genome.fa.s11.2.7.7.80.10.50.1000.184.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  184  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)
54514868--54514944	21	3.6	21	78	1	73	49	27	1	22	1.58
54515105--54515402	41	7.3	41	91	1	490	27	32	21	18	1.97
54515946--54515971	12	2.2	12	100	0	52	30	7	7	53	1.57
54520541--54520584	22	2.0	22	86	0	61	9	15	27	47	1.76
54520676--54520883	42	4.9	42	89	3	319	33	22	20	23	1.97
54526588--54527759	445	2.6	445	95	0	2136	33	19	16	29	1.94
54528091--54528171	24	3.2	24	76	19	92	44	11	0	44	1.39
54528091--54528174	28	3.2	26	75	12	82	42	10	0	46	1.38
54528544--54528611	29	2.3	29	94	0	118	36	44	0	19	1.51
54528741--54528779	12	3.1	12	82	13	51	30	51	0	17	1.46
54528752--54528791	14	2.9	14	88	0	53	35	45	0	20	1.51
54528772--54528837	14	4.5	14	72	10	51	39	31	1	27	1.66
54529393--54529721	113	2.9	112	78	8	362	27	24	23	25	2.00
54532262--54532300	18	2.1	18	85	4	51	43	7	7	41	1.62
54532791--54532829	8	4.8	8	81	6	51	10	0	7	82	0.86
54532778--54532839	26	2.4	25	91	5	97	11	1	12	74	1.15
54532787--54532836	9	5.7	9	78	7	50	12	2	6	80	0.98
54533916--54533963	19	2.5	18	77	12	51	16	14	12	56	1.68
54539145--54539809	143	4.6	142	89	1	963	28	20	23	27	1.99
54539726--54539982	44	5.9	44	73	5	189	30	17	22	29	1.97
54540159--54540215	30	1.9	30	88	0	87	63	24	0	12	1.29
54541484--54541538	24	2.3	23	84	9	65	36	3	1	58	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54541663--54541697	11	3.2	11	83	0	52	25	2	2	68	1.17
54541661--54541701	15	2.7	16	81	7	50	26	4	2	65	1.25
54542997--54543067	2	35.5	2	100	0	142	50	0	0	49	1.00
54545834--54545861	3	9.3	3	100	0	56	32	0	0	67	0.91
54546624--54546670	20	2.5	19	76	10	60	34	0	36	29	1.58
54547049--54547097	3	16.7	3	95	4	91	34	0	0	65	0.93
54550881--54550937	29	2.0	29	82	6	71	31	5	15	47	1.68
54550983--54551046	26	2.5	26	84	0	74	43	3	4	48	1.39
54553178--54553222	19	2.4	18	75	10	54	28	0	40	31	1.57
54553529--54553557	3	9.7	3	100	0	58	31	0	0	68	0.89
54553618--54553656	15	2.8	13	85	14	51	84	12	0	2	0.72
54553616--54553657	20	2.0	21	90	4	68	78	19	0	2	0.86
54557686--54557876	27	7.0	28	74	7	133	45	20	5	29	1.73
54557682--54557910	55	4.2	55	77	6	198	43	20	5	31	1.74
54557759--54557919	27	5.9	26	75	7	115	44	17	5	32	1.72
54557705--54557930	82	2.8	82	77	6	226	42	20	6	30	1.76
54557744--54557930	27	6.9	27	76	6	110	42	18	6	32	1.76
54565111--54565356	50	5.1	50	66	17	128	30	19	21	29	1.97
54565085--54565356	95	2.9	95	84	0	357	30	19	19	29	1.97
54565887--54565933	21	2.3	20	88	3	67	23	2	0	74	0.93
54565897--54565933	12	2.9	12	92	8	56	24	2	0	72	0.97
54568303--54568368	35	1.9	34	84	9	89	62	3	6	28	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54568408--54568437	15	2.0	15	93	0	51	63	6	0	30	1.20
54570595--54571041	208	2.1	208	91	3	734	28	25	16	29	1.97
54579095--54579206	23	4.9	23	78	0	125	30	6	26	36	1.81
54579095--54579206	46	2.4	46	89	0	179	30	6	26	36	1.81
54584693--54584758	35	1.9	34	84	9	89	62	3	6	28	1.34
54587387--54587428	2	21.0	2	100	0	84	50	0	0	50	1.00
54595021--54595070	19	2.7	18	80	14	66	54	0	0	46	1.00
54595428--54595491	26	2.5	26	78	0	65	45	3	4	46	1.39
54606836--54606944	42	2.6	43	76	12	125	32	22	17	28	1.96
54606917--54607014	44	2.3	43	85	5	126	28	17	24	29	1.97
54611179--54611280	28	3.6	27	83	7	96	26	20	27	25	1.99
54611193--54611280	30	3.0	29	83	6	97	25	20	28	26	1.99
54611618--54611798	27	6.7	27	87	1	247	14	19	23	41	1.89
54612969--54613151	95	1.9	95	80	2	215	32	21	15	30	1.94
54628600--54628627	11	2.5	11	100	0	56	32	10	10	46	1.73
54629015--54629085	34	2.1	34	97	0	133	43	21	16	18	1.88
54629286--54629359	37	2.0	37	97	0	139	47	10	22	18	1.80
54643806--54643963	41	3.9	41	91	0	235	21	20	29	28	1.98
54644305--54644342	15	2.6	14	87	4	58	18	0	36	44	1.50
54644300--54644352	22	2.5	21	84	3	70	22	0	30	47	1.52
54644354--54644436	36	2.3	35	83	6	103	19	0	40	39	1.51
54644300--54644433	7	18.7	7	76	4	88	20	0	38	41	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54644565--54644613	15	3.3	15	82	5	64	26	0	28	44	1.54
54644619--54644664	24	1.9	24	95	0	83	23	2	41	32	1.67
54644174--54645034	271	3.3	271	90	4	1270	30	1	23	43	1.65
54644837--54644871	15	2.4	15	95	4	63	20	0	37	42	1.52
54644832--54644909	7	11.0	7	74	8	50	20	0	38	41	1.53
54644832--54644902	14	5.0	14	75	10	63	21	0	36	42	1.53
54644852--54644911	21	2.8	21	76	2	57	18	0	41	40	1.50
54645696--54645849	76	2.0	77	94	1	274	17	41	5	35	1.72
54645697--54645824	40	3.3	40	66	16	124	16	41	3	38	1.67
54646278--54646502	86	2.6	86	83	4	240	33	10	16	40	1.82
54646457--54646598	40	3.6	40	78	8	121	32	7	14	46	1.71
54647353--54647405	21	2.5	21	90	0	88	30	7	32	30	1.85
54647514--54647548	9	3.8	9	88	7	52	48	0	0	51	1.00
54657826--54657979	43	3.7	41	77	5	139	25	12	25	36	1.92
54661747--54661801	25	2.2	25	90	0	83	23	9	23	43	1.82
54662560--54662599	14	2.9	14	88	0	53	57	20	2	20	1.52
54664144--54664234	44	2.1	44	89	0	137	46	2	7	43	1.44
54665888--54665954	34	1.9	35	84	3	91	44	11	8	34	1.73
54669121--54669169	25	2.0	25	95	0	89	24	10	22	42	1.84
54670813--54670877	22	3.2	22	67	24	70	16	16	29	36	1.92
54670795--54671099	114	2.7	112	83	4	353	16	19	28	36	1.93
54670795--54671102	38	8.1	38	79	2	305	15	19	28	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54673075--54673136	6	10.3	6	89	6	99	1	16	0	82	0.75
54673075--54673136	19	3.4	18	93	4	99	1	16	0	82	0.75
54677830--54677897	26	2.7	25	81	4	82	38	11	17	32	1.86
54684213--54684241	6	4.8	6	100	0	58	17	0	13	68	1.20
54690022--54690135	27	4.2	27	88	0	156	39	15	22	21	1.92
54690314--54690385	26	2.8	26	86	0	99	18	23	19	38	1.93
54692619--54692663	22	2.0	23	86	4	65	75	6	2	15	1.11
54692661--54692692	4	8.0	4	92	0	55	78	0	21	0	0.76
54692633--54692677	22	2.0	22	82	0	54	73	4	11	11	1.23
54699024--54699067	17	2.6	17	79	13	54	79	4	0	15	0.89
54699024--54699066	22	2.0	22	86	9	61	81	4	0	13	0.84
54699006--54699070	11	5.6	11	75	13	51	78	3	3	15	1.00
54700926--54700982	15	3.5	15	71	17	51	45	0	1	52	1.11
54701017--54701049	15	2.1	16	94	5	59	36	0	0	63	0.95
54701039--54701135	29	3.0	33	70	28	84	54	2	1	42	1.19
54701063--54701112	16	3.2	16	70	18	52	52	0	0	48	1.00
54725868--54725914	22	2.1	22	96	0	85	14	25	10	48	1.76
54738101--54738194	47	2.0	47	100	0	188	36	19	12	31	1.89
54738654--54738723	35	2.0	35	100	0	140	45	5	11	37	1.64
54739649--54739691	23	1.9	23	86	13	63	53	11	11	23	1.69
54747468--54747529	26	2.4	26	80	0	79	25	17	20	35	1.95
54754627--54754673	21	2.2	22	88	3	69	23	2	0	74	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54754628--54754673	22	2.2	21	88	7	67	23	2	0	73	0.94
54761113--54761157	23	2.0	23	83	8	58	57	0	8	33	1.30
54762595--54762664	28	2.5	28	85	0	86	32	10	7	50	1.63
54762681--54762719	5	7.8	5	100	0	78	58	0	0	41	0.98
54763056--54763111	18	3.1	18	78	0	58	33	10	16	39	1.83
54763749--54763822	17	4.4	17	74	6	60	29	12	16	41	1.84
54763751--54763858	51	2.1	51	82	3	128	28	11	17	42	1.83
54771717--54771778	26	2.4	26	86	0	88	25	19	20	33	1.96
54774059--54774119	28	2.2	28	82	11	72	63	11	4	19	1.45
54777264--54777306	23	1.9	23	86	13	63	53	11	11	23	1.69

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