genome.fa.s12.2.7.7.80.10.50.1000.120.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  120  of  276  ( 33102 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)
38364344--38364372	15	1.9	15	100	0	58	58	0	0	41	0.98
38372797--38372842	21	2.1	22	88	4	67	32	6	4	56	1.45
38377000--38377055	24	2.3	24	78	6	60	39	12	14	33	1.83
38377039--38377085	24	2.0	24	91	0	76	46	19	12	21	1.82
38382952--38383155	79	2.6	79	79	1	230	41	12	16	29	1.85
38391521--38391635	42	2.7	42	82	4	124	34	19	18	27	1.95
38391579--38391635	22	2.6	23	78	10	66	43	22	12	21	1.85
38391649--38391960	154	2.0	154	97	0	588	36	20	12	30	1.90
38405584--38405617	16	2.0	18	88	11	54	41	11	0	47	1.40
38408553--38408637	44	1.9	44	97	0	161	38	23	12	24	1.90
38419233--38419278	23	2.0	23	100	0	92	47	21	13	17	1.81
38419235--38419283	23	2.1	23	92	0	80	53	20	12	14	1.73
38425137--38425211	37	2.0	37	84	10	98	46	0	0	53	1.00
38429714--38429907	17	11.4	17	79	5	169	23	7	22	46	1.77
38429714--38429923	34	6.2	34	79	6	221	23	7	22	46	1.76
38429714--38429907	51	3.8	51	83	0	217	23	7	22	46	1.77
38429879--38429949	16	4.3	16	83	1	61	22	2	23	50	1.62
38436799--38436823	8	3.1	8	100	0	50	36	12	0	52	1.39
38438916--38438967	21	2.6	21	73	14	56	42	9	15	32	1.79
38446530--38446589	25	2.3	26	81	13	70	60	1	3	35	1.23
38447161--38447194	17	1.9	18	88	5	52	38	5	5	50	1.51
38447198--38447399	109	1.9	109	85	8	286	50	7	3	37	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38454216--38454241	13	2.0	13	100	0	52	46	0	46	7	1.31
38460317--38460372	13	4.3	13	83	0	67	50	16	8	25	1.74
38460956--38461012	27	2.1	27	83	6	71	26	21	19	33	1.97
38470714--38470836	57	2.1	58	87	1	185	26	20	7	45	1.77
38475825--38475913	14	6.6	14	70	14	62	26	25	3	43	1.70
38478025--38478509	253	1.9	251	85	1	666	30	30	10	28	1.91
38484134--38484164	10	3.1	10	95	0	53	45	3	19	32	1.66
38485205--38485251	12	4.0	12	80	5	51	72	0	23	4	1.02
38487469--38487550	41	2.0	41	92	0	137	36	32	12	18	1.88
38495231--38495286	21	2.7	21	75	8	60	25	39	21	14	1.91
38514425--38514568	71	2.0	71	98	0	279	46	7	17	28	1.75
38515009--38515062	17	3.1	16	84	12	63	33	0	1	64	1.04
38522067--38522100	16	2.2	15	94	5	59	47	0	2	50	1.16
38522082--38522120	19	2.1	19	90	0	60	51	2	2	43	1.29
38523486--38523562	28	2.7	27	75	18	77	27	2	7	62	1.36
38525525--38525556	15	2.1	16	94	5	57	31	21	0	46	1.52
38527127--38527169	21	2.0	22	81	4	52	20	11	4	62	1.46
38528923--38528999	38	2.0	38	94	0	136	28	28	10	32	1.90
38531611--38531635	12	2.1	12	100	0	50	44	0	0	56	0.99
38537391--38537418	14	2.0	14	100	0	56	57	14	0	28	1.38
38540550--38540624	11	6.7	11	69	24	50	54	1	1	42	1.17
38542386--38543034	323	2.0	323	92	2	1072	30	15	20	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38543498--38543533	18	1.9	18	88	5	54	5	11	0	83	0.80
38543865--38543920	25	2.2	25	100	0	112	17	46	16	19	1.84
38548289--38548376	45	2.0	45	93	0	149	22	18	14	44	1.86
38548846--38548875	5	6.0	5	100	0	60	80	0	0	20	0.72
38554829--38554872	21	2.1	21	95	0	79	25	4	9	61	1.45
38556783--38556828	21	2.2	21	88	3	67	34	6	17	41	1.75
38556986--38557017	6	5.3	6	92	0	55	21	15	12	50	1.77
38572214--38572248	6	5.8	6	90	10	54	54	0	28	17	1.43
38581103--38581281	89	2.0	89	94	0	313	30	11	16	41	1.84
38582580--38582628	18	2.7	19	72	15	50	40	8	0	51	1.32
38583056--38583090	18	1.9	18	88	11	54	37	2	0	60	1.12
38591281--38591319	19	2.1	19	85	0	51	41	10	15	33	1.81
38604672--38604716	19	2.3	20	75	17	51	33	2	2	62	1.20
38611483--38611552	25	2.8	25	95	0	122	25	22	25	25	2.00
38611598--38611636	10	3.8	10	86	6	60	33	17	17	30	1.94
38618663--38618707	19	2.3	20	75	17	51	33	2	2	62	1.20
38619035--38619079	19	2.3	20	75	17	51	33	2	2	62	1.20
38623688--38623951	40	6.7	40	89	5	360	25	27	21	25	1.99
38635785--38635818	18	1.9	18	88	5	52	55	0	11	32	1.36
38636485--38636637	82	1.9	82	94	0	270	44	1	18	35	1.58
38649338--38649371	9	3.9	9	96	3	61	76	0	0	23	0.79
38659027--38659055	15	1.9	15	100	0	58	62	6	6	24	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38659398--38659457	17	3.2	19	83	13	79	36	10	18	35	1.84
38660098--38660408	161	1.9	161	97	0	586	33	9	13	44	1.76
38661070--38661144	24	3.1	24	84	0	105	26	22	32	18	1.97
38662989--38663029	15	2.7	15	88	3	55	36	26	2	34	1.70
38664216--38664485	40	6.8	40	71	6	174	21	15	24	38	1.92
38664269--38664468	80	2.5	80	85	4	262	20	16	25	38	1.93
38664285--38664544	80	3.3	79	80	3	256	20	16	24	38	1.93
38668787--38668846	13	4.7	12	85	6	66	33	6	26	33	1.83
38668781--38668846	26	2.5	26	87	4	98	30	7	25	36	1.84
38674702--38674776	24	3.1	24	86	0	96	29	22	28	20	1.98
38681116--38681161	21	2.2	21	92	0	74	76	2	0	21	0.90
38681111--38681155	11	4.3	11	80	8	58	77	2	0	20	0.87
38681112--38681187	27	2.9	26	81	14	77	73	3	1	21	1.06
38692818--38696426	729	5.0	729	96	2	6563	38	10	18	32	1.84
38695907--38695935	5	5.8	5	100	0	58	20	0	0	79	0.74
38719563--38719587	13	1.9	13	100	0	50	64	16	4	16	1.44
38722434--38722485	22	2.3	22	77	12	61	50	1	0	48	1.12
38729429--38729524	40	2.5	38	81	6	120	35	37	12	14	1.84
38732088--38732264	46	3.9	44	78	8	183	22	20	28	28	1.99
38732086--38732256	93	1.8	93	88	2	263	21	21	28	28	1.99
38746976--38747141	43	3.9	44	75	11	139	27	13	25	33	1.93
38752108--38752167	29	2.1	29	100	0	120	20	10	35	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38754042--38754073	15	2.1	15	94	0	55	21	21	15	40	1.91
38755234--38755348	57	2.0	57	94	0	203	33	16	19	30	1.94
38755962--38756056	49	1.9	49	97	0	181	18	11	27	42	1.85
38757200--38757378	27	6.6	27	88	2	241	27	13	27	30	1.95
38757200--38757378	55	3.3	55	91	0	270	27	13	27	30	1.95
38757200--38757378	82	2.2	82	91	2	288	27	13	27	30	1.95
38760186--38760225	17	2.2	17	86	13	53	7	10	5	77	1.11
38766065--38766194	62	2.1	62	85	2	172	30	26	23	20	1.98
38772351--38772415	25	2.7	22	76	19	67	4	26	0	69	1.08
38772975--38773228	62	4.1	62	85	0	328	28	25	24	22	1.99
38777447--38777522	18	3.9	19	73	20	68	60	6	1	31	1.30
38777442--38777522	40	2.0	41	95	2	146	59	7	1	32	1.33
38778262--38778305	14	3.1	14	83	6	54	72	6	4	15	1.22
38778268--38778339	14	4.8	14	76	18	65	76	5	6	11	1.15
38778268--38778417	26	5.7	25	75	17	92	76	6	8	9	1.15
38778286--38778349	18	3.7	18	76	16	73	78	3	9	9	1.07
38778286--38778352	33	2.0	33	94	5	118	76	2	11	8	1.13
38778329--38778427	51	1.9	50	84	8	128	77	6	7	9	1.11
38778362--38778438	35	2.2	35	83	2	91	79	5	6	9	1.06
38778358--38778437	10	7.9	10	76	15	51	80	5	5	10	1.02
38778374--38778445	35	2.0	36	89	2	110	75	6	6	11	1.20
38780342--38780461	46	2.6	46	83	10	129	28	20	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38780292--38780509	47	4.7	47	74	12	130	28	18	29	23	1.98
38787399--38787446	23	2.2	22	85	7	62	47	6	16	29	1.71
38787406--38787451	23	2.0	23	100	0	92	47	8	13	30	1.72
38787891--38788056	46	3.6	46	77	8	176	27	17	28	27	1.98
38787891--38788104	46	4.6	46	77	9	141	26	18	29	26	1.98
38795984--38796033	26	2.0	24	88	7	73	64	6	0	30	1.18
38796004--38796062	21	2.8	21	78	12	59	69	8	0	22	1.15
38796093--38796146	21	2.5	22	75	3	56	68	0	1	29	1.00
38798807--38798831	13	1.9	13	100	0	50	12	0	0	88	0.53
38801180--38801204	10	2.5	10	100	0	50	36	0	64	0	0.94

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