genome.fa.s11.2.7.7.80.10.50.1000.116.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  116  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)
34378142--34378166	8	3.1	8	100	0	50	48	0	24	28	1.52
34379184--34379426	50	4.9	49	79	2	202	28	21	26	23	1.99
34379197--34379377	100	1.8	100	81	2	229	27	21	28	22	1.99
34384241--34384555	41	7.7	41	85	0	387	22	28	16	33	1.95
34384490--34384579	41	2.2	41	85	0	126	24	30	14	31	1.95
34393836--34393879	21	2.1	21	95	0	79	45	18	27	9	1.79
34409588--34409639	14	3.7	14	79	5	61	76	0	21	1	0.87
34415141--34415254	43	2.7	43	81	13	144	25	20	25	28	1.99
34416233--34416638	23	17.5	23	87	1	551	27	13	19	38	1.90
34416233--34416638	117	3.5	116	88	2	555	27	13	19	38	1.90
34423617--34423740	62	2.0	62	100	0	248	43	20	14	20	1.87
34431433--34431472	17	2.4	17	86	0	53	32	32	5	30	1.79
34440992--34441056	32	2.0	32	100	0	130	27	27	9	35	1.87
34443976--34444046	33	2.2	33	81	0	79	23	21	22	32	1.98
34444959--34445016	17	3.2	17	79	13	62	22	3	3	70	1.17
34447222--34447357	45	3.0	45	96	0	245	22	33	11	33	1.89
34459754--34459816	23	2.9	23	82	13	71	6	15	3	74	1.15
34459763--34459802	12	3.3	12	82	10	55	10	15	0	75	1.05
34459758--34459802	24	1.9	23	95	4	81	8	15	0	75	1.03
34468354--34468443	36	2.4	37	80	10	103	45	6	10	37	1.64
34469267--34469299	13	2.5	13	95	0	57	60	6	6	27	1.44
34478531--34478557	14	1.9	14	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34482044--34482092	23	2.1	23	100	0	98	42	20	4	32	1.71
34485821--34485856	18	2.0	18	89	10	56	55	13	11	19	1.68
34495770--34495801	16	1.9	17	93	6	57	40	12	3	43	1.58
34502618--34502681	32	2.0	32	100	0	128	21	21	21	34	1.97
34503919--34503943	13	1.9	13	100	0	50	16	0	24	60	1.36
34507723--34507756	16	2.1	17	88	5	52	35	20	5	38	1.77
34520458--34521139	27	25.3	27	85	2	827	43	19	19	17	1.89
34521476--34521579	28	3.7	28	81	2	129	23	25	23	28	1.99
34532678--34532711	14	2.5	13	90	9	59	67	0	14	17	1.23
34532750--34532792	18	2.4	17	84	7	50	67	2	11	18	1.32
34532748--34532793	17	2.8	16	78	12	56	63	2	13	21	1.40
34533128--34533157	14	2.1	14	93	0	51	6	3	33	56	1.42
34556581--34556641	16	3.9	15	70	16	52	29	18	8	44	1.78
34558125--34558182	25	2.3	25	81	0	71	32	24	17	25	1.96
34559444--34559469	12	2.2	12	100	0	52	23	38	30	7	1.83
34566789--34566894	49	2.2	49	87	0	149	24	24	19	31	1.98
34566789--34566933	25	5.9	24	71	14	89	25	23	21	29	1.99
34568048--34568077	16	1.9	16	93	6	53	30	0	20	50	1.49
34586193--34586245	23	2.3	23	100	0	106	33	35	7	22	1.83
34590234--34590267	16	2.2	15	89	5	50	44	0	0	55	0.99
34591049--34591086	8	4.6	8	87	6	58	34	2	0	63	1.09
34591988--34592019	3	10.7	3	100	0	64	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34596314--34596439	40	3.1	41	73	5	114	21	28	18	31	1.97
34599554--34599611	24	2.4	23	82	5	71	75	0	24	0	0.80
34599563--34599600	18	2.2	18	95	4	69	84	0	15	0	0.63
34599556--34599602	6	8.2	6	77	17	55	80	0	19	0	0.70
34600847--34601026	92	2.0	88	86	6	245	27	19	25	27	1.99
34601054--34601575	260	2.0	260	90	0	812	27	20	26	26	1.99
34601596--34601922	44	7.5	44	73	10	253	29	21	21	27	1.99
34601598--34602059	44	10.6	43	71	13	184	29	21	22	26	1.99
34601815--34602051	130	1.8	129	80	6	282	30	21	19	27	1.98
34603994--34604039	22	2.0	22	83	4	56	15	6	2	76	1.09
34604005--34604033	14	2.1	14	100	0	58	13	6	0	79	0.93
34604132--34604169	13	2.8	14	80	19	53	21	5	7	65	1.38
34604176--34604209	15	2.3	15	94	0	59	17	0	17	64	1.29
34604524--34604563	16	2.5	16	91	0	62	47	2	7	42	1.45
34604530--34604694	68	2.6	65	87	8	216	41	4	9	45	1.55
34604552--34604694	68	2.1	67	93	2	252	41	4	9	44	1.57
34604636--34604663	9	3.1	9	100	0	56	32	0	10	57	1.33
34604760--34604805	24	1.9	24	91	8	76	60	2	0	36	1.09
34605917--34606162	50	4.8	50	85	3	285	26	20	30	23	1.99
34610433--34610466	10	3.3	10	84	8	50	41	0	11	47	1.40
34611615--34611648	10	3.3	10	92	8	59	44	0	8	47	1.34
34609298--34612665	591	5.7	591	82	4	3814	33	15	12	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34613962--34614028	25	2.7	25	97	0	125	19	22	25	32	1.97
34619544--34619582	16	2.4	17	86	4	53	35	0	2	61	1.10
34619545--34619582	17	2.4	16	82	8	51	34	0	2	63	1.09
34622613--34622695	37	2.2	37	91	0	130	36	34	16	12	1.86
34623977--34624004	11	2.5	11	100	0	56	35	10	25	28	1.89
34626918--34627214	40	7.4	40	93	0	504	27	19	21	30	1.98
34628013--34628101	27	3.1	27	65	22	74	57	1	8	32	1.37
34628002--34628189	57	3.3	58	90	2	317	54	2	7	35	1.40
34629043--34629207	43	3.9	43	83	6	210	20	21	29	29	1.98
34629043--34629207	85	1.9	86	85	6	228	20	21	29	29	1.98
34633635--34633748	3	37.7	3	77	8	81	64	1	3	29	1.20
34635142--34635650	44	11.8	43	74	11	357	25	22	22	29	1.99
34636786--34636897	45	2.5	45	88	0	161	13	26	18	41	1.88
34640855--34640885	16	1.9	16	93	0	53	74	3	16	6	1.16
34650880--34650942	22	3.2	22	66	29	68	42	3	14	39	1.61
34652409--34652478	27	2.5	28	75	6	72	25	2	18	52	1.59
34653860--34653901	14	3.0	14	82	0	57	42	16	9	30	1.80
34653825--34653891	34	1.9	35	87	3	100	44	13	10	31	1.77
34654592--34654617	13	2.0	13	100	0	52	23	30	0	46	1.53
34661724--34661858	62	2.2	58	80	11	146	62	2	7	27	1.37
34672167--34672224	22	2.6	22	81	5	73	29	22	15	32	1.95
34674998--34675088	25	3.6	25	80	0	101	30	25	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34677531--34677583	21	2.5	21	81	6	63	33	3	24	37	1.74
34677730--34677759	15	2.0	15	93	0	51	56	20	0	23	1.42
34678360--34678452	35	2.7	35	91	3	152	38	19	16	25	1.92
34685079--34685268	40	4.8	40	88	0	236	18	26	18	35	1.94
34685079--34685268	80	2.4	80	86	0	263	18	26	18	35	1.94
34685117--34685220	20	5.2	20	64	9	68	17	26	20	35	1.94
34685139--34685268	20	6.5	19	66	8	62	18	26	17	36	1.93
34693318--34693434	13	8.7	14	66	17	52	32	18	5	43	1.72
34693311--34693520	40	5.2	40	83	4	219	32	19	4	42	1.72
34693285--34693434	80	1.9	79	83	8	196	35	18	4	41	1.72
34693456--34693540	41	2.1	41	86	4	118	30	22	4	42	1.74
34695791--34695972	50	3.6	49	82	5	204	23	29	21	25	1.99
34695798--34695979	99	1.8	101	84	4	253	21	29	22	25	1.99
34702769--34703011	50	4.8	50	88	2	344	20	30	23	25	1.98
34705542--34705584	11	4.0	11	81	6	52	65	2	4	27	1.25
34706730--34706778	24	2.0	24	92	0	80	34	24	12	28	1.91
34708517--34708623	50	2.1	50	80	10	121	23	30	20	25	1.98
34715908--34715946	20	2.0	20	90	10	62	15	23	5	56	1.59
34726926--34726976	24	2.1	24	82	7	59	17	39	5	37	1.74
34728542--34728623	41	2.0	41	95	0	146	23	30	23	23	1.99
34736317--34736388	3	24.0	3	91	0	117	0	31	0	68	0.90
34737272--34737325	25	2.1	26	86	10	76	62	1	3	31	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34737434--34737475	21	2.0	20	86	13	59	19	9	50	21	1.75
34746498--34746523	12	2.2	12	100	0	52	23	19	15	42	1.89
34749064--34749149	43	2.0	42	84	6	111	47	4	24	23	1.70
34759457--34759518	27	2.3	27	94	0	115	27	16	22	33	1.95
34764496--34764579	43	2.0	43	83	4	107	50	2	20	27	1.61
34771322--34771410	45	2.0	45	100	0	178	38	17	8	34	1.82
34772880--34773028	28	5.3	28	78	3	165	16	23	17	42	1.89
34772880--34773028	56	2.7	56	84	4	192	16	23	17	42	1.89
34779684--34779926	50	4.8	50	86	0	333	27	23	29	20	1.98
34779684--34779926	100	2.4	100	89	0	369	27	23	29	20	1.98

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