genome.fa.s3.2.7.7.80.10.50.1000.111.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  111  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)
34432852--34432908	21	2.7	23	73	15	59	38	36	1	22	1.65
34432927--34432959	14	2.3	15	94	5	59	36	33	0	30	1.58
34433624--34433686	30	2.1	30	90	0	99	57	15	1	25	1.48
34433716--34433758	22	2.0	22	85	0	59	55	9	13	20	1.66
34434052--34434167	60	2.0	60	91	3	191	28	9	16	45	1.78
34434811--34434861	23	2.2	24	82	3	59	33	1	23	41	1.66
34436595--34436632	19	2.0	19	89	0	58	10	0	44	44	1.38
34460570--34460672	30	3.4	29	70	15	84	48	2	9	38	1.51
34460539--34460672	60	2.2	61	89	1	198	46	2	12	38	1.55
34471307--34471362	26	2.1	27	83	9	71	33	8	1	55	1.42
34471650--34471847	107	1.9	107	93	0	342	30	19	20	30	1.97
34473319--34473365	19	2.5	19	86	6	60	25	19	10	44	1.82
34476091--34476125	10	3.5	10	88	11	54	82	0	11	5	0.82
34476547--34476606	13	4.5	13	76	2	57	76	3	16	3	1.05
34476558--34476606	26	1.9	25	87	4	71	75	4	16	4	1.11
34476942--34477137	108	1.8	108	86	2	286	25	17	10	46	1.80
34477610--34478017	44	9.3	44	78	3	385	29	14	25	30	1.95
34477611--34478017	131	3.1	131	93	0	688	29	14	25	30	1.95
34478065--34478581	99	5.2	100	80	7	561	30	21	21	26	1.98
34478065--34478581	199	2.6	198	90	1	802	30	21	21	26	1.98
34480762--34480959	107	1.9	107	90	0	315	31	19	18	30	1.96
34482586--34482632	16	2.9	16	84	9	51	48	6	27	17	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34482607--34482637	16	1.9	16	93	0	53	48	3	29	19	1.64
34494606--34494637	15	2.1	15	100	0	64	43	12	9	34	1.75
34500565--34501006	104	4.3	104	85	0	562	28	24	18	28	1.98
34500565--34501006	207	2.1	208	86	0	598	28	24	18	28	1.98
34509656--34509737	42	2.0	42	95	0	146	37	15	10	35	1.83
34509749--34509793	14	3.2	14	84	6	56	40	15	11	33	1.83
34512868--34512903	2	18.0	2	100	0	72	50	0	0	50	1.00
34515317--34515367	6	8.3	6	91	4	84	15	19	0	64	1.29
34518709--34518753	20	2.2	20	92	0	72	24	15	13	46	1.82
34518709--34518761	20	2.7	20	88	2	63	30	13	13	43	1.82
34522772--34522832	11	5.6	11	83	16	83	42	1	0	55	1.09
34522772--34522825	19	2.6	19	86	13	72	46	0	0	53	1.00
34531620--34531647	12	2.3	12	100	0	56	57	10	14	17	1.65
34533295--34533362	29	2.3	30	92	7	120	30	20	10	38	1.86
34537302--34537339	20	1.9	20	89	10	60	31	7	0	60	1.25
34537676--34537711	15	2.2	17	90	9	58	2	13	0	83	0.76
34537673--34537712	20	2.0	20	85	9	55	2	15	0	82	0.77
34540729--34540859	12	10.5	12	82	13	158	19	1	0	78	0.83
34540736--34540859	18	6.8	17	84	12	126	19	0	0	79	0.77
34540781--34540859	6	13.2	6	100	0	158	16	0	0	83	0.65
34541204--34541244	15	2.6	16	84	11	57	60	9	4	24	1.47
34543866--34543908	13	3.2	13	75	12	50	39	2	9	48	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34555338--34555401	32	2.0	32	100	0	128	25	15	34	25	1.95
34555527--34555590	24	2.6	24	80	14	69	32	6	20	40	1.77
34556136--34556185	25	2.0	26	88	4	75	44	0	6	50	1.26
34564878--34564962	35	2.4	35	96	0	152	61	12	7	18	1.54
34576235--34576295	13	4.7	13	85	0	86	40	26	1	31	1.66
34578273--34578330	24	2.4	25	82	5	66	43	8	0	48	1.34
34578804--34578831	2	14.0	2	100	0	56	50	0	0	50	1.00
34579276--34579308	5	6.6	5	92	0	57	24	0	39	36	1.56
34579607--34579669	29	2.2	29	83	11	76	46	14	19	20	1.84
34582423--34582503	31	2.6	31	78	5	85	49	11	13	25	1.75
34583273--34583336	3	21.3	3	100	0	128	65	0	34	0	0.93
34588821--34589322	154	3.3	153	88	4	714	29	11	7	50	1.66
34588821--34589322	155	3.3	149	87	5	679	29	11	7	50	1.66
34589710--34589738	13	2.2	13	100	0	58	0	37	0	62	0.96
34589768--34589829	27	2.3	27	85	0	88	6	37	32	24	1.81
34591392--34591440	22	2.2	22	78	7	55	28	12	0	59	1.34
34592855--34593105	125	2.0	122	94	2	439	37	21	12	28	1.89
34605518--34605571	9	5.8	9	84	4	54	22	35	3	38	1.72
34605518--34605564	10	4.9	10	82	7	53	25	31	4	38	1.75
34608631--34608669	14	2.8	14	88	7	53	46	0	2	51	1.14
34611444--34611482	20	2.0	20	85	10	53	30	5	2	61	1.31
34617750--34617850	3	33.3	3	66	9	53	37	4	2	54	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34617792--34617832	6	6.8	6	100	0	82	48	0	0	51	1.00
34629325--34629417	48	1.9	48	84	6	125	66	1	7	24	1.24
34629657--34629742	21	4.1	21	72	11	68	32	3	3	60	1.30
34629874--34629918	23	2.0	23	86	0	63	51	6	2	40	1.41
34648520--34648568	23	2.2	22	89	10	73	42	0	30	26	1.55
34648613--34648661	19	2.6	18	78	18	55	48	4	22	24	1.67
34651870--34651903	15	2.2	16	89	5	52	26	0	17	55	1.42
34652797--34652991	98	2.0	98	91	0	318	28	10	24	36	1.89
34653399--34653429	7	4.4	7	100	0	62	70	0	12	16	1.16
34654675--34654988	134	2.3	134	84	1	396	38	13	15	32	1.86
34654874--34655096	99	2.3	99	86	3	313	39	12	15	32	1.84
34654761--34655205	233	1.9	232	87	2	651	40	12	15	32	1.85
34654993--34655622	134	4.7	134	81	2	710	37	12	17	32	1.87
34654680--34655354	366	1.8	367	85	0	949	38	12	15	32	1.86
34655014--34655622	268	2.3	267	84	0	797	37	12	17	32	1.87
34665923--34666031	41	2.7	41	92	0	182	22	28	20	28	1.99
34666017--34666163	41	3.6	41	89	3	217	33	22	17	26	1.96
34666373--34666405	2	17.0	2	93	6	59	48	0	0	51	1.00
34666496--34666904	196	2.1	193	91	3	658	41	14	5	38	1.68
34667880--34667904	13	1.9	13	100	0	50	40	24	4	32	1.73
34677006--34677311	84	3.6	84	80	0	290	20	10	35	33	1.87
34678360--34678398	20	2.0	20	100	0	78	30	20	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34679555--34679585	13	2.4	13	94	0	53	61	3	0	35	1.12
34679666--34679781	37	3.1	37	87	0	151	18	20	11	50	1.77
34679783--34679869	37	2.4	37	78	3	95	18	24	14	42	1.88
34685960--34686019	13	4.5	13	85	2	84	36	21	1	40	1.64
34685960--34686044	39	2.1	41	82	10	104	36	22	2	38	1.67
34699419--34699481	32	2.0	32	87	0	90	36	3	14	46	1.61
34703011--34703052	21	1.9	22	85	9	59	71	0	4	23	1.05
34706607--34706654	23	2.1	23	84	7	62	18	33	20	27	1.96
34706619--34706683	25	2.7	24	79	9	69	20	26	23	30	1.98
34706740--34706803	25	2.6	25	85	9	78	25	28	17	29	1.97
34707612--34707657	21	2.0	21	84	16	56	17	8	28	45	1.78
34721715--34721818	43	2.5	42	80	13	135	73	0	4	21	1.08
34721757--34721816	7	8.3	7	74	18	52	76	1	3	18	1.00
34729759--34729802	22	2.0	22	100	0	88	27	13	22	36	1.92
34731225--34731270	14	3.5	13	82	11	58	41	2	4	52	1.33
34731225--34731277	13	4.0	12	83	11	52	45	1	3	49	1.31
34731743--34731791	18	2.7	18	75	15	55	71	0	2	26	0.97
34736010--34736046	10	3.6	10	88	3	56	70	0	29	0	0.88
34741134--34741814	318	2.2	318	91	1	1120	30	9	7	52	1.63
34741130--34741815	160	4.4	151	73	16	509	30	9	7	52	1.63
34742124--34742282	41	4.0	41	80	11	172	0	30	0	68	0.99
34742188--34742286	31	3.1	32	80	12	123	0	31	1	67	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34742200--34742279	36	2.3	35	91	2	124	0	30	1	68	0.97
34742203--34742286	28	2.9	28	81	13	89	0	30	1	67	0.98
34748599--34748770	73	2.4	73	87	2	240	26	23	23	26	2.00
34748670--34749436	114	6.7	114	89	0	1124	25	22	25	26	2.00
34749445--34749525	41	2.0	42	90	2	128	17	18	34	29	1.94
34750055--34750095	21	2.0	20	85	4	55	19	0	41	39	1.52
34750751--34751020	137	2.0	137	95	1	488	44	13	14	27	1.83
34750985--34751197	110	2.0	109	90	3	340	50	12	11	26	1.73
34751107--34751273	90	1.9	90	94	2	300	49	10	10	29	1.70
34754740--34755044	43	7.2	42	84	4	344	25	18	28	28	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