genome.fa.s2.2.7.7.80.10.50.1000.159.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  159  of  206  ( 24623 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)
48109895--48110439	159	3.4	158	90	1	826	28	8	7	55	1.58
48111554--48111619	29	2.3	29	81	0	78	40	19	16	22	1.91
48111647--48111710	27	2.4	27	86	0	83	7	34	32	25	1.84
48111844--48111878	17	2.1	17	88	0	52	51	5	0	42	1.25
48116109--48116138	15	1.9	16	93	6	53	43	0	6	50	1.28
48116131--48116291	18	9.1	17	67	23	59	39	0	1	57	1.14
48116143--48116303	25	6.5	25	72	16	111	41	0	1	55	1.15
48116038--48116299	145	1.8	143	86	8	370	42	0	3	53	1.21
48116515--48116567	16	3.3	16	91	0	88	24	33	3	37	1.74
48118051--48118086	18	1.9	18	88	5	54	58	2	0	38	1.13
48122626--48122673	21	2.3	21	88	0	69	14	27	18	39	1.90
48128808--48128865	29	2.0	29	100	0	116	31	13	27	27	1.94
48133437--48133538	50	2.0	50	100	0	204	34	15	25	24	1.95
48137123--48137195	38	1.9	38	100	0	146	63	0	16	20	1.32
48138649--48139304	44	14.9	44	70	15	297	28	23	19	28	1.98
48138792--48139082	133	2.2	133	91	1	476	26	24	20	28	1.99
48138922--48139390	217	2.2	217	88	0	715	28	22	20	28	1.98
48151268--48151317	4	11.8	4	79	12	55	74	4	0	22	0.99
48153444--48153470	3	9.0	3	100	0	54	33	0	0	66	0.92
48155148--48155197	25	2.0	25	92	0	82	26	12	6	56	1.58
48164848--48164911	18	3.4	18	80	18	76	35	0	7	56	1.28
48166098--48166162	34	1.9	34	87	0	94	38	16	13	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48171361--48171422	31	2.0	31	100	0	124	41	16	9	32	1.80
48177318--48177349	3	10.7	3	93	0	55	65	0	3	31	1.08
48177650--48177711	31	2.0	31	100	0	124	41	16	9	32	1.80
48187784--48187808	3	8.3	3	100	0	50	0	32	0	68	0.90
48189344--48189377	16	2.2	15	89	5	50	55	0	0	44	0.99
48189341--48189380	22	1.9	19	85	14	53	55	0	0	45	0.99
48189444--48189502	30	2.0	30	86	6	84	49	11	6	32	1.66
48191330--48191368	18	2.2	18	100	0	78	46	15	17	20	1.84
48199421--48199537	37	3.3	36	70	25	106	41	3	1	53	1.28
48199478--48199531	20	2.8	20	82	17	71	42	1	0	55	1.10
48199507--48199622	61	1.9	58	86	8	162	41	3	5	50	1.42
48199509--48199641	58	2.2	60	79	14	150	42	3	6	47	1.46
48200484--48201507	519	2.0	519	92	1	1705	34	12	18	34	1.88
48202154--48202398	50	4.8	50	76	7	201	28	21	26	23	1.99
48203981--48204030	16	3.4	16	76	21	63	14	28	6	52	1.65
48203967--48204023	20	2.9	20	76	21	66	14	26	5	54	1.61
48203981--48204035	28	2.0	28	96	0	101	14	27	5	52	1.63
48204315--48204439	50	2.5	50	77	5	126	20	31	23	25	1.98
48211919--48211960	20	2.3	19	84	12	52	71	4	2	21	1.16
48221594--48221623	15	1.9	16	93	6	53	46	0	10	43	1.37
48223801--48224074	41	6.6	40	79	7	287	22	16	25	36	1.94
48223800--48224076	84	3.3	84	89	1	425	22	16	24	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48231367--48231454	38	2.3	38	80	7	106	34	12	13	39	1.83
48231845--48231886	3	14.0	3	100	0	84	33	0	0	66	0.92
48238190--48238233	23	1.9	23	86	9	63	72	2	9	15	1.19
48239321--48239422	20	5.1	20	69	4	71	12	33	20	33	1.90
48244595--48244628	15	2.1	15	89	10	50	44	5	0	50	1.26
48247550--48248141	296	2.0	296	91	0	950	23	21	22	32	1.98
48266365--48266397	16	2.1	16	100	0	66	36	0	24	39	1.56
48271422--48271465	24	1.9	22	95	4	70	18	20	13	47	1.82
48272885--48272973	23	4.0	22	73	17	78	17	7	22	51	1.71
48272806--48273001	107	1.8	107	96	3	369	24	6	24	44	1.76
48275913--48275946	13	2.6	13	90	9	52	82	8	2	5	0.93
48284207--48284407	91	2.2	91	95	0	357	46	2	3	46	1.36
48284354--48284458	16	6.7	16	66	23	53	46	0	1	50	1.18
48284222--48284373	47	3.3	47	70	9	150	44	2	3	48	1.35
48284331--48284485	78	2.0	78	93	0	265	47	2	2	47	1.29
48284493--48285036	61	9.2	58	67	13	288	43	2	4	48	1.39
48284868--48284902	18	2.0	17	88	5	52	45	0	0	54	0.99
48284988--48285022	18	2.0	17	88	5	52	45	0	0	54	0.99
48284507--48285042	120	4.5	119	98	0	955	44	2	5	47	1.40
48290548--48290572	13	1.9	13	100	0	50	40	0	12	48	1.40
48304573--48304615	22	2.0	22	100	0	86	23	25	13	37	1.92
48312818--48312923	41	2.6	41	86	0	149	33	16	28	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48313737--48313765	14	2.1	14	100	0	58	13	13	6	65	1.45
48313936--48313960	8	3.1	8	100	0	50	76	0	0	24	0.80
48324045--48324287	120	2.0	120	93	1	416	32	18	18	30	1.95
48324986--48325084	47	2.1	47	94	0	171	30	18	28	23	1.97
48333692--48333864	43	4.0	43	77	3	186	28	19	15	36	1.92
48333692--48333878	86	2.2	86	84	2	243	29	18	14	36	1.91
48337452--48337482	16	1.9	16	93	0	53	29	16	19	35	1.93
48345842--48346513	137	5.0	134	72	11	367	30	25	18	24	1.98
48346022--48346498	260	1.8	257	81	3	598	31	25	18	24	1.97
48348659--48348866	81	2.6	81	93	1	346	24	21	31	22	1.98
48349297--48349333	13	2.8	13	91	4	56	35	0	0	64	0.94
48349302--48349366	21	3.2	21	72	24	59	32	1	0	66	1.01
48349298--48349358	18	3.1	19	76	13	61	29	1	0	68	0.99
48350026--48350070	24	1.9	24	81	4	56	31	4	4	60	1.37
48365849--48365902	19	2.8	19	97	0	99	38	9	16	35	1.81
48365862--48365925	19	3.0	22	86	8	80	37	7	17	37	1.79
48366431--48366461	2	15.5	2	100	0	62	48	0	0	51	1.00
48366481--48366557	37	2.1	37	80	11	86	37	9	1	51	1.42
48366629--48366698	27	2.6	26	76	13	70	37	7	1	54	1.37
48366866--48366952	3	29.0	3	100	0	174	33	0	0	66	0.92
48372494--48372539	22	2.2	22	84	7	60	43	0	0	56	0.99
48375732--48375768	3	12.3	3	100	0	74	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48385497--48385609	19	5.8	19	89	4	181	38	10	15	36	1.82
48385498--48385609	59	1.9	59	94	0	197	38	10	14	36	1.81
48386171--48386222	25	2.1	25	85	7	70	32	3	5	57	1.40
48386286--48386341	25	2.1	28	84	15	75	30	0	3	66	1.09
48386874--48386913	19	2.0	20	85	4	55	32	5	10	52	1.56
48387154--48387348	98	2.0	98	94	0	345	28	9	24	37	1.86
48389867--48389891	13	1.9	13	100	0	50	64	4	16	16	1.44
48392182--48392218	18	2.0	19	85	15	51	81	5	8	5	0.99
48393504--48393777	133	2.1	133	95	0	485	27	18	24	29	1.98
48393716--48393863	43	3.4	43	69	14	131	29	17	25	27	1.98
48393702--48394085	88	4.4	88	76	8	327	27	17	24	30	1.97
48393835--48393953	44	2.7	44	92	0	184	31	16	23	28	1.96
48393835--48394084	44	5.6	45	77	10	180	27	16	25	30	1.97
48394288--48394419	19	6.8	19	90	3	210	37	11	15	35	1.83
48394288--48394426	59	2.4	57	88	6	210	38	10	15	35	1.82
48394977--48395028	25	2.1	25	85	7	70	32	3	5	57	1.40
48395595--48395634	19	2.0	20	85	4	55	32	5	10	52	1.56
48395875--48396066	98	2.0	98	96	0	357	27	10	25	37	1.88
48402834--48402889	29	2.0	29	83	16	75	44	23	0	32	1.53
48403316--48403345	12	2.5	12	94	0	51	40	0	0	60	0.97
48406582--48406606	11	2.3	11	100	0	50	72	0	0	28	0.86
48410192--48410228	13	2.7	14	83	8	58	70	2	0	27	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48415817--48415921	22	4.8	22	81	9	124	37	0	26	35	1.63
48416378--48416674	114	2.6	116	86	6	417	24	6	16	53	1.65
48418328--48418361	2	17.0	2	100	0	68	50	0	0	50	1.00
48425224--48425294	37	1.9	37	97	0	133	38	0	22	39	1.54
48426426--48426483	27	2.2	27	78	3	64	27	0	24	48	1.51
48427613--48427656	13	3.4	13	77	0	52	31	13	20	34	1.92
48428436--48428527	40	2.3	40	88	0	130	20	27	14	38	1.91
48429380--48429446	29	2.2	30	86	7	91	43	14	14	26	1.85
48431680--48431723	13	3.4	13	87	0	61	22	15	27	34	1.95
48436176--48436233	23	2.5	24	83	8	66	44	5	0	50	1.24

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