	17	32	1.95
43400699--43400767	24	2.8	25	80	8	79	28	21	17	31	1.96
43405493--43405677	40	4.6	40	87	4	246	34	28	14	23	1.93
43406879--43406917	14	2.5	16	84	16	55	35	0	23	41	1.55
43413586--43413702	62	1.9	62	100	0	234	28	17	11	42	1.84
43414013--43414066	22	2.4	22	93	3	90	7	35	9	48	1.63
43414820--43414873	9	5.5	10	81	18	60	33	0	0	66	0.92
43415240--43415268	14	2.1	14	100	0	58	37	27	20	13	1.91
43416564--43416591	10	2.8	10	100	0	56	42	0	0	57	0.99
43416533--43416596	24	2.7	23	76	11	67	43	0	0	56	0.99
43416936--43416996	28	2.2	28	96	0	113	40	3	13	42	1.60
43420373--43420446	27	2.7	27	79	4	69	20	31	17	31	1.96
43422232--43422261	9	3.3	9	90	0	51	56	0	3	40	1.16
43425850--43425964	27	4.3	27	79	2	124	16	36	15	31	1.90
43425860--43425962	54	1.9	54	86	4	145	15	38	14	31	1.88
43429026--43429077	27	2.0	26	81	11	61	57	3	3	34	1.35
43433219--43433252	14	2.4	14	90	0	50	50	2	8	38	1.49
43434793--43434870	36	2.1	35	86	9	102	50	5	0	44	1.24
43434986--43435045	29	2.0	30	84	9	79	48	3	0	48	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43437962--43438024	34	2.0	33	81	12	78	50	6	14	28	1.67
43438643--43438911	144	1.8	144	82	5	342	41	17	5	35	1.73
43441669--43441916	44	5.5	44	73	11	149	28	24	19	27	1.99
43441692--43441871	95	1.9	96	83	3	238	27	22	18	30	1.98
43441785--43441998	45	4.8	44	70	6	137	27	25	17	29	1.98
43441707--43442027	133	2.4	136	84	4	398	27	26	18	27	1.98
43443687--43443784	27	3.5	28	90	2	135	26	13	28	31	1.94
43443715--43443797	27	3.0	27	87	5	96	30	12	25	32	1.92
43443687--43443798	28	4.0	27	83	6	98	28	12	25	33	1.92
43452863--43452893	14	2.2	14	94	0	53	67	6	9	16	1.39
43452769--43452966	86	2.3	86	86	8	258	39	19	15	26	1.91
43452790--43454069	178	7.4	159	72	18	395	37	20	16	25	1.93
43452984--43453187	88	2.4	85	88	5	284	40	22	15	22	1.91
43453194--43453229	17	2.1	17	89	0	54	72	8	5	13	1.27
43453300--43453331	14	2.3	14	100	0	64	62	6	12	18	1.50
43453073--43453687	178	3.3	192	82	9	739	40	18	15	25	1.90
43453314--43453749	178	2.4	177	89	2	622	37	19	16	26	1.93
43453623--43453764	75	1.9	77	88	2	216	33	17	20	28	1.95
43453746--43453778	14	2.4	14	94	0	57	60	3	21	15	1.48
43453761--43453910	79	1.9	79	91	0	246	32	22	16	29	1.96
43453628--43454823	161	7.7	159	71	16	557	34	19	17	28	1.95
43453952--43454230	139	2.0	138	86	3	391	34	22	17	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43454178--43454377	86	2.3	85	85	6	253	38	21	16	23	1.93
43454440--43454546	55	1.9	55	88	3	162	43	14	12	28	1.82
43454495--43454902	75	5.4	75	89	3	520	33	18	16	31	1.93
43454607--43454921	152	2.1	151	86	4	454	35	16	16	31	1.91
43461577--43461624	16	3.1	15	90	6	69	64	2	2	31	1.16
43461573--43461628	24	2.3	24	81	6	69	66	1	1	30	1.12
43461573--43461624	8	6.5	8	82	8	61	65	1	1	30	1.14
43461778--43461842	25	2.8	24	83	6	80	52	6	7	33	1.55
43461856--43461917	25	2.5	25	81	0	70	62	1	3	32	1.20
43462469--43462571	30	3.4	30	83	2	111	22	3	45	28	1.70

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