genome.fa.s11.2.7.7.80.10.50.1000.189.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  189  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)
55624101--55624136	11	3.2	11	88	4	54	16	33	0	50	1.46
55624334--55624389	26	2.2	26	80	6	60	35	1	3	58	1.26
55625791--55625826	10	3.6	10	100	0	72	27	0	11	61	1.30
55625818--55625865	25	1.9	25	100	0	96	45	0	14	39	1.45
55625931--55626191	23	11.7	23	76	14	269	46	26	0	27	1.53
55625957--55626033	21	3.6	21	72	19	77	42	35	0	22	1.54
55625934--55626102	44	3.8	44	88	4	234	46	26	0	26	1.53
55625931--55626263	113	3.0	112	86	7	414	45	26	0	27	1.56
55626114--55626252	21	6.5	20	79	12	127	43	30	0	25	1.55
55626043--55626191	44	3.3	44	84	8	176	48	24	0	27	1.51
55625978--55626231	90	2.8	88	80	13	304	46	25	0	27	1.53
55626259--55626501	117	2.1	116	90	5	375	38	11	6	43	1.67
55629514--55629882	124	3.0	124	93	0	603	32	22	15	29	1.95
55634315--55634347	16	2.1	16	100	0	66	45	18	6	30	1.73
55637438--55637491	16	3.6	14	80	14	63	24	0	1	74	0.92
55637418--55637491	26	2.8	25	78	13	69	22	2	1	72	1.04
55638505--55638547	4	10.5	4	85	14	61	72	0	4	23	1.04
55638507--55638547	21	2.0	21	90	9	66	70	0	4	24	1.06
55638501--55638547	12	3.8	13	94	5	73	70	0	6	23	1.10
55641747--55642171	211	2.0	211	93	0	726	24	24	21	29	1.99
55642648--55642678	16	1.9	16	93	0	53	70	3	6	19	1.22
55643475--55643507	16	2.1	16	100	0	66	45	18	6	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55658591--55658624	16	2.1	16	94	0	59	29	20	11	38	1.88
55662306--55662339	18	1.9	17	88	5	50	52	0	5	41	1.25
55666922--55666959	20	1.9	20	88	0	58	55	2	13	28	1.51
55666993--55667028	15	2.5	14	86	8	54	44	8	0	47	1.33
55672236--55672269	11	2.8	12	91	8	52	70	0	0	29	0.87
55672236--55672269	6	5.7	6	89	10	52	70	0	0	29	0.87
55682880--55682914	18	1.9	18	94	0	61	51	22	5	20	1.68
55688143--55688239	28	3.5	28	74	4	97	49	16	14	19	1.79
55694813--55694847	18	1.9	18	88	0	52	54	2	0	42	1.15
55694977--55695010	18	1.9	18	94	5	61	55	0	2	41	1.15
55696117--55696166	25	2.0	24	81	11	57	60	2	2	36	1.20
55699676--55699721	23	2.0	24	83	8	60	28	2	2	67	1.14
55701026--55701171	76	1.9	76	88	2	222	28	19	22	28	1.98
55701430--55701489	25	2.4	26	78	13	63	68	1	5	25	1.19
55701520--55701550	6	5.2	6	92	0	53	80	0	19	0	0.71
55704984--55705018	19	1.9	17	88	11	52	51	0	11	37	1.38
55714351--55714389	11	3.5	11	82	0	51	58	5	15	20	1.55
55718341--55718374	16	2.1	16	89	10	52	41	0	8	50	1.34
55718378--55718408	16	2.0	15	93	6	53	38	0	9	51	1.35
55718386--55718525	59	2.4	59	96	0	253	40	4	8	46	1.54
55718507--55718534	9	3.1	9	100	0	56	32	0	10	57	1.33
55718634--55718677	24	1.9	24	90	9	74	61	2	0	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55732372--55732439	34	2.0	34	100	0	136	26	14	20	38	1.91
55743243--55743279	2	18.5	2	100	0	74	0	0	48	51	1.00
55746990--55747024	18	1.9	18	88	0	52	14	20	2	62	1.43
55769572--55769626	27	2.0	27	86	6	76	12	14	0	72	1.12
55769576--55769634	26	2.3	26	77	13	68	16	11	0	71	1.15
55774602--55774636	17	2.1	17	94	0	61	34	5	8	51	1.56
55774653--55774690	2	19.0	2	100	0	76	50	0	0	50	1.00
55774690--55774759	2	35.0	2	100	0	140	0	0	50	50	1.00
55775841--55775905	31	2.1	31	82	0	76	33	9	9	47	1.67
55781884--55781915	12	2.6	13	85	14	50	37	0	6	56	1.25
55783723--55784114	46	8.6	46	94	0	619	33	13	22	30	1.92
55785814--55785886	31	2.4	31	80	0	83	32	10	8	47	1.68
55785801--55785954	62	2.5	62	80	0	164	34	11	9	44	1.74
55789307--55789368	21	3.3	20	66	29	55	30	19	12	37	1.89
55791614--55791699	29	2.8	32	72	16	90	26	16	9	47	1.76
55801573--55801845	125	2.2	124	92	1	456	29	23	18	28	1.98
55802425--55802472	23	2.0	24	84	11	64	70	4	0	25	1.04
55802459--55802510	20	2.7	18	78	21	61	63	5	0	30	1.18
55807359--55807723	175	2.1	172	79	5	405	39	20	7	32	1.81
55807597--55807898	156	1.9	159	81	6	373	41	20	8	30	1.82
55817358--55817423	30	2.3	28	79	7	78	46	3	21	28	1.66
55826429--55826505	13	5.9	13	92	0	127	25	6	28	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55830774--55830834	30	2.0	30	87	6	88	44	14	36	4	1.67
55831361--55831431	33	2.2	33	82	5	81	7	11	9	71	1.30
55831415--55831465	22	2.3	21	83	9	66	17	7	3	70	1.27
55835716--55835745	2	15.0	2	100	0	60	50	0	0	50	1.00
55838868--55838910	23	1.9	23	90	4	70	27	6	13	51	1.67
55838875--55838923	23	2.1	23	85	7	64	28	10	14	46	1.77
55839498--55839737	94	2.6	94	80	4	252	29	12	20	38	1.88
55840926--55840984	2	30.5	2	93	6	104	50	0	0	49	1.00
55848241--55848277	9	4.1	9	92	0	65	45	13	10	29	1.77
55848479--55848519	19	2.1	20	86	4	57	26	29	0	43	1.55
55850918--55850969	18	2.9	18	80	2	52	78	9	7	3	1.06
55851143--55851180	7	5.4	7	100	0	76	31	13	39	15	1.86
55852337--55852394	6	10.0	6	87	7	84	53	0	0	46	1.00
55852331--55852370	18	2.2	18	90	0	62	57	0	0	42	0.98
55854366--55854453	43	2.0	43	89	4	133	14	56	4	23	1.57
55862604--55862639	6	6.0	6	96	0	63	19	0	63	16	1.30
55867335--55867378	20	2.2	20	83	4	52	70	9	0	20	1.14
55867574--55867600	2	13.5	2	100	0	54	0	48	0	51	1.00
55874836--55874880	20	2.2	21	84	11	58	26	2	4	66	1.22
55887567--55887642	37	2.1	34	81	16	82	63	3	23	9	1.41
55894592--55894773	94	1.9	95	94	1	321	23	3	13	60	1.47
55896686--55896715	15	2.0	15	93	0	51	50	0	10	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55896840--55896888	25	1.9	26	84	12	66	40	6	10	42	1.63
55898867--55898895	4	7.2	4	100	0	58	75	0	0	24	0.80
55898946--55898991	21	2.2	20	88	3	65	56	2	4	36	1.31
55899007--55899063	28	2.0	28	82	6	69	61	0	5	33	1.18
55904146--55904186	21	2.0	20	85	4	55	46	4	19	29	1.71
55906492--55906516	2	12.5	2	100	0	50	52	0	0	48	1.00
55908045--55908099	20	2.7	22	75	16	64	40	7	3	49	1.48
55908143--55908198	26	2.1	27	83	3	69	41	8	1	48	1.45
55910792--55910819	12	2.3	12	100	0	56	50	14	14	21	1.78
55911810--55912014	109	1.9	106	83	3	266	34	19	17	29	1.94
55912422--55912483	2	30.5	2	74	9	54	46	3	4	45	1.40
55912424--55912482	31	1.9	31	86	6	84	47	3	5	44	1.42
55913284--55913316	14	2.4	14	89	0	57	54	0	3	42	1.15
55913325--55913349	13	1.9	13	100	0	50	64	0	20	16	1.30
55914712--55914813	16	6.3	15	75	18	82	78	0	20	0	0.81
55914711--55914814	22	4.9	22	91	3	133	77	0	21	0	0.82
55914725--55914812	5	16.6	5	78	19	90	78	0	20	1	0.82
55914732--55914814	6	14.0	6	80	12	84	77	0	21	1	0.84
55915718--55915773	24	2.3	24	87	0	76	33	14	25	26	1.94
55916090--55916396	131	2.3	131	88	1	463	28	18	24	28	1.98
55916458--55916647	44	4.4	44	69	9	147	33	21	21	24	1.97
55916387--55916692	129	2.4	129	84	4	404	32	22	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55918151--55918217	3	22.3	3	93	0	116	32	2	0	64	1.09
55918420--55918476	26	2.1	27	80	3	62	40	7	1	50	1.40
55918436--55918476	14	3.1	14	79	10	50	39	7	0	53	1.29
55922566--55922620	18	2.9	19	79	10	60	60	5	0	34	1.20
55922563--55922621	20	2.9	21	82	5	66	59	5	0	35	1.20
55922673--55922699	6	4.5	6	100	0	54	29	0	0	70	0.88
55930166--55930200	18	1.9	18	88	0	52	65	11	5	17	1.43
55930819--55930855	17	2.2	17	90	0	56	29	10	13	45	1.77
55931636--55931681	18	2.6	18	82	3	58	15	39	28	17	1.90
55946085--55946123	19	2.1	19	90	0	60	61	2	2	33	1.23

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