genome.fa.s12.2.7.7.80.10.50.1000.38.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  38  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)
10310818--10310935	45	2.6	45	89	0	182	44	11	22	22	1.84
10311087--10311148	27	2.3	27	86	5	81	32	22	25	19	1.97
10316932--10317116	101	1.8	101	95	0	334	32	17	23	25	1.96
10316955--10317263	101	3.1	100	79	5	257	32	16	24	27	1.96
10316972--10317251	134	2.1	134	92	0	470	32	17	23	27	1.96
10316972--10317249	33	8.3	33	72	6	141	32	16	23	27	1.96
10317003--10317281	134	2.1	134	89	2	418	32	16	24	26	1.96
10317105--10317316	101	2.1	99	85	5	284	33	16	24	25	1.96
10317003--10317329	134	2.4	134	84	2	343	33	16	24	25	1.96
10320530--10320705	19	10.0	17	70	18	89	66	0	32	0	0.96
10320532--10320603	10	6.6	10	73	17	54	68	0	31	0	0.90
10320532--10320632	24	4.3	23	71	13	73	67	0	32	0	0.91
10320563--10320653	5	19.0	5	72	12	59	64	0	34	1	1.01
10320535--10320644	27	3.9	28	74	19	86	67	0	31	0	0.97
10320550--10320707	37	4.3	38	82	11	179	67	0	31	0	0.95
10320552--10320651	10	10.5	10	73	16	79	66	0	33	1	0.99
10320544--10320712	75	2.2	74	80	8	189	66	0	31	1	0.99
10321390--10321436	17	2.7	17	87	9	60	25	0	6	68	1.13
10321445--10321470	13	2.0	13	100	0	52	76	0	0	23	0.78
10321544--10321575	16	2.0	16	93	0	55	84	6	3	6	0.86
10321554--10321589	9	3.9	9	88	3	54	86	8	2	2	0.77
10327422--10327500	27	2.9	27	78	0	95	11	43	18	26	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10327526--10327563	16	2.4	16	86	4	51	0	5	10	84	0.77
10327562--10327620	27	2.2	26	88	8	91	50	0	8	40	1.33
10327563--10327632	27	2.6	27	88	6	88	50	1	8	40	1.42
10337274--10337307	14	2.4	14	90	0	50	58	2	0	38	1.13
10337688--10337747	29	2.0	30	90	3	95	31	0	46	21	1.52
10341730--10341760	15	2.1	15	100	0	62	54	6	12	25	1.62
10345290--10345330	16	2.6	16	84	0	55	63	0	9	26	1.25
10348809--10349095	138	2.1	140	95	3	519	43	21	9	25	1.81
10350402--10350446	22	2.0	22	87	8	65	64	4	0	31	1.13
10350402--10350446	11	4.1	10	83	16	54	64	4	0	31	1.13
10350926--10350973	22	2.2	22	85	7	62	64	2	2	31	1.16
10353192--10353272	36	2.2	36	91	0	126	29	3	9	56	1.49
10353341--10353414	27	2.8	27	77	8	80	36	1	0	62	1.04
10353341--10353422	26	3.1	26	80	5	85	36	1	0	62	1.03
10361722--10361755	2	17.0	2	100	0	68	50	0	0	50	1.00
10362776--10362811	2	18.0	2	100	0	72	50	0	0	50	1.00
10363998--10364033	15	2.5	14	86	8	54	44	8	0	47	1.33
10364867--10364929	30	2.1	30	90	0	99	23	4	14	57	1.56
10366280--10366319	2	20.0	2	89	0	62	50	0	2	47	1.14
10366616--10366661	3	15.3	3	95	0	83	67	2	0	30	1.03
10368161--10368698	44	12.5	43	69	13	202	28	22	19	30	1.98
10368108--10368698	214	2.7	214	91	2	909	27	22	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10369913--10369951	5	7.8	5	88	8	53	0	0	12	87	0.55
10369913--10369953	21	2.0	21	90	0	64	0	0	12	87	0.53
10369913--10369952	10	3.9	10	87	6	62	0	0	12	87	0.54
10381028--10381063	2	18.0	2	94	0	63	47	0	2	50	1.15
10384294--10384348	9	6.1	9	95	0	101	30	10	12	45	1.77
10385628--10385696	25	2.7	26	82	8	79	24	20	20	34	1.96
10386762--10386791	10	3.0	10	95	0	51	50	3	0	46	1.18
10388046--10388151	51	2.1	51	80	7	117	39	1	16	42	1.59
10396889--10396992	34	3.1	32	78	11	111	31	7	5	54	1.52
10398955--10398994	19	2.0	20	85	4	55	27	17	7	47	1.74
10401855--10401896	7	6.0	7	81	18	52	69	0	16	14	1.20
10401855--10401896	21	2.0	21	86	9	59	69	0	16	14	1.20
10403222--10403865	264	2.4	263	88	3	952	27	20	24	26	1.99
10403222--10403824	132	4.6	132	87	2	863	28	20	24	27	1.99
10403222--10403955	264	2.8	264	84	4	698	28	20	24	26	1.99
10403222--10403955	396	1.9	396	80	4	890	28	20	24	26	1.99
10405538--10405642	34	3.1	32	76	14	104	31	7	5	55	1.52
10405545--10405642	32	3.0	33	77	12	103	32	8	5	54	1.52
10405545--10405652	36	3.1	35	78	10	107	30	9	4	55	1.52
10408706--10408755	17	2.9	18	73	8	50	66	4	2	28	1.21
10411037--10411103	2	35.5	2	78	11	61	44	5	0	49	1.27
10411141--10411179	16	2.4	16	91	0	60	35	7	2	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10415668--10415733	20	3.2	20	71	19	55	25	3	3	68	1.19
10434775--10434827	21	2.5	21	87	0	70	28	35	11	24	1.90
10440299--10440333	3	11.7	3	100	0	70	31	0	0	68	0.90
10447740--10447802	31	2.0	32	96	3	119	31	9	15	42	1.79
10448681--10448713	12	2.8	12	100	0	66	6	18	15	60	1.54
10449748--10449826	23	3.4	25	65	22	71	6	36	16	40	1.74
10450877--10450929	13	4.2	13	72	13	56	33	1	13	50	1.52
10450890--10451014	24	4.9	25	73	11	119	27	2	11	59	1.44
10452198--10452361	72	2.3	72	87	4	224	25	6	12	56	1.59
10455315--10455351	9	4.1	9	85	0	56	45	10	10	32	1.74
10457611--10457668	28	2.1	27	87	9	82	46	10	8	34	1.69
10457977--10458018	16	2.6	16	85	7	50	66	4	7	21	1.35
10458418--10458446	11	2.6	11	100	0	58	24	24	0	51	1.48
10462059--10462206	57	2.5	59	82	9	167	31	22	24	22	1.99
10466066--10466178	12	9.8	12	69	20	55	39	1	3	54	1.28
10466066--10466141	11	6.8	11	72	21	52	40	1	1	56	1.16
10466084--10466221	68	2.0	72	87	5	203	39	4	5	51	1.44
10471034--10471058	13	1.9	13	100	0	50	56	12	16	16	1.68
10473419--10473456	19	2.0	19	100	0	76	63	10	10	15	1.52
10476264--10476387	42	3.0	41	80	4	133	30	42	5	20	1.75
10480163--10480331	91	1.9	91	98	0	329	25	21	18	33	1.97
10484823--10484865	18	2.4	18	76	7	52	69	2	0	27	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10487098--10487141	17	2.5	17	89	10	63	20	0	2	77	0.88
10494302--10494333	5	6.2	5	96	3	55	59	0	0	40	0.97
10495011--10495057	2	23.5	2	100	0	94	48	0	0	51	1.00
10496497--10496559	30	2.1	30	87	0	90	23	36	23	15	1.94
10497078--10497115	14	2.7	15	84	12	53	42	7	15	34	1.76
10497791--10497840	26	2.0	26	88	7	77	60	0	0	40	0.97
10497781--10497842	26	2.3	27	80	11	72	59	0	0	40	0.97
10497784--10497843	23	2.5	23	81	10	68	58	0	0	41	0.98
10503058--10503082	1	25.0	1	100	0	50	0	0	0	100	0.00
10503757--10503823	18	3.6	18	77	18	66	65	1	0	32	1.02
10509727--10509793	17	3.8	17	73	11	62	49	16	2	31	1.61
10509724--10509798	37	2.0	37	97	0	141	44	16	5	34	1.70
10509724--10509815	37	2.5	37	89	7	125	45	15	5	33	1.69
10513865--10513981	39	3.0	39	94	1	209	18	1	29	50	1.57
10513962--10513986	13	1.9	13	100	0	50	12	0	48	40	1.40
10520802--10520827	13	2.0	13	100	0	52	61	7	15	15	1.55
10520799--10521294	155	3.2	152	85	5	658	53	8	10	28	1.64
10545585--10545628	14	2.9	16	83	10	56	45	0	9	45	1.35
10551653--10551679	13	2.1	13	100	0	54	48	0	22	29	1.51
10552356--10552395	16	2.5	16	91	0	62	47	2	7	42	1.45
10552390--10552529	75	1.9	74	93	1	244	41	5	8	44	1.59
10552740--10552805	19	3.4	19	89	4	96	66	6	6	21	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10552745--10552806	20	3.2	19	88	6	63	67	6	4	20	1.32
10552818--10552843	2	13.0	2	100	0	52	50	0	0	50	1.00
10552992--10553024	16	2.1	16	100	0	66	69	12	0	18	1.18
10555459--10555502	22	2.0	22	90	0	70	25	15	2	56	1.51
10555718--10555753	19	1.9	19	94	5	65	44	0	0	55	0.99
10555603--10555852	74	3.4	74	89	4	377	38	6	2	51	1.43
10555793--10555831	18	2.2	18	90	0	60	46	2	0	51	1.14
10555603--10555871	144	1.9	141	83	9	330	39	6	3	50	1.46
10558808--10558845	18	2.1	19	85	5	51	50	5	13	31	1.63
10559762--10559880	49	2.4	48	75	8	116	31	17	24	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