genome.fa.s3.2.7.7.80.10.50.1000.138.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  138  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)
41584247--41584396	67	2.2	69	90	3	232	40	18	22	19	1.92
41585083--41585119	14	2.8	13	88	8	56	43	5	13	37	1.67
41585378--41585543	35	4.8	35	84	4	212	19	22	16	40	1.91
41585378--41585543	67	2.4	69	85	4	228	19	22	16	40	1.91
41588351--41588395	20	2.1	23	88	12	69	13	8	8	68	1.38
41592709--41592745	14	2.8	13	88	8	56	43	5	13	37	1.67
41593003--41593178	35	5.1	35	86	4	241	18	21	17	42	1.89
41593003--41593178	67	2.6	69	88	3	266	18	21	17	42	1.89
41593293--41593757	47	9.9	47	93	0	795	32	11	15	39	1.84
41594081--41594123	2	21.5	2	90	0	68	46	2	2	48	1.27
41595792--41596454	331	2.0	331	99	0	1317	38	15	12	33	1.85
41596955--41596987	17	2.0	16	94	5	57	51	0	0	48	1.00
41603712--41603745	18	1.9	18	94	5	61	55	0	0	44	0.99
41603700--41603792	44	2.1	45	86	8	127	51	2	3	43	1.29
41611244--41611276	16	2.1	16	100	0	66	0	27	12	60	1.32
41620568--41620597	2	15.0	2	100	0	60	50	0	0	50	1.00
41623779--41623828	22	2.4	20	80	6	55	42	8	2	48	1.44
41624618--41624647	15	2.0	15	93	0	51	40	3	13	43	1.60
41624878--41624912	2	17.5	2	100	0	70	51	0	0	48	1.00
41625151--41625177	4	6.8	4	100	0	54	77	0	0	22	0.76
41632274--41632300	3	9.0	3	100	0	54	66	0	0	33	0.92
41634243--41634279	2	18.5	2	100	0	74	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41639895--41639946	22	2.5	22	78	15	56	48	0	3	48	1.20
41646254--41646301	22	2.2	22	96	0	87	35	14	25	25	1.94
41655718--41655791	29	2.5	30	86	4	96	22	10	13	52	1.71
41656540--41656631	20	4.6	20	71	15	57	43	7	6	42	1.59
41656864--41656920	20	2.9	20	78	2	62	43	5	12	38	1.65
41656898--41656985	20	4.4	19	73	12	70	32	6	15	44	1.73
41656899--41656986	39	2.2	41	82	8	101	32	6	15	44	1.73
41657042--41657106	20	3.2	20	82	0	76	40	13	13	32	1.85
41659892--41659916	13	1.9	13	100	0	50	4	16	0	80	0.87
41671972--41672011	11	3.6	11	82	0	53	57	2	12	27	1.48
41672015--41672052	11	3.5	11	85	3	51	68	15	13	2	1.32
41672870--41672914	21	2.1	22	83	4	56	33	0	4	62	1.15
41675062--41675107	23	2.0	24	82	4	58	32	26	0	41	1.56
41676009--41676039	16	1.9	16	93	0	53	54	0	3	41	1.16
41676140--41676232	47	2.0	47	83	12	120	47	1	1	50	1.15
41680040--41680065	13	2.0	13	100	0	52	61	0	0	38	0.96
41680783--41680841	21	2.8	22	76	7	59	15	13	10	61	1.57
41687143--41687182	21	1.9	21	85	10	55	50	0	2	47	1.14
41689544--41689569	12	2.2	12	100	0	52	30	7	19	42	1.79
41694762--41694808	21	2.2	21	88	7	69	31	42	2	23	1.66
41698961--41699006	3	15.3	3	100	0	92	32	32	0	34	1.58
41703022--41703179	74	2.1	74	92	1	264	23	12	10	53	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41707072--41707097	13	2.0	13	100	0	52	15	0	0	84	0.62
41713195--41713224	15	2.0	15	93	0	51	46	3	16	33	1.64
41713801--41713858	25	2.2	26	87	9	91	20	18	20	39	1.92
41713808--41713858	25	2.0	25	96	0	93	21	19	19	39	1.93
41714983--41715022	9	4.4	9	87	0	62	27	10	20	42	1.83
41715526--41715569	18	2.4	18	76	23	56	54	11	9	25	1.65
41725337--41725366	3	10.0	3	100	0	60	66	0	0	33	0.92
41725462--41725533	21	3.3	21	69	7	63	40	4	5	50	1.45
41725459--41725549	44	2.1	44	89	2	139	43	4	6	45	1.50
41730203--41730261	31	1.9	31	89	0	91	45	6	6	40	1.57
41746322--41746365	4	11.0	4	100	0	88	50	25	0	25	1.50
41752687--41752748	10	5.9	10	78	12	54	56	0	1	41	1.09
41752712--41752820	10	10.5	10	72	16	62	56	0	2	40	1.13
41752723--41752830	31	3.2	31	72	20	99	59	0	1	38	1.08
41752686--41752861	82	2.1	82	86	12	245	58	0	2	38	1.13
41752692--41752810	51	2.3	53	78	7	122	59	0	2	37	1.11
41752755--41752829	31	2.4	31	93	4	125	60	0	2	37	1.11
41752686--41752870	41	4.5	41	82	10	184	59	0	2	37	1.12
41755384--41755436	25	2.1	25	85	0	70	15	28	20	35	1.93
41755417--41755524	25	4.4	25	73	5	76	21	25	21	32	1.98
41760516--41760574	26	2.3	25	85	8	75	11	15	1	71	1.23
41760727--41760792	13	5.1	13	80	7	80	31	6	22	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41760983--41761038	24	2.3	24	73	11	60	51	1	3	42	1.29
41769001--41769281	46	6.6	46	78	16	336	28	21	14	35	1.93
41769091--41769245	36	4.0	36	78	15	184	27	20	15	36	1.93
41769045--41769281	82	2.9	82	94	0	411	28	20	14	36	1.92
41773513--41773556	23	1.9	23	90	0	70	27	2	25	45	1.65
41786328--41786392	29	2.2	31	83	10	82	44	3	4	47	1.39
41788282--41788336	11	5.3	10	79	14	51	74	0	21	3	0.97
41789029--41789163	66	2.0	66	98	0	261	34	14	21	28	1.93
41793345--41793479	66	2.1	65	91	1	216	41	11	14	31	1.83
41798334--41798425	31	2.8	32	81	17	100	70	0	29	0	0.87
41798320--41798425	38	2.7	39	81	11	121	68	0	31	0	0.89
41798320--41798420	40	2.7	38	82	8	111	68	0	31	0	0.90
41798958--41798987	16	1.9	16	93	6	53	73	0	0	26	0.84
41798750--41799217	155	3.0	154	79	13	580	50	7	10	31	1.64
41804482--41804518	10	3.6	10	88	3	56	0	29	0	70	0.88
41810829--41810881	17	3.1	16	77	20	54	13	1	3	81	0.92
41811565--41811602	20	1.9	20	88	0	58	31	0	0	68	0.90
41811715--41811780	27	2.4	27	90	5	89	18	16	37	27	1.92
41812718--41813095	190	2.0	190	98	0	729	42	10	13	33	1.79
41813416--41813541	28	4.5	28	90	0	180	30	11	26	30	1.92
41813713--41813761	2	25.0	2	95	4	91	51	0	0	48	1.00
41814298--41814833	23	23.1	23	72	9	329	27	13	18	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41814298--41814822	93	5.6	93	93	0	881	27	14	18	39	1.89
41817597--41817995	160	2.5	160	90	5	619	57	10	7	25	1.58
41817636--41817933	43	7.3	42	64	15	151	55	10	8	25	1.61
41817597--41817995	81	5.0	80	90	6	594	57	10	7	25	1.58
41818383--41818425	18	2.4	17	77	11	50	4	39	25	30	1.76
41818398--41818427	12	2.5	12	94	0	51	3	40	30	26	1.72
41819279--41820616	457	3.0	454	89	7	2221	29	24	22	24	1.99
41819718--41820565	426	2.0	431	95	0	1519	28	24	22	24	1.99
41821130--41821169	18	2.4	16	88	12	55	70	5	2	22	1.19
41821160--41821192	16	2.1	16	88	5	50	57	12	0	30	1.35
41821193--41821471	103	2.7	103	85	7	370	55	16	0	27	1.46
41821669--41821785	60	2.0	60	94	1	209	54	13	0	31	1.39
41822285--41822350	24	2.7	25	74	9	64	59	1	1	37	1.16
41823276--41823335	30	2.0	30	83	6	77	36	1	3	58	1.25
41834033--41834072	20	2.0	20	90	0	62	27	10	12	50	1.72
41834018--41834084	34	1.9	35	90	3	109	31	8	13	46	1.74
41837050--41837181	64	2.1	64	97	0	246	37	16	20	25	1.93
41858284--41858317	15	2.3	15	94	0	59	52	2	5	38	1.41
41858352--41858403	3	17.3	3	100	0	104	67	0	0	32	0.91
41863242--41863277	18	1.9	18	88	5	54	25	5	22	47	1.73
41864610--41864670	29	2.1	28	81	3	68	26	13	14	45	1.81
41864884--41864913	12	2.5	12	100	0	60	26	30	0	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41864896--41865003	51	2.1	51	92	0	180	29	27	0	42	1.56
41866119--41866143	7	3.6	7	100	0	50	28	0	12	60	1.32
41866793--41866827	18	1.9	18	88	0	52	25	34	8	31	1.86
41867209--41867321	35	3.2	35	64	16	88	39	2	13	44	1.58
41867209--41867391	71	2.6	71	91	0	294	38	2	13	44	1.58
41867393--41867445	23	2.7	18	75	25	61	50	20	0	28	1.48
41867400--41867476	23	3.1	23	80	20	100	45	25	0	28	1.54
41867415--41867500	29	3.0	29	100	0	172	45	27	0	26	1.54
41869168--41869392	123	1.8	123	93	0	387	32	20	16	32	1.94
41870831--41870886	23	2.4	23	81	3	67	37	8	16	37	1.80

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