genome.fa.s12.2.7.7.80.10.50.1000.122.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  122  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)
39205453--39205714	63	4.2	63	79	1	211	35	31	6	25	1.83
39210880--39210955	11	6.2	12	75	21	61	43	0	1	55	1.08
39210893--39210996	31	3.2	31	67	19	84	40	0	4	53	1.28
39210880--39210955	6	12.5	6	69	22	52	43	0	1	55	1.08
39210920--39210975	25	2.2	25	84	12	71	41	1	7	50	1.40
39212254--39212357	23	4.5	23	85	0	145	43	20	1	34	1.63
39215666--39215710	21	2.1	21	100	0	90	42	8	24	24	1.83
39216383--39216532	72	2.1	73	85	1	203	49	4	36	10	1.56
39216484--39216520	18	2.1	18	89	0	56	54	0	35	10	1.36
39216614--39216697	40	2.1	40	86	0	114	16	16	19	47	1.83
39217033--39217066	18	1.9	18	88	5	52	44	2	2	50	1.32
39217442--39217638	14	13.9	14	68	10	60	42	36	0	21	1.53
39217451--39217546	49	2.1	46	84	11	126	44	35	0	19	1.51
39217482--39217602	21	5.7	21	67	6	64	40	38	0	20	1.53
39217442--39217618	42	4.2	43	73	8	121	41	37	0	20	1.53
39217586--39217633	15	3.3	15	76	5	53	45	33	0	20	1.52
39217589--39217688	22	4.7	21	67	11	60	46	28	2	24	1.64
39217586--39217701	14	8.1	14	68	12	56	46	28	1	23	1.62
39218037--39218115	40	2.0	40	97	0	149	26	22	21	29	1.99
39218167--39218249	40	2.1	40	86	0	112	27	15	19	37	1.92
39222747--39222784	5	7.6	5	82	11	51	78	2	0	18	0.86
39223612--39223656	13	3.3	14	77	22	51	60	0	4	35	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39225191--39225237	20	2.3	20	92	0	76	21	42	27	8	1.81
39231446--39231530	42	2.0	42	90	0	134	24	15	21	38	1.92
39231455--39231544	42	2.1	42	83	0	117	28	11	21	38	1.87
39232219--39232264	20	2.3	20	92	0	74	21	41	28	8	1.83
39232643--39232668	12	2.2	12	100	0	52	15	42	15	26	1.87
39234184--39234225	20	2.4	17	84	15	50	57	0	35	7	1.26
39234253--39234324	37	1.9	37	83	5	92	31	16	1	50	1.54
39247772--39247810	6	6.2	6	94	5	60	82	0	0	17	0.68
39247773--39247809	7	5.6	7	93	6	60	86	0	0	13	0.57
39247772--39247809	13	2.9	13	85	14	60	84	0	0	15	0.63
39254875--39254947	36	2.0	36	100	0	146	52	8	10	28	1.65
39257285--39257329	22	2.2	20	92	8	72	22	20	11	46	1.81
39258789--39258827	20	2.1	19	85	9	53	58	0	5	35	1.20
39260002--39260059	17	3.3	18	72	18	50	36	5	1	56	1.32
39261964--39262068	40	2.7	39	78	1	111	21	23	19	35	1.96
39262105--39262149	20	2.2	20	84	0	54	13	22	15	48	1.79
39265499--39265540	19	2.2	20	83	12	52	61	16	2	19	1.44
39266442--39266474	16	2.1	16	100	0	66	57	0	12	30	1.35
39270731--39270755	6	4.2	6	100	0	50	84	0	16	0	0.63
39280377--39280542	43	3.9	43	84	1	190	32	24	18	24	1.97
39282794--39282852	31	2.0	30	83	6	75	35	10	6	47	1.64
39286810--39286860	25	2.0	25	100	0	102	35	19	3	41	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39289730--39289767	17	2.2	17	90	0	58	31	7	2	57	1.41
39292523--39292698	46	3.8	46	79	14	209	20	20	29	29	1.98
39292520--39292691	93	1.8	93	95	2	310	20	20	29	28	1.98
39300099--39300274	46	3.8	46	79	12	216	20	21	29	28	1.98
39300096--39300267	93	1.8	93	96	0	317	20	21	29	27	1.98
39313173--39313393	40	5.6	40	85	3	232	24	21	28	25	1.99
39313248--39313430	79	2.3	80	81	3	210	25	20	27	25	1.99
39316998--39317022	13	1.9	13	100	0	50	16	32	16	36	1.90
39323824--39324049	50	4.5	49	80	9	224	24	18	26	31	1.97
39323874--39324061	99	1.9	100	83	6	247	25	17	26	31	1.97
39324620--39324656	16	2.2	17	95	4	67	37	5	24	32	1.78
39326589--39326646	30	1.9	30	85	0	80	34	13	24	27	1.93
39326997--39327303	49	6.5	47	74	11	202	28	19	28	23	1.98
39327027--39327253	91	2.4	96	81	7	268	29	18	29	23	1.98
39328096--39328175	42	1.9	42	92	0	133	20	18	30	31	1.96
39333602--39333763	80	2.0	80	98	0	315	34	11	16	37	1.85
39334235--39334444	104	2.0	105	94	0	368	34	10	20	34	1.86
39335929--39336075	67	2.2	67	81	8	165	32	17	28	21	1.96
39335953--39336137	67	2.9	64	75	8	169	29	15	29	24	1.96
39340399--39340581	67	2.8	64	74	8	174	28	16	30	24	1.96
39344782--39344953	67	2.6	66	81	7	170	31	16	29	22	1.96
39344806--39344989	67	2.8	64	78	8	203	28	16	30	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39351163--39351327	50	3.3	49	80	7	181	26	18	26	29	1.98
39355881--39355980	50	2.0	50	100	0	200	30	8	14	48	1.72
39357050--39357220	93	1.8	93	92	0	288	28	26	21	22	1.99
39357045--39357217	46	3.7	46	75	13	183	29	26	21	23	1.99
39357640--39357699	30	2.0	30	86	0	84	31	25	8	35	1.85
39360426--39360648	40	5.6	40	79	4	218	27	23	25	23	2.00
39363490--39363674	93	2.0	93	98	0	361	27	26	15	30	1.96
39366075--39366100	13	2.0	13	100	0	52	30	0	7	61	1.24
39367231--39367319	30	3.1	30	84	15	143	34	8	13	42	1.76
39367231--39367310	25	3.0	26	90	9	117	35	8	11	45	1.71
39367526--39367731	40	5.2	40	92	0	324	23	22	26	27	2.00
39370044--39370181	46	2.9	47	81	6	156	23	28	18	29	1.97
39374467--39374506	21	1.9	21	89	0	62	45	10	15	30	1.78
39378754--39378880	49	2.6	50	82	3	141	29	29	18	22	1.97
39391868--39391913	20	2.3	20	85	7	58	17	19	2	60	1.46
39391988--39392034	23	2.0	23	83	0	58	23	27	8	40	1.83
39396077--39396456	190	2.0	190	100	0	760	33	11	20	34	1.88
39399791--39399929	55	2.5	55	78	2	145	25	28	27	18	1.98
39400322--39400365	20	2.2	20	84	8	54	18	18	2	61	1.45
39400448--39400473	7	3.7	7	100	0	52	0	11	46	42	1.40
39401710--39401824	29	4.0	28	80	2	122	29	16	26	27	1.97
39404385--39404430	19	2.4	18	82	10	56	19	2	2	76	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39409146--39409176	7	4.4	7	100	0	62	29	0	16	54	1.42
39410782--39410834	26	2.0	26	100	0	106	20	15	30	33	1.93
39411270--39411410	54	2.6	54	100	0	282	24	19	26	30	1.98
39413836--39413860	8	3.1	8	100	0	50	36	28	0	36	1.58
39430189--39430250	20	3.2	20	75	13	67	50	0	0	50	1.00
39430841--39430892	14	3.7	14	82	10	70	42	7	1	48	1.43
39430841--39430894	28	1.9	28	92	0	90	42	9	1	46	1.46
39431562--39431623	13	4.8	13	77	0	70	41	8	1	48	1.42
39431562--39431623	26	2.4	26	86	0	79	41	8	1	48	1.42
39434017--39434067	3	17.0	3	100	0	102	33	0	0	66	0.92
39438228--39438265	16	2.3	17	90	4	60	15	0	23	60	1.35
39438380--39438435	22	2.4	24	85	5	71	16	0	28	55	1.41
39438290--39438640	159	2.2	160	88	4	523	34	2	20	41	1.67
39438543--39438596	24	2.3	23	75	12	56	20	1	25	51	1.57
39438657--39439117	125	3.7	126	89	2	680	36	16	17	29	1.92
39442697--39442740	18	2.4	18	88	0	61	45	9	27	18	1.79
39443357--39443402	7	6.6	7	100	0	92	58	13	0	28	1.35
39444554--39444600	22	2.2	21	85	14	62	46	8	17	27	1.76
39452564--39452605	20	2.2	20	87	8	61	28	0	7	64	1.20
39456095--39456156	28	2.3	27	85	2	79	32	22	24	20	1.98
39480598--39480878	140	2.0	140	97	0	526	36	16	13	32	1.89
39494693--39494800	40	2.7	40	87	5	139	25	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39494854--39494959	40	2.6	41	88	5	155	21	22	28	27	1.99
39494641--39494959	161	2.0	161	91	3	527	24	17	26	31	1.97
39502753--39502937	79	2.3	81	84	7	236	24	22	27	25	2.00
39502754--39502937	40	4.6	40	83	9	216	24	22	27	25	2.00
39502806--39502970	79	2.1	79	84	6	210	26	21	27	25	1.99
39517160--39517415	55	4.8	53	78	9	247	35	17	24	22	1.95
39517168--39517368	108	1.8	110	87	4	300	33	16	25	23	1.96
39519128--39519159	3	10.7	3	100	0	64	65	0	34	0	0.93
39522295--39522569	47	5.9	47	74	13	180	24	28	18	29	1.98
39522391--39522564	46	3.7	46	78	7	165	22	28	20	28	1.99

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