genome.fa.s11.2.7.7.80.10.50.1000.53.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  53  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)
16189553--16189816	57	4.6	57	92	1	433	25	0	23	50	1.55
16189553--16189816	86	3.1	84	87	3	379	25	0	23	50	1.55
16189864--16189912	25	1.9	25	87	4	71	38	16	4	40	1.67
16190026--16190078	24	2.2	24	86	0	70	1	26	30	41	1.66
16190332--16190377	18	2.6	18	82	0	56	39	8	30	21	1.84
16191020--16191044	7	3.6	7	100	0	50	60	12	0	28	1.32
16192122--16192185	30	2.1	31	91	2	103	65	0	1	32	1.02
16192231--16192281	22	2.3	22	100	0	102	39	0	33	27	1.57
16209635--16209663	15	1.9	15	100	0	58	62	6	13	17	1.52
16214064--16214128	28	2.3	28	83	0	85	35	23	21	20	1.96
16228899--16228929	4	8.0	4	92	7	55	48	0	0	51	1.00
16229058--16229090	17	1.9	18	88	11	52	45	0	12	42	1.41
16232491--16232529	21	1.9	20	84	5	51	15	7	23	53	1.67
16256549--16256647	49	2.0	49	94	0	171	39	17	9	34	1.81
16260816--16260851	18	2.0	18	88	0	54	33	5	13	47	1.67
16262139--16262194	29	2.0	28	82	10	69	28	7	3	60	1.40
16262658--16262706	23	2.1	23	84	0	62	61	2	0	36	1.08
16272626--16272690	26	2.5	26	73	14	62	33	10	20	35	1.87
16274906--16274975	27	2.6	27	80	6	70	54	11	0	34	1.37
16288589--16288621	17	1.9	17	100	0	66	42	6	27	24	1.78
16293175--16293207	17	1.9	17	100	0	66	42	6	27	24	1.78
16295909--16295943	15	2.4	15	85	4	54	65	0	14	20	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16295989--16296016	7	4.0	7	100	0	56	42	0	0	57	0.99
16295983--16296044	21	2.9	21	72	11	54	51	0	8	40	1.31
16296035--16296066	14	2.3	15	84	15	50	34	0	34	31	1.58
16296039--16296077	14	2.8	13	85	11	51	38	0	33	28	1.57
16297185--16297240	14	4.2	14	76	21	66	12	0	39	48	1.41
16303575--16303716	71	2.0	71	100	0	284	19	12	21	46	1.83
16307002--16307054	25	2.1	25	85	0	70	39	13	26	20	1.89
16307418--16307461	2	22.0	2	100	0	88	50	0	0	50	1.00
16310707--16310755	3	16.0	3	78	4	53	65	6	2	26	1.27
16311833--16311870	16	2.4	16	95	0	67	15	2	31	50	1.58
16312267--16312362	50	1.9	50	86	2	138	26	20	21	31	1.98
16312229--16312367	51	2.7	51	80	1	154	25	19	22	32	1.97
16312531--16312930	131	3.0	131	84	5	454	26	23	20	29	1.99
16312590--16313915	132	10.0	132	86	2	1618	28	24	17	29	1.97
16312813--16312918	44	2.4	45	77	4	108	30	24	13	32	1.93
16313100--16313887	44	17.9	44	65	10	259	29	24	16	29	1.97
16316110--16316188	37	2.1	38	83	7	97	13	6	6	73	1.23
16316963--16317028	25	2.6	25	85	9	80	59	7	15	18	1.59
16318085--16318217	59	2.3	59	98	0	257	58	8	16	16	1.61
16318297--16318324	5	5.6	5	100	0	56	64	0	0	35	0.94
16320527--16320588	13	4.6	13	73	15	63	30	3	9	56	1.47
16326861--16326910	26	1.9	25	84	8	64	40	6	12	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16330992--16331068	29	2.7	29	89	0	118	27	10	14	48	1.76
16331995--16332037	23	1.9	23	85	4	61	62	2	4	30	1.28
16332293--16332327	18	1.9	18	88	0	52	48	0	0	51	1.00
16334006--16334043	18	2.1	18	85	9	51	34	2	0	63	1.09
16334407--16334454	10	5.0	10	77	7	55	27	31	2	39	1.68
16334397--16334452	19	3.0	18	80	10	58	25	32	1	41	1.66
16334614--16334665	16	3.3	15	71	7	50	34	1	1	61	1.18
16337615--16337653	3	12.7	3	89	5	60	66	0	30	2	1.05
16338296--16338362	25	2.6	28	79	18	90	34	19	22	23	1.97
16341166--16341231	32	2.1	32	82	5	80	33	0	1	65	1.02
16344641--16344678	20	1.9	20	94	0	67	57	7	0	34	1.28
16344626--16344686	27	2.2	28	85	2	79	54	6	1	37	1.37
16345143--16345186	21	2.2	20	83	4	52	45	0	2	52	1.13
16345525--16345549	6	4.2	6	100	0	50	32	0	0	68	0.90
16346826--16347296	152	3.1	149	84	6	644	50	8	9	31	1.64
16346826--16347296	153	3.1	148	85	5	640	50	8	9	31	1.64
16348521--16348557	19	1.9	19	88	0	56	32	0	16	51	1.45
16348792--16348832	14	2.9	15	82	10	50	29	7	19	43	1.78
16349909--16349981	21	3.4	21	82	1	92	0	28	19	52	1.46
16350803--16350828	2	13.0	2	100	0	52	50	0	0	50	1.00
16352170--16352305	40	3.4	39	83	7	159	36	19	22	22	1.95
16352341--16352541	41	4.9	41	86	0	285	18	21	30	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16353222--16353252	7	4.4	7	91	0	53	29	0	35	35	1.58
16353213--16353246	14	2.4	14	90	5	50	35	0	29	35	1.58
16353331--16353362	15	2.1	16	94	5	57	21	0	31	46	1.52
16353413--16353473	19	3.5	18	70	21	58	13	4	49	32	1.63
16353407--16353478	33	2.2	33	94	0	126	13	4	45	36	1.63
16353354--16353639	115	2.5	114	82	6	324	27	2	27	42	1.68
16354394--16354673	145	1.9	145	86	2	400	40	15	12	32	1.84
16354394--16354688	146	2.0	146	85	3	398	40	16	12	30	1.85
16357298--16357349	25	2.1	25	85	3	79	26	3	17	51	1.62
16358370--16358460	43	2.1	43	86	6	123	35	10	9	43	1.73
16358835--16359038	43	4.7	43	89	3	313	18	18	32	31	1.94
16359920--16359965	23	2.0	23	95	0	83	56	19	10	13	1.66
16360219--16360316	47	2.0	48	94	3	171	23	7	51	18	1.71
16360337--16360510	30	5.9	30	89	4	275	53	1	8	37	1.38
16360345--16360510	58	2.9	58	89	5	255	54	1	7	36	1.37
16360337--16360510	88	2.0	88	91	2	287	53	1	8	37	1.38
16364052--16364104	21	2.5	21	84	9	72	28	35	9	26	1.87
16377651--16377741	41	2.2	41	90	3	139	29	23	18	28	1.98
16378140--16378203	2	33.0	2	75	12	62	48	3	3	45	1.34
16379349--16379373	13	1.9	13	100	0	50	68	24	0	8	1.16
16386868--16386892	13	1.9	13	100	0	50	68	24	0	8	1.16
16389013--16389045	16	2.0	17	88	5	50	24	27	0	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16391033--16391087	24	2.2	26	81	12	71	45	0	1	52	1.11
16391211--16391315	44	2.5	40	76	15	113	31	29	4	34	1.78
16391209--16391318	45	2.6	44	81	8	131	31	29	5	33	1.80
16391299--16391350	16	3.2	16	91	0	77	34	34	0	30	1.58
16398180--16398235	15	3.7	15	71	4	51	64	5	3	26	1.32
16399971--16400430	50	9.2	49	75	7	217	24	19	23	32	1.98
16399971--16400513	100	5.4	100	89	1	601	24	20	22	32	1.98
16400141--16400500	50	7.2	50	83	3	458	25	20	21	32	1.98
16400518--16400737	45	5.0	45	71	10	157	23	23	25	28	2.00
16400598--16401092	88	5.6	88	92	0	785	24	24	23	26	2.00
16402301--16402374	15	5.0	15	75	17	66	13	16	0	70	1.17
16402310--16402354	8	5.6	8	86	7	65	11	15	0	73	1.10
16402310--16402375	9	7.6	9	75	11	50	12	15	0	72	1.12
16402317--16402376	18	3.3	18	78	17	63	11	15	0	73	1.10
16403178--16403216	7	5.6	7	93	6	62	0	12	0	87	0.55
16406623--16406647	2	12.5	2	100	0	50	52	48	0	0	1.00
16407009--16407073	3	21.7	3	73	6	51	64	4	3	27	1.28
16408501--16408559	25	2.3	27	82	11	70	37	1	3	57	1.25
16408625--16408715	45	2.0	47	91	4	150	45	7	2	45	1.44
16418072--16418112	19	2.2	19	86	8	57	51	0	2	46	1.14
16426962--16427016	5	11.0	5	94	5	94	0	58	0	41	0.98
16427655--16427970	157	2.0	157	96	0	587	40	21	11	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16432358--16432397	20	2.0	20	90	0	62	27	10	12	50	1.72
16432343--16432409	34	1.9	35	87	3	100	32	8	11	46	1.72
16434726--16434779	28	2.0	27	85	3	72	44	3	38	12	1.61
16446366--16446463	22	4.5	22	88	0	124	26	26	14	32	1.94
16453549--16453634	22	3.9	22	90	0	118	27	15	27	29	1.96
16473565--16473673	47	2.3	47	91	0	173	47	21	14	16	1.82
16477052--16477119	25	2.6	27	86	11	88	25	26	8	39	1.85
16479407--16479454	15	3.1	15	96	3	87	14	18	6	60	1.55
16479406--16479451	8	5.9	8	77	12	51	15	21	6	56	1.61
16480985--16481053	35	1.9	36	97	2	131	26	2	18	52	1.60

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