genome.fa.s3.2.7.7.80.10.50.1000.86.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  86  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)
27034347--27034479	50	2.7	50	82	2	160	20	27	23	28	1.99
27035786--27035825	10	3.8	10	86	6	53	2	10	2	85	0.80
27038445--27038735	50	5.7	50	81	6	277	27	21	27	24	1.99
27045046--27045233	51	3.7	51	84	2	227	30	27	15	26	1.96
27048925--27049161	50	4.6	50	85	3	285	26	19	30	23	1.98
27049417--27049458	16	2.6	16	84	0	57	52	7	23	16	1.68
27058138--27058176	19	2.1	19	90	0	60	28	10	15	46	1.78
27058409--27058446	20	1.9	20	100	0	76	44	13	21	21	1.85
27060969--27061032	32	2.0	32	100	0	128	31	9	15	43	1.78
27060971--27061050	32	2.4	32	89	6	115	33	8	16	41	1.79
27063464--27063523	30	2.0	30	86	0	84	26	26	25	21	2.00
27063624--27063744	26	4.7	26	85	0	134	41	21	19	17	1.90
27063629--27063744	52	2.2	52	87	0	160	40	22	20	16	1.91
27063928--27064337	27	15.2	27	83	4	454	18	17	18	45	1.86
27063930--27064337	108	3.8	108	86	6	526	18	17	18	45	1.86
27066462--27066554	19	5.1	19	69	12	68	31	11	11	45	1.77
27066751--27066788	20	1.9	20	100	0	76	44	13	21	21	1.85
27069321--27069361	18	2.3	18	91	0	64	4	21	0	73	1.02
27073814--27073841	13	2.2	13	100	0	56	60	7	10	21	1.53
27074699--27074733	16	2.2	16	90	5	54	60	0	28	11	1.32
27082769--27082808	21	1.9	21	84	0	53	22	7	20	50	1.73
27086035--27086065	16	2.0	16	93	6	55	64	0	32	3	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27091668--27091710	3	14.3	3	90	0	68	65	2	2	30	1.18
27093201--27093280	27	3.0	27	92	0	133	17	17	22	42	1.89
27104220--27104258	19	2.1	19	95	0	69	51	12	10	25	1.71
27108907--27109040	41	3.2	42	76	11	123	23	16	26	32	1.96
27110973--27111083	40	2.8	40	85	0	141	38	16	24	20	1.92
27112491--27112551	27	2.3	27	88	5	88	31	1	8	59	1.37
27113140--27113174	16	2.3	15	90	5	52	65	0	0	34	0.93
27113130--27113183	23	2.4	21	80	17	63	62	1	0	35	1.06
27118117--27118163	17	2.8	16	83	6	58	10	29	6	53	1.60
27118125--27118163	18	2.4	16	84	16	53	12	30	7	48	1.69
27118175--27118217	18	2.4	18	84	7	52	9	18	4	67	1.36
27120481--27120612	50	2.6	51	85	3	185	37	12	15	33	1.86
27123724--27123847	50	2.5	50	86	0	167	29	25	27	18	1.98
27126638--27126677	21	1.9	21	85	10	55	35	0	7	57	1.27
27128199--27128681	119	4.1	119	90	0	732	30	18	25	26	1.98
27131576--27131617	18	2.3	19	91	4	68	54	0	26	19	1.44
27141941--27141977	17	2.3	16	90	9	58	56	0	16	27	1.40
27145656--27145709	20	2.7	20	88	0	81	7	33	22	37	1.82
27147632--27147670	19	2.1	19	90	9	62	46	2	30	20	1.64
27147639--27147682	19	2.2	20	84	11	56	43	4	27	25	1.74
27149995--27150235	50	4.7	50	84	3	275	26	21	27	23	1.99
27157132--27157374	50	4.7	50	83	3	261	27	21	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27157623--27157661	12	3.2	12	85	0	51	48	7	23	20	1.75
27163632--27163665	17	2.1	17	88	5	52	47	11	11	29	1.76
27164906--27164943	8	4.8	8	87	9	51	78	0	13	7	0.94
27169407--27169959	44	12.3	44	69	17	268	27	21	17	32	1.96
27169399--27169811	142	2.9	142	93	0	700	28	20	17	33	1.96
27169685--27169934	124	2.0	123	92	0	419	29	20	18	31	1.96
27169869--27169953	43	2.0	43	90	0	134	23	21	23	31	1.98
27169867--27169977	43	2.6	42	82	5	116	25	20	24	29	1.99
27182456--27182510	14	4.2	13	75	11	58	69	3	1	25	1.15
27185102--27185128	4	6.8	4	100	0	54	77	0	0	22	0.76
27185844--27185909	18	3.7	18	71	4	62	51	1	4	42	1.31
27187709--27187774	32	2.1	32	100	0	132	50	21	3	25	1.63
27190717--27190759	21	2.0	21	82	8	52	62	13	11	11	1.54
27192333--27192401	35	1.9	36	97	2	131	52	18	2	26	1.60
27194347--27194427	36	2.3	36	93	2	137	51	3	4	39	1.41
27195278--27195334	28	2.0	28	93	0	96	47	17	12	22	1.81
27196069--27196116	24	2.0	24	100	0	96	33	25	25	16	1.96
27200288--27200313	5	5.2	5	100	0	52	42	19	19	19	1.90
27201175--27201211	9	4.1	9	92	0	65	29	10	13	45	1.77
27201379--27201430	15	3.5	15	79	10	61	61	0	7	30	1.24
27202280--27202309	15	2.0	15	93	0	51	23	6	36	33	1.81
27203072--27203126	26	2.1	26	93	0	92	43	32	9	14	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27205479--27205560	25	3.3	25	84	1	85	18	24	20	36	1.95
27205498--27205560	25	2.5	25	89	0	90	14	25	23	36	1.93
27205516--27205606	22	4.0	22	82	4	92	15	24	20	39	1.91
27206041--27206081	2	21.0	2	92	5	66	46	0	2	51	1.14
27208967--27209212	49	4.8	50	78	5	219	28	20	28	23	1.99
27210548--27210611	26	2.5	27	82	10	80	12	20	25	42	1.87
27217616--27217677	30	2.1	30	84	6	81	50	8	8	33	1.61
27220985--27221129	23	6.3	23	86	2	184	31	27	20	21	1.98
27220996--27221126	69	1.9	69	91	0	217	31	29	19	19	1.97
27221339--27221377	18	2.2	17	86	13	53	46	20	0	33	1.51
27221498--27221536	20	1.9	21	84	5	53	48	10	0	41	1.37
27228348--27228441	23	4.1	23	83	0	116	29	25	20	24	1.99
27228348--27228446	46	2.2	46	90	0	153	29	24	20	26	1.99
27228672--27228710	18	2.2	17	86	13	53	46	20	0	33	1.51
27236004--27236038	17	2.1	17	100	0	70	28	31	17	22	1.96
27241953--27241992	20	2.0	20	90	0	62	22	27	0	50	1.50
27245102--27245135	2	17.0	2	100	0	68	50	0	0	50	1.00
27248547--27248586	20	2.0	20	85	0	53	60	0	15	25	1.35
27253956--27253985	15	2.0	15	93	0	51	50	0	3	46	1.18
27257713--27257786	29	2.5	30	77	4	96	43	25	18	12	1.85
27263669--27263715	12	3.7	13	79	20	55	65	0	0	34	0.93
27263672--27263715	14	3.1	15	81	12	58	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27264203--27264271	9	7.4	9	78	18	79	36	2	0	60	1.11
27264187--27264276	18	4.9	18	76	18	80	36	3	0	60	1.14
27264432--27264476	21	2.1	21	88	8	65	28	6	0	64	1.19
27266383--27266423	16	2.3	19	88	12	61	41	0	4	53	1.22
27266832--27266876	23	2.0	22	86	4	63	46	6	0	46	1.29
27268582--27268641	16	3.8	16	70	17	54	51	0	3	45	1.17
27268576--27268651	29	2.6	29	87	2	116	50	0	2	47	1.15
27268576--27268654	16	5.2	16	65	18	53	49	0	2	48	1.14
27275317--27275393	20	3.9	19	88	5	100	29	18	28	23	1.97
27275317--27275370	10	5.5	10	73	18	51	29	18	27	24	1.98
27279070--27279267	51	3.9	50	81	5	220	26	16	26	29	1.97
27280831--27280870	19	2.1	19	86	9	55	55	5	5	35	1.44
27281300--27281397	29	3.1	29	68	25	72	40	3	3	53	1.32
27281282--27281393	37	3.1	37	79	13	117	41	1	3	52	1.29
27284166--27284260	42	2.3	42	83	0	127	40	14	25	20	1.90
27284667--27284895	50	4.7	48	78	10	209	27	18	31	23	1.97
27284671--27284853	97	1.9	99	88	7	284	27	18	32	22	1.97
27292174--27292280	37	2.9	39	75	19	104	40	2	4	52	1.37
27292262--27292372	59	1.9	56	85	5	150	43	2	3	50	1.33
27294674--27294738	28	2.4	26	70	12	60	41	1	3	53	1.25
27294889--27294914	13	2.0	13	100	0	52	53	7	0	38	1.30
27297573--27297625	19	2.7	20	77	11	56	54	3	0	41	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27303667--27303781	60	1.9	60	87	0	167	25	13	31	29	1.94
27303670--27303794	60	2.1	60	81	0	142	25	15	32	26	1.95
27307897--27307943	24	2.0	24	87	4	69	21	10	10	57	1.62
27308940--27309033	27	3.2	28	84	13	86	34	5	0	60	1.19
27308918--27309080	10	16.8	10	65	17	58	36	4	0	59	1.17
27308951--27309088	30	4.7	30	78	12	126	38	2	0	58	1.13
27309000--27309088	39	2.3	40	77	11	96	40	2	0	57	1.11
27311869--27311916	20	2.4	20	85	0	69	18	31	12	37	1.88
27313694--27313873	50	3.5	50	81	7	175	27	21	28	22	1.99
27321670--27321702	15	2.3	15	89	5	50	51	6	15	27	1.66

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