genome.fa.s12.2.7.7.80.10.50.1000.39.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  39  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)
10566946--10567030	27	3.1	27	84	0	107	35	12	25	25	1.92
10567099--10567158	26	2.3	27	82	11	79	25	11	23	40	1.88
10569238--10569270	17	1.9	18	88	11	52	42	9	0	48	1.35
10573040--10573075	18	2.1	17	89	5	54	55	0	2	41	1.14
10574862--10574910	25	2.0	25	88	7	75	61	0	6	32	1.21
10574863--10574914	23	2.3	22	83	12	61	59	0	5	34	1.21
10575902--10575972	27	2.5	28	75	22	69	42	2	2	52	1.31
10576981--10577014	2	17.0	2	100	0	68	50	0	0	50	1.00
10588727--10588771	21	2.1	21	83	0	54	62	2	2	33	1.20
10590535--10590571	2	18.5	2	100	0	74	51	0	0	48	1.00
10592466--10592491	12	2.2	12	100	0	52	7	38	23	30	1.83
10593065--10593096	14	2.3	14	100	0	64	25	37	6	31	1.81
10595437--10595471	18	2.0	17	88	5	52	40	2	2	54	1.30
10595617--10595717	44	2.4	42	77	20	120	36	30	2	29	1.72
10595702--10595757	16	3.5	16	87	0	85	25	30	1	42	1.65
10596102--10596157	17	3.3	17	80	11	62	66	1	1	30	1.12
10596145--10596236	19	4.8	20	77	10	77	65	0	6	28	1.17
10596145--10596206	21	3.0	20	77	15	65	67	0	4	27	1.10
10596124--10596216	9	9.9	9	75	14	73	63	0	3	33	1.10
10596194--10596277	41	2.1	41	84	6	109	61	1	8	28	1.32
10596343--10596375	16	2.0	17	88	5	50	21	6	0	72	1.05
10596476--10596566	10	9.4	9	71	12	56	36	3	1	59	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10598634--10598756	33	3.7	33	92	0	201	39	34	9	15	1.80
10602287--10602330	22	2.2	19	88	12	61	50	18	0	31	1.47
10602876--10602944	20	3.5	20	74	7	68	43	15	26	14	1.85
10602849--10602964	60	1.9	60	82	0	142	43	17	25	14	1.87
10614957--10615011	16	3.4	16	68	26	53	45	1	30	21	1.62
10614956--10615030	32	2.3	32	97	0	141	45	2	29	22	1.66
10614973--10615027	16	3.4	16	71	26	53	45	3	30	20	1.68
10615040--10615128	39	2.3	39	98	0	169	38	14	17	29	1.90
10621743--10623200	498	2.8	499	84	5	1744	39	13	17	30	1.88
10622888--10622928	2	20.5	2	100	0	82	51	0	0	48	1.00
10623305--10623341	2	18.5	2	100	0	74	51	0	0	48	1.00
10624143--10624214	24	3.0	24	97	0	135	50	6	8	34	1.60
10623641--10624696	549	1.9	556	83	4	1391	39	12	16	31	1.87
10624191--10625447	510	2.5	506	84	3	1613	40	12	15	30	1.85
10625759--10625823	27	2.4	27	97	0	121	27	23	32	16	1.96
10626106--10626296	21	9.1	21	68	16	110	27	1	13	57	1.43
10626105--10626166	19	3.2	19	86	8	88	29	3	12	54	1.53
10626127--10626294	61	2.6	63	82	14	218	27	0	14	57	1.42
10626087--10626366	147	2.0	137	86	6	389	28	0	13	57	1.42
10626266--10626350	29	3.0	28	82	6	118	28	0	12	58	1.35
10626127--10626350	61	3.7	61	79	13	207	28	0	13	57	1.41
10626273--10626350	27	2.8	28	86	5	122	29	0	12	57	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10627735--10627799	32	2.1	32	97	2	123	47	12	9	30	1.72
10631277--10631331	27	2.0	27	85	0	74	25	32	23	18	1.97
10632058--10632099	3	14.0	3	100	0	84	33	0	0	66	0.92
10636058--10636090	5	6.6	5	86	13	50	0	18	0	81	0.68
10639220--10639306	45	1.9	46	90	2	140	59	5	0	34	1.21
10639273--10639308	19	1.9	19	94	5	65	52	0	0	47	1.00
10639220--10639306	46	1.9	45	90	2	138	59	5	0	34	1.21
10640182--10640219	9	4.3	9	86	6	60	34	0	0	65	0.93
10640183--10640216	17	1.9	18	94	5	61	38	0	0	61	0.96
10640384--10640450	9	7.4	9	80	9	75	22	4	0	73	1.01
10640377--10640450	27	2.7	27	82	14	89	22	4	1	71	1.10
10641697--10641738	20	2.1	20	86	0	57	47	0	7	45	1.30
10643789--10643822	15	2.2	16	89	5	52	38	0	14	47	1.45
10649784--10649839	20	2.7	21	81	13	53	69	7	12	10	1.36
10649795--10649839	21	2.1	23	88	12	69	68	8	8	13	1.38
10652654--10652739	34	2.5	35	86	1	120	40	15	24	19	1.90
10653724--10653765	20	2.1	20	86	0	57	47	0	7	45	1.30
10655337--10655410	32	2.3	32	90	0	112	39	21	6	32	1.80
10658750--10658782	12	3.0	11	87	12	50	81	0	9	9	0.87
10659415--10659600	35	5.3	35	71	3	122	21	20	23	33	1.97
10659406--10659600	71	2.7	70	79	7	223	22	21	22	33	1.97
10671940--10672258	97	3.3	96	88	3	464	38	17	2	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10684297--10684339	17	2.5	17	77	11	52	37	6	0	55	1.27
10689291--10689334	23	1.9	22	82	17	54	36	25	0	38	1.56
10689474--10689662	51	3.7	51	82	3	213	31	29	16	23	1.96
10689478--10689660	101	1.8	101	86	5	271	31	27	16	24	1.97
10689472--10689694	101	2.2	101	79	7	247	30	28	15	25	1.96
10691315--10691373	30	1.9	31	83	10	77	11	15	11	61	1.58
10697186--10697221	2	18.0	2	100	0	72	50	0	0	50	1.00
10699153--10699190	20	2.0	20	89	5	60	55	2	7	34	1.43
10700530--10700651	37	3.1	39	74	12	124	32	22	19	25	1.97
10701644--10701688	2	25.0	2	79	20	55	55	0	0	44	0.99
10701645--10701686	7	6.0	7	100	0	84	57	0	0	42	0.99
10704833--10704878	7	6.4	7	85	5	65	17	2	47	32	1.60
10704868--10704913	21	2.2	21	84	0	56	17	2	28	52	1.56
10704865--10704928	28	2.3	28	91	0	101	18	1	31	48	1.58
10708642--10708729	43	2.0	44	86	2	124	32	11	10	45	1.74
10709098--10709304	43	4.8	43	83	1	238	27	15	29	27	1.96
10709098--10709304	86	2.4	86	86	0	281	27	15	29	27	1.96
10712301--10712325	2	12.5	2	100	0	50	48	52	0	0	1.00
10713488--10713549	34	1.9	33	81	12	76	48	1	1	48	1.21
10713514--10713614	39	2.5	40	79	17	97	50	1	0	46	1.19
10723179--10723207	15	1.9	15	100	0	58	48	0	0	51	1.00
10723795--10723890	39	2.5	39	87	0	147	29	18	14	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10724960--10724989	12	2.4	12	94	5	51	26	16	16	40	1.90
10728244--10728353	39	2.7	42	82	13	151	30	16	16	37	1.91
10728261--10728353	39	2.4	39	92	0	159	30	19	12	37	1.89
10728366--10728418	16	3.3	16	72	27	58	18	32	3	45	1.68
10734675--10735142	37	12.6	36	80	11	436	25	22	15	36	1.93
10734688--10735134	148	3.0	145	83	10	518	25	22	15	37	1.93
10734675--10735135	72	6.2	74	81	10	509	24	22	15	37	1.93
10736567--10736611	22	2.0	22	95	0	81	44	22	17	15	1.86
10740923--10741013	44	2.1	44	95	0	164	27	13	13	46	1.80
10743193--10743463	115	2.4	115	87	6	365	48	6	4	40	1.48
10743859--10743901	18	2.4	18	84	0	50	48	9	23	18	1.76
10743962--10744018	30	1.9	30	85	0	78	5	14	47	33	1.66
10748731--10748785	21	2.5	22	82	11	60	74	10	14	0	1.07
10748727--10748782	23	2.3	24	79	14	62	75	10	14	0	1.06
10749596--10749629	3	11.3	3	100	0	68	32	0	0	67	0.91
10754362--10754403	22	1.9	22	85	9	59	42	9	7	40	1.65
10758295--10758366	31	2.3	31	90	0	108	33	25	12	29	1.92
10758352--10758389	20	1.9	20	94	0	67	28	31	7	31	1.86
10759268--10759324	29	1.9	31	85	7	82	49	10	12	28	1.73
10759268--10759333	30	2.2	31	81	8	73	53	9	10	27	1.65
10760016--10760040	11	2.3	11	100	0	50	68	0	8	24	1.16
10760619--10760663	19	2.3	20	80	3	56	60	4	11	24	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10769482--10769525	17	2.6	18	82	10	56	63	0	2	34	1.07
10769486--10769524	16	2.4	16	84	16	53	64	0	2	33	1.08
10779220--10779257	14	2.6	15	83	4	51	39	2	0	57	1.12
10783655--10783710	18	2.9	19	79	10	69	30	21	19	28	1.98
10793371--10793437	34	1.9	35	85	8	93	34	17	22	25	1.96
10799031--10799218	95	2.0	95	91	0	304	30	34	2	32	1.72
10805705--10805893	95	2.0	94	91	1	306	31	35	2	30	1.72
10806944--10806981	20	1.9	20	88	0	58	13	28	28	28	1.94
10809505--10809545	20	2.0	20	100	0	82	24	4	14	56	1.58
10819465--10819501	19	2.0	18	89	5	56	67	5	0	27	1.12

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