genome.fa.s12.2.7.7.80.10.50.1000.62.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  62  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)
17769166--17769244	30	2.6	30	89	0	122	20	26	24	29	1.99
17776959--17777007	20	2.5	20	78	15	57	14	24	6	55	1.62
17777263--17777449	56	3.6	49	73	10	133	24	28	20	26	1.99
17784651--17784699	20	2.5	20	81	15	66	12	24	6	57	1.58
17786851--17786888	19	2.0	19	89	0	58	18	28	23	28	1.98
17798502--17799020	27	19.3	27	82	2	526	41	20	19	18	1.90
17800557--17800584	13	2.2	13	100	0	56	28	0	21	50	1.49
17805214--17805461	50	4.8	50	83	5	246	25	28	19	27	1.99
17811989--17812173	50	3.6	50	85	4	208	23	30	20	25	1.98
17833483--17834143	27	24.6	27	80	4	491	37	20	19	22	1.94
17833616--17833850	80	2.9	81	81	5	262	41	20	18	20	1.91
17834207--17834261	24	2.3	24	84	6	76	20	9	23	47	1.78
17834320--17834382	27	2.4	27	87	10	94	23	23	17	34	1.96
17834333--17834390	27	2.1	27	81	6	64	24	25	17	32	1.96
17834390--17834435	14	3.4	14	72	22	53	10	21	30	36	1.88
17834384--17834451	26	2.6	26	100	0	136	11	23	30	33	1.91
17834466--17834566	32	3.2	32	94	0	175	17	20	25	35	1.95
17834466--17834598	32	4.2	32	83	11	139	18	18	24	38	1.93
17834457--17834598	64	2.2	64	81	9	173	18	18	25	38	1.93
17839809--17839876	20	3.4	20	72	0	55	20	27	17	33	1.95
17839695--17839873	80	2.2	80	83	3	234	21	29	17	31	1.97
17839695--17839876	40	4.6	40	78	5	197	21	28	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17860733--17860786	27	2.0	27	92	0	90	31	22	24	22	1.98
17862974--17863029	27	2.1	27	93	0	94	35	23	21	19	1.96
17865465--17865535	27	2.7	26	72	12	63	30	25	12	30	1.93
17865568--17865623	27	2.1	27	93	0	94	33	25	23	17	1.96
17867070--17867409	51	6.7	50	81	6	375	28	27	16	27	1.97
17867072--17867409	102	3.3	102	90	2	477	28	27	16	27	1.97
17869112--17869145	11	2.8	12	91	8	52	35	8	11	44	1.72
17873508--17873627	40	3.0	40	82	0	150	17	30	15	36	1.90
17873529--17873591	20	3.2	19	72	17	56	12	30	17	39	1.87
17873542--17873607	20	3.3	20	70	8	62	15	36	15	33	1.88
17883858--17884058	41	4.9	41	80	0	222	24	29	14	31	1.94
17883855--17884058	82	2.5	82	83	3	250	24	29	14	31	1.95
17889988--17890024	5	7.8	5	96	3	60	0	0	13	86	0.57
17891312--17891343	3	10.7	3	100	0	64	0	34	0	65	0.93
17892787--17892820	16	2.2	15	89	5	50	50	2	0	47	1.16
17893383--17893421	19	2.1	19	100	0	78	38	15	10	35	1.81
17903617--17903646	14	2.2	14	94	5	53	40	6	0	53	1.27
17920943--17921027	22	3.9	22	90	0	116	28	14	28	29	1.95
17925276--17925314	18	2.2	18	86	9	53	38	5	10	46	1.60
17937157--17937349	58	3.3	59	83	2	230	36	13	25	24	1.92
17937157--17937349	29	6.6	29	79	4	201	36	13	25	24	1.92
17940154--17940245	28	2.9	32	74	22	95	26	25	23	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17940177--17940236	28	2.2	27	91	5	102	25	26	25	23	2.00
17940541--17940600	27	2.2	27	82	5	68	25	6	25	43	1.78
17940566--17941006	54	8.2	54	80	5	435	19	16	20	43	1.88
17940567--17941006	81	5.4	81	81	4	435	19	16	20	43	1.88
17940579--17941022	27	16.4	27	77	7	391	19	17	20	43	1.89
17942002--17943607	576	2.8	576	77	10	1621	33	27	13	26	1.93
17949253--17949364	59	1.9	59	84	0	152	21	28	12	37	1.90
17949353--17949419	29	2.3	29	89	0	98	25	26	8	38	1.85
17950570--17950979	41	9.8	41	80	8	416	21	17	25	35	1.95
17950615--17950932	84	3.8	84	96	0	582	19	17	26	36	1.94
17950616--17950979	42	8.6	42	80	8	391	20	17	26	36	1.94
17952924--17952986	29	2.2	29	85	0	81	19	26	12	41	1.87
17952978--17953048	29	2.4	29	81	4	72	30	22	7	39	1.81
17952995--17953130	29	4.7	29	80	4	134	26	21	13	38	1.91
17953956--17953983	5	5.6	5	100	0	56	39	0	0	60	0.97
17964293--17964318	9	2.9	9	100	0	52	23	23	30	23	1.99
17995037--17995235	43	4.7	40	76	10	191	35	25	17	22	1.95
17994996--17995235	85	2.8	85	85	1	331	34	24	17	23	1.96
18006134--18006169	15	2.4	15	90	0	54	22	16	8	52	1.70
18011438--18011488	21	2.4	22	87	9	70	23	9	23	43	1.83
18016931--18016975	20	2.2	20	96	0	81	24	22	22	31	1.99
18018083--18018128	17	2.8	17	78	12	51	28	17	8	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18022542--18022617	38	2.0	38	82	5	91	46	2	31	19	1.64
18026124--18026465	45	7.8	45	72	11	208	26	24	20	28	1.99
18026216--18026591	44	8.7	43	71	13	238	28	23	19	28	1.99
18026038--18026604	217	2.6	216	81	6	575	27	23	19	29	1.98
18026601--18026808	100	2.1	100	88	0	308	24	21	19	34	1.97
18035111--18035168	29	2.0	29	100	0	116	27	24	31	17	1.97
18035568--18035605	19	2.0	20	84	5	51	39	10	5	44	1.61
18039382--18039501	52	2.3	52	80	7	127	53	6	8	31	1.57
18039580--18039614	17	2.1	17	88	0	52	65	5	2	25	1.28
18039712--18039783	34	2.1	34	100	0	144	61	11	5	22	1.50
18049269--18049320	26	2.0	26	96	0	95	30	30	17	21	1.96
18053363--18053428	29	2.3	29	81	0	87	40	21	16	21	1.91
18055032--18055117	41	2.1	41	82	0	100	34	15	25	24	1.94
18058783--18058826	23	1.9	23	86	9	63	29	2	22	45	1.65
18060316--18060696	50	7.5	50	84	2	415	23	30	20	25	1.98
18063940--18064004	28	2.3	28	100	0	130	32	13	30	23	1.93
18080901--18081066	85	2.0	85	90	2	262	24	32	16	25	1.96
18080901--18081092	43	4.5	43	88	2	262	24	31	17	27	1.97
18082515--18082540	2	13.0	2	100	0	52	50	0	0	50	1.00
18084636--18084779	67	2.1	67	94	0	252	38	8	12	40	1.73
18084703--18084968	148	1.8	147	94	0	469	32	13	12	41	1.81
18085908--18086076	89	1.9	90	90	1	268	46	26	2	24	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18086092--18086133	21	2.0	21	90	0	66	28	47	0	23	1.52
18086100--18086146	21	2.2	21	84	0	58	34	40	0	25	1.56
18086622--18086899	41	6.8	41	83	0	286	29	26	21	21	1.99
18086626--18086899	123	2.2	123	83	3	327	30	26	21	21	1.98
18087743--18087940	50	3.8	50	78	4	171	20	27	22	29	1.98
18093718--18093773	21	2.7	21	78	15	62	35	28	16	19	1.93
18119018--18119074	30	1.9	30	89	7	89	38	7	22	31	1.81
18119328--18119473	51	2.8	52	76	7	163	25	17	25	31	1.97
18119479--18119577	46	2.2	43	82	12	119	23	19	25	32	1.97
18119701--18119732	16	2.0	16	93	0	55	59	0	12	28	1.34
18122934--18122978	22	2.0	22	83	8	56	40	4	0	55	1.20
18123619--18123664	21	2.3	20	78	14	51	30	6	17	45	1.73
18137732--18137764	17	1.9	17	100	0	66	63	12	12	12	1.52
18140642--18140673	15	2.1	15	100	0	64	18	6	12	62	1.50
18143070--18143240	27	6.3	27	81	5	202	43	16	19	19	1.88
18143078--18143237	81	2.0	81	87	0	230	43	16	20	20	1.88
18143388--18143461	26	2.8	27	81	4	80	18	16	22	41	1.89
18143416--18143511	26	3.7	26	84	1	113	14	15	23	45	1.83
18144468--18144501	18	1.9	18	88	5	52	50	5	23	20	1.70
18149384--18149485	50	2.0	50	100	0	204	15	12	38	33	1.86
18150536--18150797	27	9.7	27	80	6	271	40	20	19	19	1.91
18150963--18151031	26	2.7	25	78	8	68	20	24	17	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18154171--18154267	40	2.5	40	83	5	117	27	17	32	21	1.96
18154179--18154267	20	4.4	20	80	5	99	26	16	33	22	1.96
18171773--18171857	41	2.1	40	86	6	118	22	18	5	52	1.66
18173397--18173436	21	1.9	21	100	0	80	27	10	22	40	1.86
18175483--18175522	21	1.9	21	100	0	80	27	10	22	40	1.86
18180148--18180258	48	2.3	48	85	3	143	15	16	26	42	1.87
18184528--18184560	13	2.4	14	90	5	50	42	6	3	48	1.43
18190150--18190198	22	2.2	22	89	7	73	81	6	6	6	0.98
18190188--18190268	6	12.7	6	73	21	58	75	4	13	6	1.16
18190187--18190268	13	6.3	13	72	20	64	75	4	13	6	1.15

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