genome.fa.s6.2.7.7.80.10.50.1000.128.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  128  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)
37237285--37237330	24	1.9	24	91	8	76	58	0	0	41	0.98
37237765--37237808	20	2.2	19	84	8	52	38	0	2	59	1.10
37246472--37246627	82	1.9	81	82	3	197	32	16	9	41	1.81
37249589--37249636	23	2.1	23	100	0	96	39	25	16	18	1.91
37258400--37258469	28	2.5	27	73	15	70	45	31	4	18	1.69
37258400--37258473	14	5.3	14	69	18	55	47	31	4	17	1.66
37258452--37258557	49	2.2	49	79	5	117	39	38	4	16	1.70
37264338--37264371	16	2.1	16	88	0	50	64	0	2	32	1.08
37266324--37266406	36	2.2	37	91	4	132	33	2	38	25	1.69
37266721--37266780	22	2.8	22	70	5	61	36	18	6	38	1.77
37267029--37267070	21	1.9	22	85	9	59	40	7	0	52	1.29
37267947--37267987	14	2.9	14	85	10	57	46	7	12	34	1.69
37269187--37269230	2	22.0	2	100	0	88	50	0	0	50	1.00
37269671--37269773	41	2.5	41	88	0	143	27	26	20	26	1.99
37269671--37269787	41	2.8	40	79	5	119	28	26	20	24	1.99
37271190--37271243	15	3.3	15	74	18	54	44	0	1	53	1.11
37271173--37271248	34	2.4	31	73	16	82	47	3	1	47	1.29
37275332--37275437	41	2.6	41	100	0	212	21	20	25	32	1.98
37275332--37275449	41	2.9	41	96	2	202	22	20	27	30	1.98
37275428--37275537	41	2.7	41	88	0	166	28	18	28	25	1.98
37275332--37275490	82	1.9	82	81	5	187	23	20	27	28	1.99
37283187--37283292	41	2.6	41	98	0	203	21	19	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37283187--37283304	41	2.9	41	94	2	193	22	19	27	31	1.98
37283283--37283392	41	2.7	41	91	0	175	27	19	28	25	1.98
37285025--37285156	58	2.2	59	86	4	176	26	19	6	46	1.75
37288113--37288181	32	2.2	32	94	0	120	26	14	11	47	1.78
37288207--37288236	13	2.2	14	94	5	53	30	36	13	20	1.90
37289819--37289887	28	2.4	29	80	4	77	66	4	2	26	1.24
37290956--37290994	14	2.7	15	88	4	53	35	10	20	33	1.86
37291201--37291272	20	3.8	20	68	22	57	44	0	1	54	1.08
37291568--37291612	20	2.2	21	88	4	65	40	0	2	57	1.11
37291671--37291711	18	2.3	18	95	0	73	24	24	26	24	2.00
37295878--37296906	207	5.0	206	88	2	1463	31	16	15	37	1.89
37305306--37305351	21	2.1	21	84	8	56	39	0	4	56	1.19
37307060--37307387	50	6.6	50	85	2	417	21	31	21	25	1.98
37307060--37307387	149	2.2	151	88	1	471	21	31	21	25	1.98
37311178--37311268	41	2.2	41	86	3	121	24	26	20	28	1.99
37318513--37318656	41	3.5	41	87	1	173	19	30	20	29	1.97
37320402--37320427	13	2.0	13	100	0	52	53	7	7	30	1.57
37322788--37323190	108	3.7	108	89	6	634	33	19	16	30	1.94
37322766--37323190	219	2.0	217	90	4	660	33	19	17	30	1.94
37325488--37325746	46	5.8	46	71	13	193	27	21	20	29	1.98
37325448--37326286	44	19.0	43	67	14	214	27	22	19	30	1.98
37325546--37325815	87	3.1	85	73	11	285	29	22	18	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37325451--37326286	175	4.7	175	76	10	772	27	22	19	30	1.98
37325897--37326055	85	1.9	85	89	0	246	30	20	18	31	1.96
37325955--37326223	134	2.0	134	96	0	493	27	21	19	30	1.98
37326165--37326282	46	2.6	44	85	2	155	27	22	21	28	1.99
37337834--37338150	109	2.9	106	87	5	463	33	18	16	30	1.94
37338886--37338935	27	1.9	27	84	15	70	60	0	6	34	1.21
37341038--37341138	51	2.0	50	96	1	184	7	28	5	57	1.51
37341038--37341136	24	4.0	24	85	7	144	8	29	5	57	1.49
37348174--37348285	26	4.3	26	90	0	152	33	17	8	39	1.81
37351443--37351468	7	3.7	7	100	0	52	26	15	26	30	1.96
37352686--37352738	26	2.0	26	96	0	97	30	9	28	32	1.88
37360511--37360579	25	2.6	27	79	6	79	18	23	23	34	1.96
37365751--37365791	21	1.9	21	95	5	73	75	4	0	19	0.98
37374506--37374608	10	9.9	10	79	10	57	62	0	1	35	1.07
37374505--37374658	32	5.0	32	71	13	108	63	0	2	33	1.08
37374505--37374608	11	9.9	11	73	14	60	61	0	1	36	1.07
37374511--37374649	52	2.7	51	86	6	192	64	0	2	32	1.08
37374505--37374631	42	3.1	40	79	8	121	62	0	2	34	1.08
37374564--37374658	41	2.3	42	92	3	158	67	0	3	29	1.06
37384043--37384090	24	2.0	24	100	0	96	20	8	33	37	1.83
37399153--37399221	31	2.2	31	82	10	79	53	7	8	30	1.59
37403859--37403993	18	8.0	17	71	19	95	39	1	2	57	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37404157--37404245	46	2.0	44	86	4	124	35	29	5	29	1.80
37404227--37404279	16	3.3	16	86	0	70	24	30	5	39	1.78
37405124--37406294	398	3.0	394	92	1	1961	28	18	28	24	1.98
37408966--37409005	18	2.2	18	86	8	55	37	0	2	60	1.11
37414000--37414031	2	16.0	2	100	0	64	50	0	0	50	1.00
37432461--37432492	16	2.0	16	93	0	55	28	6	25	40	1.79
37433771--37433883	25	4.5	25	82	4	111	22	18	23	36	1.95
37438363--37438394	13	2.5	13	94	0	55	75	12	12	0	1.06
37438346--37438417	30	2.4	30	77	9	74	73	5	19	1	1.10
37441063--37441099	16	2.3	16	95	0	65	40	5	32	21	1.76
37441081--37441173	44	2.1	44	84	9	118	31	4	27	36	1.76
37441958--37441988	15	2.1	15	100	0	62	61	0	6	32	1.21
37442250--37442294	22	2.0	24	86	8	67	60	4	4	31	1.37
37442238--37442302	22	2.6	25	72	18	64	58	3	6	32	1.38
37442275--37442319	18	2.4	18	81	3	54	62	0	4	33	1.15
37443033--37443068	15	2.4	15	90	9	56	5	13	5	75	1.17
37443468--37443597	18	7.0	18	67	19	79	53	4	0	40	1.27
37443462--37443612	47	3.2	46	66	17	121	52	3	1	42	1.28
37443466--37443666	94	2.1	94	96	1	368	52	4	1	41	1.32
37443560--37443790	117	2.0	117	97	1	437	52	4	1	41	1.31
37443679--37443713	18	2.0	17	94	5	61	57	2	0	40	1.14
37443562--37443744	56	3.2	54	72	21	174	50	4	1	43	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37443588--37443765	56	3.1	55	70	21	166	51	5	1	42	1.34
37443571--37443774	61	3.4	60	74	10	213	51	5	1	41	1.33
37444670--37444799	39	3.4	37	82	13	163	30	2	0	66	1.04
37444745--37444797	9	5.7	9	76	8	52	24	0	0	75	0.80
37444745--37444802	19	3.1	19	73	7	55	29	0	0	70	0.87
37446500--37446525	13	2.0	13	100	0	52	69	15	15	0	1.20
37452018--37452196	89	2.0	89	100	0	358	55	7	12	24	1.63
37453434--37453498	29	2.2	30	81	8	80	50	10	10	27	1.70
37458777--37459022	122	2.0	122	99	0	483	28	8	19	42	1.82
37462184--37462235	19	2.7	18	80	16	52	42	1	3	51	1.31
37466676--37466717	21	2.0	21	85	0	57	35	28	2	33	1.70
37469932--37469992	20	3.3	19	78	15	56	21	6	0	72	1.07
37469939--37469980	20	2.1	20	86	8	59	19	7	0	73	1.05
37483947--37484005	26	2.3	26	82	2	75	62	3	3	30	1.28
37485421--37485477	29	2.0	29	85	0	78	24	15	28	31	1.96
37495127--37495180	26	2.0	27	85	3	74	42	16	9	31	1.80
37502938--37503029	45	2.0	46	95	2	168	40	6	17	35	1.75
37510820--37510859	20	2.0	20	85	5	53	62	5	22	10	1.46
37512076--37512121	19	2.4	19	85	10	58	41	0	6	52	1.27
37523190--37523223	16	2.1	16	89	10	52	38	17	0	44	1.49
37526355--37526419	25	2.6	25	82	4	69	23	30	12	33	1.91
37526385--37526475	25	3.6	25	82	5	76	26	27	14	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37526404--37526501	50	2.0	49	81	2	115	26	28	15	29	1.96
37526403--37526506	25	4.2	24	77	9	93	25	28	16	29	1.97
37526403--37526519	25	4.7	24	76	9	92	24	28	17	29	1.97
37529373--37529408	18	2.0	18	88	0	54	30	2	2	63	1.22
37536185--37536233	24	2.0	25	88	4	73	46	0	2	51	1.12
37537227--37537290	21	3.1	20	71	13	58	21	21	23	32	1.98
37544765--37544856	35	2.7	35	91	1	150	44	0	15	40	1.46
37544951--37545218	126	2.1	126	84	4	344	37	16	16	30	1.90
37546820--37546924	40	2.6	40	95	0	183	35	25	19	20	1.95
37547011--37547203	41	4.7	40	89	3	269	24	22	24	27	2.00

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