genome.fa.s2.2.7.7.80.10.50.1000.36.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  36  of  206  ( 24623 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)
10505066--10505107	20	2.1	21	86	8	61	33	4	4	57	1.41
10510550--10510616	26	2.6	25	80	19	84	43	1	2	52	1.25
10510552--10510619	29	2.5	28	83	9	86	45	1	2	50	1.26
10510552--10510608	29	2.1	29	90	9	93	45	1	3	49	1.29
10510622--10510672	19	2.6	19	84	12	68	39	0	5	54	1.24
10527059--10527202	48	3.0	47	87	2	207	43	18	3	35	1.67
10528676--10528713	14	2.8	13	92	8	58	34	18	7	39	1.80
10528799--10528849	24	2.1	24	100	0	102	11	13	11	62	1.54
10532288--10532321	14	2.4	14	85	0	50	67	0	2	29	1.05
10533325--10533368	6	7.3	6	100	0	88	50	15	0	34	1.45
10534484--10534511	2	14.0	2	100	0	56	50	0	0	50	1.00
10538467--10538504	20	1.9	20	88	0	58	28	13	28	28	1.94
10541015--10541141	67	1.9	67	93	3	220	20	26	7	45	1.76
10543010--10543060	6	8.5	6	100	0	102	33	0	17	49	1.47
10546476--10546518	18	2.4	18	80	7	52	41	6	0	51	1.29
10549165--10550495	228	5.8	228	86	2	1395	29	23	24	22	1.99
10549228--10550498	684	1.9	684	82	2	1618	29	22	24	22	1.99
10556299--10556390	26	3.5	26	81	0	103	33	35	15	15	1.89
10558554--10558606	22	2.4	22	93	3	88	26	30	0	43	1.55
10558616--10558692	22	3.2	22	64	22	55	28	23	0	48	1.51
10558581--10558696	51	2.3	51	95	0	205	27	25	0	46	1.53
10559725--10559749	7	3.6	7	100	0	50	28	0	12	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10560908--10561045	25	5.7	25	77	14	164	42	0	13	43	1.49
10560865--10561045	95	1.9	93	96	2	335	40	0	13	45	1.47
10560855--10561035	45	4.0	44	79	11	211	39	0	13	46	1.47
10561060--10561184	29	4.3	29	89	3	171	48	25	0	25	1.57
10563733--10563777	22	2.1	22	87	4	65	68	4	0	26	1.08
10565947--10566008	29	2.1	29	100	0	124	43	29	0	27	1.55
10565991--10566025	17	2.1	17	100	0	70	48	17	0	34	1.47
10565962--10566054	46	2.0	46	97	0	177	46	22	0	31	1.52
10566008--10566136	29	4.7	28	88	7	178	48	21	0	29	1.50
10565947--10566146	104	1.9	101	85	8	267	47	23	0	29	1.56
10566143--10566496	116	3.1	116	94	0	627	37	10	9	42	1.71
10569512--10569847	126	2.7	125	91	1	550	32	23	15	29	1.95
10571206--10572092	228	3.9	228	87	1	1170	30	25	21	22	1.99
10571206--10572332	456	2.5	455	83	3	1293	29	24	23	23	1.99
10571206--10572332	228	4.9	227	83	3	1113	29	24	23	23	1.99
10574163--10574194	9	3.7	9	95	4	57	12	21	21	43	1.86
10575509--10575567	30	2.0	30	96	0	109	55	15	3	25	1.55
10578071--10578121	3	17.0	3	83	0	66	33	1	5	58	1.33
10578155--10578188	16	2.1	16	88	0	50	35	2	2	58	1.28
10582820--10582856	9	4.1	9	86	13	58	45	10	10	32	1.74
10582905--10582989	30	2.8	30	96	0	152	21	40	0	38	1.53
10583099--10583156	30	1.9	30	86	6	82	18	36	0	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10583299--10583324	8	3.2	8	100	0	52	38	0	0	61	0.96
10584859--10584895	19	1.9	19	89	10	58	27	37	2	32	1.71
10586138--10586189	24	2.2	24	85	0	68	50	7	3	38	1.50
10590849--10590897	13	3.7	14	72	22	52	40	0	2	57	1.10
10591679--10591751	36	2.0	35	83	8	83	45	1	23	30	1.61
10591696--10591768	36	2.0	37	84	7	96	45	1	24	28	1.62
10592481--10592517	2	18.5	2	88	0	56	48	0	2	48	1.15
10592486--10592524	12	3.2	12	88	3	51	48	2	5	43	1.38
10593103--10593168	13	5.1	13	88	0	78	28	9	21	40	1.83
10593103--10593168	26	2.5	26	82	0	87	28	9	21	40	1.83
10593754--10593797	22	2.0	21	91	4	70	40	4	13	40	1.65
10595309--10595341	15	2.1	17	88	11	52	57	0	0	42	0.98
10595366--10595391	13	2.0	13	100	0	52	46	15	23	15	1.83
10597733--10597777	22	2.1	21	91	4	72	0	33	2	64	1.06
10597735--10597786	22	2.8	18	75	25	54	0	36	1	61	1.07
10597843--10597935	27	3.5	26	89	4	141	21	36	20	21	1.95
10598077--10598138	30	2.2	29	77	16	67	24	11	9	54	1.65
10600146--10600203	21	2.7	22	82	15	61	68	1	5	24	1.19
10600908--10601020	55	2.1	55	100	0	226	48	17	17	15	1.81
10602036--10602063	8	3.5	8	100	0	56	50	0	39	10	1.37
10607616--10607649	17	1.9	18	88	5	52	11	8	8	70	1.34
10614476--10614515	16	2.5	17	84	12	57	15	2	10	72	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10620703--10620745	18	2.3	19	80	8	52	72	0	18	9	1.11
10621123--10621162	21	1.9	21	89	0	62	40	0	27	32	1.57
10630811--10630902	23	3.9	23	76	15	80	21	26	21	30	1.99
10640058--10640108	20	2.6	19	90	6	75	37	5	3	52	1.44
10640138--10640241	3	35.3	3	72	14	74	33	0	5	59	1.28
10640138--10640241	15	6.6	16	71	14	83	33	0	5	59	1.28
10640355--10640399	2	23.0	2	95	4	83	48	0	0	51	1.00
10640738--10640763	2	13.0	2	100	0	52	50	0	0	50	1.00
10641955--10642167	27	8.1	27	78	10	228	50	7	4	38	1.50
10641955--10642133	40	4.5	40	86	2	114	50	7	4	37	1.50
10641955--10642132	67	2.7	68	86	1	236	50	7	4	38	1.51
10643138--10643177	18	2.2	18	100	0	80	57	5	15	22	1.57
10643700--10643730	16	1.9	16	93	0	53	41	6	29	22	1.78
10646372--10646433	31	2.0	31	100	0	124	32	9	16	41	1.80
10646947--10647016	10	6.7	10	73	15	61	72	12	14	0	1.11
10652502--10652563	31	2.0	31	100	0	124	32	9	16	41	1.80
10652866--10652912	3	15.7	3	100	0	94	31	0	0	68	0.90
10653165--10653222	9	6.4	9	87	0	89	44	22	6	25	1.77
10653165--10653222	27	2.1	27	93	0	98	44	22	6	25	1.77
10653328--10653367	18	2.2	18	86	0	53	12	2	45	40	1.56
10667599--10667623	13	1.9	13	100	0	50	0	16	48	36	1.46
10667738--10667771	9	3.9	9	88	3	52	52	2	0	44	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10669181--10669270	34	2.6	35	79	13	89	45	11	10	33	1.73
10669253--10669297	18	2.5	17	85	3	63	40	15	6	37	1.74
10669260--10669300	18	2.3	18	95	0	73	48	19	4	26	1.69
10669309--10669374	16	3.9	16	75	16	62	54	7	10	27	1.61
10669192--10669415	17	12.9	17	70	9	132	47	10	11	30	1.73
10669743--10669784	19	2.2	19	87	12	59	33	14	11	40	1.82
10669912--10669944	5	6.6	5	100	0	66	63	0	0	36	0.95
10670104--10670146	18	2.4	18	84	3	61	0	18	0	81	0.69
10670229--10670269	22	1.9	21	85	14	57	2	34	39	24	1.69
10670465--10670523	3	17.7	3	86	13	64	0	35	0	64	0.94
10670465--10670523	25	2.5	22	84	13	66	0	35	0	64	0.94
10670473--10670523	16	3.0	16	85	8	66	0	35	0	64	0.94
10674153--10674222	19	3.7	19	84	1	88	2	5	8	82	0.91
10674153--10674222	9	7.4	10	82	9	76	2	5	8	82	0.91
10679027--10679066	19	2.1	19	100	0	80	47	5	20	27	1.70
10680341--10680677	17	18.9	18	70	11	205	46	10	12	30	1.75
10680609--10680677	35	1.9	35	85	2	93	44	11	15	27	1.81
10680840--10680881	19	2.2	19	87	12	59	33	14	11	40	1.82
10681008--10681042	11	3.0	11	91	8	52	62	0	0	37	0.95
10681008--10681050	6	7.0	6	89	10	61	62	0	0	37	0.95
10681215--10681254	18	2.3	18	83	8	57	0	17	0	82	0.67
10681569--10681630	3	19.7	3	84	15	65	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10681556--10681629	22	3.2	21	75	17	67	0	32	0	67	0.91
10681556--10681623	19	3.4	19	74	13	57	0	32	0	67	0.91
10681568--10681630	22	3.0	21	80	15	78	0	34	0	65	0.93
10681991--10682070	29	2.8	28	92	5	133	42	6	21	30	1.77
10682830--10682867	13	3.0	13	92	3	60	65	5	23	5	1.34
10684019--10684152	39	3.4	38	73	12	112	22	20	28	28	1.99
10685379--10685573	25	8.4	24	76	14	153	18	25	18	37	1.94
10685478--10685516	19	2.1	19	85	9	53	23	30	17	28	1.97
10685406--10685573	91	1.9	88	86	3	237	18	26	18	36	1.94
10686528--10686555	13	2.2	13	100	0	56	21	7	25	46	1.76

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