genome.fa.s3.2.7.7.80.10.50.1000.60.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  60  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)
17923158--17923260	49	2.1	50	87	5	147	32	16	7	43	1.76
17925407--17925523	25	4.7	25	84	4	146	29	23	22	25	1.99
17932017--17932087	3	22.7	3	77	5	61	64	5	2	26	1.29
17933394--17934135	99	7.5	94	79	10	402	23	20	24	31	1.98
17933526--17933662	49	2.9	47	70	8	132	23	19	25	31	1.98
17933647--17933677	15	2.1	15	93	0	53	19	19	19	41	1.90
17933700--17934135	50	8.8	50	71	8	273	22	19	24	33	1.97
17933663--17934135	99	4.8	98	87	4	605	22	19	24	33	1.97
17933662--17934135	197	2.4	196	85	4	614	22	20	24	33	1.97
17934439--17934527	44	2.0	44	95	0	160	37	23	12	26	1.90
17936989--17937016	13	2.2	13	100	0	56	0	21	28	50	1.49
17952159--17952196	16	2.4	16	90	0	58	34	2	34	28	1.71
17952548--17952581	17	2.1	17	88	5	52	58	0	0	41	0.98
17960182--17960234	27	2.0	26	92	3	88	13	22	33	30	1.92
17960285--17960337	27	2.0	26	92	3	88	13	22	33	30	1.92
17960104--17960369	103	2.6	104	93	1	446	19	19	29	31	1.96
17966002--17966236	59	4.0	59	94	2	391	53	9	4	31	1.54
17968027--17968212	41	4.5	41	92	0	309	27	19	29	23	1.99
17969480--17969536	10	5.8	10	73	19	57	70	1	1	26	1.07
17969479--17969539	29	2.1	28	85	8	79	72	1	1	24	1.03
17970267--17970347	26	3.2	25	81	11	87	37	1	4	56	1.29
17970301--17970364	26	2.5	25	82	9	76	37	3	3	56	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17972652--17972715	31	2.1	31	91	5	103	29	3	0	67	1.06
17972659--17972714	18	3.3	18	67	25	50	30	1	0	67	1.01
17974628--17974748	59	2.1	59	95	0	215	33	4	7	55	1.47
17982815--17982854	20	2.0	21	85	5	55	57	5	27	10	1.52
17983249--17983293	21	2.1	22	84	12	58	60	0	2	37	1.09
17983252--17983294	16	2.6	16	82	14	52	55	0	2	41	1.12
17986385--17986529	25	5.9	24	78	11	134	32	20	24	22	1.98
17986369--17986530	49	3.3	48	86	5	207	32	20	24	23	1.98
17986416--17986529	24	4.6	25	81	11	128	32	21	24	21	1.98
17988168--17988206	21	1.9	21	89	5	62	25	23	23	28	1.99
17991993--17992049	28	2.0	28	80	12	64	38	3	8	49	1.51
17993417--17993498	42	2.0	42	90	4	130	14	37	26	20	1.92
17996935--17996972	3	12.7	3	100	0	76	65	0	0	34	0.93
17997492--17997528	18	2.1	18	100	0	74	27	27	10	35	1.90
18003272--18003321	21	2.4	21	93	0	82	40	14	26	20	1.90
18004666--18004714	25	2.0	25	91	0	80	22	24	20	32	1.98
18005974--18006053	29	2.7	27	78	17	81	45	6	12	36	1.67
18011540--18011861	47	7.0	47	86	8	405	43	15	13	27	1.84
18011560--18011719	22	6.8	24	73	18	124	43	15	13	26	1.84
18011628--18011861	85	2.6	85	91	6	351	44	15	12	27	1.83
18011588--18011851	132	2.0	132	93	0	456	43	15	13	27	1.84
18012796--18012893	28	3.6	27	74	12	92	27	28	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18016146--18016199	21	2.5	22	76	8	67	22	1	5	70	1.18
18019583--18019628	21	2.2	21	92	0	74	41	4	28	26	1.74
18021659--18021856	30	6.6	30	76	11	138	39	12	25	22	1.89
18021775--18021854	29	2.7	30	82	5	99	41	11	26	21	1.86
18021636--18021911	120	2.3	121	82	2	342	39	14	23	22	1.91
18022984--18023013	12	2.5	12	94	0	51	23	43	26	6	1.78
18023117--18023301	86	2.2	86	90	0	289	20	28	27	24	1.99
18029183--18029248	29	2.3	29	84	5	89	37	13	24	24	1.91
18029240--18029433	30	6.4	30	75	13	157	40	11	25	22	1.87
18029183--18029463	120	2.4	119	84	3	370	39	13	24	22	1.90
18029275--18029462	60	3.1	58	68	16	150	39	13	24	22	1.90
18029426--18029481	29	1.9	29	85	0	76	35	16	23	25	1.94
18037440--18037543	37	2.8	39	81	8	110	38	1	4	54	1.33
18037483--18037531	25	1.9	26	84	12	66	42	2	6	48	1.39
18037522--18037639	62	2.0	62	83	5	152	44	3	3	49	1.36
18044118--18044166	8	6.2	8	78	4	55	18	10	16	55	1.69
18044105--18044159	23	2.4	23	90	0	83	21	10	14	52	1.72
18044172--18044217	25	1.9	23	82	8	56	15	15	21	47	1.81
18052009--18052050	22	1.9	22	90	0	66	33	0	7	59	1.25
18053563--18053647	43	2.0	43	97	0	161	25	10	42	21	1.85
18059023--18060242	406	3.0	406	93	0	2066	26	21	16	35	1.94
18063181--18063224	18	2.4	18	88	0	61	6	4	22	65	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18063200--18063261	21	2.9	21	85	2	70	14	9	16	59	1.60
18064103--18064178	9	8.2	9	72	17	50	63	3	0	32	1.13
18064103--18064144	21	2.0	20	86	13	59	64	2	0	33	1.07
18064136--18064186	27	2.0	26	85	14	72	62	3	0	33	1.13
18064184--18064256	32	2.3	33	81	11	89	54	5	1	38	1.32
18064235--18064273	12	3.1	13	85	14	55	69	0	2	28	1.02
18064259--18064312	20	2.8	19	72	8	56	62	1	3	31	1.23
18064733--18064773	21	1.9	22	90	5	66	29	9	0	60	1.28
18064801--18064840	21	1.9	21	84	0	53	35	2	10	52	1.48
18064862--18064894	17	2.0	17	94	5	59	39	0	0	60	0.97
18065231--18065288	27	2.2	27	93	3	100	24	1	0	74	0.92
18066552--18066604	26	2.0	26	96	0	97	67	0	3	28	1.07
18066553--18066631	26	3.1	23	80	14	77	64	0	3	31	1.11
18072009--18072298	44	6.7	43	74	14	170	28	24	20	26	1.99
18072088--18072383	84	3.5	84	74	8	299	28	22	20	27	1.99
18072056--18072449	173	2.3	173	88	3	589	28	24	19	27	1.99
18072056--18072426	44	8.6	43	72	8	229	29	23	20	26	1.99
18072392--18072581	44	4.3	44	70	8	109	25	25	18	30	1.98
18077764--18078047	142	2.0	142	96	0	523	23	28	13	34	1.92
18087333--18087382	10	5.0	10	77	0	55	62	2	2	34	1.18
18087596--18087715	20	6.0	19	73	17	100	39	4	3	53	1.37
18087596--18087715	41	3.0	39	78	8	125	39	4	3	53	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18088438--18088979	272	2.0	273	88	2	811	28	13	14	43	1.82
18089095--18089125	11	2.8	11	90	0	53	67	0	0	32	0.91
18090557--18090628	36	2.0	36	86	5	101	34	16	20	27	1.95
18090648--18090720	23	3.3	23	67	21	64	21	27	6	43	1.78
18091514--18091601	44	2.0	44	90	0	140	46	4	11	37	1.60
18098687--18098761	38	2.0	38	89	0	114	30	38	1	29	1.66
18104984--18105288	82	3.7	82	89	0	432	33	23	16	25	1.96
18104984--18105292	41	7.5	41	84	4	381	33	23	16	25	1.96
18105311--18105351	2	20.5	2	100	0	82	48	0	0	51	1.00
18108052--18108171	57	2.1	58	89	6	190	27	20	7	45	1.78
18114464--18114598	29	4.6	29	79	0	135	22	17	10	49	1.76
18114458--18114598	58	2.4	59	84	1	176	23	16	9	50	1.75
18115633--18115733	37	2.7	37	78	0	103	31	5	17	44	1.73
18116341--18116398	28	2.0	29	86	6	82	29	15	3	51	1.60
18117276--18117339	23	2.9	21	84	11	83	21	29	0	48	1.51
18117280--18117353	11	6.7	11	73	15	55	25	29	0	44	1.54
18119142--18119184	18	2.4	18	84	0	50	18	25	9	46	1.79
18121908--18121987	39	2.1	39	100	0	160	25	10	22	42	1.84
18125236--18125526	50	5.8	50	87	1	379	27	21	28	21	1.99
18129032--18129317	125	2.3	126	92	4	472	29	19	18	32	1.96
18129360--18129677	96	3.2	94	83	7	359	38	17	2	40	1.63
18129431--18129685	96	2.6	97	88	1	361	40	16	2	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18129683--18129712	8	3.8	8	90	0	51	50	46	0	3	1.18
18129685--18129748	27	2.3	29	86	5	87	45	45	0	9	1.36
18134727--18134944	86	2.5	85	77	8	235	37	20	10	31	1.87
18135017--18135060	17	2.4	18	81	11	54	52	0	2	45	1.13
18135035--18135108	37	2.0	37	86	2	105	58	1	4	36	1.26
18135241--18135297	20	2.9	20	74	12	55	29	7	5	57	1.47
18135309--18135393	16	4.9	17	71	12	57	28	1	2	68	1.09
18135309--18135381	17	4.2	18	77	20	57	28	1	1	68	1.06
18135308--18135375	9	7.6	9	76	12	68	27	1	1	69	1.06
18135461--18135692	94	2.5	90	75	14	242	36	9	17	35	1.83

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