genome.fa.s20.2.7.7.80.10.50.1000.34.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  34  of  186  ( 22216 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)
10235259--10235299	18	2.4	16	81	14	55	39	12	12	36	1.80
10235264--10235298	18	1.9	18	94	0	61	40	14	14	31	1.86
10235270--10235314	18	2.5	18	85	7	56	42	13	11	33	1.79
10235819--10235862	15	2.8	15	89	6	61	4	0	15	79	0.89
10237418--10237584	90	1.9	90	89	3	266	38	20	10	30	1.86
10237903--10237955	19	2.7	19	79	2	61	35	1	0	62	1.06
10244095--10244153	30	2.0	30	82	0	73	27	18	16	37	1.93
10247144--10247298	42	3.7	42	82	3	186	28	22	18	30	1.97
10251467--10251643	91	1.9	91	91	0	291	49	18	6	25	1.71
10264019--10264068	25	2.0	25	100	0	100	44	12	0	44	1.41
10265433--10265472	20	2.0	20	90	0	62	22	25	10	42	1.84
10266528--10266591	20	3.0	21	79	6	76	17	23	20	39	1.92
10267989--10268058	16	4.4	16	90	0	113	31	1	35	31	1.67
10268037--10268127	45	2.0	44	85	2	119	30	5	28	35	1.80
10268270--10268307	16	2.4	17	82	13	53	52	2	0	44	1.14
10268253--10268539	22	14.0	21	65	21	92	53	3	1	41	1.25
10268353--10268393	13	3.2	12	80	12	55	58	0	0	41	0.98
10268381--10268416	18	2.0	18	100	0	72	66	0	0	33	0.92
10268504--10268538	18	2.0	17	94	5	61	57	0	0	42	0.99
10268308--10268599	59	4.8	60	69	15	192	52	4	1	41	1.33
10268308--10268615	121	2.6	120	94	1	528	52	4	1	40	1.32
10270100--10270129	13	2.3	13	94	0	51	30	13	6	50	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10276045--10276080	18	2.0	18	89	10	56	19	0	2	77	0.88
10277170--10277225	23	2.3	26	75	15	64	32	3	1	62	1.23
10277174--10277223	23	2.1	24	85	3	66	34	4	2	60	1.27
10281806--10281835	7	4.4	7	91	8	53	30	26	0	43	1.55
10285213--10285257	23	2.0	23	86	0	63	55	0	2	42	1.12
10300576--10300627	27	2.0	26	82	10	63	34	1	17	46	1.59
10309656--10309743	17	4.8	17	72	18	70	64	3	2	29	1.22
10310952--10311053	14	6.9	14	71	17	57	26	6	1	64	1.29
10311027--10311072	15	2.9	15	87	6	56	28	4	0	67	1.10
10311024--10311121	23	4.4	22	73	17	69	28	7	0	64	1.20
10311153--10311202	24	2.0	26	84	11	68	22	4	4	70	1.21
10318218--10318647	133	3.2	132	89	1	594	30	20	21	28	1.98
10318596--10318871	45	6.2	44	71	12	186	30	18	21	28	1.97
10318569--10318826	134	1.9	134	81	9	312	30	18	21	29	1.97
10318486--10318976	179	2.7	179	86	4	654	30	19	21	28	1.98
10318652--10318955	89	3.4	88	69	14	253	29	19	21	29	1.98
10318973--10319512	88	6.2	88	87	3	711	33	21	22	22	1.97
10319106--10319644	132	4.1	131	70	10	389	33	20	22	23	1.98
10319106--10319664	44	12.8	44	69	14	334	32	20	23	23	1.98
10320687--10320753	15	4.5	15	78	14	68	29	7	0	62	1.22
10320685--10320753	29	2.3	29	77	20	72	28	8	0	62	1.25
10320718--10320763	15	2.9	15	90	6	65	26	6	0	67	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10322961--10322995	15	2.2	16	90	5	54	28	0	0	71	0.86
10332689--10332731	16	2.7	16	82	7	52	41	6	6	44	1.58
10336511--10336597	37	2.3	39	90	6	133	51	6	2	39	1.41
10338639--10338690	23	2.4	22	83	6	61	30	1	1	65	1.14
10339158--10339200	13	3.2	13	84	12	52	27	4	2	65	1.25
10340578--10340620	21	2.1	20	86	4	59	55	2	0	41	1.12
10340578--10340634	27	2.1	28	83	9	73	54	5	0	40	1.23
10340651--10340680	15	2.0	15	93	0	51	50	0	0	50	1.00
10340827--10340890	21	3.0	21	70	17	60	43	0	1	54	1.09
10340825--10340874	25	1.9	26	84	8	66	48	0	4	48	1.20
10341601--10341669	23	3.0	23	79	12	88	62	0	4	33	1.15
10341603--10341669	22	3.0	22	82	4	89	62	0	4	32	1.15
10343267--10343325	31	1.9	31	83	13	77	32	11	1	54	1.47
10343557--10343603	22	2.0	22	84	8	58	25	8	8	57	1.57
10343581--10343694	60	1.9	59	82	7	140	28	5	5	61	1.39
10343619--10343684	18	3.5	19	80	13	66	27	4	4	63	1.33
10343853--10343977	62	2.0	62	93	0	214	26	12	4	56	1.55
10345977--10346071	29	3.3	27	76	14	84	31	7	2	58	1.37
10346029--10346101	19	3.7	19	73	7	74	27	5	4	63	1.35
10345954--10346076	57	2.1	59	85	5	162	29	7	3	60	1.40
10347531--10347569	19	2.1	19	85	0	51	33	2	2	61	1.23
10347510--10347639	29	4.1	31	77	17	108	33	3	0	62	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10347547--10347665	55	2.2	52	80	7	139	31	4	0	63	1.19
10347508--10347646	12	12.4	12	72	18	81	33	3	0	61	1.18
10347547--10347649	26	3.8	27	78	12	104	33	3	0	63	1.13
10347919--10347954	14	2.6	14	90	0	54	16	0	8	75	1.04
10347914--10347947	14	2.5	13	86	9	50	17	0	8	73	1.08
10359625--10360401	90	8.7	90	91	1	1157	30	14	27	28	1.95
10359654--10360747	45	24.3	45	65	12	388	30	14	26	27	1.95
10359990--10360802	409	2.0	404	92	1	1356	30	14	27	27	1.95
10360399--10360855	90	5.1	90	89	3	701	31	14	26	28	1.95
10360081--10360720	319	2.0	319	94	0	1129	30	14	27	27	1.95
10360670--10360832	85	1.9	85	91	0	263	31	14	25	27	1.95
10362335--10362391	29	2.0	29	85	0	78	29	0	0	70	0.88
10362424--10362567	12	12.0	12	72	20	97	32	3	0	63	1.16
10362425--10362494	19	4.0	18	72	20	67	30	1	1	67	1.08
10362424--10362594	12	12.6	14	71	21	93	30	3	0	64	1.14
10362424--10362575	23	6.9	22	70	17	95	32	3	0	63	1.16
10362426--10362602	34	5.0	36	73	19	99	31	3	1	64	1.17
10362441--10362551	46	2.4	45	81	10	127	31	3	0	63	1.17
10362433--10362578	31	4.5	33	72	18	73	31	3	0	64	1.15
10362424--10362573	80	1.9	80	83	5	196	32	3	0	63	1.16
10362842--10362877	14	2.6	14	90	0	54	16	0	8	75	1.04
10362837--10362870	14	2.5	13	86	9	50	17	0	8	73	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10363821--10363919	34	2.9	34	85	5	112	47	13	9	30	1.73
10369008--10369050	15	2.9	15	80	10	52	46	0	0	53	1.00
10370296--10370346	19	2.6	20	81	12	61	29	0	5	64	1.17
10370311--10370670	9	38.6	9	64	20	66	31	1	6	60	1.28
10370407--10370482	26	2.8	26	82	8	71	35	0	7	56	1.28
10370486--10370530	20	2.2	20	88	7	65	24	0	8	66	1.20
10370538--10370673	37	3.7	36	76	11	116	33	2	4	59	1.29
10378589--10378641	22	2.4	22	84	9	63	30	24	18	26	1.98
10378565--10378643	23	3.5	23	77	8	81	26	21	20	31	1.98
10390213--10390272	14	4.4	14	71	23	56	40	18	3	38	1.67
10390193--10390272	40	2.0	40	100	0	160	37	20	5	37	1.74
10391345--10391374	15	2.0	15	100	0	60	40	6	26	26	1.81
10391471--10391512	21	2.0	21	100	0	84	14	14	4	66	1.40
10393425--10393551	52	2.5	52	87	6	170	27	14	29	28	1.95
10413020--10413112	18	5.2	18	90	0	150	31	16	24	27	1.96
10413020--10413112	36	2.6	36	94	0	168	31	16	24	27	1.96
10415822--10415852	4	7.8	4	100	0	62	48	25	0	25	1.52
10435577--10435671	31	3.1	31	73	3	84	37	21	13	27	1.91
10438833--10438886	25	2.1	26	89	3	83	61	1	0	37	1.07
10438922--10438967	17	2.6	18	82	3	58	58	2	0	39	1.10
10438910--10439016	43	2.6	43	81	8	114	59	1	2	35	1.23
10439856--10439963	54	2.0	54	98	0	207	32	17	9	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10443019--10443187	43	4.0	42	80	6	182	32	27	16	23	1.96
10448322--10448348	3	9.0	3	100	0	54	66	0	33	0	0.92
10459421--10459470	21	2.4	21	83	3	57	40	0	20	40	1.52
10467101--10467149	18	2.7	18	100	0	98	22	16	10	51	1.74
10480923--10480991	35	2.0	33	81	10	77	33	4	17	44	1.68
10482346--10482384	19	2.1	19	90	4	62	56	5	0	38	1.22
10482346--10482399	19	2.9	19	83	8	58	53	9	0	37	1.33
10482399--10482439	20	2.0	20	90	9	57	56	0	4	39	1.21
10482400--10482439	21	2.0	21	95	5	73	55	0	5	40	1.22
10482627--10482673	23	2.0	23	87	0	67	31	4	2	61	1.27

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