genome.fa.s3.2.7.7.80.10.50.1000.61.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  61  of  150  ( 17918 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)
18163775--18163809	10	3.3	10	85	14	52	34	0	2	62	1.10
18164353--18164389	18	2.2	18	90	9	60	24	43	0	32	1.55
18167389--18167491	25	4.2	25	73	8	95	20	28	21	30	1.98
18168392--18168421	15	1.9	16	93	6	53	10	6	3	80	1.01
18169170--18169231	31	2.0	31	90	0	97	33	3	4	58	1.36
18169169--18169241	31	2.5	30	84	8	96	31	2	5	60	1.34
18169435--18169485	26	2.0	25	81	7	59	27	1	9	60	1.39
18177072--18177104	16	2.0	17	88	5	50	45	0	6	48	1.27
18177924--18177984	25	2.6	23	73	5	59	18	31	19	31	1.96
18186191--18186319	66	2.0	66	84	6	172	51	10	12	26	1.71
18188989--18189025	11	3.3	11	92	3	56	18	8	24	48	1.75
18211109--18211163	7	7.4	7	79	18	58	69	10	18	1	1.27
18212955--18212997	21	2.0	22	90	4	70	55	6	0	37	1.27
18212957--18213004	21	2.3	21	85	7	62	60	6	0	33	1.22
18212963--18213010	21	2.4	19	80	16	53	62	6	0	31	1.20
18213370--18213456	18	4.7	18	69	10	52	33	0	3	63	1.11
18213282--18213455	10	17.2	10	68	16	56	34	2	2	60	1.22
18213270--18213460	19	10.0	19	67	15	92	35	2	2	59	1.23
18215613--18215661	22	2.2	22	88	0	71	38	12	32	16	1.86
18219705--18219779	19	3.8	19	89	6	123	33	10	20	36	1.87
18226710--18226992	44	6.4	45	77	4	281	28	15	27	28	1.96
18226713--18226968	87	2.9	88	86	2	334	27	15	26	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18226993--18227181	44	4.3	44	76	5	175	29	14	26	28	1.95
18226883--18227098	109	2.0	110	91	2	355	31	14	27	26	1.95
18227789--18228015	44	5.2	44	65	12	124	26	23	25	24	2.00
18227834--18228235	44	9.1	44	64	6	132	28	27	23	21	1.99
18227418--18228237	351	2.3	351	85	1	1054	28	25	24	22	1.99
18227382--18228247	88	9.9	88	85	1	919	28	25	23	22	1.99
18228609--18228683	19	3.8	19	89	6	123	33	10	20	36	1.87
18232230--18232264	18	1.9	18	100	0	70	25	17	22	34	1.96
18241626--18241671	6	7.7	6	95	0	74	17	21	60	0	1.35
18246526--18246688	42	3.9	41	84	4	193	23	20	20	36	1.95
18246532--18246688	83	1.9	82	86	1	224	24	19	19	36	1.94
18247071--18247121	21	2.4	21	90	0	75	3	45	17	33	1.67
18247006--18247165	87	1.8	87	87	0	230	13	30	16	40	1.87
18247955--18248188	9	25.8	9	78	1	252	31	1	17	49	1.57
18248217--18248309	8	11.0	8	71	24	59	32	0	10	56	1.33
18248214--18248330	20	5.8	20	73	19	93	32	0	11	55	1.36
18248210--18248330	37	3.3	38	76	15	148	32	0	12	55	1.37
18248216--18248347	32	4.5	29	80	11	119	33	0	12	54	1.37
18248216--18248347	40	3.3	41	80	10	125	33	0	12	54	1.37
18248309--18248371	9	6.7	9	75	10	63	34	4	15	44	1.68
18248588--18248625	16	2.4	16	91	4	60	52	5	0	42	1.24
18248618--18248654	17	2.2	17	100	0	74	54	5	5	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18249638--18249692	30	1.9	29	82	10	69	58	9	3	29	1.46
18252129--18252177	14	3.3	15	80	13	66	36	48	2	12	1.52
18252129--18252190	7	8.7	7	79	10	56	35	50	1	12	1.51
18252132--18252219	28	3.1	28	82	11	99	35	45	2	17	1.61
18252132--18252201	14	5.0	14	75	15	65	37	45	1	15	1.55
18252365--18252403	20	2.0	20	89	0	60	28	53	2	15	1.55
18252365--18252411	20	2.3	20	85	0	58	29	48	2	19	1.60
18252628--18252715	39	2.3	39	100	0	176	26	21	22	29	1.99
18253131--18253450	114	2.8	113	79	7	308	30	22	17	28	1.97
18254629--18254657	12	2.4	12	100	0	58	44	0	6	48	1.29
18258333--18258772	46	9.3	46	80	8	506	30	25	16	27	1.96
18258346--18258769	97	4.4	96	83	7	510	30	25	16	27	1.97
18259695--18259744	7	7.1	7	100	0	100	86	0	0	14	0.58
18262319--18262369	23	2.2	23	89	6	77	41	19	9	29	1.84
18272001--18272034	16	2.1	16	88	0	50	44	20	14	20	1.87
18274895--18274982	30	2.8	30	77	17	97	35	5	9	50	1.58
18274911--18274974	34	1.9	34	84	9	87	37	4	9	48	1.56
18275029--18275084	19	2.9	19	78	5	60	57	1	5	35	1.32
18275026--18275172	10	15.3	9	71	14	73	58	2	4	35	1.29
18275122--18275172	17	2.9	17	82	8	59	66	1	0	31	1.03
18282848--18283232	190	2.0	191	95	1	693	26	16	17	39	1.90
18301733--18301782	25	2.0	25	84	7	66	26	10	14	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18301818--18302056	31	7.7	31	69	15	149	34	7	17	39	1.79
18301818--18302056	61	3.9	62	71	18	201	34	7	17	39	1.79
18301813--18302070	92	2.8	92	91	0	399	34	7	17	40	1.78
18302067--18302215	31	4.9	31	76	4	124	30	8	16	44	1.77
18305383--18305414	16	2.0	16	100	0	64	50	25	0	25	1.50
18311606--18311634	13	2.2	13	100	0	58	13	0	13	72	1.13
18314030--18314548	282	1.9	277	78	6	580	30	10	10	48	1.73
18316030--18316073	6	7.2	6	81	2	52	0	56	0	43	0.99
18316030--18316073	18	2.4	18	92	3	70	0	56	0	43	0.99
18316132--18316192	25	2.4	27	76	18	67	3	34	3	59	1.30
18319572--18319624	21	2.5	21	84	0	61	32	33	7	26	1.84
18320757--18320795	17	2.4	16	91	4	60	48	0	0	51	1.00
18324042--18324090	19	2.6	19	93	0	80	48	14	14	22	1.79
18336928--18336988	31	2.0	31	86	0	86	29	14	9	45	1.77
18336921--18336996	31	2.5	31	78	4	82	26	14	10	48	1.76
18339221--18339261	14	3.0	13	82	10	55	56	2	0	41	1.13
18339241--18339295	20	2.4	23	74	20	62	45	3	1	49	1.30
18339250--18339289	20	1.9	21	90	10	64	47	5	2	45	1.38
18340146--18340235	44	2.0	44	82	0	108	43	4	2	50	1.34
18340363--18340429	2	33.5	2	100	0	134	49	0	0	50	1.00
18349514--18349601	29	3.0	28	82	15	99	59	2	1	37	1.18
18349551--18349598	10	4.9	10	82	10	55	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18349551--18349597	19	2.4	19	82	3	58	68	0	0	31	0.90
18352180--18352308	31	4.2	31	66	15	79	35	18	21	24	1.95
18359366--18359467	25	4.1	25	82	3	109	32	23	27	16	1.96
18359385--18359528	25	5.8	25	74	11	102	31	21	29	17	1.96
18359432--18359560	50	2.6	48	73	18	120	37	18	26	17	1.93
18369336--18369527	25	7.7	25	79	5	149	35	20	25	18	1.95
18369369--18369546	25	7.2	25	81	2	153	34	20	26	17	1.95
18371503--18371527	4	6.2	4	100	0	50	72	0	0	28	0.86
18373694--18373756	29	2.1	30	85	8	85	57	3	3	36	1.31
18373688--18373745	20	3.0	18	73	14	53	55	1	5	37	1.33
18373842--18373892	21	2.5	20	79	14	61	35	3	3	56	1.36
18376320--18376406	25	3.6	25	82	10	92	31	3	1	64	1.17
18379006--18379036	2	15.5	2	100	0	62	51	0	48	0	1.00
18379984--18380037	22	2.5	22	81	6	65	75	1	16	5	1.07
18385934--18385975	22	2.0	21	81	13	50	28	9	2	59	1.41
18387423--18387460	15	2.5	15	87	8	51	34	0	0	65	0.93
18388943--18389040	49	2.0	49	83	0	124	27	16	28	27	1.97
18392056--18392085	15	2.0	15	93	0	51	26	36	0	36	1.57
18393388--18393446	26	2.3	26	85	5	75	30	13	13	42	1.83
18393376--18393446	25	2.8	25	81	10	74	29	16	11	42	1.83
18397137--18397197	15	4.1	15	93	0	104	29	6	36	27	1.82
18399108--18399190	22	3.8	22	79	3	69	37	16	28	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18399175--18399239	22	3.0	22	86	0	85	43	7	29	20	1.79
18416152--18416182	5	6.2	5	92	0	53	41	16	19	22	1.89
18419111--18419496	185	2.1	186	90	3	602	49	9	10	31	1.68
18419818--18419869	17	3.1	17	85	0	68	36	9	5	48	1.60
18420259--18420320	19	3.2	19	76	13	72	50	14	16	19	1.79
18433456--18433497	20	2.2	19	87	12	59	14	21	7	57	1.61
18435451--18435481	12	2.6	12	94	0	53	58	3	0	38	1.15
18440675--18440709	16	2.3	15	90	5	52	57	0	0	42	0.99
18455872--18455980	25	4.4	25	77	0	101	24	19	23	32	1.98
18460258--18460313	24	2.3	25	87	3	78	69	12	7	10	1.36

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