genome.fa.s6.2.7.7.80.10.50.1000.121.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  121  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)
35122398--35122442	23	1.9	23	86	4	63	53	0	0	46	1.00
35122369--35122443	23	3.4	23	66	15	59	52	0	0	48	1.00
35124129--35124164	14	2.5	14	90	4	54	47	2	0	50	1.15
35124129--35124159	14	2.1	15	94	5	55	45	3	0	51	1.17
35124134--35124191	21	2.7	21	77	17	57	51	0	0	48	1.00
35135607--35135647	14	2.9	14	81	0	55	46	12	4	36	1.63
35142930--35142985	23	2.6	21	83	10	76	8	14	10	66	1.45
35166439--35166475	19	1.9	19	94	0	65	64	5	0	29	1.15
35168567--35168592	10	2.6	10	100	0	52	69	0	0	30	0.89
35188344--35188435	32	2.9	32	98	0	175	45	15	15	23	1.84
35193032--35193072	21	2.0	21	90	9	66	39	0	7	53	1.29
35197277--35197317	12	3.4	12	82	0	55	14	21	0	63	1.30
35197266--35197326	18	3.3	18	83	2	77	13	19	3	63	1.42
35203940--35203985	23	2.0	23	100	0	92	52	8	21	17	1.71
35203947--35204000	23	2.4	22	84	12	65	59	7	20	12	1.58
35204144--35204186	21	2.0	21	86	8	61	44	6	2	46	1.43
35215644--35215686	11	3.9	11	93	0	68	25	30	0	44	1.55
35215645--35215693	22	2.2	22	85	0	62	22	32	2	42	1.65
35215638--35215686	11	4.5	10	80	14	53	28	28	0	42	1.56
35216078--35216110	17	1.9	17	100	0	66	33	18	42	6	1.75
35216078--35216114	17	2.3	16	90	9	58	35	16	43	5	1.71
35216862--35216886	7	3.6	7	100	0	50	28	0	16	56	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35217377--35217459	30	2.8	30	77	0	94	31	42	15	10	1.82
35217827--35217911	18	4.7	18	91	0	134	41	23	8	27	1.83
35217827--35217911	9	9.4	9	81	0	98	41	23	8	27	1.83
35218651--35218842	61	3.2	60	74	16	211	43	4	8	44	1.53
35218562--35218837	116	2.3	118	92	3	448	39	3	10	46	1.55
35218643--35218819	55	3.1	55	72	22	175	41	4	7	46	1.53
35221643--35221929	126	2.3	125	91	0	484	28	19	18	33	1.95
35221945--35222315	104	3.7	103	82	7	436	39	19	3	36	1.70
35226353--35226412	29	2.1	29	84	3	77	43	18	21	16	1.88
35231359--35231526	41	4.1	40	81	9	169	27	24	19	28	1.98
35244526--35244594	27	2.5	27	86	6	95	40	10	1	47	1.46
35244605--35244634	11	2.7	11	100	0	60	83	10	6	0	0.81
35244659--35244741	27	3.1	27	83	0	121	25	20	43	10	1.84
35244670--35244764	27	3.5	27	83	0	82	24	27	36	11	1.90
35244659--35244764	54	2.0	54	82	0	131	24	24	39	11	1.88
35245226--35245264	14	2.7	15	84	8	53	61	5	5	28	1.39
35245238--35245266	14	2.1	14	100	0	58	55	0	6	37	1.27
35247876--35248009	33	3.9	32	73	20	85	1	32	0	65	1.02
35247942--35248012	10	6.6	10	75	15	52	0	32	0	67	0.91
35247937--35248012	23	3.3	23	76	8	75	0	31	0	68	0.90
35247938--35248014	18	4.0	18	70	18	57	0	33	0	66	0.92
35249056--35249100	14	3.4	14	70	17	51	62	0	4	33	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35256398--35256530	71	1.9	71	92	3	223	29	16	20	33	1.94
35260769--35260814	20	2.3	19	85	7	56	52	2	4	41	1.33
35262717--35262761	2	22.0	2	95	4	81	48	0	2	48	1.13
35264512--35264758	44	5.6	44	72	14	161	27	24	18	29	1.98
35264634--35264763	44	3.0	44	88	0	197	26	26	19	28	1.99
35264784--35265356	86	6.6	86	91	2	912	22	24	22	30	1.99
35267002--35267035	6	5.7	6	89	0	50	11	0	11	76	1.02
35266967--35267051	41	2.1	41	84	8	111	9	8	8	74	1.23
35266965--35267059	47	2.0	47	87	0	136	9	9	7	73	1.25
35272568--35272613	24	1.9	24	95	0	83	45	2	2	50	1.26
35277443--35277483	2	20.5	2	100	0	82	48	0	0	51	1.00
35277476--35277536	22	2.7	24	80	12	74	37	3	8	50	1.48
35279794--35279854	26	2.4	25	91	8	97	55	1	3	39	1.26
35282341--35282380	21	1.9	21	89	0	62	35	0	25	40	1.56
35283500--35283552	13	4.1	13	80	9	72	37	28	5	28	1.80
35288469--35288568	28	3.6	28	93	0	164	31	12	26	31	1.92
35289292--35289962	71	9.5	71	86	1	920	26	13	17	41	1.87
35289292--35289949	141	4.7	141	94	0	1084	26	13	17	42	1.87
35289292--35289949	23	28.0	23	73	10	391	26	13	17	42	1.87
35290633--35290666	12	2.8	12	90	0	50	26	38	20	14	1.91
35292731--35292813	30	2.8	30	92	0	139	27	15	21	34	1.94
35294181--35294216	7	5.1	7	100	0	72	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35294167--35294221	21	2.6	21	78	16	69	67	0	7	25	1.16
35300808--35300857	16	3.1	16	77	13	57	36	6	4	54	1.44
35309733--35309804	28	2.6	28	84	0	90	33	9	26	30	1.89
35310573--35310948	70	5.3	70	89	2	531	27	11	17	42	1.84
35310528--35310892	23	15.6	23	72	13	153	26	13	16	43	1.86
35322711--35322749	18	2.2	18	86	9	53	56	7	0	35	1.28
35329753--35329813	31	2.0	31	83	0	77	34	13	6	45	1.69
35333349--35333493	69	2.2	67	80	12	162	18	10	17	53	1.72
35337630--35338053	151	2.8	150	96	1	769	32	21	16	29	1.95
35339555--35339615	18	3.4	17	77	8	68	26	36	8	29	1.85
35344662--35344728	19	3.5	19	79	16	68	11	10	0	77	0.99
35358855--35358889	2	18.0	2	94	5	63	0	48	0	51	1.00
35360729--35360755	14	1.9	14	100	0	54	37	7	7	48	1.59
35365217--35365259	18	2.4	18	88	0	59	41	44	2	11	1.53
35365367--35365425	9	6.6	9	88	0	73	25	5	20	49	1.69
35365367--35365425	18	3.3	18	85	0	82	25	5	20	49	1.69
35366387--35366429	15	2.9	14	89	10	59	34	0	0	65	0.93
35366538--35366625	38	2.4	37	83	14	103	29	5	4	60	1.40
35366540--35366620	18	4.4	18	71	17	60	29	4	3	61	1.34
35370110--35370159	24	2.1	24	88	0	73	34	20	16	30	1.94
35370193--35370344	53	2.8	53	92	1	250	36	16	11	36	1.84
35375935--35375990	26	2.2	26	96	3	105	37	25	16	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35380590--35380648	30	2.0	30	96	0	109	28	5	11	54	1.58
35380775--35380808	12	2.8	12	90	0	50	67	0	0	32	0.91
35382963--35382993	16	1.9	16	93	0	53	22	19	25	32	1.97
35389836--35389985	41	3.7	41	91	0	237	25	28	18	28	1.98
35391234--35391258	13	1.9	13	100	0	50	68	24	0	8	1.16
35393156--35393258	50	2.1	50	85	3	136	25	22	21	31	1.98
35400819--35400877	29	2.0	29	100	0	118	27	20	10	42	1.84
35404694--35404733	22	1.9	22	85	10	57	15	32	2	50	1.57
35407004--35407086	25	3.3	25	94	0	139	43	0	13	43	1.43
35408122--35408493	125	3.0	125	90	1	566	30	22	17	29	1.97
35408860--35408892	16	2.1	16	94	0	57	30	18	18	33	1.94
35411142--35411179	2	19.0	2	100	0	76	50	0	0	50	1.00
35413494--35413579	24	3.4	25	78	10	72	58	5	5	30	1.45
35413517--35413586	23	3.1	23	78	10	65	58	4	4	32	1.37
35417765--35417995	27	8.6	27	83	3	268	42	19	16	20	1.89
35417765--35417994	108	2.1	108	87	3	329	43	19	16	20	1.89
35418456--35418529	33	2.2	35	83	9	91	28	18	18	33	1.95
35419162--35419191	12	2.5	12	94	0	51	63	6	0	30	1.20
35424726--35424762	16	2.3	16	90	9	58	81	2	0	16	0.81
35424974--35425003	2	15.0	2	100	0	60	50	0	0	50	1.00
35426784--35427498	44	16.5	44	69	12	378	29	25	17	26	1.98
35426735--35427023	129	2.2	129	96	1	526	29	25	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35426818--35427368	173	3.2	173	88	3	835	29	25	18	26	1.98
35427218--35427407	41	4.5	41	67	19	113	31	24	19	24	1.98
35427210--35427497	128	2.2	129	95	0	515	30	25	18	25	1.98
35427548--35428963	129	11.0	129	91	0	2226	25	23	18	32	1.97
35430185--35430234	7	7.3	7	75	20	52	14	16	2	68	1.31
35435106--35435133	2	14.0	2	100	0	56	50	0	0	50	1.00
35435588--35435618	11	2.7	12	90	10	55	70	6	0	22	1.09
35441006--35441060	3	18.3	3	81	7	67	61	1	3	32	1.24
35440939--35441060	25	5.4	22	73	18	83	60	2	3	33	1.26
35442467--35442507	19	2.2	19	90	0	64	39	9	7	43	1.65

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