genome.fa.s11.2.7.7.80.10.50.1000.193.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  193  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)
56737097--56737248	22	6.9	22	90	0	223	26	26	14	32	1.95
56739633--56739681	24	2.0	24	92	7	82	46	14	0	38	1.44
56740339--56740373	13	2.8	13	91	4	54	31	8	20	40	1.82
56740961--56741004	22	2.0	21	91	4	70	40	4	13	40	1.65
56740983--56741120	44	3.1	44	96	0	258	41	5	14	38	1.70
56748993--56749031	20	2.0	20	84	0	51	41	5	0	53	1.23
56750591--56750796	50	4.1	50	95	0	349	18	33	22	24	1.97
56750891--56750921	13	2.4	13	94	0	53	54	12	0	32	1.38
56751134--56751191	30	1.9	30	85	0	80	32	24	1	41	1.65
56765791--56765825	18	2.0	17	88	5	52	45	0	0	54	0.99
56772513--56772550	19	2.0	20	89	5	60	36	23	2	36	1.69
56776828--56776856	8	3.6	8	100	0	58	34	0	0	65	0.93
56777834--56777897	29	2.2	28	86	2	83	26	0	7	65	1.19
56778935--56778960	10	2.6	10	100	0	52	50	7	0	42	1.31
56781875--56781915	20	2.0	21	85	4	57	51	4	4	39	1.45
56784535--56784666	40	3.3	39	74	6	122	35	20	22	21	1.96
56784535--56784686	40	3.8	39	75	7	121	36	20	21	21	1.95
56784723--56784963	41	5.9	40	74	6	180	23	22	24	29	1.99
56788298--56788361	23	2.8	24	86	6	71	45	0	0	54	0.99
56788947--56788976	14	2.1	14	93	0	51	36	16	20	26	1.93
56789157--56789194	14	2.7	14	100	0	76	21	57	5	15	1.57
56791957--56792004	5	9.4	5	80	13	53	20	22	14	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56792262--56792295	12	2.8	12	86	0	50	47	14	8	29	1.75
56792335--56792446	16	7.2	16	65	15	74	43	23	3	29	1.70
56792338--56792412	29	2.6	29	97	0	141	46	22	2	28	1.65
56798989--56799259	43	6.3	43	74	5	181	24	19	29	26	1.98
56798989--56799237	130	1.9	130	79	6	281	21	19	30	28	1.97
56798989--56799237	87	2.9	86	86	3	340	21	19	30	28	1.97
56800284--56800350	17	3.8	18	77	16	68	49	2	2	44	1.32
56800274--56800347	18	4.1	18	74	8	53	50	2	2	44	1.30
56800274--56800347	34	2.1	35	82	5	87	50	2	2	44	1.30
56801390--56801445	21	2.7	21	80	5	60	14	37	23	25	1.92
56801431--56801479	21	2.3	21	85	0	71	16	26	22	34	1.95
56801516--56801561	21	2.2	21	92	0	74	13	26	26	34	1.92
56801411--56801689	95	2.9	95	81	3	285	18	32	18	30	1.95
56804965--56805007	17	2.5	17	88	3	59	72	2	4	20	1.14
56805221--56805251	11	2.8	11	95	0	53	0	29	0	70	0.87
56808859--56808908	2	25.0	2	95	0	91	52	0	0	48	1.00
56809041--56809078	5	7.8	5	97	2	69	42	36	0	21	1.53
56811716--56811760	20	2.2	20	96	0	81	17	20	17	44	1.87
56816616--56816641	6	4.3	6	100	0	52	15	0	0	84	0.62
56822934--56822966	16	2.1	16	88	5	50	78	3	9	9	1.05
56829046--56829105	30	2.0	32	83	9	81	38	1	5	55	1.32
56829039--56829111	29	2.6	28	75	14	69	39	2	4	53	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56834090--56834123	3	11.3	3	100	0	68	64	0	0	35	0.94
56835669--56835743	39	1.9	39	86	7	109	52	6	2	38	1.42
56836222--56836255	15	2.3	15	89	0	50	35	0	5	58	1.22
56836690--56836723	17	2.1	17	88	5	52	64	0	0	35	0.94
56837336--56837402	31	2.2	31	88	0	98	43	11	13	31	1.80
56837346--56837406	31	2.0	31	96	0	113	40	9	13	36	1.77
56837346--56837416	31	2.3	31	90	2	99	40	11	12	35	1.79
56837915--56837953	2	19.5	2	100	0	78	48	0	0	51	1.00
56840546--56840575	3	10.0	3	92	0	51	3	0	33	63	1.11
56855497--56855573	14	5.0	15	71	20	52	42	14	9	33	1.77
56855513--56855552	20	2.0	20	90	0	62	50	12	10	27	1.72
56855501--56855567	34	1.9	35	90	3	109	46	13	8	31	1.74
56865218--56865262	16	2.7	18	80	16	60	24	2	4	68	1.19
56866700--56866827	50	2.5	50	87	5	168	32	21	7	39	1.80
56868941--56868991	21	2.5	20	81	12	59	41	0	1	56	1.10
56868999--56869045	23	2.0	24	83	4	60	42	0	0	57	0.98
56870003--56870067	19	3.4	19	78	14	71	30	1	3	64	1.18
56870549--56870709	87	1.9	87	88	2	243	36	18	9	34	1.84
56877589--56877621	16	2.1	16	100	0	66	42	6	6	45	1.53
56886221--56886262	22	1.9	22	95	0	75	42	0	16	40	1.48
56888185--56888239	19	2.8	19	78	19	60	47	0	3	49	1.19
56888227--56888267	17	2.4	18	76	12	50	46	4	0	48	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56893523--56893563	10	3.8	10	84	15	55	48	12	2	36	1.54
56893518--56893562	14	3.3	14	84	3	56	48	15	2	33	1.57
56896418--56896464	4	11.8	4	95	0	85	48	25	2	23	1.62
56898970--56899000	15	2.0	16	93	6	55	35	6	0	58	1.24
56905032--56905098	31	2.2	31	86	5	91	41	7	16	34	1.76
56905632--56905669	18	2.1	19	85	5	51	52	21	0	26	1.47
56906766--56906850	30	2.8	30	80	7	100	4	28	18	48	1.68
56906811--56906850	15	2.7	15	80	0	53	5	22	20	52	1.65
56909423--56909500	34	2.3	36	78	14	94	43	0	1	55	1.08
56909431--56909516	34	2.7	32	78	12	79	44	0	1	54	1.07
56917643--56917685	19	2.2	20	83	8	52	53	2	9	34	1.46
56927023--56927074	21	2.4	22	80	6	61	3	30	3	61	1.32
56928299--56928350	21	2.4	22	80	6	61	3	30	3	61	1.32
56929579--56929611	2	16.5	2	93	0	57	51	3	0	45	1.16
56939104--56939327	111	2.0	111	96	0	412	27	11	19	41	1.85
56954635--56954702	31	2.2	31	91	0	109	44	10	11	33	1.75
56971168--56971247	25	3.2	24	85	7	106	35	18	23	22	1.96
56977033--56977074	21	2.0	21	100	0	84	23	14	28	33	1.94
56978059--56978141	42	2.0	42	100	0	166	30	12	19	38	1.88
56986162--56986201	19	2.1	19	90	0	62	55	5	17	22	1.61
56986524--56986578	21	2.6	21	80	8	58	14	9	1	74	1.14
56991581--56991693	45	2.5	45	92	0	181	38	22	21	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56991579--56991729	45	3.1	50	78	13	161	37	21	21	19	1.94
56991676--56991702	6	4.5	6	100	0	54	48	14	18	18	1.82
56997753--56997780	14	2.0	14	100	0	56	28	7	35	28	1.84
57000248--57000303	3	18.7	3	100	0	112	67	0	0	32	0.91
57004550--57004603	22	2.5	22	75	6	56	11	14	14	59	1.62
57007046--57007086	17	2.6	15	88	7	55	0	4	9	85	0.73
57007045--57007089	16	2.8	16	80	12	56	0	6	8	84	0.78
57007190--57007219	13	2.3	13	94	0	51	6	10	13	70	1.34
57007492--57007550	28	2.1	28	90	0	91	37	3	20	38	1.69
57007925--57008193	75	3.6	75	91	0	430	33	20	18	27	1.96
57012321--57012373	27	1.9	28	84	3	72	41	11	9	37	1.73
57014412--57014457	24	1.9	24	86	8	67	39	0	2	58	1.10
57014554--57014581	9	3.1	9	100	0	56	57	10	0	32	1.33
57014524--57014665	68	2.1	66	94	2	248	45	9	4	40	1.58
57014654--57014695	16	2.6	16	92	0	66	42	7	2	47	1.43
57014669--57014724	23	2.5	23	82	2	69	44	1	1	51	1.22
57014524--57014687	68	2.5	66	86	10	216	45	9	4	40	1.55
57014738--57014762	5	5.0	5	100	0	50	0	40	60	0	0.97
57020065--57020177	51	2.2	51	82	3	138	22	33	21	23	1.97
57020555--57020623	35	2.0	35	97	0	129	21	13	14	50	1.76
57020998--57021030	13	2.6	13	90	4	50	45	39	0	15	1.46
57021336--57021360	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57021693--57021751	29	2.0	30	90	3	93	50	15	5	28	1.65
57026283--57026363	30	2.7	31	80	3	94	44	3	8	43	1.52
57031466--57031507	18	2.4	18	88	4	59	71	7	4	16	1.26
57031856--57031908	3	17.7	3	100	0	106	66	0	0	33	0.92
57033696--57034256	51	10.9	52	78	10	489	30	28	16	24	1.97
57034224--57034293	36	1.9	36	85	5	97	27	28	17	27	1.97
57036274--57036308	6	5.8	6	93	0	52	8	0	37	54	1.31
57037511--57037572	13	4.8	13	72	4	54	32	6	24	37	1.81
57037511--57037572	26	2.4	26	78	5	72	32	6	24	37	1.81
57039837--57039888	27	1.9	27	100	0	104	61	5	25	7	1.45

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