genome.fa.s11.2.7.7.80.10.50.1000.197.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  197  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)
57797963--57798223	25	10.5	25	73	13	155	44	17	1	36	1.60
57797958--57798439	9	56.4	9	66	18	178	43	17	2	36	1.63
57797965--57798077	49	2.3	48	82	10	140	44	21	0	33	1.58
57798072--57798265	41	4.9	41	85	8	276	43	14	3	38	1.62
57798067--57798265	75	2.6	75	89	5	281	43	15	3	38	1.62
57798092--57798434	50	7.3	49	69	18	196	44	16	2	36	1.62
57797965--57798198	25	9.4	25	76	11	169	44	17	1	35	1.59
57798092--57798377	25	11.7	24	67	17	108	44	15	2	37	1.62
57798205--57798426	16	13.2	16	69	15	89	45	16	3	35	1.63
57803881--57803931	21	2.4	21	93	0	84	35	17	45	1	1.60
57804348--57804524	44	4.1	41	73	11	140	27	19	25	27	1.99
57817104--57817148	24	1.9	23	81	4	54	37	11	4	46	1.60
57823329--57823395	34	1.9	35	90	3	109	44	14	7	32	1.74
57824927--57825018	40	2.3	40	88	0	139	31	15	29	23	1.95
57825077--57825173	41	2.4	41	84	1	115	18	14	26	40	1.89
57826452--57826506	22	2.6	21	82	8	67	25	1	34	38	1.67
57827048--57828308	630	2.0	630	97	0	2369	34	15	18	31	1.92
57830288--57830369	13	6.2	13	71	18	53	40	9	2	47	1.50
57830281--57830356	40	1.9	40	91	0	125	38	7	5	48	1.55
57830847--57831122	9	31.8	9	71	16	190	45	20	2	31	1.66
57830856--57831004	19	7.4	19	66	25	67	49	20	1	28	1.57
57830853--57831060	16	12.5	16	72	16	140	47	20	1	29	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57830853--57831117	25	10.6	25	75	14	171	46	20	2	30	1.64
57830876--57831133	34	7.5	34	72	14	154	45	19	2	31	1.65
57830847--57831117	103	2.6	104	78	11	238	46	20	2	30	1.65
57836672--57836721	21	2.4	21	86	0	73	32	20	46	2	1.62
57845478--57845521	20	2.2	20	84	15	56	34	4	2	59	1.30
57850757--57850806	20	2.5	20	76	0	55	42	16	0	42	1.47
57851058--57851122	33	2.0	33	100	0	130	23	9	9	58	1.58
57855641--57855673	17	2.0	17	88	5	50	72	0	24	3	0.98
57856111--57856300	97	2.0	97	83	8	244	26	16	8	47	1.75
57857188--57857683	46	10.9	46	87	2	687	25	15	25	33	1.95
57863665--57863705	21	1.9	21	85	5	55	7	17	9	65	1.44
57864042--57864106	28	2.2	28	76	12	69	36	1	3	58	1.23
57879903--57879950	21	2.2	22	85	3	62	33	27	27	12	1.92
57880546--57880585	17	2.4	17	84	16	57	72	7	10	10	1.28
57881381--57881459	34	2.4	33	82	6	88	43	0	6	50	1.27
57885841--57885972	45	3.0	44	87	6	187	26	5	13	54	1.60
57889649--57889674	13	2.0	13	100	0	52	23	23	23	30	1.99
57910262--57910290	2	14.5	2	100	0	58	51	0	0	48	1.00
57916516--57916555	15	2.5	15	84	8	53	50	2	0	47	1.14
57917108--57917150	11	3.7	11	79	11	50	37	2	13	46	1.57
57917098--57917162	24	2.5	26	85	12	82	40	1	9	49	1.44
57917103--57917155	24	2.2	25	93	3	90	37	1	11	49	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57917119--57917163	11	3.9	12	80	16	51	40	0	8	51	1.33
57923820--57923885	34	1.9	34	93	0	114	37	18	4	39	1.71
57924668--57924716	21	2.3	23	79	13	59	55	4	0	40	1.19
57926759--57926836	15	5.2	15	70	11	61	46	7	20	25	1.77
57926755--57926836	30	2.7	30	90	0	128	47	7	20	24	1.75
57931402--57931479	15	5.2	15	67	11	61	44	7	20	26	1.78
57931398--57931479	30	2.7	30	92	0	128	46	7	20	25	1.76
57932226--57932286	23	2.7	23	82	5	70	59	3	3	34	1.30
57938775--57938821	2	23.0	2	95	4	85	48	0	2	48	1.13
57945459--57945591	43	3.1	43	67	8	110	29	26	21	23	1.99
57951514--57951626	13	9.1	13	71	24	59	30	3	1	64	1.20
57951537--57951607	8	8.2	8	79	17	72	32	1	2	63	1.18
57951537--57951604	3	23.3	3	78	16	72	32	1	2	63	1.18
57954421--57954453	16	2.1	16	100	0	66	36	6	33	24	1.80
57954442--57954534	44	2.1	44	84	9	118	32	5	27	34	1.80
57954980--57955204	41	5.5	41	84	0	288	18	26	24	30	1.98
57954980--57955204	123	1.8	123	87	3	337	18	26	24	30	1.98
57956269--57956315	23	2.0	23	87	0	67	23	12	6	57	1.58
57959197--57959727	23	23.3	23	77	11	466	29	6	24	39	1.81
57959199--57959668	137	3.4	137	88	3	619	29	6	23	39	1.80
57959274--57959727	183	2.5	183	92	2	745	30	6	24	39	1.79
57960651--57961030	43	8.9	43	87	0	528	20	18	32	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57963025--57963054	9	3.3	9	100	0	60	23	23	10	43	1.83
57967115--57967252	68	2.0	68	100	0	276	40	11	11	36	1.78
57967765--57967833	21	3.2	22	78	11	72	37	43	0	18	1.51
57967776--57967809	14	2.4	14	95	0	59	32	50	0	17	1.47
57968127--57968169	14	3.1	14	86	0	59	44	37	0	18	1.50
57968908--57969222	41	7.7	41	89	2	447	31	27	21	19	1.97
57969260--57969395	40	3.4	38	78	7	119	20	21	20	37	1.94
57969279--57969395	40	2.9	41	83	3	150	23	22	19	34	1.97
57971000--57971054	24	2.2	24	87	3	74	41	3	12	41	1.60
57974988--57975065	15	5.2	15	67	11	61	44	7	20	26	1.78
57974984--57975065	30	2.7	30	92	0	128	46	7	20	25	1.76
57975813--57975873	23	2.7	23	82	5	70	59	3	3	34	1.30
57982486--57982510	2	12.5	2	100	0	50	48	0	0	52	1.00
57991248--57991337	34	2.6	34	80	7	92	53	5	7	33	1.53
57991451--57991512	3	21.0	3	96	3	117	67	0	0	32	0.91
57993374--57994039	44	15.0	43	70	13	393	26	24	18	30	1.98
57993375--57994088	89	8.0	89	84	6	831	25	24	19	30	1.98
57993379--57994104	181	4.1	178	86	5	912	25	24	18	30	1.98
57995422--57995514	47	2.0	47	89	0	141	11	25	16	46	1.81
57995426--57995527	47	2.2	47	83	0	123	12	26	15	45	1.82
57999534--57999623	34	2.6	34	80	7	92	53	5	7	33	1.53
57999737--57999798	3	21.0	3	96	3	117	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58003705--58003760	16	3.6	16	73	9	53	67	1	8	21	1.27
58011353--58011404	6	8.7	6	100	0	104	48	0	0	51	1.00
58013224--58013257	3	11.0	3	93	6	59	64	0	35	0	0.94
58021717--58021777	29	2.1	29	82	8	72	22	14	16	45	1.84
58024117--58024197	37	2.2	37	80	10	87	41	0	2	55	1.13
58029976--58030009	17	2.0	18	88	11	54	44	8	0	47	1.34
58034906--58034969	32	2.0	32	84	0	83	43	1	7	46	1.42
58036178--58036236	29	2.0	29	83	0	73	25	10	30	33	1.89
58036328--58036438	49	2.4	45	77	15	127	30	17	7	45	1.75
58041863--58041887	3	8.3	3	100	0	50	36	0	0	64	0.94
58046133--58046222	25	3.7	23	75	10	74	33	1	4	61	1.23
58053513--58053569	5	11.4	5	100	0	114	40	0	0	59	0.97
58063132--58063173	20	2.1	20	86	0	57	38	0	7	54	1.28
58063952--58064008	30	1.9	30	85	0	78	45	3	3	47	1.37
58067907--58068113	114	1.8	112	83	2	270	33	24	11	31	1.90
58072353--58072421	6	11.0	6	80	14	77	15	0	5	78	0.94
58072356--58072421	25	2.6	27	81	16	86	15	0	6	78	0.93
58072353--58072421	32	2.2	32	87	7	97	15	0	5	78	0.94
58075402--58075439	20	1.9	20	89	10	60	42	0	2	55	1.14
58075450--58075486	18	1.9	18	89	10	56	54	0	5	40	1.24
58077239--58077297	30	1.9	31	82	6	75	37	16	3	42	1.66
58077248--58077364	29	4.0	29	76	14	105	32	17	5	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58077714--58077782	4	18.5	4	80	19	71	78	0	21	0	0.76
58077720--58077790	22	3.3	21	82	9	83	80	0	19	0	0.72
58077720--58077790	7	10.0	7	82	11	83	80	0	19	0	0.72
58077896--58077945	21	2.4	21	86	6	66	74	8	18	0	1.06
58078541--58078599	18	3.2	18	74	23	59	27	13	8	50	1.70
58078545--58078587	20	2.1	21	87	12	63	37	13	6	41	1.72
58078540--58078661	37	3.3	35	82	11	111	32	10	8	48	1.67
58080784--58080813	15	2.0	15	100	0	60	40	0	6	53	1.27
58081317--58081366	25	2.0	25	88	0	73	24	18	20	38	1.93
58081323--58081377	25	2.2	25	90	0	83	23	16	18	41	1.89

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