genome.fa.s12.2.7.7.80.10.50.1000.21.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  21  of  120  ( 14336 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)
6145833--6145869	19	1.9	19	94	0	65	56	24	0	18	1.41
6145973--6146032	21	2.9	21	74	18	54	53	28	1	16	1.53
6146144--6146183	7	5.9	7	82	5	55	52	35	0	12	1.39
6146148--6146183	13	2.6	14	91	8	65	50	36	0	13	1.43
6146134--6146182	13	3.7	13	83	5	62	48	36	2	12	1.52
6146130--6146183	27	2.0	26	85	3	72	50	33	1	14	1.54
6146267--6146310	20	2.1	21	83	4	54	52	22	2	22	1.58
6146368--6146436	7	10.1	7	81	6	61	47	33	0	18	1.49
6146376--6146435	21	3.0	21	82	9	70	50	31	0	18	1.47
6155801--6155851	19	2.7	19	87	6	68	50	31	0	17	1.46
6156112--6156151	7	5.9	7	82	5	55	52	35	0	12	1.39
6156116--6156151	13	2.6	14	91	8	65	50	36	0	13	1.43
6156402--6156520	40	3.0	40	87	4	116	53	17	1	26	1.53
6156429--6156578	20	7.6	20	65	17	73	52	20	0	26	1.51
6156605--6156629	7	3.6	7	100	0	50	60	28	0	12	1.32
6156599--6156663	14	4.6	14	74	14	62	52	27	0	20	1.47
6156696--6156793	20	4.8	20	73	12	60	55	24	1	19	1.50
6157484--6157572	7	12.4	7	77	9	81	47	33	0	19	1.50
6157479--6157572	14	6.5	14	86	3	107	45	35	0	19	1.50
6157479--6157573	29	3.3	29	88	7	140	46	34	0	18	1.50
6157745--6157794	20	2.5	21	83	6	59	52	24	2	22	1.58
6157756--6157802	20	2.3	20	85	10	60	51	21	4	23	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6157901--6157944	20	2.2	20	84	8	54	54	15	0	29	1.42
6158100--6158142	20	2.2	20	83	8	52	53	23	0	23	1.46
6158118--6158210	48	1.9	48	86	0	132	53	21	2	22	1.56
6158580--6158619	7	5.9	7	82	5	55	52	35	0	12	1.39
6158584--6158619	13	2.6	14	91	8	65	50	36	0	13	1.43
6158715--6158774	28	2.2	26	80	11	66	55	18	1	25	1.52
6158810--6158869	21	3.0	21	82	9	70	50	31	0	18	1.47
6158802--6158870	7	10.1	7	81	6	61	47	33	0	18	1.49
6159836--6159860	13	1.9	13	100	0	50	64	16	0	20	1.30
6159850--6159901	7	7.4	7	77	0	50	51	28	0	19	1.47
6159818--6159897	14	6.0	13	74	11	56	53	26	0	20	1.45
6159931--6160037	15	7.3	15	86	6	148	47	31	0	20	1.50
6159948--6160036	7	12.4	7	80	9	90	47	32	0	20	1.50
6159933--6160036	14	7.2	14	86	5	120	47	32	0	20	1.50
6160303--6160349	15	3.3	15	76	11	53	48	27	4	19	1.67
6160439--6160482	20	2.2	20	84	8	54	54	15	0	29	1.42
6160638--6160680	20	2.2	20	83	8	52	53	23	0	23	1.46
6160656--6160770	48	2.4	48	83	2	142	53	21	1	23	1.56
6161276--6161335	28	2.2	26	80	11	66	55	18	1	25	1.52
6161371--6161430	21	3.0	21	82	9	70	50	31	0	18	1.47
6161363--6161431	7	10.1	7	81	6	61	47	33	0	18	1.49
6161425--6161543	40	3.0	40	88	4	125	54	17	1	26	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6161452--6161601	20	7.6	20	67	17	82	53	20	0	25	1.50
6161484--6161543	13	4.5	13	69	19	52	55	20	0	25	1.44
6161628--6161652	7	3.6	7	100	0	50	60	28	0	12	1.32
6161622--6161686	14	4.6	14	74	14	62	52	27	0	20	1.47
6161717--6161782	27	2.4	28	75	9	66	54	22	0	22	1.45
6161717--6161794	20	3.8	20	70	8	68	55	23	0	21	1.44
6161950--6162122	7	25.4	7	69	10	63	50	30	0	19	1.47
6161945--6161984	20	2.1	19	85	4	53	47	37	0	15	1.45
6161950--6162041	27	3.3	28	78	11	75	51	31	0	17	1.46
6162070--6162138	28	2.5	28	79	9	70	56	24	0	18	1.42
6162112--6162237	47	2.7	48	80	4	123	52	23	0	23	1.52
6162140--6162190	21	2.6	19	81	6	57	49	23	0	27	1.51
6162187--6162238	20	2.6	20	76	11	61	53	21	1	23	1.55
6162490--6162610	15	8.3	15	83	7	151	47	33	0	19	1.49
6162492--6162609	7	16.4	7	85	5	128	47	33	0	18	1.49
6162782--6162825	20	2.1	21	83	4	54	52	22	2	22	1.58
6162938--6162981	20	2.2	20	84	8	54	54	15	0	29	1.42
6163640--6163679	7	5.9	7	82	5	55	52	35	0	12	1.39
6163644--6163679	13	2.6	14	91	8	65	50	36	0	13	1.43
6163775--6163834	28	2.2	26	80	11	66	55	18	1	25	1.52
6163870--6163929	21	3.0	21	82	9	70	50	31	0	18	1.47
6163862--6163930	7	10.1	7	81	6	61	47	33	0	18	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6163924--6164042	40	3.0	40	88	4	125	54	17	1	26	1.52
6163951--6164100	20	7.6	20	67	17	82	53	20	0	25	1.50
6163983--6164042	13	4.5	13	69	19	52	55	20	0	25	1.44
6164127--6164151	7	3.6	7	100	0	50	60	28	0	12	1.32
6164121--6164185	14	4.6	14	74	14	62	52	27	0	20	1.47
6164216--6164281	27	2.4	28	75	9	66	54	22	0	22	1.45
6164216--6164293	20	3.8	20	70	8	68	55	23	0	21	1.44
6164449--6164621	7	25.4	7	69	10	63	50	30	0	19	1.47
6164444--6164483	20	2.1	19	85	4	53	47	37	0	15	1.45
6164449--6164540	27	3.3	28	78	11	75	51	31	0	17	1.46
6164569--6164637	28	2.5	28	79	9	70	56	24	0	18	1.42
6164611--6164710	47	2.1	48	81	5	114	52	23	1	24	1.54
6164639--6164689	21	2.6	19	81	6	57	49	23	0	27	1.51
6164938--6164962	13	1.9	13	100	0	50	64	16	0	20	1.30
6164952--6165003	7	7.4	7	77	0	50	51	28	0	19	1.47
6164920--6164999	14	6.0	13	74	11	56	53	26	0	20	1.45
6165033--6165139	15	7.3	15	85	6	139	48	32	0	18	1.49
6165035--6165139	22	4.8	22	83	6	124	48	33	0	18	1.48
6165035--6165138	7	14.4	7	83	6	109	48	33	0	18	1.48
6165335--6165376	13	2.9	14	82	13	50	47	23	4	23	1.70
6165698--6165740	20	2.2	20	83	8	52	53	23	0	23	1.46
6165716--6165830	48	2.4	48	83	2	142	53	21	1	23	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6166688--6166712	7	3.6	7	100	0	50	60	28	0	12	1.32
6166682--6166746	14	4.6	14	74	14	62	52	27	0	20	1.47
6166777--6166842	27	2.4	28	75	9	66	54	22	0	22	1.45
6166777--6166854	20	3.8	20	70	8	68	55	23	0	21	1.44
6167009--6167181	7	25.4	7	69	10	63	50	30	0	19	1.47
6167004--6167043	20	2.1	19	85	4	53	47	37	0	15	1.45
6167009--6167100	27	3.3	28	78	11	75	51	31	0	17	1.46
6167129--6167197	28	2.5	28	79	9	70	56	24	0	18	1.42
6167171--6167296	47	2.7	48	80	4	123	52	23	0	23	1.52
6167199--6167249	21	2.6	19	81	6	57	49	23	0	27	1.51
6167246--6167297	20	2.6	20	76	11	61	53	21	1	23	1.55
6167454--6167478	13	1.9	13	100	0	50	64	16	0	20	1.30
6167468--6167519	7	7.4	7	77	0	50	51	28	0	19	1.47
6167436--6167515	14	6.0	13	74	11	56	53	26	0	20	1.45
6167549--6167654	15	7.3	15	81	6	128	48	33	0	18	1.49
6167551--6167654	22	4.8	22	85	2	138	48	33	0	18	1.48
6167551--6167661	7	15.4	7	85	5	123	47	34	0	18	1.48
6167581--6167662	29	2.9	28	82	10	85	48	34	0	17	1.47
6167879--6167922	20	2.1	21	83	4	54	52	22	2	22	1.58
6168035--6168078	20	2.2	20	84	8	54	54	15	0	29	1.42
6168252--6168366	48	2.4	48	80	2	124	53	21	1	22	1.55
6169236--6169308	20	3.6	20	81	9	85	53	20	1	24	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6169523--6169573	7	7.4	7	82	4	59	49	33	0	17	1.47
6169523--6169573	20	2.5	21	83	6	68	49	33	0	17	1.47
6169564--6169621	30	1.9	31	85	3	82	50	25	1	22	1.59
6169611--6169676	27	2.4	27	84	0	69	50	30	1	18	1.56
6170039--6170081	20	2.1	21	86	4	61	53	23	0	23	1.46
6170142--6170231	13	6.7	14	70	19	57	50	30	0	20	1.49
6170145--6170199	27	2.0	29	82	13	71	54	30	0	14	1.41
6170141--6170207	20	3.4	19	78	17	73	55	28	0	16	1.42
6170144--6170262	40	3.0	39	79	7	114	51	27	0	21	1.48
6170204--6170269	33	2.0	34	85	8	91	50	24	0	25	1.50

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