genome.fa.s12.2.7.7.80.10.50.1000.57.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  57  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)
16005324--16005538	87	2.5	87	92	0	349	34	12	27	24	1.92
16005433--16005567	58	2.3	58	96	2	245	36	12	28	22	1.91
16005468--16005572	29	3.6	28	78	7	113	36	12	29	21	1.90
16005324--16005572	87	2.9	87	87	2	340	34	12	28	24	1.92
16005433--16005628	58	3.4	57	84	9	227	36	11	26	25	1.90
16009894--16009945	12	4.2	12	72	13	52	53	1	1	42	1.23
16009896--16009948	20	2.8	19	81	18	67	54	1	1	41	1.22
16011227--16011260	11	3.0	11	86	4	50	50	11	2	35	1.54
16013338--16013400	27	2.2	30	77	11	69	31	3	17	47	1.63
16017436--16017539	52	2.0	52	92	0	172	44	12	15	27	1.82
16026579--16026625	23	2.0	23	84	8	60	44	0	14	40	1.46
16029672--16029724	20	2.5	21	80	14	56	56	1	5	35	1.34
16032318--16032728	150	2.7	150	83	8	522	41	10	3	43	1.57
16033122--16033172	3	17.0	3	100	0	102	66	0	0	33	0.92
16036826--16036865	14	2.9	14	88	0	53	35	7	17	40	1.78
16036834--16036898	34	1.9	33	84	9	87	33	9	13	43	1.76
16036849--16036888	20	2.0	20	100	0	80	30	10	15	45	1.78
16039508--16039549	6	6.8	6	82	15	50	45	0	54	0	0.99
16039508--16039551	18	2.4	19	85	14	65	45	0	54	0	0.99
16044163--16044292	27	4.8	27	81	5	147	39	18	18	23	1.92
16044163--16044292	54	2.4	54	85	0	170	39	18	18	23	1.92
16044201--16044321	54	2.2	53	82	5	145	41	19	18	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16044153--16044322	81	2.1	80	84	6	218	41	20	17	21	1.91
16044681--16044767	28	3.0	28	80	9	104	24	24	22	28	1.99
16044681--16044766	30	2.9	30	86	3	113	24	24	23	27	2.00
16050062--16050337	27	10.3	27	88	1	322	40	20	18	19	1.91
16050693--16050750	30	1.9	30	92	0	98	24	25	22	27	2.00
16051037--16051097	32	1.9	32	96	0	113	37	4	22	34	1.76
16055859--16055936	32	2.5	32	82	2	95	38	20	20	20	1.94
16055936--16055989	26	2.1	26	85	0	72	37	24	20	18	1.94
16056125--16056163	11	3.1	14	72	27	50	56	17	5	20	1.60
16056112--16056163	24	2.2	24	92	0	86	55	21	3	19	1.58
16056288--16056364	27	2.9	27	73	11	70	27	20	18	33	1.96
16056344--16056581	27	8.8	27	75	6	162	25	13	20	40	1.89
16056344--16056569	54	4.2	55	79	4	226	25	13	19	40	1.89
16056358--16056566	81	2.6	80	79	7	235	25	12	21	40	1.88
16058782--16058806	9	2.8	9	100	0	50	64	0	12	24	1.27
16063091--16063196	44	2.4	43	80	13	119	28	27	18	25	1.98
16068559--16068597	12	3.2	12	85	0	51	20	23	5	51	1.67
16068847--16069041	50	3.9	50	80	1	194	20	28	23	28	1.99
16073576--16073692	44	2.7	43	83	13	159	26	29	20	23	1.99
16074504--16074533	6	5.2	6	92	8	53	0	16	0	83	0.65
16078996--16079234	42	5.6	42	79	3	219	27	24	20	27	1.99
16079113--16079215	43	2.4	42	82	9	118	30	27	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16079153--16079252	44	2.3	45	92	3	168	26	26	17	31	1.97
16081226--16081639	9	48.4	9	67	19	183	35	1	18	43	1.60
16081231--16081484	25	10.4	25	71	18	130	35	1	17	45	1.56
16081239--16081604	16	22.0	16	67	17	144	35	1	18	45	1.58
16081254--16081424	92	1.8	93	87	7	258	35	1	18	45	1.57
16081448--16081525	41	1.9	41	91	0	129	39	3	14	42	1.63
16081321--16081637	25	12.6	25	76	7	207	35	1	18	43	1.61
16082441--16082482	14	3.2	13	80	12	50	64	2	0	33	1.07
16082872--16082929	16	3.4	16	82	13	80	44	15	5	34	1.69
16084950--16084982	14	2.4	14	94	0	57	45	24	15	15	1.84
16085056--16085139	7	12.0	7	73	8	55	45	38	0	16	1.48
16085101--16085154	27	2.0	27	82	7	65	50	31	0	18	1.48
16085597--16085847	113	2.2	114	80	5	258	36	17	17	27	1.93
16089186--16089245	20	2.8	21	73	12	52	40	21	11	26	1.88
16089732--16089796	18	3.5	19	78	15	73	26	23	1	49	1.59
16089793--16089864	25	2.9	25	85	8	101	19	23	2	54	1.57
16090979--16091014	9	4.0	9	86	13	56	0	25	0	75	0.81
16092825--16092876	24	2.2	24	85	0	68	53	5	3	36	1.43
16093797--16093894	46	2.1	46	86	3	135	33	10	27	28	1.89
16096741--16096790	23	2.2	23	100	0	100	32	8	28	32	1.86
16099553--16099691	50	2.7	52	73	12	128	49	2	3	43	1.34
16099665--16099705	11	3.7	11	83	0	55	68	0	4	26	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16101152--16101182	12	2.6	12	94	0	53	6	29	41	22	1.78
16110638--16110680	22	2.0	22	86	9	61	23	20	30	25	1.99
16113938--16113971	11	3.1	11	100	0	68	29	17	17	35	1.93
16114118--16114166	14	3.7	14	72	22	52	22	16	4	57	1.56
16114190--16114269	40	2.0	41	85	5	108	46	20	7	26	1.77
16122100--16122137	19	2.0	19	100	0	76	26	10	21	42	1.85
16124691--16124719	14	2.1	14	100	0	58	34	20	6	37	1.80
16127196--16127256	31	2.0	31	90	6	97	60	0	1	37	1.07
16127196--16127286	11	8.9	11	72	17	72	60	0	1	38	1.04
16127196--16127335	39	3.5	40	89	7	205	61	0	2	36	1.08
16127903--16127942	21	1.9	21	85	10	55	40	7	5	47	1.54
16142649--16142790	58	2.4	58	81	9	144	47	6	3	42	1.46
16142699--16142874	61	2.8	60	76	14	149	52	3	3	40	1.37
16142766--16142818	20	2.8	18	81	13	63	50	1	1	45	1.23
16144083--16144116	11	3.0	11	86	4	50	52	8	2	35	1.47
16146574--16146623	25	2.0	25	88	0	73	26	16	18	40	1.90
16146574--16146636	25	2.6	23	78	14	56	26	17	17	38	1.92
16152667--16152744	42	1.9	42	82	10	99	48	1	3	46	1.28
16152719--16152752	5	7.0	5	93	6	61	41	0	0	58	0.98
16152819--16152851	6	5.5	6	100	0	66	84	0	15	0	0.61
16157007--16157087	31	2.6	31	78	0	99	23	33	23	19	1.97
16157227--16157363	35	3.9	35	86	0	157	46	15	11	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16160052--16160176	66	1.9	66	83	3	162	34	21	19	24	1.96
16161147--16161194	17	2.9	17	78	3	53	45	10	20	22	1.81
16162316--16162355	17	2.4	17	95	0	71	12	40	22	25	1.89
16169447--16169493	19	2.5	19	96	0	85	65	6	10	17	1.43
16173416--16173540	37	3.5	37	83	7	159	25	17	16	40	1.90
16173416--16173540	35	3.5	35	85	3	160	25	17	16	40	1.90
16175812--16175891	22	3.6	22	84	0	106	17	30	21	31	1.96
16177038--16177101	23	2.8	23	87	0	92	15	28	25	31	1.96
16183983--16184039	20	2.8	20	89	0	78	22	29	0	47	1.52
16190838--16190907	26	2.7	26	84	2	97	54	0	1	44	1.09
16197963--16198030	34	2.0	34	83	13	86	55	2	23	17	1.55
16201923--16201964	20	2.1	20	90	0	66	50	0	4	45	1.23
16218314--16218366	18	3.0	17	91	5	79	56	1	1	39	1.21
16224095--16224119	6	4.2	6	100	0	50	48	16	0	36	1.46
16232724--16232758	10	3.6	10	92	3	54	31	0	5	62	1.18
16237154--16237567	27	15.4	27	83	1	456	35	19	21	23	1.96
16237153--16237552	81	4.9	81	84	1	507	35	20	20	23	1.96
16237612--16237671	24	2.5	24	89	5	95	20	8	26	45	1.79
16237786--16237839	26	2.1	26	89	0	81	22	18	20	38	1.93
16237842--16238120	32	8.7	32	79	3	269	20	21	22	36	1.95
16237839--16238120	64	4.4	64	82	6	347	19	21	22	36	1.95
16238132--16238196	22	3.0	21	79	4	67	16	20	18	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16249765--16249811	10	4.6	10	82	12	51	34	0	4	61	1.15
16254485--16254532	22	2.2	22	88	7	71	31	39	0	29	1.57
16258039--16258073	6	5.8	6	96	0	61	54	0	28	17	1.43
16264133--16264162	14	2.1	14	93	0	51	3	20	0	76	0.92
16264226--16264303	3	26.0	3	100	0	156	33	0	0	66	0.92
16266454--16266505	16	3.2	16	94	0	95	26	0	34	38	1.57
16266635--16266929	157	1.9	157	94	0	518	43	3	5	47	1.43
16267823--16267852	13	2.3	13	100	0	60	60	13	6	20	1.55
16274503--16274645	70	2.0	70	98	0	277	25	15	23	36	1.94
16295683--16295714	15	2.1	15	100	0	64	34	0	25	40	1.56

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