genome.fa.s3.2.7.7.80.10.50.1000.58.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  58  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)
17406799--17407056	70	3.7	70	94	2	423	40	5	5	48	1.50
17406799--17407056	139	1.9	140	90	4	423	40	5	5	48	1.50
17407160--17407282	19	7.5	19	67	32	106	48	14	0	36	1.44
17407145--17407282	47	2.9	47	100	0	276	49	14	0	36	1.44
17407179--17407273	28	3.7	28	76	23	127	48	14	0	36	1.44
17407321--17407680	126	2.8	126	97	1	677	44	15	4	36	1.67
17407403--17407590	41	4.5	43	68	19	137	47	14	3	34	1.62
17407621--17407723	9	12.3	9	75	15	105	44	19	2	33	1.65
17407157--17407721	16	34.7	16	67	17	169	45	15	3	35	1.64
17413860--17414080	42	5.2	42	72	12	148	24	16	28	31	1.96
17413748--17414057	129	2.4	130	85	4	396	26	17	26	29	1.97
17414582--17414655	31	2.4	32	88	4	107	20	22	8	48	1.75
17414720--17414826	54	1.9	56	85	10	150	41	6	12	40	1.68
17425064--17425211	43	3.4	44	77	6	140	24	15	29	30	1.96
17425230--17425455	43	5.2	43	79	10	255	26	27	23	22	1.99
17425229--17425480	87	2.9	85	79	9	267	26	27	22	23	1.99
17425523--17425561	14	2.8	14	100	0	78	43	12	15	28	1.83
17430370--17430396	4	6.8	4	100	0	54	22	0	0	77	0.76
17431703--17432237	109	4.9	109	91	0	851	29	17	18	34	1.94
17435436--17435460	12	2.1	12	100	0	50	24	36	24	16	1.94
17435621--17435775	9	16.6	9	85	7	193	36	32	9	21	1.85
17435621--17435775	29	5.5	27	88	6	193	36	32	9	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17435782--17435879	17	5.4	17	64	13	52	51	12	3	33	1.55
17435776--17435888	37	3.1	37	94	1	192	48	13	4	33	1.62
17435929--17435987	24	2.5	24	94	0	100	30	27	0	42	1.56
17445949--17445973	8	3.1	8	100	0	50	40	0	0	60	0.97
17446078--17446130	27	2.0	27	100	0	106	60	7	11	20	1.55
17446365--17446416	20	2.7	19	76	5	68	61	17	9	11	1.55
17446885--17446933	18	2.6	19	83	6	55	24	18	18	38	1.93
17447451--17447515	21	3.2	20	75	12	60	73	0	24	1	0.91
17447467--17447518	6	8.8	6	75	12	54	76	0	21	1	0.87
17447851--17447897	22	2.1	22	100	0	94	12	19	8	59	1.58
17448793--17449289	132	3.8	131	87	2	649	29	19	23	27	1.98
17448795--17449272	44	10.9	44	67	15	166	30	19	23	26	1.98
17449274--17449965	99	7.0	99	87	1	947	30	22	22	24	1.99
17449274--17449965	199	3.5	198	87	2	985	30	22	22	24	1.99
17449274--17449953	299	2.3	299	89	1	1026	30	22	22	24	1.99
17449904--17450028	66	1.9	66	84	1	169	33	19	20	26	1.96
17451647--17451674	3	9.3	3	100	0	56	32	0	0	67	0.91
17452206--17452632	109	3.9	109	89	1	653	31	16	18	33	1.93
17453575--17453645	30	2.4	30	97	0	133	47	15	12	23	1.80
17457507--17457582	21	3.8	20	74	10	75	34	2	2	60	1.24
17457507--17457582	19	3.8	20	76	11	77	34	2	2	60	1.24
17457498--17457572	38	1.9	39	89	7	118	29	2	4	64	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17457498--17457762	9	27.7	9	67	21	87	31	1	3	63	1.22
17457680--17457761	10	8.7	10	70	24	63	28	1	1	69	1.03
17457673--17457732	28	2.1	28	81	6	68	28	1	0	70	0.97
17457693--17457753	21	3.0	20	88	4	79	24	1	1	72	1.03
17458198--17458237	19	2.0	21	85	9	57	42	2	2	52	1.28
17469100--17469168	3	24.3	3	73	24	53	30	4	1	63	1.22
17469101--17469168	11	5.8	11	74	19	50	30	4	1	63	1.23
17469121--17469169	17	2.9	16	77	16	55	32	2	2	63	1.17
17469175--17469217	21	2.0	21	86	0	59	32	11	2	53	1.50
17470834--17470865	17	1.9	16	93	6	55	56	21	6	15	1.62
17471716--17471740	12	2.1	12	100	0	50	8	16	0	76	1.02
17473860--17473971	41	2.7	41	87	0	161	20	27	16	35	1.94
17477319--17477431	32	3.5	32	86	6	156	37	9	8	44	1.69
17482253--17482696	51	8.7	51	76	5	382	30	14	25	29	1.95
17482252--17482702	102	4.4	102	87	1	586	30	14	25	29	1.95
17483599--17483661	5	12.6	5	82	0	72	41	0	33	25	1.56
17483856--17483983	40	3.2	40	78	1	114	32	21	24	21	1.98
17483873--17484006	40	3.4	39	75	6	101	35	21	21	20	1.96
17484043--17484160	41	2.9	41	93	0	209	19	22	27	29	1.98
17485193--17485335	7	20.6	7	68	16	59	22	0	38	38	1.59
17485193--17485268	33	2.3	32	84	6	98	18	1	42	38	1.59
17485583--17485633	21	2.5	20	81	9	57	21	0	43	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17489308--17489350	9	4.8	9	77	11	52	11	13	9	65	1.48
17491203--17491389	43	4.4	43	83	0	232	24	20	25	30	1.98
17492929--17492964	18	1.9	19	88	5	56	44	0	22	33	1.53
17493080--17493110	16	2.0	15	93	6	53	51	12	9	25	1.70
17493359--17493395	15	2.4	16	86	9	58	67	0	0	32	0.91
17495507--17495552	18	2.7	16	83	12	56	26	0	2	71	0.97
17495508--17495560	17	3.1	17	83	2	61	22	0	3	73	0.99
17496447--17496498	24	2.2	24	92	0	86	30	15	21	32	1.94
17507522--17507586	3	21.7	3	78	12	71	32	1	1	64	1.12
17507522--17507582	27	2.3	27	85	5	79	32	1	1	63	1.13
17514353--17514474	42	2.8	44	80	7	124	31	26	16	25	1.96
17514558--17514635	33	2.5	32	81	12	90	46	15	3	34	1.64
17517341--17517397	18	3.1	18	76	16	62	68	3	3	24	1.21
17517537--17517612	29	2.6	29	82	4	89	44	5	2	47	1.39
17518838--17518880	17	2.5	17	92	0	68	32	0	18	48	1.48
17523889--17523971	25	3.4	25	71	5	71	45	19	15	19	1.85
17528337--17528530	105	1.9	101	84	6	255	28	23	14	32	1.94
17530636--17530687	26	2.1	23	86	10	68	75	7	3	13	1.17
17532789--17532821	6	5.7	6	92	3	50	54	0	45	0	0.99
17538591--17538635	19	2.2	20	84	7	56	57	11	11	20	1.63
17539466--17540036	113	5.0	114	86	2	765	25	23	24	26	2.00
17539466--17540036	227	2.5	226	86	3	779	25	23	24	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17540259--17540297	15	2.7	15	84	4	53	20	0	35	43	1.52
17540205--17540302	22	4.6	21	72	9	72	24	2	26	46	1.63
17540309--17540387	14	5.5	15	71	15	51	21	0	32	45	1.52
17540334--17540388	13	3.8	14	76	13	58	20	0	32	47	1.50
17540348--17540387	20	2.0	20	85	5	53	20	0	30	50	1.49
17540679--17540753	22	3.4	21	73	12	53	24	0	41	34	1.55
17540681--17540744	14	4.5	14	75	11	58	23	0	40	35	1.55
17540664--17540768	21	5.0	21	72	6	79	22	0	40	35	1.61
17543405--17543542	49	3.0	46	67	22	117	42	3	5	49	1.42
17543559--17543659	21	4.4	23	69	21	61	39	7	3	48	1.51
17543523--17543734	69	3.1	69	86	0	298	44	6	4	44	1.49
17543901--17543953	19	2.8	19	85	0	70	43	1	0	54	1.11
17543901--17543963	19	3.3	18	78	8	54	42	3	0	53	1.16
17545873--17545946	21	3.6	21	78	8	80	37	20	39	2	1.67
17546263--17546393	42	3.1	42	82	1	136	25	23	20	29	1.99
17550233--17550300	31	2.2	31	84	5	84	47	8	7	36	1.63
17550642--17550688	21	2.2	22	81	11	53	38	4	4	53	1.40
17551153--17551192	21	1.9	21	89	0	62	55	12	7	25	1.63
17551847--17551886	2	20.0	2	89	0	62	52	2	0	45	1.14
17554302--17554349	26	1.9	26	83	8	64	31	10	8	50	1.66
17558441--17558540	34	2.9	34	85	2	139	32	10	13	45	1.76
17563722--17563756	17	2.0	18	88	5	54	11	42	31	14	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17568116--17568143	14	2.0	14	100	0	56	64	0	0	35	0.94
17568293--17568348	29	2.0	28	82	3	67	44	5	10	39	1.62
17571286--17571472	83	2.2	81	83	4	230	42	13	9	35	1.76
17572405--17572477	28	2.5	30	85	12	91	61	4	1	32	1.23
17572427--17572485	28	2.1	28	81	9	68	64	3	1	30	1.20
17580779--17580814	18	2.0	18	94	0	63	52	0	38	8	1.32
17582656--17582969	162	1.9	163	95	1	569	35	14	16	33	1.88
17586427--17586522	45	2.1	46	86	7	133	43	7	3	45	1.47
17593543--17593584	3	14.3	3	85	5	59	64	2	2	30	1.19
17594883--17595805	44	20.7	45	73	9	558	27	23	19	30	1.98

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