genome.fa.s6.2.7.7.80.10.50.1000.148.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   

This is table  148  of  168  ( 20060 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)
43710003--43710061	24	2.5	24	88	0	91	44	0	25	30	1.55
43710111--43710208	17	5.4	17	66	13	61	33	3	13	50	1.57
43710127--43710191	20	3.4	19	69	14	62	35	4	15	44	1.67
43710102--43710214	37	3.1	37	96	1	201	33	4	14	47	1.64
43710215--43710360	9	15.6	9	86	5	184	23	8	30	36	1.85
43713360--43713395	2	18.0	2	100	0	72	50	0	0	50	1.00
43717739--43717802	13	4.9	13	84	0	83	32	7	23	35	1.84
43717965--43718030	28	2.2	30	82	12	84	42	1	1	54	1.18
43717965--43718025	30	2.1	28	85	11	79	42	1	1	54	1.20
43719891--43720009	41	3.1	41	61	22	96	57	14	5	22	1.56
43719859--43720021	72	2.3	71	89	3	247	57	12	4	25	1.56
43720454--43720519	18	3.7	18	91	0	105	39	10	15	34	1.82
43722408--43722464	25	2.4	24	88	5	80	52	19	26	1	1.55
43723531--43723591	22	2.8	22	82	5	70	21	24	16	37	1.93
43725248--43725289	18	2.3	19	84	12	61	59	0	4	35	1.19
43725371--43725408	14	2.5	16	87	8	53	47	5	7	39	1.55
43733690--43733724	15	2.2	16	90	5	54	54	20	0	25	1.45
43734546--43734615	29	2.3	30	76	11	72	28	10	15	45	1.78
43738395--43738451	22	2.6	21	81	8	60	36	0	1	61	1.07
43739359--43739755	121	3.2	123	89	3	577	31	16	20	30	1.95
43740898--43741018	49	2.5	49	94	0	215	42	9	2	44	1.51
43741438--43741480	18	2.4	18	88	0	59	44	9	27	18	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43743238--43743272	13	2.8	12	91	8	61	60	0	0	40	0.97
43743328--43743390	11	5.7	11	75	20	60	46	1	28	23	1.62
43743330--43743390	22	2.8	22	87	5	88	45	1	29	22	1.62
43743328--43743390	33	1.9	33	87	6	92	46	1	28	23	1.62
43748341--43748419	31	2.5	31	87	0	113	54	0	6	39	1.26
43748642--43748682	20	2.0	21	95	4	75	14	14	19	51	1.77
43761716--43761832	50	2.3	50	82	0	153	22	30	18	28	1.97
43783166--43783200	9	4.1	8	89	10	52	34	0	2	62	1.10
43783564--43783620	19	3.0	18	76	7	60	38	0	1	59	1.08
43783566--43783634	9	7.4	9	76	11	68	36	0	1	62	1.04
43783564--43783635	19	3.8	20	72	17	57	37	0	1	61	1.05
43788743--43788799	21	2.6	22	72	13	55	33	1	1	63	1.15
43792147--43792674	264	2.0	262	87	3	758	39	11	17	32	1.84
43792666--43792725	29	2.1	29	96	0	111	41	11	28	18	1.85
43793136--43793189	28	2.0	28	85	3	74	46	5	14	33	1.68
43793808--43793875	26	2.7	26	86	6	95	16	26	25	32	1.96
43793803--43793883	26	3.2	25	78	7	83	17	24	24	33	1.96
43796450--43796519	25	2.8	25	76	6	72	18	22	24	34	1.96
43796426--43796567	74	1.9	73	84	7	189	17	23	23	35	1.95
43796400--43796580	24	7.3	25	72	12	106	17	23	23	35	1.95
43809786--43809865	29	2.9	26	77	14	79	33	3	2	60	1.28
43810087--43810666	238	2.4	239	82	3	711	28	16	23	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43810490--43810882	212	1.8	213	85	2	558	26	16	25	31	1.96
43814551--43814575	13	1.9	13	100	0	50	88	0	0	12	0.53
43816115--43816155	19	2.2	19	86	8	57	78	0	4	17	0.93
43820061--43820123	23	2.9	22	73	19	60	55	1	0	42	1.09
43821133--43821183	22	2.3	21	75	15	50	11	11	1	74	1.15
43822049--43822188	67	2.1	66	84	5	176	25	9	5	60	1.50
43822875--43823159	124	2.3	124	93	0	498	32	18	20	29	1.96
43826317--43826581	49	5.4	49	97	0	476	47	7	4	40	1.51
43828836--43828922	11	8.3	11	65	19	51	42	3	31	22	1.70
43828812--43828911	51	2.0	51	86	4	139	44	3	28	25	1.69
43828873--43828922	22	2.3	22	86	6	66	40	4	34	22	1.72
43834198--43834253	23	2.4	23	87	0	67	10	26	26	35	1.89
43835259--43835306	24	2.0	24	87	0	69	43	25	6	25	1.77
43837773--43837806	2	17.0	2	100	0	68	50	0	0	50	1.00
43840131--43840173	20	2.2	20	100	0	86	48	9	9	32	1.67
43840136--43840181	20	2.3	20	92	0	74	47	8	13	30	1.72
43842367--43842416	23	2.2	23	88	0	73	22	12	4	62	1.46
43842539--43842577	20	1.9	21	85	15	55	43	10	10	35	1.73
43843808--43843896	45	2.0	45	95	0	160	35	4	6	52	1.48
43843824--43843899	21	3.5	21	68	16	64	38	5	3	52	1.43
43846757--43846782	6	4.3	6	100	0	52	0	15	34	50	1.45
43854462--43854492	6	5.2	6	100	0	62	16	16	51	16	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43856784--43856808	6	4.2	6	100	0	50	0	36	0	64	0.94
43859640--43859706	34	1.9	35	87	3	100	31	8	14	44	1.76
43867705--43867784	27	3.0	27	94	0	133	27	28	30	13	1.94
43867941--43867975	3	11.7	3	100	0	70	34	0	0	65	0.93
43867941--43868085	12	11.8	12	67	15	55	35	0	7	55	1.33
43868704--43868748	18	2.5	18	77	0	54	31	4	44	20	1.71
43871445--43871578	27	5.0	27	92	0	205	16	27	29	26	1.97
43871637--43871706	28	2.5	29	88	4	108	52	1	7	38	1.38
43877164--43877208	18	2.6	18	86	10	58	64	2	0	33	1.06
43879815--43879856	13	2.9	14	80	13	50	54	0	0	45	0.99
43879819--43879855	16	2.3	16	86	13	58	59	0	0	40	0.97
43879874--43879944	15	4.6	15	72	16	56	49	0	1	49	1.09
43880769--43880801	17	1.9	17	88	11	50	54	0	3	42	1.15
43882116--43882161	24	1.9	24	90	0	74	36	4	8	50	1.53
43882940--43883030	40	2.3	37	80	14	101	35	18	25	20	1.96
43882956--43883038	40	2.1	40	86	4	114	38	16	22	21	1.93
43883074--43883226	41	3.7	42	84	7	181	19	22	24	33	1.97
43884170--43884211	18	2.2	19	87	8	59	78	0	7	14	0.95
43884218--43884284	20	3.2	21	73	14	59	44	7	0	47	1.31
43884232--43884286	23	2.5	22	80	8	60	49	7	0	43	1.30
43885206--43885249	23	1.9	23	100	0	88	11	0	29	59	1.32
43886920--43886952	16	2.1	16	100	0	66	51	0	18	30	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43887016--43887084	9	8.1	9	76	20	60	44	15	0	39	1.47
43887051--43887083	16	2.1	16	100	0	66	45	24	0	30	1.53
43893498--43893637	66	2.1	66	81	7	169	40	17	26	15	1.89
43893633--43893725	21	4.4	21	86	0	123	34	17	44	4	1.68
43894055--43894282	43	5.3	43	76	6	174	23	18	29	28	1.98
43894054--43894212	86	1.9	85	85	1	219	26	17	28	27	1.98
43894099--43894267	86	2.0	86	81	4	198	22	18	30	28	1.97
43894326--43894457	43	3.1	43	80	4	149	32	33	16	17	1.93
43897326--43897393	34	2.0	35	82	8	86	42	2	2	51	1.32
43919230--43919342	46	2.5	46	90	5	180	27	25	14	32	1.94
43919319--43919366	15	3.3	14	77	8	51	20	31	6	41	1.77
43929199--43929478	124	2.3	124	87	4	404	30	15	22	32	1.95
43932696--43933068	29	12.7	29	77	12	226	35	1	24	38	1.64
43932698--43932840	61	2.4	59	85	8	175	34	2	27	34	1.72
43932843--43933060	29	7.8	29	87	7	281	37	0	21	40	1.57
43932847--43933009	57	2.8	58	94	2	285	39	0	20	39	1.52
43932847--43933009	86	1.9	86	93	2	283	39	0	20	39	1.52
43932947--43933091	23	5.8	23	74	17	110	34	0	23	41	1.60
43932976--43933091	23	4.8	23	80	12	142	32	0	24	42	1.61
43933227--43933275	21	2.3	21	85	0	71	6	20	30	42	1.76
43935451--43935677	41	5.5	41	96	1	402	24	27	21	26	1.99
43935449--43935731	123	2.3	123	87	4	394	26	25	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43942827--43943053	41	5.5	41	96	1	402	24	27	21	26	1.99
43942825--43943107	123	2.3	123	87	4	394	26	25	20	27	1.99
43945406--43945439	15	2.3	15	90	5	52	67	5	0	26	1.13
43945678--43945747	22	3.2	22	78	15	74	35	2	28	32	1.72
43951672--43951719	22	2.3	21	80	20	57	43	14	22	18	1.87
43953891--43954247	41	8.8	41	88	3	467	20	21	28	29	1.98
43953892--43954247	123	2.9	122	88	2	518	20	21	28	29	1.98
43960438--43960526	42	2.1	42	83	8	110	22	13	30	33	1.92
43960415--43960643	116	2.0	117	92	0	388	26	11	25	36	1.90
43960567--43960879	43	7.3	42	87	2	358	20	19	32	26	1.97

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168