genome.fa.s6.2.7.7.80.10.50.1000.165.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  165  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)
49674492--49674535	20	2.2	20	84	8	54	70	6	0	22	1.11
49674483--49674530	19	2.6	18	74	9	51	72	4	0	22	1.01
49677730--49677775	21	2.2	21	88	0	65	41	15	21	21	1.90
49682513--49683075	105	5.4	104	84	1	615	28	23	15	32	1.95
49697743--49697768	12	2.2	12	100	0	52	50	0	15	34	1.45
49697783--49697857	29	2.5	31	85	12	95	49	2	4	44	1.35
49701206--49701250	23	1.9	24	82	13	58	35	4	11	48	1.59
49712948--49712980	17	1.9	17	93	0	57	33	6	12	48	1.65
49715864--49715914	3	17.0	3	95	0	93	64	0	1	33	1.05
49716663--49716728	11	6.4	11	78	18	63	37	3	0	59	1.13
49716671--49716743	21	3.6	21	75	14	82	38	2	0	58	1.12
49716661--49716740	39	2.1	39	95	4	144	40	2	0	57	1.12
49716711--49716753	21	2.0	21	81	4	50	37	2	4	55	1.33
49716732--49716764	17	1.9	17	88	11	50	45	0	12	42	1.41
49719057--49719276	105	2.1	105	80	1	244	30	20	13	34	1.92
49723103--49723130	14	2.0	14	100	0	56	21	7	21	50	1.72
49726329--49726395	30	2.2	31	84	5	84	58	0	5	35	1.23
49727199--49727247	18	2.7	18	80	0	62	30	10	16	42	1.81
49727529--49727575	17	2.8	17	83	0	58	44	17	6	31	1.73
49733312--49733365	27	2.0	27	100	0	108	48	7	3	40	1.49
49733320--49733378	27	2.2	27	84	6	75	49	10	3	37	1.54
49734374--49734424	24	2.1	24	85	0	66	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49743983--49744145	80	2.0	81	87	5	233	39	14	7	37	1.76
49745603--49745667	31	2.1	31	85	0	85	36	15	9	38	1.79
49771692--49771728	18	2.1	18	89	0	56	21	32	0	45	1.52
49780392--49780475	38	2.3	35	77	16	89	41	1	3	53	1.26
49781242--49781289	13	3.3	15	80	14	55	27	0	0	72	0.84
49781240--49781302	29	2.2	29	85	5	83	31	1	0	66	1.01
49783888--49784333	219	2.0	220	99	0	885	47	16	7	28	1.73
49784212--49784611	195	2.0	198	86	5	560	49	16	9	24	1.75
49785158--49785189	11	3.1	11	86	13	50	53	0	0	46	1.00
49785155--49785210	17	3.2	17	75	22	53	46	0	1	51	1.11
49789430--49789465	2	18.0	2	100	0	72	0	50	0	50	1.00
49790968--49791082	36	3.1	38	71	16	107	34	6	2	56	1.38
49791692--49791756	22	3.1	22	63	24	59	46	3	18	32	1.65
49791674--49791756	40	2.1	40	100	0	166	45	4	16	32	1.69
49792497--49792559	31	2.0	31	87	0	90	38	17	15	28	1.91
49795922--49796135	110	1.9	110	94	0	374	27	26	17	29	1.97
49805975--49806005	9	3.4	9	95	0	53	38	25	9	25	1.86
49806004--49806078	37	2.0	37	89	0	114	44	13	5	37	1.66
49806208--49806285	38	2.0	39	95	2	140	17	2	28	51	1.59
49806266--49806290	13	1.9	13	100	0	50	12	0	48	40	1.40
49811745--49811791	23	2.0	23	83	4	58	61	0	6	31	1.21
49812555--49812607	24	2.3	23	78	12	56	50	3	1	43	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49821770--49821842	34	2.1	34	92	5	121	43	0	0	56	0.99
49821819--49821871	24	2.1	27	89	10	85	24	3	0	71	1.02
49823544--49823606	30	2.1	31	96	3	119	66	6	6	20	1.36
49823807--49823906	42	2.4	42	93	0	164	24	27	29	20	1.99
49823839--49823906	19	3.4	19	67	21	57	22	27	29	20	1.98
49836328--49837452	270	4.0	281	84	10	1376	45	18	12	24	1.83
49840677--49840736	31	1.9	32	86	3	86	56	0	5	38	1.21
49843064--49843108	24	1.9	23	90	4	72	31	0	15	53	1.43
49843064--49843119	23	2.5	24	85	8	73	30	0	21	48	1.51
49843889--49843915	11	2.5	11	100	0	54	74	7	0	18	1.05
49848644--49848677	16	2.1	16	88	0	50	38	0	17	44	1.49
49851270--49851330	29	2.1	30	81	3	70	32	9	19	37	1.85
49856815--49856873	19	3.0	19	82	9	57	59	3	0	37	1.14
49856836--49856880	17	2.6	17	83	16	58	60	0	0	40	0.97
49863548--49863573	2	13.0	2	100	0	52	50	0	0	50	1.00
49867253--49867304	26	2.0	26	96	0	95	50	17	15	17	1.79
49878972--49879414	142	3.2	135	81	6	421	27	14	21	37	1.92
49878948--49879414	135	3.4	133	79	9	476	26	14	22	37	1.92
49879814--49880003	95	2.0	95	98	0	371	30	15	18	35	1.92
49882338--49882390	21	2.5	21	96	0	97	22	24	30	22	1.99
49895367--49895404	19	2.0	19	100	0	76	36	15	15	31	1.90
49898184--49898283	52	1.9	52	100	0	200	35	13	23	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49904959--49905002	18	2.4	18	85	7	54	34	4	0	61	1.16
49942819--49942976	54	2.9	54	87	0	235	37	24	13	24	1.92
49946124--49946174	24	2.1	25	86	13	72	39	0	7	52	1.30
49948874--49948955	42	2.0	42	90	0	128	32	17	14	35	1.90
49965161--49965363	107	1.9	107	83	0	262	42	10	11	34	1.76
49966124--49966203	24	3.3	24	78	0	79	18	55	7	18	1.66
49966225--49966337	18	6.3	18	75	0	73	28	49	12	9	1.72
49966250--49966366	12	9.8	12	77	0	90	28	51	11	8	1.68
49966244--49966373	24	5.4	24	75	0	116	28	53	10	7	1.63
49966220--49966366	42	3.5	42	78	0	132	27	51	11	10	1.70
49966262--49966372	30	3.7	30	77	0	123	27	52	11	8	1.66
49966294--49966337	6	7.3	6	94	0	61	31	45	15	6	1.73
49966333--49966534	78	2.6	78	97	0	379	21	58	9	9	1.58
49967999--49968024	2	13.0	2	100	0	52	50	0	0	50	1.00
49969584--49969639	27	2.0	29	86	6	80	53	1	0	44	1.11
49969999--49970153	58	2.7	58	88	1	229	44	19	9	26	1.81
49970399--49970436	17	2.2	17	86	9	51	10	7	5	76	1.15
49970399--49970440	18	2.4	18	81	18	54	11	9	4	73	1.22
49971273--49971388	3	35.7	3	73	20	83	31	60	4	4	1.35
49971280--49971373	18	5.6	18	83	12	112	32	59	3	4	1.33
49971273--49971355	24	3.5	24	91	0	139	33	60	3	2	1.27
49971359--49971476	42	2.8	42	78	5	121	22	60	5	11	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49971442--49971500	18	3.3	18	92	0	91	25	55	10	8	1.61
49971478--49971708	48	4.5	54	80	12	272	21	58	9	10	1.59
49971478--49971708	102	2.3	102	87	3	322	21	58	9	10	1.59
49973729--49973832	9	11.2	9	66	13	50	24	60	3	11	1.47
49973781--49973875	42	2.3	42	81	0	109	24	57	6	11	1.56
49973894--49974128	24	9.5	24	69	17	133	21	59	9	9	1.57
49973859--49974140	102	2.8	102	86	4	353	23	58	8	9	1.57
49973859--49974127	48	5.4	48	77	11	272	21	58	9	10	1.58
49985007--49985061	18	3.1	18	70	15	51	45	0	1	52	1.11
49985032--49985091	31	1.9	31	82	0	75	55	1	0	43	1.10
49985015--49985196	83	2.2	83	98	0	355	51	1	1	46	1.15
49985115--49985174	31	1.9	31	82	3	75	56	1	0	41	1.09
49985370--49985420	6	8.7	6	82	4	50	37	0	0	62	0.95
49987376--49987411	15	2.3	16	95	4	65	77	2	0	19	0.88
49988863--49988902	21	1.9	21	84	0	53	32	5	2	60	1.32
49996132--49996164	18	1.9	18	88	11	52	33	0	12	54	1.37
49996718--49996761	2	22.5	2	95	4	81	50	0	0	50	1.00
50014663--50014744	43	1.9	43	97	0	155	36	4	36	21	1.75
50019861--50019918	17	3.2	17	79	16	55	48	0	27	24	1.51
50026396--50026445	19	2.6	19	79	14	50	42	0	2	56	1.11
50027221--50027256	7	5.1	7	89	0	54	16	2	0	80	0.83
50037858--50037901	22	2.0	22	86	0	61	47	6	0	45	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50038029--50038054	13	2.0	13	100	0	52	23	7	23	46	1.78
50039569--50039616	11	4.5	10	78	14	51	18	29	2	50	1.59
50042940--50043227	125	2.3	125	92	0	468	28	20	19	31	1.97
50043396--50043425	15	1.9	16	93	6	53	50	33	3	13	1.58
50057472--50057522	17	3.1	17	75	13	52	41	0	7	50	1.31
50059794--50059849	18	3.1	18	75	12	60	51	0	3	44	1.18
50060586--50060704	60	2.0	60	89	0	184	52	12	1	32	1.49
50060838--50060891	27	2.0	27	81	0	63	20	33	29	16	1.95
50060973--50061024	21	2.5	20	72	9	50	61	0	1	36	1.07
50061415--50061460	3	15.3	3	100	0	92	32	0	0	67	0.91

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