genome.fa.s12.2.7.7.80.10.50.1000.54.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  54  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)
15139037--15139197	48	3.3	48	81	3	189	26	16	14	43	1.85
15139037--15139216	97	1.9	97	82	2	227	27	17	12	42	1.85
15139134--15139307	71	2.4	72	81	1	206	28	22	12	36	1.91
15141208--15141306	39	2.6	39	85	1	128	40	5	6	48	1.50
15142549--15142630	38	2.1	39	86	2	112	29	10	8	51	1.67
15147814--15147850	16	2.3	16	86	13	58	59	0	0	40	0.97
15147945--15148018	25	2.7	28	81	16	100	24	13	8	54	1.66
15158862--15159078	10	21.8	10	65	20	57	64	1	4	29	1.22
15158919--15159020	9	11.2	8	70	24	53	66	1	3	27	1.20
15158898--15158957	21	2.8	23	80	11	67	63	0	0	36	0.95
15158968--15159019	17	3.0	16	76	23	52	65	1	5	26	1.26
15159278--15159352	29	2.6	30	87	6	109	36	0	0	64	0.94
15159268--15159362	10	9.7	10	71	13	63	34	0	1	64	1.01
15160517--15160584	21	3.1	21	87	6	91	38	0	1	60	1.06
15167748--15167808	17	3.5	17	68	16	52	34	3	3	59	1.30
15170821--15170863	3	14.3	3	100	0	86	32	0	0	67	0.91
15171034--15171089	27	2.1	27	96	0	103	42	23	3	30	1.71
15172241--15172270	13	2.3	13	94	0	51	36	20	0	43	1.52
15180173--15180215	22	2.0	22	86	8	63	53	16	2	27	1.55
15180525--15180569	23	2.0	23	81	0	54	35	17	2	44	1.62
15188557--15188615	27	2.2	27	87	0	91	28	25	15	30	1.96
15188583--15188634	18	2.9	17	80	8	59	28	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15188564--15188622	27	2.2	27	84	6	75	32	27	13	27	1.94
15189959--15189994	17	2.1	17	100	0	72	52	5	0	41	1.24
15203663--15203948	58	4.9	58	81	3	279	38	13	13	33	1.85
15203691--15203933	117	2.1	118	81	1	281	39	14	13	32	1.85
15203968--15204067	52	1.9	52	85	4	139	32	17	22	29	1.96
15204021--15204557	70	7.7	70	81	2	560	31	16	21	30	1.96
15204021--15204642	140	4.4	139	82	3	624	31	17	20	30	1.96
15204022--15204642	210	3.0	207	82	3	663	31	17	20	30	1.96
15207196--15207352	69	2.3	69	84	3	208	31	18	21	28	1.97
15210269--15210307	18	2.2	18	86	9	53	43	0	0	56	0.99
15210269--15210308	17	2.3	17	86	4	53	45	0	0	55	0.99
15222471--15222521	22	2.3	22	93	6	86	23	13	11	50	1.74
15222694--15222734	10	4.4	10	84	9	52	41	0	0	58	0.98
15227771--15227805	6	5.7	6	90	6	52	20	28	0	51	1.47
15228026--15228080	23	2.4	23	87	6	76	36	20	20	23	1.95
15228521--15228562	13	3.3	13	80	6	50	50	7	0	42	1.30
15232724--15232848	62	2.1	57	85	7	169	40	2	4	52	1.36
15233434--15233505	34	2.1	34	100	0	144	33	19	11	36	1.87
15238806--15238870	29	2.2	29	94	0	112	26	21	26	26	2.00
15243824--15243920	4	24.8	4	93	4	126	44	0	29	25	1.55
15245583--15245616	2	17.0	2	100	0	68	50	0	0	50	1.00
15246302--15246400	50	2.0	50	92	4	164	25	21	11	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15247407--15247435	5	5.8	5	100	0	58	41	0	0	58	0.98
15247482--15247517	17	2.2	17	90	5	56	77	5	16	0	0.94
15248391--15248446	25	2.2	25	83	0	67	17	25	21	35	1.95
15248438--15248494	22	2.6	23	88	8	91	12	24	19	43	1.85
15260661--15260757	23	4.3	23	93	2	160	19	20	26	32	1.97
15260660--15260757	45	2.2	46	92	3	171	20	20	26	32	1.97
15262071--15262149	22	3.6	22	89	0	104	26	15	27	30	1.96
15267653--15267727	23	3.3	23	96	3	143	21	21	26	30	1.98
15275861--15275983	45	3.1	38	75	16	113	27	17	26	27	1.98
15275924--15276870	44	21.5	44	75	9	693	30	15	24	29	1.96
15275924--15276870	89	10.8	88	76	7	780	30	15	24	29	1.96
15275924--15276870	133	7.2	132	81	6	828	30	15	24	29	1.96
15275924--15276827	88	10.3	89	77	7	790	30	15	24	29	1.96
15277390--15277416	13	2.1	13	100	0	54	40	29	22	7	1.81
15285314--15285379	21	3.1	21	65	8	53	28	7	16	46	1.74
15285314--15285400	42	2.1	42	86	0	120	28	9	12	49	1.71
15290706--15290823	39	3.0	39	74	0	119	41	22	5	29	1.78
15297684--15297739	22	2.5	23	82	2	69	51	1	1	44	1.22
15297715--15297754	16	2.5	16	91	0	62	47	2	7	42	1.45
15297886--15297913	9	3.1	9	100	0	56	32	0	10	57	1.33
15297765--15297904	59	2.4	59	97	0	262	39	5	8	47	1.56
15298010--15298056	24	1.9	25	87	12	71	59	2	0	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15299996--15300042	21	2.2	21	84	0	58	31	4	2	61	1.27
15300007--15300051	21	2.1	21	88	8	65	24	4	2	68	1.19
15307221--15307264	22	2.0	22	95	0	79	43	15	13	27	1.85
15310982--15311222	50	4.8	50	90	2	340	19	31	23	25	1.98
15311317--15311348	13	2.5	13	94	0	55	56	12	0	31	1.37
15311560--15311616	30	1.9	30	89	3	89	31	24	3	40	1.72
15319477--15319508	16	2.0	16	93	0	55	18	3	6	71	1.20
15322804--15322841	19	2.0	19	100	0	76	42	15	5	36	1.70
15333525--15333633	43	2.5	43	85	2	139	35	23	21	19	1.96
15338039--15338082	21	2.3	19	84	11	54	31	2	25	40	1.68
15339231--15339274	17	2.6	18	82	7	56	56	2	20	20	1.52
15339346--15339386	6	6.5	6	89	10	64	68	0	17	14	1.22
15339289--15339428	69	2.0	69	84	0	181	53	4	15	26	1.60
15340537--15340577	20	2.0	20	90	0	64	43	12	0	43	1.41
15342209--15342287	39	2.0	39	97	0	149	53	20	10	16	1.71
15346738--15346766	13	2.1	14	93	6	51	6	17	3	72	1.21
15346840--15346893	27	2.0	27	85	7	74	29	14	29	25	1.95
15346818--15347057	94	2.6	94	86	0	336	33	17	24	24	1.96
15353964--15355067	74	15.0	74	89	1	1679	37	27	8	26	1.86
15356674--15356710	16	2.2	18	85	9	51	59	5	29	5	1.42
15362725--15362749	2	12.5	2	100	0	50	48	0	0	52	1.00
15366389--15366487	43	2.3	43	85	0	144	28	17	27	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15366965--15367009	2	22.5	2	100	0	90	48	0	0	51	1.00
15367143--15367447	69	4.4	69	84	2	337	28	12	19	39	1.89
15367326--15367469	22	6.4	22	72	13	114	25	11	22	40	1.87
15376986--15377372	53	7.3	53	73	17	286	42	11	1	43	1.50
15376978--15377383	107	3.8	105	84	2	519	42	12	1	43	1.51
15377259--15377330	21	3.2	20	70	24	54	43	12	0	44	1.42
15377251--15377377	26	4.8	26	68	21	77	43	13	0	43	1.43
15379373--15379435	22	2.8	23	73	9	67	17	23	30	28	1.97
15380525--15380600	9	8.4	9	79	5	91	40	25	7	26	1.82
15380525--15380600	18	4.2	18	87	0	107	40	25	7	26	1.82
15380640--15380668	6	4.8	6	100	0	58	17	0	17	65	1.27
15383931--15384050	59	2.1	58	95	1	213	45	5	4	44	1.47
15384147--15384189	15	2.8	16	80	16	54	41	4	6	46	1.51
15388422--15388452	9	3.4	9	90	0	53	25	12	22	38	1.90
15388505--15388541	9	4.1	9	89	0	56	45	10	10	32	1.74
15388577--15388620	22	2.0	22	82	8	54	20	40	0	38	1.53
15389588--15389647	5	11.2	5	76	13	57	41	1	21	35	1.63
15389674--15389817	31	4.6	31	83	3	182	45	4	21	29	1.70
15389670--15389817	62	2.4	62	90	2	226	43	4	22	29	1.71
15396902--15396949	22	2.2	23	85	7	64	45	0	0	54	0.99
15418691--15418741	21	2.4	21	86	0	66	37	7	33	21	1.82
15418753--15418778	6	4.3	6	100	0	52	84	0	15	0	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15419168--15419203	17	2.1	17	89	0	54	22	8	8	61	1.51
15423175--15423206	3	11.3	3	93	6	50	0	0	28	71	0.86
15427530--15427576	19	2.6	18	83	6	60	25	4	4	65	1.29
15429580--15429644	3	22.3	3	96	3	116	0	0	30	69	0.89
15432197--15432246	20	2.4	22	80	6	59	54	2	2	42	1.23
15440855--15440904	20	2.4	22	83	6	68	52	2	0	46	1.12
15472379--15472663	41	7.0	41	86	0	336	19	18	33	27	1.96
15473681--15473791	21	5.2	22	76	9	77	20	0	43	36	1.52
15473718--15473764	7	6.6	7	90	4	76	17	0	51	31	1.46
15473695--15473764	22	3.3	22	82	9	83	18	0	48	32	1.48

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