genome.fa.s11.2.7.7.80.10.50.1000.173.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  173  of  210  ( 25152 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)
51726352--51726758	81	5.2	80	87	8	563	33	1	16	48	1.55
51731727--51732261	227	2.4	221	76	8	522	25	23	19	31	1.98
51731727--51732266	114	4.8	111	73	9	439	25	24	18	31	1.98
51732381--51732613	112	2.1	113	84	4	301	23	22	21	31	1.98
51732929--51732953	12	2.1	12	100	0	50	92	0	8	0	0.40
51734843--51734894	19	2.7	20	79	11	63	38	3	0	57	1.17
51734843--51734898	10	5.7	10	76	4	51	35	3	0	60	1.14
51735363--51735402	21	2.0	20	85	5	53	45	5	0	50	1.23
51735335--51735467	10	13.5	10	68	21	68	36	4	0	57	1.24
51735398--51735466	29	2.3	30	80	12	79	34	2	1	60	1.20
51735421--51735476	28	2.0	29	82	10	71	35	5	1	57	1.32
51735578--51735651	30	2.5	30	81	0	94	52	14	4	28	1.60
51738095--51738143	3	16.3	3	100	0	98	32	34	0	32	1.58
51740630--51740687	19	2.9	20	68	25	50	18	10	6	63	1.47
51747537--51747747	105	2.0	105	98	0	404	36	8	17	38	1.80
51751425--51751473	22	2.1	24	82	14	59	55	2	8	34	1.41
51753364--51753398	18	2.0	18	88	5	54	25	2	2	68	1.17
51753415--51753454	21	1.9	21	84	0	53	37	2	2	57	1.26
51758288--51759139	89	9.6	89	92	0	1319	31	18	23	26	1.98
51759117--51759224	44	2.5	43	80	7	137	32	16	27	23	1.96
51760673--51760722	3	17.0	3	78	12	50	36	4	0	60	1.16
51760673--51760722	16	3.0	17	74	14	59	36	4	0	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51760673--51760722	19	2.6	19	75	9	57	36	4	0	60	1.16
51760782--51760841	31	1.9	31	96	0	111	40	8	8	43	1.65
51760892--51760920	2	14.5	2	100	0	58	51	0	0	48	1.00
51762171--51762215	23	2.0	23	86	0	63	55	6	6	31	1.52
51763923--51764044	44	2.8	44	86	2	156	29	21	19	29	1.98
51764035--51764837	44	18.4	45	77	8	583	30	24	14	30	1.94
51764035--51764832	132	6.1	129	83	6	655	30	24	14	30	1.94
51764356--51764837	89	5.5	84	74	11	343	30	25	15	29	1.95
51764375--51764835	126	3.5	126	85	4	589	30	25	15	28	1.96
51773849--51773883	18	1.9	18	88	11	54	22	20	0	57	1.41
51773963--51774031	36	1.9	36	87	0	102	7	21	4	66	1.34
51774000--51774041	22	2.0	21	85	4	57	7	23	2	66	1.28
51778569--51778617	3	16.3	3	100	0	98	67	0	0	32	0.91
51780257--51780287	15	2.1	15	93	0	53	19	19	29	32	1.96
51782636--51782699	25	2.7	24	76	9	69	31	4	4	59	1.38
51782737--51782804	25	2.6	27	69	9	68	38	4	2	54	1.36
51782867--51782895	4	7.2	4	100	0	58	24	0	0	75	0.80
51790449--51790474	5	5.2	5	100	0	52	19	0	0	80	0.71
51792419--51792463	19	2.3	19	80	3	54	57	0	4	37	1.19
51792430--51792484	29	2.0	26	86	10	74	60	0	5	34	1.20
51792479--51792525	17	2.8	17	83	0	58	61	0	0	38	0.96
51804654--51804723	23	3.0	24	75	10	72	50	2	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51811963--51811997	7	5.0	7	100	0	70	57	0	0	42	0.99
51823852--51823885	2	17.0	2	100	0	68	0	50	0	50	1.00
51841804--51841875	35	2.1	35	100	0	144	44	8	11	36	1.70
51842943--51843129	4	46.8	4	97	0	356	25	1	25	48	1.58
51844857--51844905	23	2.0	23	84	7	62	57	6	8	28	1.52
51845781--51845807	7	3.9	7	100	0	54	14	40	14	29	1.86
51848252--51848285	16	2.1	16	94	0	59	29	20	5	44	1.75
51864552--51864670	45	2.6	45	79	12	136	27	21	25	26	1.99
51864750--51865085	44	7.7	44	70	11	190	30	20	21	27	1.98
51864751--51865037	89	3.3	88	71	7	262	29	21	21	26	1.99
51864683--51865216	173	3.1	172	85	4	700	29	20	21	28	1.98
51867242--51867438	98	2.0	98	92	0	331	28	10	23	37	1.87
51869564--51869589	6	4.3	6	100	0	52	84	0	0	15	0.62
51869881--51869922	20	2.0	22	86	9	61	57	0	2	40	1.12
51870236--51870272	18	2.0	19	85	15	51	21	5	2	70	1.20
51870732--51870773	19	2.2	19	83	8	50	52	7	28	11	1.64
51871707--51871775	22	3.1	22	93	0	111	30	17	26	26	1.97
51875843--51876031	9	20.1	9	71	14	98	59	4	2	33	1.28
51875931--51876002	30	2.4	30	79	11	76	55	2	1	40	1.23
51876796--51876972	10	18.1	9	74	12	113	35	0	5	58	1.26
51876796--51876972	19	9.0	19	73	13	112	35	0	5	58	1.26
51876796--51876966	29	5.8	28	73	19	93	35	0	5	58	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51876903--51876992	28	3.1	30	78	7	89	36	0	4	58	1.18
51876796--51877056	20	13.2	20	68	16	95	33	0	5	59	1.26
51877017--51877076	31	1.9	31	86	0	84	21	6	3	68	1.28
51877199--51877235	13	3.0	12	88	7	56	70	2	0	27	1.01
51877200--51877235	19	1.9	18	88	5	54	72	2	0	25	0.98
51877247--51877271	2	12.5	2	100	0	50	52	0	0	48	1.00
51880632--51880656	11	2.3	11	100	0	50	52	0	12	36	1.39
51881572--51881610	19	2.1	19	85	9	53	38	0	2	58	1.12
51887280--51887389	40	2.7	40	83	6	134	28	30	24	17	1.97
51888079--51888119	19	2.2	19	87	12	59	43	0	0	56	0.99
51888145--51888180	15	2.3	16	90	4	56	77	5	13	2	1.05
51888196--51888232	14	2.6	15	87	8	51	78	0	18	2	0.87
51888577--51888610	17	1.9	18	88	5	52	41	0	23	35	1.55
51888894--51888980	37	2.4	35	80	14	95	44	1	22	31	1.60
51892450--51892497	24	2.0	24	91	0	78	31	27	18	22	1.97
51892411--51892561	64	2.4	63	87	1	212	29	27	19	23	1.98
51892524--51892582	24	2.5	24	94	0	100	28	30	20	20	1.97
51892672--51892769	42	2.3	42	84	3	126	37	15	14	32	1.87
51892695--51892777	42	2.0	42	90	0	130	38	16	13	31	1.87
51895279--51895315	17	2.2	17	90	4	58	64	27	0	8	1.21
51896202--51896233	16	2.0	16	93	0	55	84	0	0	15	0.63
51899959--51900014	7	8.0	7	75	13	53	37	1	0	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51899959--51900014	22	2.6	21	80	5	76	37	1	0	60	1.07
51900696--51900759	24	2.7	24	87	4	85	35	4	12	46	1.62
51903829--51903881	26	2.0	26	100	0	106	41	11	18	28	1.85
51905153--51905205	24	2.2	24	86	6	72	37	5	11	45	1.64
51912499--51912525	12	2.2	12	100	0	54	48	7	0	44	1.31
51914302--51914351	15	3.3	15	86	5	64	2	16	18	64	1.39
51914312--51914351	16	2.6	15	88	7	62	2	12	17	67	1.33
51924075--51924103	5	5.8	5	100	0	58	0	17	0	82	0.66
51925653--51925789	40	3.5	40	77	8	138	35	25	17	21	1.95
51925822--51926061	41	5.9	41	90	1	374	17	19	32	31	1.95
51926358--51926548	14	13.4	14	71	13	95	20	0	32	46	1.55
51926416--51926548	7	18.7	7	73	11	74	18	0	34	46	1.50
51927142--51927173	13	2.3	15	89	10	50	43	0	0	56	0.99
51931390--51931617	43	5.3	43	85	5	248	21	17	32	29	1.96
51931410--51931614	43	4.8	43	89	2	304	20	17	32	30	1.95
51931689--51931732	22	2.0	22	95	0	79	43	27	20	9	1.82
51934236--51934297	26	2.4	26	83	5	81	43	14	11	30	1.80
51934661--51934703	19	2.3	19	95	0	77	46	6	9	37	1.63
51936534--51936577	23	1.9	23	95	0	79	25	27	13	34	1.93
51940410--51940576	91	1.8	90	92	1	280	36	13	19	29	1.91
51956371--51956573	41	5.0	40	85	8	223	33	27	19	19	1.96
51957221--51957255	17	2.1	17	89	5	54	31	14	5	48	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51971522--51971589	21	3.2	21	78	0	82	19	23	14	42	1.88
51971511--51971631	42	2.9	42	83	0	134	20	26	14	38	1.91
51973796--51973825	15	1.9	16	93	6	53	20	0	0	80	0.72
51975515--51975584	26	2.7	26	79	0	86	24	32	22	20	1.97
51979156--51979198	19	2.3	19	84	8	52	65	0	2	32	1.06
51992599--51992628	15	2.0	15	100	0	60	26	13	20	40	1.89
51993076--51993283	91	2.3	91	89	0	319	29	22	14	33	1.93
51999446--51999483	16	2.4	16	90	0	58	39	2	31	26	1.70
51999465--51999557	44	2.1	44	92	6	152	31	4	30	34	1.77
51999696--52000054	120	3.0	119	94	1	621	51	4	1	42	1.32

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