genome.fa.s11.2.7.7.80.10.50.1000.178.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  178  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)
53076686--53076852	52	3.2	51	94	3	280	44	6	1	46	1.39
53079426--53079466	22	1.9	21	85	14	57	26	21	21	29	1.99
53080625--53080686	27	2.3	27	97	0	115	14	33	22	29	1.94
53080766--53080801	17	2.1	18	89	5	56	55	0	0	44	0.99
53084998--53085041	4	10.5	4	80	9	52	29	0	0	70	0.88
53084999--53085086	13	7.5	13	67	26	54	35	1	0	63	1.02
53085016--53085049	16	2.1	17	88	5	52	32	0	0	67	0.91
53085000--53085085	17	5.1	16	71	18	50	36	1	0	62	1.03
53088240--53088273	16	2.1	16	88	5	50	35	0	11	52	1.38
53093905--53093957	22	2.5	20	74	20	54	64	1	0	33	1.05
53094785--53095682	456	2.0	455	99	0	1760	27	13	18	40	1.88
53098809--53098851	16	2.6	17	83	16	56	55	0	0	44	0.99
53098815--53099189	100	3.6	99	71	17	299	50	2	1	44	1.25
53098880--53099077	44	4.8	44	69	21	135	50	2	1	45	1.24
53098863--53099283	120	3.7	117	79	12	450	49	3	2	44	1.31
53099032--53099069	16	2.4	17	82	13	53	55	0	0	44	0.99
53098802--53099079	15	18.9	15	68	19	103	51	2	1	45	1.20
53099125--53099170	16	2.9	16	78	12	51	52	2	0	45	1.13
53099125--53099179	15	3.7	15	79	13	53	52	1	0	45	1.11
53098807--53099283	220	2.2	220	88	5	689	50	2	2	44	1.28
53099025--53099214	100	1.9	100	94	0	335	50	3	2	44	1.31
53100276--53100546	137	2.0	138	91	2	438	46	14	14	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53106960--53107019	32	1.9	31	82	3	75	63	3	3	30	1.27
53116109--53116211	50	2.1	50	92	0	170	26	24	11	37	1.89
53118904--53118932	13	2.1	14	93	6	51	27	0	3	68	1.05
53128273--53128341	16	3.9	18	78	12	63	39	4	5	50	1.46
53128312--53128348	2	18.5	2	100	0	74	48	0	0	51	1.00
53128477--53128521	2	22.5	2	95	0	81	51	0	0	48	1.00
53128681--53128726	18	2.6	18	85	0	65	39	10	2	47	1.51
53130458--53130529	29	2.4	29	86	4	90	51	11	9	27	1.69
53139864--53140054	61	3.2	61	72	14	205	52	3	1	43	1.24
53139829--53140211	120	3.3	119	85	10	558	52	3	1	42	1.27
53139951--53140271	107	3.1	108	90	5	491	52	4	1	41	1.29
53142840--53143145	100	3.0	97	80	12	362	42	1	4	51	1.33
53142998--53143047	26	1.9	26	88	8	75	44	0	2	54	1.11
53142840--53142992	48	3.1	47	70	17	157	40	2	5	50	1.40
53143105--53143138	17	2.0	17	100	0	68	41	0	0	58	0.98
53142894--53143163	102	2.6	102	78	12	332	43	1	4	51	1.30
53143127--53143202	37	2.1	37	82	9	93	48	1	1	48	1.18
53144287--53144324	4	9.5	4	83	11	51	73	0	5	21	1.02
53144357--53144491	51	2.6	51	80	10	141	52	1	8	37	1.40
53144445--53144479	12	2.9	12	91	0	61	45	0	11	42	1.40
53144599--53144691	35	2.7	34	75	8	91	47	2	9	40	1.48
53145500--53145533	10	3.3	10	88	8	50	88	5	2	2	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53145996--53146033	16	2.4	16	95	0	67	26	34	2	36	1.71
53152118--53152169	16	3.5	15	80	16	56	32	0	3	63	1.12
53152156--53152206	25	2.0	24	88	7	75	39	0	1	58	1.09
53207720--53207912	9	22.8	9	75	12	149	31	2	19	47	1.63
53207718--53207862	25	5.7	25	79	4	139	31	2	20	44	1.66
53207713--53207878	16	10.4	16	71	17	98	31	2	19	46	1.63
53207781--53207895	41	2.8	40	88	5	133	31	1	19	47	1.59
53207719--53207912	25	7.7	24	81	6	99	31	2	19	46	1.63
53208016--53208177	87	1.9	88	96	1	299	46	4	4	44	1.42
53208083--53208143	17	3.5	18	69	22	58	52	4	0	42	1.23
53209751--53210106	195	1.9	185	90	8	567	34	13	33	18	1.89
53210090--53210144	25	2.2	25	87	9	78	34	1	43	20	1.62
53210684--53210726	22	2.0	22	95	0	77	34	23	4	37	1.76
53215790--53216018	42	5.4	42	84	6	259	30	20	23	25	1.99
53215790--53216018	85	2.7	86	84	8	263	30	20	23	25	1.99
53216196--53216232	19	1.9	19	89	10	58	59	2	5	32	1.34
53217616--53217777	25	6.4	25	75	13	127	40	1	14	44	1.53
53217680--53217821	9	16.7	9	72	13	95	40	0	15	42	1.52
53217684--53217728	16	2.6	17	89	6	65	37	2	15	44	1.59
53217784--53217816	16	2.1	16	100	0	66	30	0	24	45	1.53
53217680--53217821	34	4.2	33	71	12	101	40	0	15	42	1.52
53217980--53218199	9	24.6	9	73	19	128	38	0	15	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53218000--53218209	34	5.9	34	78	16	219	39	0	12	47	1.46
53218128--53218160	16	2.1	16	100	0	66	30	0	24	45	1.53
53218000--53218154	65	2.3	64	86	7	184	38	0	13	47	1.43
53218186--53218230	22	2.1	21	91	4	72	40	2	13	44	1.56
53220495--53220551	24	2.4	23	76	2	60	24	3	43	28	1.70
53220869--53220924	16	3.5	16	80	7	69	23	7	3	66	1.33
53221593--53221633	13	3.1	14	82	6	50	46	24	7	21	1.77
53224139--53224185	20	2.3	20	85	7	60	65	4	0	29	1.11
53226034--53226286	126	2.0	126	91	3	411	34	13	14	37	1.85
53228197--53228221	13	1.9	13	100	0	50	32	4	24	40	1.73
53232755--53232912	42	3.7	43	78	5	133	24	15	27	32	1.95
53232755--53232912	43	3.7	42	77	5	131	24	15	27	32	1.95
53233063--53233145	39	2.1	40	95	2	150	54	4	9	31	1.54
53233072--53233133	20	3.2	20	68	13	56	58	4	8	29	1.48
53237892--53237956	32	2.0	32	100	0	130	60	12	6	21	1.54
53238544--53238603	24	2.6	23	76	15	61	35	1	11	51	1.48
53240466--53240498	7	4.7	7	100	0	66	42	57	0	0	0.98
53240480--53240552	21	3.5	22	73	17	59	36	42	5	15	1.70
53240487--53240567	34	2.3	35	82	2	92	35	39	4	19	1.74
53243698--53243722	2	12.5	2	100	0	50	52	0	0	48	1.00
53246644--53246682	20	2.0	20	89	0	60	10	10	7	71	1.30
53247719--53247804	42	2.0	42	95	0	154	23	30	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53254256--53254285	2	15.0	2	100	0	60	50	0	50	0	1.00
53260935--53261019	43	2.0	43	90	0	134	34	14	23	28	1.93
53273614--53273648	13	2.8	12	91	8	52	40	0	0	60	0.97
53274653--53274711	22	2.7	22	69	10	57	40	13	1	44	1.54
53279753--53279840	20	4.0	21	74	17	72	64	5	5	23	1.37
53280718--53280742	12	2.1	12	100	0	50	24	8	0	68	1.16
53281374--53281409	16	2.2	17	90	5	56	36	11	0	52	1.37
53281401--53281473	23	3.3	23	66	22	57	39	8	4	47	1.52
53281404--53281549	47	3.2	43	71	18	107	39	8	2	49	1.47
53281463--53281561	53	1.9	50	83	6	126	39	8	1	51	1.38
53281814--53281860	18	2.5	20	80	16	57	21	8	6	63	1.44
53281923--53281967	21	2.2	20	84	11	56	28	11	2	57	1.45
53281995--53282325	107	3.1	107	86	2	443	30	16	18	34	1.93
53285808--53286064	33	7.8	33	76	1	210	29	3	42	23	1.72
53285818--53286063	99	2.5	98	75	6	237	30	3	42	23	1.71
53285787--53286070	66	4.3	66	77	5	234	29	3	42	23	1.71
53291000--53291042	22	2.0	22	90	0	68	9	13	27	48	1.73
53291132--53291469	42	8.0	42	83	3	378	31	20	21	26	1.98
53291134--53291468	85	4.0	84	80	8	360	31	20	21	26	1.98
53291466--53291503	18	2.1	18	100	0	76	31	28	5	34	1.80
53342192--53342231	7	6.1	7	80	16	50	45	0	0	55	0.99
53342193--53342231	11	3.6	11	86	13	55	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53342192--53342227	18	2.0	18	100	0	72	44	0	0	55	0.99
53342251--53342303	16	3.3	16	89	0	79	39	5	32	22	1.78
53351357--53351389	15	2.1	16	88	5	50	18	0	3	78	0.87
53352145--53352223	26	3.1	25	74	18	74	32	7	5	54	1.51
53352526--53352571	16	2.9	16	84	9	58	26	13	0	60	1.32
53352539--53352574	17	2.1	18	94	5	65	30	13	0	55	1.39
53354522--53354571	15	3.3	15	85	0	64	38	18	32	12	1.87
53357985--53358038	25	2.1	27	86	6	76	44	1	9	44	1.46
53357996--53358043	20	2.4	21	79	6	55	45	2	8	43	1.45
53359251--53359309	29	2.0	29	96	0	109	38	10	0	50	1.36

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