genome.fa.s3.2.7.7.80.10.50.1000.117.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  117  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)
36085553--36085586	6	5.7	6	92	0	50	64	0	20	14	1.28
36085734--36085808	27	2.8	27	80	6	82	45	8	17	29	1.77
36086226--36086260	17	2.1	17	100	0	70	34	17	14	34	1.90
36092505--36092599	47	2.0	47	93	0	163	45	7	12	34	1.70
36106855--36106888	17	1.9	17	88	5	50	67	0	2	29	1.05
36113203--36113236	17	1.9	18	88	5	52	67	5	2	23	1.26
36113413--36113481	3	23.7	3	75	16	65	65	2	2	28	1.22
36127588--36127628	19	2.2	19	86	0	55	31	4	2	60	1.30
36131531--36131572	12	3.6	12	87	3	50	64	2	0	33	1.07
36133735--36134044	42	7.5	42	86	2	380	29	22	19	29	1.98
36140655--36141104	227	2.0	227	93	0	767	34	15	20	30	1.93
36145912--36145990	25	3.2	25	77	13	90	20	30	16	32	1.94
36152598--36152641	21	2.1	21	100	0	88	18	13	27	40	1.88
36154785--36154836	26	2.0	26	88	7	79	50	1	3	44	1.31
36154785--36154859	25	2.9	27	82	9	86	46	1	2	49	1.24
36159432--36159507	32	2.5	31	83	10	93	32	2	9	55	1.46
36159446--36159507	32	1.9	32	90	6	99	33	3	11	51	1.54
36160043--36160091	21	2.4	20	80	12	55	40	2	2	55	1.23
36160124--36160191	32	2.1	32	86	5	93	60	2	1	35	1.21
36164525--36164555	14	2.2	14	100	0	62	61	0	0	38	0.96
36165562--36165641	10	7.5	11	69	16	51	53	0	5	41	1.22
36166529--36166576	22	2.2	22	88	0	69	72	6	2	18	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36166739--36166776	2	19.0	2	100	0	76	50	0	0	50	1.00
36166889--36166967	38	2.1	36	84	9	97	29	5	1	64	1.22
36166890--36167001	28	4.0	28	76	16	74	26	3	3	66	1.25
36181873--36181960	45	2.0	45	81	0	104	22	25	11	40	1.87
36185058--36185216	85	1.9	84	86	1	228	33	13	10	43	1.77
36190191--36190236	14	3.2	14	82	14	58	26	0	0	73	0.83
36190447--36190499	17	3.1	16	76	15	52	47	3	0	49	1.19
36199134--36199165	2	16.0	2	100	0	64	50	0	50	0	1.00
36200057--36200097	20	2.0	21	85	9	57	34	0	4	60	1.18
36200649--36200681	3	11.0	3	100	0	66	33	0	0	66	0.92
36201289--36201329	17	2.4	17	100	0	82	19	26	29	24	1.98
36204809--36205052	90	2.7	90	80	1	292	26	24	15	33	1.95
36210562--36210605	15	2.8	17	86	13	67	45	2	0	52	1.13
36212146--36212195	13	3.8	13	83	0	73	40	26	2	32	1.67
36212146--36212198	26	2.0	26	92	0	88	39	26	3	30	1.74
36227818--36227842	9	2.8	9	100	0	50	68	0	20	12	1.21
36231354--36231384	16	1.9	16	93	0	53	74	9	6	9	1.23
36232347--36232421	19	3.8	19	89	6	114	37	8	16	38	1.78
36232348--36232410	21	3.1	21	93	4	103	38	7	14	39	1.75
36232400--36232444	23	2.0	22	86	4	63	40	2	17	40	1.62
36232410--36232454	23	2.0	23	82	4	56	35	2	15	46	1.58
36238095--36238170	24	3.2	24	79	1	73	53	10	3	31	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36242020--36242121	47	2.2	47	98	0	195	46	7	14	31	1.73
36243442--36243479	18	2.1	18	85	9	51	44	5	15	34	1.69
36245288--36245316	2	14.5	2	100	0	58	51	0	0	48	1.00
36245846--36245877	2	16.0	2	100	0	64	50	0	0	50	1.00
36249203--36249260	21	2.9	21	74	5	57	43	15	25	15	1.86
36261020--36261177	67	2.4	67	94	0	271	29	24	22	22	1.99
36266442--36266471	15	2.0	15	93	0	51	3	13	0	83	0.77
36271763--36271818	29	1.9	29	89	7	87	23	16	19	41	1.90
36275940--36275972	12	2.7	12	95	4	57	36	30	12	21	1.90
36278013--36278129	62	1.9	59	86	5	162	41	4	4	49	1.42
36281276--36281364	42	2.1	42	97	0	169	37	24	7	30	1.84
36281482--36281620	49	2.8	48	90	4	206	33	25	15	26	1.95
36282802--36282877	23	3.3	23	92	0	125	30	25	21	23	1.99
36284811--36284883	19	3.6	19	68	20	58	53	4	2	39	1.34
36291700--36291746	15	3.1	15	81	0	58	55	0	14	29	1.40
36294790--36294860	35	2.0	35	97	0	133	38	15	9	36	1.81
36298623--36298661	9	4.2	9	80	6	51	43	0	0	56	0.99
36298625--36298735	22	5.8	18	70	18	82	36	1	0	61	1.07
36298620--36298751	50	2.7	47	73	18	117	37	1	0	61	1.05
36298624--36298735	39	2.8	40	89	5	174	36	1	0	61	1.06
36298653--36298706	28	1.9	28	81	7	65	35	3	0	61	1.14
36298622--36298720	11	9.8	11	71	24	67	37	2	0	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36298669--36298751	21	4.1	21	71	18	77	37	1	0	61	1.04
36298714--36298758	20	2.2	20	84	7	56	35	0	0	64	0.94
36298713--36298758	21	2.2	20	88	3	65	34	0	0	65	0.93
36298625--36298758	39	3.4	39	80	9	123	37	1	0	61	1.05
36299186--36299219	6	5.7	6	100	0	68	67	14	0	17	1.23
36299104--36299319	116	1.8	117	83	7	287	47	6	5	39	1.54
36299443--36299498	20	2.6	22	83	5	71	44	3	3	48	1.37
36300189--36300250	26	2.3	27	83	2	90	43	1	3	51	1.27
36300290--36300393	49	2.1	48	92	5	174	25	4	9	59	1.49
36300451--36300508	26	2.1	28	87	6	84	44	0	5	50	1.24
36305932--36305982	23	2.2	23	89	0	75	27	7	21	43	1.80
36306851--36306923	28	2.6	28	91	0	110	26	26	23	24	2.00
36307299--36307815	27	19.2	27	84	3	560	17	18	20	44	1.87
36313970--36314037	32	2.1	32	100	0	136	36	8	13	41	1.75
36314180--36314220	20	2.0	21	90	4	66	46	0	17	36	1.48
36314265--36314425	47	3.4	47	86	1	216	30	13	21	34	1.91
36315574--36315615	21	2.0	21	90	0	66	30	4	19	45	1.71
36315925--36315956	3	11.0	3	93	6	57	0	0	31	68	0.90
36319588--36319628	3	14.0	3	89	5	66	2	31	0	65	1.05
36319888--36320055	56	3.0	57	80	10	184	39	6	33	20	1.78
36319889--36320055	57	2.9	56	79	7	185	40	6	32	20	1.78
36320069--36320126	30	1.9	30	92	0	98	41	1	29	27	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36325567--36325612	22	2.1	22	100	0	92	21	36	8	32	1.84
36328921--36329131	96	2.2	98	93	5	356	42	12	17	27	1.85
36329073--36329239	53	3.2	53	95	0	291	48	9	11	30	1.71
36329073--36329236	52	3.1	52	94	1	283	48	9	11	29	1.71
36331719--36332196	98	4.7	100	84	10	581	31	17	14	36	1.91
36331719--36332172	206	2.2	204	84	9	586	32	18	15	34	1.92
36338940--36338970	16	1.9	16	93	0	53	48	9	6	35	1.62
36343830--36343871	8	5.2	8	86	8	59	0	26	0	73	0.83
36361786--36361909	43	2.9	43	80	9	153	19	16	29	33	1.94
36375054--36375270	38	5.7	38	79	3	186	35	27	13	23	1.93
36375054--36375242	75	2.5	76	78	0	182	37	27	12	22	1.91
36376766--36376836	26	2.8	26	84	2	99	35	7	23	33	1.82
36384431--36384470	19	2.1	19	95	0	71	32	15	35	17	1.91
36394544--36394579	19	1.9	19	88	5	56	58	2	2	36	1.27
36407839--36407866	11	2.5	11	100	0	56	21	28	0	50	1.49
36409667--36409703	18	2.1	18	89	0	56	21	27	5	45	1.73
36411853--36411930	27	2.9	27	100	0	156	14	25	33	26	1.94
36411909--36412064	33	4.6	33	69	23	126	18	17	27	35	1.94
36411880--36412168	103	2.8	102	89	2	438	18	20	29	31	1.96
36411776--36412030	130	2.0	130	92	1	431	18	19	30	31	1.95
36415170--36415519	123	2.8	125	84	2	454	33	20	16	30	1.94
36419220--36419284	22	2.9	22	80	14	71	33	4	4	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36426172--36426397	45	5.1	45	76	6	235	27	17	26	28	1.97
36426319--36426475	44	3.6	44	69	3	118	24	21	27	26	1.99
36426138--36426457	88	3.6	88	79	1	370	25	19	26	28	1.98
36426402--36427029	132	4.8	130	86	0	815	28	19	25	25	1.99
36426397--36427029	264	2.4	264	87	1	903	29	20	25	25	1.99
36430116--36430412	89	3.3	89	87	3	402	26	23	24	25	2.00
36430187--36430409	45	5.0	45	63	15	122	26	23	24	25	2.00
36430560--36431029	173	2.7	172	81	3	509	32	20	19	28	1.96
36432417--36432528	23	4.8	23	75	12	86	32	7	4	56	1.47
36432442--36432564	45	2.7	47	80	10	123	34	6	2	56	1.39

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