genome.fa.s6.2.7.7.80.10.50.1000.127.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  127  of  168  ( 20060 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)
36969155--36969196	15	2.9	15	82	10	52	52	0	0	47	1.00
36969362--36969409	24	1.9	25	87	8	71	50	2	0	47	1.12
36973150--36973330	48	3.8	47	94	1	292	38	6	6	49	1.54
36973162--36973330	25	7.1	25	69	20	137	37	7	6	49	1.56
36973167--36973286	23	5.0	23	72	15	109	35	8	6	49	1.59
36973150--36973330	94	1.9	94	91	2	299	38	6	6	49	1.54
36973268--36973340	21	3.3	21	68	17	58	35	2	6	54	1.41
36974525--36974612	23	3.8	23	91	5	135	50	23	9	17	1.74
36974578--36974624	22	2.1	22	84	7	60	59	19	4	17	1.53
36975351--36975386	17	2.1	17	94	0	63	66	8	11	13	1.44
36976607--36976650	19	2.3	20	84	7	56	36	0	2	61	1.09
36983023--36983115	44	2.1	45	80	6	100	47	8	13	30	1.73
36986804--36986833	2	15.0	2	100	0	60	50	0	0	50	1.00
36991146--36991182	18	1.9	19	89	10	58	62	2	2	32	1.23
36991165--36991206	13	3.4	12	81	12	50	66	0	4	28	1.12
36993353--36993394	2	21.0	2	100	0	84	50	0	0	50	1.00
36997531--36997619	31	2.9	31	88	3	126	56	12	1	30	1.43
37002915--37002967	24	2.2	24	93	0	88	39	18	33	7	1.79
37002892--37002955	30	2.1	30	85	5	85	42	18	28	10	1.84
37002922--37002977	24	2.3	24	96	0	103	35	19	37	7	1.79
37005024--37005327	150	2.0	149	86	4	423	39	8	6	45	1.61
37018497--37018525	3	9.7	3	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37018687--37018728	5	8.4	5	100	0	84	0	78	0	21	0.75
37023422--37023484	15	4.3	15	70	15	51	73	0	1	25	0.93
37023422--37023485	22	3.0	20	75	20	58	71	0	1	26	0.94
37024586--37024774	92	2.1	92	85	0	252	42	14	11	31	1.81
37027705--37027801	42	2.3	42	94	0	167	38	9	26	25	1.86
37028914--37028938	2	12.5	2	100	0	50	52	0	0	48	1.00
37031286--37031331	19	2.4	19	96	0	83	30	19	32	17	1.95
37031653--37031691	13	2.9	13	96	3	69	33	38	7	20	1.81
37039992--37040016	2	12.5	2	100	0	50	52	0	0	48	1.00
37049982--37050011	15	2.0	15	100	0	60	40	6	0	53	1.27
37052465--37052863	42	9.4	41	82	5	413	33	20	20	25	1.97
37052465--37052863	127	3.1	124	83	7	428	33	20	20	25	1.97
37052467--37052863	169	2.3	167	82	8	455	33	20	20	25	1.97
37053247--37053300	21	2.6	21	90	0	81	5	44	18	31	1.73
37054100--37054125	2	13.0	2	100	0	52	50	0	0	50	1.00
37054692--37054768	35	2.2	35	83	0	100	37	40	0	22	1.54
37054729--37054768	14	2.9	14	80	0	53	40	45	0	15	1.46
37054747--37054902	80	1.9	81	85	6	219	44	27	0	27	1.59
37054758--37054927	80	2.1	80	80	7	193	45	26	1	26	1.64
37054911--37054990	14	5.6	14	73	7	54	38	31	0	30	1.58
37054967--37055000	7	4.7	7	85	7	50	38	29	0	32	1.58
37055408--37055973	114	5.0	113	82	5	642	26	25	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37055410--37055964	227	2.4	228	84	5	728	26	24	22	25	2.00
37061490--37061629	61	2.2	63	81	6	160	45	17	9	27	1.79
37061492--37061647	31	5.0	31	75	8	113	45	17	8	28	1.77
37061566--37061855	93	3.1	92	82	5	275	44	17	6	31	1.75
37061653--37061800	31	4.8	30	72	15	113	42	17	6	33	1.76
37061644--37061855	92	2.3	92	89	1	318	43	17	7	31	1.76
37062567--37062618	26	2.0	26	100	0	104	34	19	15	30	1.93
37069455--37069480	3	8.7	3	100	0	52	65	0	0	34	0.93
37069714--37069789	31	2.5	31	82	6	84	36	11	11	39	1.79
37077142--37077172	3	10.3	3	100	0	62	67	0	0	32	0.91
37077306--37077347	16	2.6	16	92	0	66	33	0	35	30	1.58
37077757--37077797	15	2.8	15	82	10	50	53	2	0	43	1.13
37077932--37078163	91	2.5	92	84	4	276	48	5	2	44	1.37
37077976--37078036	28	2.2	28	85	5	81	50	3	0	45	1.17
37077983--37078126	47	3.1	46	65	23	113	49	4	1	44	1.32
37077951--37078156	91	2.3	91	91	0	331	47	4	2	45	1.37
37077976--37078118	44	3.2	43	68	16	119	48	4	1	46	1.30
37078001--37078139	47	3.0	47	68	17	137	49	5	1	43	1.33
37089074--37089109	3	12.0	3	87	0	54	27	66	2	2	1.19
37106293--37106359	31	2.2	31	91	0	107	32	10	11	44	1.75
37115113--37115188	10	7.6	10	78	15	61	34	1	0	64	1.02
37115091--37115189	11	9.5	11	75	20	70	36	3	0	60	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37115121--37115215	39	2.3	42	85	8	133	34	1	1	63	1.09
37115068--37115222	72	2.2	71	83	8	206	36	1	0	61	1.12
37119140--37119173	17	1.9	18	88	5	52	38	0	14	47	1.45
37121752--37121833	24	3.4	24	78	6	85	21	30	17	30	1.96
37121882--37121951	25	2.8	24	87	6	95	15	27	25	31	1.96
37121895--37121982	24	3.6	23	76	11	77	20	25	20	34	1.97
37121989--37122043	25	2.2	25	77	6	58	21	25	20	32	1.97
37123564--37123618	22	2.5	22	78	0	65	61	10	14	12	1.56
37124894--37124966	10	7.5	10	80	9	80	60	1	1	36	1.14
37124903--37124954	19	2.7	18	85	8	59	63	1	1	32	1.16
37124897--37124977	20	4.2	18	78	13	65	59	2	1	37	1.19
37124897--37124977	38	2.1	39	81	6	94	59	2	1	37	1.19
37127286--37127338	27	2.0	27	88	0	79	26	16	13	43	1.85
37139345--37139392	19	2.6	18	77	9	51	52	0	2	45	1.12
37147029--37147120	29	3.2	29	78	7	107	39	3	28	29	1.73
37147176--37147204	14	2.0	15	93	6	51	34	0	6	58	1.25
37163447--37163488	18	2.4	17	84	11	57	33	9	4	52	1.55
37163596--37163647	24	2.0	27	85	10	74	63	11	5	19	1.47
37163803--37163845	19	2.3	18	80	7	50	58	0	2	39	1.11
37163918--37163968	12	4.3	12	87	7	54	62	0	3	33	1.13
37163928--37163970	3	14.3	3	95	0	77	65	0	2	32	1.06
37171722--37171762	6	6.8	6	100	0	82	17	51	14	17	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37174478--37174647	92	1.8	92	85	5	236	28	20	18	32	1.96
37181826--37181890	23	2.9	22	80	11	69	49	0	1	49	1.10
37183000--37183058	29	2.0	30	83	9	77	49	13	8	28	1.71
37185790--37185975	50	3.7	49	89	3	255	19	29	24	27	1.98
37186313--37186370	30	1.9	30	85	0	80	27	24	5	43	1.75
37187183--37187366	50	3.7	50	88	0	260	26	21	30	21	1.99
37191713--37191830	33	3.5	34	80	15	147	41	4	0	54	1.20
37193498--37193737	101	2.4	101	87	0	345	32	14	23	29	1.94
37196184--37196209	13	2.0	13	100	0	52	76	7	7	7	1.15
37198860--37199050	95	2.0	95	100	0	382	17	32	6	43	1.74
37210022--37210047	5	5.2	5	100	0	52	0	19	0	80	0.71
37210273--37210308	17	2.1	17	100	0	72	11	11	11	66	1.45
37211025--37211146	23	5.5	22	84	9	103	18	8	24	48	1.75
37211051--37211146	23	4.2	23	92	5	151	18	8	25	47	1.76
37212433--37212608	25	7.3	25	75	14	181	48	6	8	36	1.59
37212426--37212608	48	3.8	48	95	0	330	48	6	8	36	1.59
37216058--37216303	50	4.9	50	86	0	321	19	29	23	28	1.98
37216694--37216751	30	1.9	30	85	0	80	31	22	3	43	1.70
37218218--37218264	15	3.0	16	78	12	53	44	0	4	51	1.21
37218146--37218496	120	2.9	120	99	0	684	42	2	6	49	1.40
37218329--37218380	15	3.6	15	80	12	56	44	0	1	53	1.11
37218458--37218499	15	2.7	16	82	14	52	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37218449--37218490	15	2.9	15	82	10	52	47	0	0	52	1.00
37218433--37218722	157	1.8	157	98	0	562	47	3	3	45	1.36
37218602--37218636	18	2.0	17	88	5	52	45	0	0	54	0.99
37218434--37218672	75	3.1	75	64	18	191	46	3	3	46	1.35
37218706--37218734	6	4.8	6	100	0	58	68	13	0	17	1.20
37218806--37218903	45	2.2	45	85	1	126	32	27	5	34	1.79
37218794--37218903	45	2.6	44	78	8	122	31	28	5	34	1.80
37218882--37218935	16	3.4	16	94	0	90	31	35	0	33	1.58
37229860--37229888	2	14.5	2	100	0	58	48	0	0	51	1.00
37235633--37235676	20	2.3	19	80	4	52	43	0	2	54	1.12

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