genome.fa.s11.2.7.7.80.10.50.1000.68.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  68  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)
20388352--20388395	14	3.1	14	81	12	54	65	0	22	11	1.24
20389704--20390886	44	26.7	44	77	8	921	31	14	22	31	1.93
20389670--20390895	133	9.2	133	83	5	1075	31	14	22	31	1.94
20389704--20390886	177	6.7	175	84	5	1145	31	14	22	31	1.93
20389725--20390886	89	13.1	87	78	8	773	31	14	22	31	1.94
20391362--20391402	22	1.9	21	85	5	55	70	17	9	2	1.25
20396641--20396693	22	2.3	24	80	12	74	45	0	0	54	0.99
20402534--20402600	10	6.9	10	72	24	54	35	2	1	59	1.22
20407847--20407882	18	2.0	18	88	0	54	83	0	16	0	0.65
20409101--20409494	46	8.5	46	92	0	617	24	15	27	32	1.96
20409529--20409959	132	3.3	132	93	0	736	29	18	24	27	1.98
20409705--20410117	220	1.9	220	91	2	677	28	18	24	28	1.98
20409852--20409989	44	3.2	42	67	22	113	30	15	26	26	1.96
20409894--20410035	44	3.2	45	66	23	111	29	17	25	27	1.97
20409844--20410038	88	2.2	88	94	1	338	30	17	25	26	1.97
20410391--20410434	19	2.2	20	84	12	54	70	22	0	6	1.11
20412181--20412281	25	4.2	24	73	16	100	31	0	10	57	1.33
20412152--20412292	73	1.9	75	89	2	223	31	0	11	56	1.40
20429928--20429975	16	2.9	17	71	6	53	29	2	0	68	1.01
20439857--20439889	2	16.5	2	100	0	66	48	0	0	51	1.00
20441908--20442034	35	3.6	35	84	2	148	31	27	16	24	1.96
20443320--20443406	25	3.5	24	83	9	104	41	17	10	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20448170--20448242	25	2.9	25	77	0	83	38	17	8	35	1.80
20456620--20456664	21	2.1	21	88	8	65	84	0	8	6	0.78
20457860--20457895	8	4.5	8	100	0	72	63	0	36	0	0.94
20457979--20458030	17	3.1	17	83	2	61	61	0	34	3	1.14
20457908--20458013	45	2.5	44	78	9	112	64	0	29	6	1.19
20457963--20458026	22	3.0	22	77	6	60	60	0	34	4	1.17
20460493--20460611	33	3.6	33	78	4	123	15	36	15	31	1.89
20460866--20460974	48	2.3	48	88	3	157	44	9	11	34	1.72
20463997--20464050	3	18.0	3	92	0	90	31	1	1	64	1.14
20467173--20467212	21	1.9	21	89	0	62	50	0	27	22	1.50
20469292--20469348	18	3.3	18	77	18	68	80	5	0	14	0.87
20469293--20469402	13	7.3	15	76	21	81	80	4	3	11	1.00
20469329--20469402	14	5.4	13	77	16	69	82	2	5	9	0.92
20469328--20469396	8	8.4	8	76	12	52	84	1	5	8	0.84
20469303--20469402	27	3.6	27	77	13	78	80	4	4	12	1.00
20469332--20469396	19	3.5	18	82	14	71	83	1	6	9	0.88
20470260--20470357	52	1.9	51	87	2	142	50	18	17	14	1.79
20470306--20470479	84	2.1	84	96	0	321	56	13	18	10	1.66
20471843--20472141	44	6.8	44	89	1	413	29	18	25	26	1.98
20472146--20472810	50	13.7	50	70	8	449	33	20	19	26	1.97
20472146--20472787	49	13.2	49	71	7	423	33	20	19	26	1.97
20472146--20472804	97	6.8	97	86	5	834	33	20	19	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20472521--20472804	90	3.1	90	84	8	388	34	21	17	26	1.95
20477748--20477954	113	1.8	114	87	3	310	55	15	2	25	1.54
20478060--20478117	18	3.4	17	84	11	75	1	36	0	62	1.06
20486662--20486707	20	2.3	20	92	0	74	28	4	15	52	1.61
20491893--20491932	19	2.2	18	86	13	55	22	2	15	60	1.47
20494751--20494781	6	5.2	6	100	0	62	64	0	35	0	0.94
20500599--20500644	24	1.9	24	90	0	74	76	6	13	4	1.14
20504710--20504765	27	2.1	27	82	0	67	46	5	16	32	1.69
20507882--20507981	50	2.0	50	86	0	137	20	30	16	34	1.94
20507890--20507981	25	3.7	25	83	0	121	20	29	16	33	1.94
20507892--20507997	25	4.2	25	79	3	79	21	28	17	32	1.96
20507892--20507997	50	2.1	50	82	0	122	21	28	17	32	1.96
20513795--20513908	56	2.0	56	100	0	228	26	15	28	28	1.96
20515326--20515395	25	2.8	25	95	0	122	15	30	20	34	1.93
20517302--20517427	45	2.8	45	81	0	144	23	21	12	42	1.87
20517531--20517579	17	2.9	17	76	14	57	53	8	0	38	1.31
20521309--20521339	15	2.1	15	100	0	62	32	19	12	35	1.90
20522108--20522150	11	3.9	11	81	9	52	2	11	9	76	1.10
20522108--20522150	21	2.0	22	86	4	61	2	11	9	76	1.10
20522893--20522937	18	2.5	17	79	10	54	42	20	0	37	1.52
20528592--20528637	22	2.1	22	87	0	65	10	0	30	58	1.32
20531946--20531994	25	2.0	25	84	8	64	34	18	12	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20539630--20539726	46	2.1	46	88	5	142	35	2	5	57	1.32
20541475--20541596	58	2.1	59	90	3	194	43	7	20	28	1.79
20545161--20545195	16	2.2	16	89	0	52	37	5	0	57	1.23
20545182--20545297	61	2.0	61	87	5	175	43	3	4	49	1.39
20552026--20552092	30	2.3	28	87	5	89	34	16	2	46	1.62
20553365--20553725	179	2.0	180	95	1	654	26	15	15	42	1.87
20561403--20561440	3	12.7	3	100	0	76	65	0	34	0	0.93
20561517--20561551	10	3.2	11	88	11	54	57	0	42	0	0.99
20563490--20563524	14	2.5	14	85	0	52	34	17	5	42	1.73
20566656--20566707	22	2.4	21	87	6	68	0	25	3	71	1.03
20567097--20567185	33	2.7	34	77	3	83	22	41	12	23	1.87
20567444--20567634	49	3.8	49	86	5	242	45	12	10	31	1.76
20567444--20567634	97	1.9	100	85	8	264	45	12	10	31	1.76
20570957--20571032	27	2.8	26	80	4	98	25	26	26	22	2.00
20578714--20578760	22	2.1	22	100	0	94	48	12	8	29	1.71
20587767--20587805	14	2.5	16	84	15	55	35	2	0	61	1.10
20587797--20587864	30	2.2	33	84	10	90	39	0	7	52	1.29
20588837--20588880	22	2.0	23	86	4	63	65	2	0	31	1.05
20588836--20588885	22	2.4	21	77	9	57	66	2	0	32	1.03
20589489--20589531	22	2.0	22	85	0	59	53	0	0	46	1.00
20589552--20589593	13	2.9	14	80	13	50	54	0	0	45	0.99
20589556--20589592	16	2.3	16	86	13	58	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20591079--20591114	2	18.0	2	100	0	72	50	0	0	50	1.00
20593169--20593204	16	2.1	16	90	10	54	69	0	0	30	0.89
20600071--20600111	18	2.2	19	91	4	66	29	0	2	68	1.03
20614580--20614631	23	2.3	22	80	6	59	53	30	0	15	1.42
20620120--20620226	30	3.6	28	78	15	83	57	5	2	33	1.36
20620238--20620289	26	2.0	25	85	10	70	65	0	5	28	1.16
20620364--20620407	17	2.6	17	85	3	63	47	0	11	40	1.39
20620536--20620574	3	13.0	3	88	0	60	64	2	2	30	1.21
20620890--20620987	21	4.7	21	87	8	121	40	15	8	35	1.77
20624131--20624179	22	2.2	23	88	3	73	28	30	6	34	1.82
20624566--20624606	20	2.2	20	86	8	59	29	9	12	48	1.72
20626265--20626298	8	4.2	8	84	0	50	35	47	0	17	1.48
20637625--20637807	44	4.2	44	66	8	120	27	25	17	29	1.97
20637533--20637824	132	2.2	131	95	2	523	27	24	18	29	1.98
20638704--20638965	99	2.6	100	94	0	445	26	25	20	27	1.99
20638766--20638939	50	3.5	50	71	6	165	24	25	21	28	1.99
20652075--20652356	151	1.9	151	83	4	372	42	9	5	41	1.61
20654760--20654801	17	2.5	16	81	11	57	78	0	4	16	0.91
20654755--20654819	27	2.4	27	80	12	73	70	1	12	15	1.23
20666091--20666116	6	4.3	6	100	0	52	84	0	0	15	0.62
20666902--20666957	23	2.4	23	100	0	112	28	50	3	17	1.63
20674429--20674466	14	2.8	14	84	4	51	73	2	2	21	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20677911--20677970	24	2.4	26	86	5	79	51	5	3	40	1.40
20686402--20686470	30	2.3	30	85	7	88	21	36	1	40	1.63
20690611--20690686	40	1.9	40	100	0	152	39	5	26	28	1.78
20691545--20691616	16	4.5	16	83	0	99	38	6	27	26	1.82
20691598--20691690	44	2.1	44	90	6	143	36	4	22	36	1.74
20691803--20691919	55	2.1	54	81	7	128	51	4	1	42	1.31
20695049--20695098	25	2.0	25	100	0	100	36	8	36	20	1.82
20697009--20697110	51	2.0	51	96	0	186	11	17	21	49	1.79
20697375--20697579	21	9.5	21	70	13	123	20	8	13	57	1.62
20700512--20700644	29	4.6	29	79	0	149	24	31	24	18	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