genome.fa.s25.2.7.7.80.10.50.1000.163.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   291   292   293   294   295   296   297   

This is table  163  of  297  ( 35593 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)
55040018--55040118	25	4.0	25	94	0	184	20	8	33	36	1.84
55040785--55040832	25	1.9	25	82	0	60	35	20	14	29	1.93
55040860--55040934	20	3.9	19	80	13	75	37	10	18	33	1.86
55040984--55041119	26	5.3	26	86	4	190	28	19	22	29	1.98
55048368--55048494	64	2.0	64	100	0	254	32	18	29	18	1.96
55049857--55049955	28	3.5	29	83	9	116	27	14	28	30	1.95
55056680--55056969	143	2.0	143	97	0	553	26	8	32	32	1.87
55070680--55070724	23	2.0	23	82	8	56	37	8	13	40	1.76
55076077--55076209	65	2.0	65	84	2	169	40	9	26	24	1.84
55079025--55079055	3	10.3	3	92	0	53	32	3	0	64	1.09
55079849--55079886	19	2.1	19	90	9	62	76	0	23	0	0.79
55091340--55091378	2	19.5	2	100	0	78	51	0	48	0	1.00
55094863--55094889	7	3.9	7	100	0	54	74	14	0	11	1.08
55096694--55096723	6	4.8	6	95	4	51	83	0	16	0	0.65
55096694--55096735	12	3.2	13	86	13	59	80	0	19	0	0.70
55096719--55096809	41	2.2	41	86	3	121	52	8	15	23	1.70
55096734--55096816	41	2.0	41	100	0	166	46	12	12	28	1.77
55096737--55096829	41	2.3	41	88	3	100	46	13	10	29	1.78
55097060--55097102	22	2.0	22	100	0	86	20	32	9	37	1.85
55101384--55101416	17	1.9	17	100	0	66	51	0	0	48	1.00
55102601--55102637	3	12.3	3	100	0	74	32	0	0	67	0.91
55103254--55103291	20	2.0	20	89	5	60	44	0	2	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55106769--55106793	12	2.1	12	100	0	50	60	0	0	40	0.97
55117279--55117312	12	2.8	12	100	0	68	8	32	50	8	1.64
55129647--55129687	21	2.0	21	90	0	64	29	21	29	19	1.98
55131593--55131626	16	2.1	16	88	0	50	50	14	17	17	1.79
55134427--55134467	21	2.0	21	90	0	64	29	21	29	19	1.98
55139222--55139262	21	2.0	21	90	0	64	29	21	29	19	1.98
55142285--55142323	21	1.9	20	85	15	53	58	2	2	35	1.25
55142299--55142338	17	2.3	18	86	4	55	55	5	0	40	1.22
55142332--55142378	23	2.1	23	84	4	60	68	6	4	21	1.30
55143673--55143712	21	1.9	21	94	0	71	37	0	0	62	0.95
55158146--55158172	11	2.5	11	100	0	54	18	0	0	81	0.69
55161143--55161316	46	3.8	46	76	17	171	31	28	18	21	1.97
55161149--55161335	46	4.0	44	73	16	123	30	28	18	22	1.97
55162640--55162743	43	2.4	43	85	6	131	24	14	25	35	1.93
55175444--55175593	46	3.1	46	74	14	149	30	28	15	25	1.96
55176674--55176759	21	4.0	22	80	10	106	38	24	20	16	1.93
55176674--55176760	44	2.0	41	84	6	111	37	24	20	17	1.93
55176950--55177044	28	3.6	24	81	13	93	46	33	4	15	1.66
55176964--55177047	28	3.0	28	91	1	132	46	30	3	19	1.66
55181275--55181313	18	2.0	18	85	14	51	35	2	0	61	1.10
55197893--55198161	43	6.3	43	77	3	200	26	28	20	24	1.99
55199085--55199150	30	2.2	30	78	10	73	53	3	0	43	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55200221--55200618	132	3.0	132	86	0	546	36	19	17	27	1.94
55209372--55209413	20	2.2	19	91	4	66	30	2	14	52	1.54
55209372--55209413	22	2.0	20	86	9	57	30	2	14	52	1.54
55214029--55214109	26	3.2	26	94	3	146	35	27	6	30	1.81
55215965--55216010	5	8.6	5	83	11	56	39	0	2	58	1.10
55215952--55216011	10	6.6	9	73	21	54	43	0	1	55	1.10
55215953--55216011	12	4.5	12	80	15	64	42	0	1	55	1.09
55217328--55217366	18	2.1	19	90	4	62	41	0	10	48	1.37
55217606--55217716	38	2.8	40	72	5	100	23	19	27	29	1.98
55217863--55217903	19	2.2	19	87	12	59	46	0	24	29	1.53
55218790--55219039	41	6.1	41	87	2	299	34	22	22	20	1.96
55219794--55219833	19	2.0	19	85	9	53	65	5	0	30	1.14
55219857--55219889	7	4.7	7	96	0	57	84	0	0	15	0.61
55221553--55221804	138	1.8	138	94	1	452	27	9	13	49	1.73
55222846--55222986	43	3.3	43	89	0	219	24	21	31	21	1.98
55224485--55224529	19	2.4	18	82	13	56	62	2	15	20	1.43
55229429--55229478	9	5.6	9	76	9	57	42	24	8	26	1.82
55229497--55229548	13	4.1	13	76	14	54	25	0	1	73	0.94
55231030--55231141	56	2.0	56	98	0	215	31	16	26	25	1.97
55231190--55231364	46	3.8	46	77	10	194	21	18	29	30	1.97
55231184--55231355	93	1.8	93	91	0	281	20	19	29	30	1.97
55233783--55233868	43	2.0	43	86	0	118	16	16	33	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55236034--55236162	15	8.9	14	73	17	70	25	6	1	65	1.26
55236034--55236141	29	3.8	28	69	18	78	25	7	1	64	1.30
55236121--55236187	21	3.0	23	76	21	72	29	5	0	64	1.17
55236077--55236198	52	2.4	54	74	18	125	27	7	0	64	1.20
55240140--55240172	16	2.1	16	100	0	66	36	12	39	12	1.80
55250152--55250208	6	9.5	6	82	5	62	57	0	7	35	1.26
55250152--55250208	15	3.8	15	81	4	62	57	0	7	35	1.26
55250152--55250208	9	6.3	9	83	6	62	57	0	7	35	1.26
55250508--55250575	25	2.4	28	79	18	79	61	2	4	30	1.30
55250556--55250695	3	46.3	3	76	13	110	60	0	8	30	1.31
55250508--55250647	65	2.2	65	81	5	158	60	2	7	30	1.35
55250819--55250879	25	2.3	28	80	11	74	63	1	8	26	1.31
55265129--55265434	76	4.0	76	98	0	576	44	7	13	34	1.73
55265736--55265866	21	6.3	21	83	1	158	13	20	17	48	1.81
55269303--55269333	4	7.5	4	92	7	53	22	0	0	77	0.77
55271099--55271192	46	2.1	46	86	4	129	30	30	19	19	1.96
55278598--55278768	93	1.8	93	96	0	315	28	29	21	21	1.98
55278593--55278765	46	3.7	46	80	13	219	28	28	21	21	1.98
55279188--55279247	30	2.0	30	90	0	93	30	25	8	36	1.85
55284733--55284921	38	4.9	38	84	5	191	21	21	25	31	1.98
55284762--55284921	76	2.1	78	88	2	234	20	20	26	33	1.97
55288086--55288156	26	3.1	21	76	21	72	43	0	1	54	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55288086--55288156	22	3.1	21	77	16	70	43	0	1	54	1.08
55288108--55288221	34	3.2	35	73	21	94	41	2	0	55	1.20
55288122--55288163	20	2.0	22	90	9	70	42	0	2	54	1.13
55288153--55288207	22	2.6	21	82	8	58	38	1	1	58	1.20
55288578--55288620	19	2.2	19	87	4	59	48	0	6	44	1.29
55288622--55288676	20	2.7	19	77	8	56	60	1	3	34	1.25
55288821--55288854	2	17.5	2	87	6	52	47	0	2	50	1.16
55288872--55288932	21	3.0	21	83	7	72	42	1	0	55	1.09
55288872--55288930	22	2.8	23	83	16	67	40	1	0	57	1.09
55288973--55289023	5	10.0	5	80	16	52	15	3	0	80	0.86
55289075--55289173	33	3.0	31	80	13	101	40	3	2	54	1.27
55289259--55289361	24	4.3	24	80	11	88	36	0	4	58	1.20
55289292--55289332	13	3.3	13	76	13	50	31	0	4	63	1.15
55289282--55289361	24	3.3	24	84	5	90	38	0	3	57	1.17
55289396--55289421	13	2.0	13	100	0	52	38	0	0	61	0.96
55289389--55289476	30	3.0	28	79	12	88	42	0	0	57	0.98
55289417--55289459	22	1.9	23	90	4	70	44	0	0	55	0.99
55289425--55289468	22	2.0	22	82	8	54	47	0	0	52	1.00
55293331--55293437	30	3.6	30	83	0	115	27	21	26	25	1.99
55295575--55295719	71	2.0	72	87	1	211	42	4	3	48	1.41
55295629--55295669	20	2.0	20	85	0	55	53	0	0	46	1.00
55295783--55295867	40	2.1	41	91	2	136	51	4	5	37	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55295803--55295865	20	3.2	20	72	17	67	53	3	6	36	1.42
55296694--55296732	14	2.8	14	100	0	78	58	5	0	35	1.20
55296842--55296919	21	3.5	21	77	16	77	51	2	0	46	1.14
55296848--55296902	26	2.3	26	84	12	73	54	0	0	45	0.99
55296843--55296919	24	3.4	22	77	13	77	50	2	0	46	1.15
55296877--55296919	11	4.2	10	82	11	52	48	2	0	48	1.14
55297343--55297384	17	2.5	17	96	0	75	35	21	19	23	1.96
55299767--55299875	21	5.2	21	79	4	114	17	22	14	44	1.85
55300352--55300406	23	2.4	23	79	14	60	34	0	27	38	1.57
55302384--55302415	13	2.5	13	94	0	55	9	28	43	18	1.81

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   291   292   293   294   295   296   297