genome.fa.s5.2.7.7.80.10.50.1000.37.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  37  of  208  ( 24913 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)
10274005--10274039	12	2.9	12	95	0	61	42	34	22	0	1.54
10291062--10291106	22	2.0	22	100	0	90	28	35	8	26	1.87
10301831--10302051	110	2.0	110	100	0	442	29	19	22	28	1.98
10310915--10310994	31	2.6	31	91	0	133	35	15	7	42	1.75
10323328--10323576	46	5.5	46	90	4	357	34	15	22	28	1.94
10323328--10323576	91	2.8	92	89	3	382	34	15	22	28	1.94
10324509--10324658	49	3.0	49	82	4	176	27	11	28	33	1.91
10328290--10328585	46	6.5	46	93	1	472	34	16	21	27	1.95
10333259--10333511	46	5.7	46	84	8	357	28	22	15	34	1.94
10333423--10333499	38	2.0	38	97	0	145	25	23	14	36	1.93
10336904--10336950	18	2.6	18	80	12	60	25	2	4	68	1.19
10337743--10337826	31	2.8	31	83	3	109	53	7	14	25	1.66
10340723--10340784	23	2.5	25	80	15	67	45	8	19	27	1.78
10346616--10346653	17	2.2	17	95	0	67	7	34	34	23	1.84
10353724--10353761	18	2.1	18	85	9	51	76	2	0	21	0.91
10353724--10353761	13	2.8	14	84	8	51	76	2	0	21	0.91
10361769--10362124	114	3.1	113	69	10	292	27	24	19	27	1.99
10361758--10362174	228	1.8	229	86	2	606	27	24	20	28	1.99
10361769--10362197	114	3.8	112	69	11	271	27	23	20	28	1.99
10362486--10362526	13	3.1	14	86	6	50	21	7	24	46	1.77
10362908--10362946	15	2.5	16	84	16	55	61	0	2	35	1.10
10363575--10363617	17	2.4	19	84	7	63	32	44	2	20	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10365049--10365091	21	2.0	21	100	0	86	32	9	23	34	1.87
10367189--10367236	21	2.3	21	88	0	69	33	18	43	4	1.69
10367456--10367506	24	2.0	26	85	7	70	33	1	1	62	1.17
10367609--10367872	43	6.2	43	85	4	297	28	20	23	27	1.99
10382272--10382573	42	7.2	42	87	3	407	28	21	19	30	1.98
10383611--10383702	4	23.0	4	97	0	175	48	25	1	25	1.58
10385865--10385921	26	2.2	26	78	6	62	45	5	10	38	1.61
10389489--10389559	29	2.4	29	85	4	97	36	11	8	43	1.71
10391519--10391566	20	2.4	21	75	10	55	64	0	25	10	1.25
10391668--10391715	25	2.0	25	88	8	73	77	2	8	12	1.08
10392984--10393013	15	2.0	15	93	0	51	50	0	3	46	1.18
10429800--10429830	3	10.3	3	100	0	62	0	35	0	64	0.94
10440690--10440714	10	2.5	10	100	0	50	20	24	8	48	1.76
10445267--10445345	31	2.6	30	84	6	88	35	1	11	51	1.46
10452757--10452781	3	8.3	3	100	0	50	32	0	0	68	0.90
10454085--10454161	14	5.0	15	71	20	52	42	14	9	33	1.77
10454101--10454140	20	2.0	20	90	0	62	50	12	10	27	1.72
10454089--10454155	34	1.9	35	90	3	109	46	13	8	31	1.74
10459464--10459495	16	2.0	16	93	0	55	12	15	3	68	1.32
10460679--10460721	22	2.0	22	86	4	61	53	11	0	34	1.37
10461769--10461808	20	2.0	21	90	5	64	22	17	5	55	1.61
10464959--10464996	13	2.7	14	84	8	51	63	13	7	15	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10465925--10465959	17	2.1	17	94	0	61	40	40	0	20	1.52
10467787--10467904	42	2.8	42	81	11	145	29	16	23	30	1.96
10467787--10467938	42	3.7	40	81	8	128	29	15	24	30	1.95
10473989--10474102	42	2.7	43	79	1	131	32	21	17	28	1.96
10476533--10476579	24	2.0	24	83	8	60	68	8	8	14	1.39
10477216--10477290	19	3.8	19	89	6	123	36	17	10	36	1.84
10478890--10479428	107	5.0	107	89	2	798	35	18	14	31	1.91
10479450--10479494	20	2.2	21	84	11	58	55	4	11	28	1.54
10479623--10479681	30	2.1	27	81	15	66	69	5	5	20	1.27
10479921--10479961	2	20.5	2	94	0	73	51	0	2	46	1.14
10489931--10489957	2	13.5	2	100	0	54	51	0	0	48	1.00
10490620--10491072	231	1.9	233	97	1	865	38	21	6	33	1.78
10493928--10493958	15	2.1	15	100	0	62	67	0	0	32	0.91
10494449--10494484	15	2.5	14	90	4	54	36	2	0	61	1.11
10494686--10494733	14	3.4	14	79	2	51	31	4	0	64	1.12
10503698--10503781	29	2.8	30	72	15	84	61	2	3	32	1.25
10503717--10503760	20	2.2	20	84	8	54	59	4	4	31	1.38
10504180--10504266	9	9.7	9	77	10	63	27	0	4	67	1.10
10504178--10504275	8	11.2	8	75	20	72	29	0	4	66	1.10
10504214--10504275	17	3.7	16	78	16	54	27	0	3	69	1.04
10504224--10504275	26	2.0	25	78	14	52	26	0	3	69	1.06
10504209--10504282	25	2.9	25	76	9	78	29	0	4	66	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10504192--10504327	34	3.9	35	69	18	106	31	0	5	62	1.22
10504294--10504388	10	10.0	9	76	13	75	40	1	2	56	1.18
10504373--10504439	35	1.9	35	85	11	93	35	2	1	59	1.22
10504295--10504454	10	17.7	9	69	20	52	36	1	1	60	1.19
10504410--10504452	17	2.6	16	82	7	50	32	2	0	65	1.06
10504436--10504492	28	2.0	30	86	6	82	19	5	5	70	1.26
10504865--10504910	21	2.1	21	84	11	58	50	0	0	50	1.00
10506915--10506977	20	3.3	19	84	6	83	52	4	3	39	1.38
10506915--10506977	19	3.3	19	82	6	74	52	4	3	39	1.38
10511936--10512091	69	2.3	69	85	0	195	28	23	17	31	1.97
10511964--10512093	69	1.9	69	88	0	197	28	21	17	32	1.96
10515468--10515521	26	2.1	26	96	0	99	33	31	11	24	1.90
10521841--10521876	14	2.6	14	86	0	54	58	0	0	41	0.98
10538467--10538630	87	1.9	86	88	1	247	36	17	16	29	1.92
10538617--10538677	30	2.0	30	96	0	113	40	16	8	34	1.78
10539852--10539912	30	2.0	30	96	0	113	34	3	18	44	1.66
10544139--10544212	27	2.8	26	81	2	76	44	10	12	32	1.76
10546710--10546737	2	14.0	2	100	0	56	50	0	0	50	1.00
10546995--10547056	23	2.9	21	73	7	54	35	11	4	48	1.60
10560739--10560869	29	4.4	30	82	3	140	29	22	4	43	1.73
10561165--10561195	15	2.1	15	93	0	53	35	58	6	0	1.24
10561424--10561482	12	5.2	12	71	22	56	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10561427--10561473	20	2.4	19	83	16	60	68	0	31	0	0.90
10561424--10561481	21	2.6	22	71	13	57	67	0	32	0	0.91
10561578--10561656	6	13.5	6	70	21	53	79	0	16	3	0.87
10561578--10561667	18	5.1	17	78	11	85	80	0	15	4	0.87
10561575--10561654	9	8.6	10	82	14	84	78	0	17	3	0.89
10561582--10561657	37	2.1	35	88	9	109	80	0	15	3	0.86
10561575--10561667	9	10.0	9	80	11	73	79	0	16	4	0.88
10561743--10561845	36	2.9	36	88	5	156	23	47	22	6	1.75
10561857--10561902	13	3.5	13	88	5	67	84	6	8	0	0.77
10562346--10562480	17	7.6	17	72	17	71	35	12	8	42	1.74
10562402--10562829	18	24.5	18	70	12	196	33	13	8	44	1.74
10562401--10562480	35	2.3	35	86	4	108	31	12	10	46	1.75
10562539--10562760	123	1.8	122	91	2	365	30	13	9	45	1.77
10562544--10562829	53	5.4	53	73	10	201	30	13	10	45	1.77
10562544--10562759	35	6.2	35	71	13	135	31	13	10	44	1.78
10562542--10562812	123	2.2	122	83	4	357	30	14	9	45	1.77
10562544--10562829	52	5.4	53	74	10	178	30	13	10	45	1.77
10573832--10573902	12	5.9	11	76	16	61	85	7	2	4	0.80
10573831--10573911	37	2.2	36	82	12	94	83	6	3	6	0.88
10573870--10573924	7	7.9	7	75	15	51	81	3	10	3	0.93
10573854--10573912	8	7.9	8	83	9	54	83	3	6	6	0.91
10573832--10573903	1	72.0	1	74	0	54	86	6	2	4	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10573832--10573924	13	7.4	12	76	12	64	83	5	6	4	0.89
10573871--10573912	21	2.0	21	90	4	66	80	4	9	4	0.99
10574778--10575341	77	7.4	76	84	7	648	27	15	20	35	1.93
10574796--10575341	153	3.6	150	83	8	656	27	15	21	35	1.94
10576412--10576463	21	2.5	21	84	9	63	65	0	34	0	0.93
10576393--10576455	33	1.9	33	90	6	101	63	0	36	0	0.95
10576560--10576639	18	4.2	19	83	15	85	80	0	13	6	0.90
10576560--10576621	6	10.5	6	74	22	60	80	0	16	3	0.83
10576571--10576621	24	2.1	24	89	7	77	82	0	15	1	0.76
10576557--10576639	28	2.9	29	79	15	100	79	0	14	6	0.91

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