genome.fa.s4.2.7.7.80.10.50.1000.109.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  109  of  235  ( 28198 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)
37471718--37471836	27	4.4	27	85	4	114	36	7	25	31	1.84
37471717--37471836	54	2.2	54	82	2	134	35	7	25	30	1.84
37476982--37477063	30	2.7	31	86	3	114	23	23	20	32	1.98
37477284--37477379	25	3.8	25	94	1	156	28	21	23	26	1.99
37494371--37494703	48	6.9	48	84	4	361	29	27	16	26	1.97
37494371--37494699	144	2.3	142	83	5	412	29	27	16	26	1.97
37497536--37497603	27	2.6	27	81	4	68	19	27	17	35	1.94
37497768--37497846	23	3.4	23	89	1	113	25	26	17	30	1.97
37500013--37500277	40	6.7	40	85	5	286	26	27	21	24	1.99
37499980--37500277	80	3.7	80	79	9	263	25	27	21	25	1.99
37500209--37500286	40	1.9	41	82	10	97	26	28	20	24	1.99
37508003--37508225	40	5.6	39	85	3	241	26	27	20	24	1.99
37508003--37508225	120	1.9	119	81	6	272	26	27	20	24	1.99
37511694--37511779	45	1.9	44	83	2	109	25	12	25	36	1.92
37515821--37515851	16	1.9	16	93	0	53	35	22	0	41	1.54
37515818--37515857	20	2.0	20	85	0	53	37	22	0	40	1.54
37516091--37516290	55	3.7	53	78	11	178	23	25	17	34	1.96
37516091--37516290	108	1.8	110	87	4	298	23	25	17	34	1.96
37519855--37520030	46	3.8	46	79	12	216	20	21	29	28	1.98
37519852--37520023	93	1.8	93	96	0	317	20	21	29	27	1.98
37527432--37527607	46	3.8	46	79	12	216	20	21	29	28	1.98
37527429--37527600	93	1.8	93	96	0	317	20	21	29	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37528677--37528789	56	2.0	56	96	0	208	46	3	17	32	1.66
37534045--37534074	14	2.1	14	93	0	51	20	46	0	33	1.51
37534354--37534386	15	2.2	15	100	0	66	36	6	6	51	1.51
37539104--37539144	21	2.0	21	90	0	64	46	4	26	21	1.72
37553479--37553556	29	2.7	28	84	11	104	25	15	30	28	1.96
37553509--37553836	174	1.9	174	96	0	611	29	14	24	30	1.95
37562092--37562169	29	2.7	28	84	11	104	25	14	30	29	1.94
37562122--37562449	174	1.9	174	96	0	602	30	14	24	31	1.94
37570582--37570749	46	3.6	46	73	13	139	28	21	26	23	1.99
37571701--37571750	25	2.0	25	100	0	100	16	28	36	20	1.93
37572059--37572104	13	3.5	13	80	11	58	10	47	17	23	1.79
37573949--37574006	28	2.1	28	100	0	116	39	15	17	27	1.90
37588059--37588203	43	3.4	42	78	5	148	33	20	15	31	1.93
37600552--37600651	49	2.0	49	98	0	191	38	14	24	24	1.92
37601598--37602008	47	8.6	47	88	3	543	32	7	30	28	1.85
37601598--37602008	96	4.3	96	94	1	637	32	7	30	28	1.85
37601598--37602008	143	2.9	143	88	3	610	32	7	30	28	1.85
37601713--37601788	22	3.3	22	66	10	62	32	9	27	30	1.88
37610282--37610599	43	7.4	43	96	0	564	22	17	35	25	1.95
37610648--37610885	40	5.9	40	92	2	379	27	20	28	23	1.99
37610651--37610928	120	2.3	120	86	1	360	27	20	28	23	1.99
37610648--37610922	80	3.4	80	89	1	374	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37610648--37610928	40	7.0	40	89	2	320	27	20	28	24	1.99
37624756--37624821	34	1.9	34	90	0	105	25	18	22	33	1.97
37627533--37627719	93	2.0	93	90	0	293	25	21	21	31	1.98
37639206--37639276	25	2.8	25	79	10	83	28	25	19	26	1.99
37639497--37639579	30	2.7	31	88	3	125	31	19	26	22	1.98
37639497--37639574	31	2.6	30	91	2	120	30	20	26	21	1.98
37643803--37644058	47	5.5	45	72	17	170	29	19	28	23	1.98
37643803--37644011	46	4.5	46	76	9	169	28	19	28	23	1.98
37645036--37645091	29	2.0	28	83	16	71	16	21	42	19	1.89
37646769--37647631	46	18.7	46	95	2	1520	21	17	26	33	1.96
37655030--37655391	46	7.8	46	76	15	370	22	19	28	29	1.98
37655027--37655384	93	3.8	93	98	0	689	22	20	28	28	1.98
37661588--37661634	24	2.0	24	86	0	67	6	2	31	59	1.34
37666009--37666272	94	2.8	95	92	1	442	29	20	4	45	1.72
37673281--37673350	10	7.1	10	72	18	58	38	0	0	61	0.96
37673303--37673355	9	5.7	9	80	8	61	33	0	0	66	0.92
37673296--37673348	20	2.7	20	88	5	81	32	0	0	67	0.91
37673296--37673355	20	3.1	18	84	13	75	33	0	0	66	0.92
37673285--37673348	30	2.1	31	82	2	76	34	0	0	65	0.93
37673316--37673363	18	2.7	18	80	0	60	41	0	0	58	0.98
37674286--37674348	30	2.1	30	87	0	90	26	3	14	55	1.54
37679579--37679619	22	1.9	21	85	14	57	53	19	2	24	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37682689--37682723	16	2.1	17	89	5	54	48	0	8	42	1.33
37686466--37686828	91	4.0	91	98	0	692	40	8	19	30	1.82
37691076--37691279	53	3.8	54	77	1	194	22	23	18	36	1.95
37692746--37692851	53	2.0	53	87	3	151	32	11	14	42	1.81
37703717--37703895	84	2.1	87	83	5	222	42	11	18	26	1.85
37707413--37707446	6	5.7	6	96	0	59	55	0	26	17	1.42
37713935--37714003	34	2.0	34	100	0	138	30	14	17	37	1.90
37722512--37722553	22	1.9	22	90	0	66	40	2	14	42	1.58
37727042--37727109	30	2.2	30	82	7	84	33	4	16	45	1.67
37736531--37736593	20	3.0	20	77	13	65	31	0	3	65	1.09
37736602--37736646	19	2.3	19	84	3	54	51	4	0	44	1.21
37737290--37737361	29	2.4	31	80	15	89	48	0	4	47	1.21
37743118--37743246	21	6.2	21	75	5	91	46	17	20	16	1.84
37743110--37743247	42	3.3	41	79	4	152	46	17	20	15	1.84
37746845--37746891	22	2.1	22	92	0	76	40	14	6	38	1.72
37749995--37750025	2	15.5	2	93	0	53	48	3	0	48	1.17
37766758--37766828	37	1.9	37	86	11	101	76	2	18	2	1.04
37766768--37766817	6	8.2	6	83	14	50	76	2	20	2	0.99
37766878--37766908	12	2.6	12	100	0	62	45	12	16	25	1.83
37769375--37769471	30	3.2	30	72	2	97	28	26	16	27	1.97
37769426--37769645	110	2.0	110	99	0	431	31	19	11	38	1.87
37771766--37771820	27	2.0	27	100	0	110	43	7	29	20	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37776954--37777004	25	2.0	26	84	3	68	56	9	9	23	1.61
37777261--37777299	16	2.5	16	87	4	62	41	5	0	53	1.23
37777261--37777299	15	2.5	16	87	8	62	41	5	0	53	1.23
37777333--37777375	22	1.9	22	85	4	59	39	9	2	48	1.48
37786085--37786155	15	4.6	15	72	16	56	33	4	1	60	1.25
37786061--37786128	35	1.9	36	85	8	95	33	8	0	57	1.30
37786264--37786302	20	2.0	20	84	0	51	35	2	2	58	1.25
37787880--37788540	334	2.0	335	86	2	934	29	13	24	32	1.93
37789783--37789820	19	2.0	19	100	0	76	42	5	31	21	1.75
37790655--37790746	24	3.9	23	85	8	107	23	20	20	34	1.96
37790655--37790769	50	2.4	47	80	14	119	25	22	20	31	1.98
37790655--37790769	26	4.7	24	80	12	96	25	22	20	31	1.98
37790915--37790994	19	4.2	19	79	4	81	28	7	22	41	1.81
37790936--37790973	20	1.9	20	88	0	58	28	7	23	39	1.83
37795253--37795283	12	2.6	12	100	0	62	6	19	48	25	1.72
37802795--37802833	19	2.0	20	90	5	62	74	10	2	12	1.17
37804309--37804347	21	1.9	20	89	5	60	28	2	7	61	1.37
37824587--37824624	15	2.5	15	95	0	67	47	2	18	31	1.62
37827272--37827327	21	2.6	21	82	2	67	16	32	33	17	1.92
37828477--37828531	22	2.6	22	80	5	60	56	21	7	14	1.63
37829412--37829446	17	2.1	17	88	0	52	14	20	20	45	1.85
37830136--37830192	28	2.1	27	80	9	62	31	3	3	61	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37830279--37830322	23	2.0	22	86	4	61	27	15	9	47	1.76
37832094--37832134	20	2.0	21	86	13	59	21	29	0	48	1.50
37839612--37839682	35	2.1	34	91	2	115	23	8	16	50	1.73
37845564--37845589	13	2.0	13	100	0	52	38	15	30	15	1.88
37864134--37864199	34	1.9	35	87	3	98	36	30	13	19	1.91
37869063--37869109	20	2.4	21	79	13	55	40	10	12	36	1.78
37870095--37870202	26	4.2	26	93	0	189	32	7	24	36	1.83
37873241--37873425	99	1.9	99	93	0	316	23	5	29	41	1.78
37879323--37879355	16	2.1	16	94	0	57	21	12	27	39	1.88
37887807--37887865	29	2.0	28	83	12	73	45	5	5	44	1.47

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