genome.fa.s6.2.7.7.80.10.50.1000.129.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  129  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)
37547524--37547557	14	2.4	14	90	0	50	29	0	23	47	1.52
37547533--37547569	14	2.6	14	91	0	56	24	0	32	43	1.55
37547627--37547657	7	4.4	7	91	0	53	29	0	35	35	1.58
37547618--37547657	14	2.8	14	92	3	62	30	0	35	35	1.58
37551953--37552061	54	2.0	54	89	0	164	22	19	32	26	1.97
37552007--37552162	43	3.6	43	84	0	213	19	17	32	30	1.95
37554038--37554090	21	2.5	21	90	0	79	5	13	49	32	1.65
37554342--37554385	18	2.4	18	92	0	70	43	9	27	20	1.82
37555885--37555936	25	2.1	24	85	3	68	69	0	1	28	0.99
37556976--37557052	27	2.9	27	90	0	109	27	23	38	10	1.87
37556983--37557077	27	3.5	27	85	0	91	24	28	34	12	1.92
37557363--37557403	3	13.7	3	100	0	82	34	0	0	65	0.93
37558187--37558231	18	2.5	18	85	0	63	28	4	46	20	1.69
37559505--37559657	10	16.1	10	64	25	57	1	32	0	66	1.00
37559502--37559657	24	6.6	24	68	20	73	1	32	0	66	1.00
37559507--37559605	20	5.1	19	73	16	87	1	31	0	67	0.97
37559507--37559651	18	7.9	18	72	14	93	1	32	0	66	1.01
37559533--37559619	38	2.3	38	95	0	156	2	34	0	63	1.07
37559787--37559831	18	2.4	18	88	3	63	4	2	8	84	0.84
37559785--37559841	28	2.0	28	83	6	71	8	1	10	78	1.02
37559836--37559900	28	2.4	27	82	7	78	49	1	9	40	1.44
37560218--37560263	23	2.0	23	87	8	67	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37563196--37563243	21	2.2	21	79	13	53	47	2	2	47	1.25
37575965--37576010	24	1.9	25	91	8	78	28	6	0	65	1.17
37576068--37576125	30	2.0	28	81	15	66	27	6	8	56	1.55
37590379--37590528	40	3.7	41	88	6	216	62	0	2	34	1.15
37590439--37590502	30	2.1	29	83	11	76	62	0	3	34	1.11
37591639--37591919	139	2.0	139	90	0	445	15	25	13	44	1.83
37601975--37602004	1	30.0	1	100	0	60	100	0	0	0	0.00
37607226--37607272	20	2.3	20	92	0	76	46	14	8	29	1.74
37607322--37607444	42	2.9	42	85	4	176	43	18	19	18	1.89
37611021--37611058	18	2.1	19	90	5	60	52	5	21	21	1.66
37622019--37622070	26	2.0	26	85	10	72	48	0	3	48	1.20
37652403--37652491	46	1.9	46	100	0	178	39	0	14	46	1.45
37654383--37654539	43	3.7	43	74	15	139	25	17	27	29	1.98
37658498--37658622	62	2.0	62	92	0	205	36	7	8	47	1.62
37661301--37661342	22	2.0	22	86	9	61	64	4	2	28	1.26
37661453--37661480	7	4.0	7	100	0	56	85	0	0	14	0.59
37666718--37666809	21	4.5	21	70	12	59	36	1	10	51	1.44
37677304--37677332	14	2.0	15	93	6	51	31	0	0	68	0.89
37677668--37677702	11	3.2	11	91	0	52	25	2	8	62	1.38
37677673--37677703	11	2.8	11	95	0	53	22	0	9	67	1.19
37678835--37678878	10	4.6	9	81	15	52	61	0	2	36	1.09
37678836--37678873	10	3.8	10	86	13	60	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37681259--37681288	16	1.9	15	93	6	51	56	0	13	30	1.37
37690854--37690888	18	2.0	17	88	5	52	54	0	0	45	0.99
37690741--37691057	157	2.0	157	96	0	580	44	3	4	47	1.38
37690991--37691032	15	2.7	16	82	14	52	52	2	0	45	1.13
37691000--37691161	15	10.9	15	65	23	58	50	3	1	44	1.30
37690989--37691286	120	2.5	121	92	3	485	51	4	2	42	1.32
37691131--37691178	18	2.8	18	74	22	50	56	0	0	43	0.99
37690997--37691290	59	4.9	58	70	17	210	51	3	2	42	1.31
37691087--37691170	43	1.9	43	83	7	107	53	2	2	41	1.27
37691039--37691226	61	3.1	61	71	17	192	50	5	2	42	1.38
37691205--37691299	28	3.4	27	69	17	70	55	1	3	40	1.23
37695291--37695424	68	2.0	68	98	0	259	17	22	16	44	1.87
37696493--37696527	12	2.9	12	95	0	61	25	42	17	14	1.86
37702745--37702781	16	2.3	17	86	13	60	62	0	0	37	0.96
37702794--37702820	7	3.9	7	100	0	54	44	11	0	44	1.39
37703707--37703754	21	2.3	21	88	0	69	33	18	14	33	1.91
37704752--37704897	37	4.0	37	93	1	242	25	21	15	37	1.93
37704861--37705273	46	8.6	46	88	6	529	28	21	14	34	1.93
37704904--37705267	52	7.3	52	89	4	458	28	21	14	34	1.93
37712882--37712912	2	15.5	2	100	0	62	0	51	0	48	1.00
37714382--37714479	50	2.0	50	97	0	187	23	8	14	54	1.67
37717261--37717312	15	3.2	15	73	19	50	53	3	1	40	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37717672--37717733	23	2.5	25	80	15	67	45	3	8	43	1.49
37718895--37718948	27	2.0	27	100	0	108	14	3	18	62	1.46
37738964--37739005	2	21.0	2	85	0	57	50	2	2	45	1.27
37738964--37739005	16	2.6	16	92	0	66	50	2	2	45	1.27
37741041--37741091	23	2.3	23	89	3	77	64	9	3	21	1.40
37745523--37745588	29	2.2	29	82	12	73	46	10	15	27	1.78
37749034--37749310	46	6.0	46	97	0	509	27	27	8	36	1.86
37756896--37756956	16	3.9	16	73	14	56	13	1	24	60	1.42
37756892--37756958	15	4.4	14	74	18	53	13	1	25	59	1.43
37757641--37757694	25	2.2	25	86	0	72	57	1	1	38	1.20
37760158--37760198	20	2.0	20	100	0	82	34	4	9	51	1.56
37770003--37770178	83	2.1	82	86	4	239	47	13	7	31	1.72
37773825--37773890	29	2.2	29	84	10	80	22	21	10	45	1.82
37774022--37774059	14	2.7	14	87	0	58	0	60	0	39	0.97
37774024--37774058	12	2.9	12	86	0	52	0	62	0	37	0.95
37786865--37787257	202	1.9	202	91	0	642	36	18	13	30	1.90
37794216--37794248	14	2.4	14	90	5	50	54	6	21	18	1.64
37816093--37816122	11	2.7	11	94	0	51	6	0	13	80	0.91
37818457--37818515	31	1.9	31	85	0	82	44	0	16	38	1.48
37840864--37840904	20	2.0	20	95	0	73	26	31	2	39	1.70
37845127--37845181	24	2.3	23	73	17	58	32	14	0	52	1.42
37849199--37849401	87	2.3	89	82	6	268	36	20	9	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37849508--37849559	19	2.7	19	85	11	79	73	1	3	21	1.10
37849509--37849589	9	8.7	9	77	12	65	69	1	3	25	1.13
37849508--37849593	38	2.3	38	86	8	113	68	1	3	26	1.13
37849508--37849593	19	4.6	18	77	12	75	68	1	3	26	1.13
37849508--37849593	20	4.5	19	78	12	88	68	1	3	26	1.13
37849914--37849973	27	2.3	26	88	5	86	41	0	1	56	1.09
37849921--37850008	39	2.4	37	79	7	106	39	1	0	59	1.05
37849925--37850007	19	4.4	19	79	7	89	38	1	0	60	1.05
37851393--37851432	21	1.9	21	94	0	71	2	30	17	50	1.59
37853371--37853503	62	2.1	63	93	5	234	27	9	46	17	1.77
37853514--37853719	30	6.9	30	94	2	355	53	0	9	37	1.33
37853517--37853719	88	2.3	90	94	2	356	53	0	8	37	1.32
37854042--37854122	39	2.1	39	97	0	153	55	8	14	20	1.66
37855299--37855398	3	33.3	3	87	0	146	34	2	2	62	1.18
37860397--37860425	14	2.1	14	93	6	51	27	0	3	68	1.05
37870714--37870745	3	10.7	3	100	0	64	34	31	0	34	1.58
37870956--37870987	17	1.9	16	93	6	55	0	9	0	90	0.45
37870960--37870986	11	2.5	11	100	0	54	0	7	0	92	0.38
37872352--37872378	6	4.5	6	100	0	54	0	0	62	37	0.95
37875331--37875360	16	1.9	15	93	6	51	50	0	6	43	1.28
37875423--37875459	19	1.9	19	94	0	65	62	5	2	29	1.31
37878144--37878270	46	2.8	46	95	0	227	32	17	19	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37878216--37878346	59	2.2	59	90	6	219	35	12	25	25	1.92
37878303--37878419	36	2.9	41	79	16	145	35	15	23	25	1.94
37880055--37880171	59	2.0	60	81	1	137	41	5	2	50	1.40
37882441--37882513	29	2.7	28	75	10	71	39	8	8	43	1.64
37888571--37888610	20	1.9	20	90	10	62	37	0	0	62	0.95
37888574--37888633	23	2.8	20	76	16	50	35	0	5	60	1.19
37889160--37889185	2	13.0	2	100	0	52	50	0	0	50	1.00
37893175--37893258	37	2.2	39	85	4	109	32	22	10	34	1.89
37893701--37893751	18	2.8	18	84	0	66	27	5	29	37	1.80
37898583--37898634	16	3.2	16	71	15	52	48	9	3	38	1.54

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