genome.fa.s12.2.7.7.80.10.50.1000.22.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  22  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)
6171270--6171312	20	2.1	21	86	4	61	53	23	0	23	1.46
6171372--6171426	20	2.8	19	79	17	67	54	30	0	14	1.41
6171442--6171480	14	2.8	14	77	14	53	53	10	0	35	1.35
6171471--6171537	14	4.9	14	69	10	57	49	29	0	20	1.50
6171470--6171537	7	9.9	7	73	6	50	48	29	0	22	1.51
6171469--6171520	26	2.0	27	88	3	79	51	25	0	23	1.48
6171621--6171666	14	3.3	15	76	11	53	50	23	0	26	1.50
6172071--6172125	20	2.8	19	77	22	60	56	29	0	14	1.39
6172148--6172172	7	3.6	7	100	0	50	60	0	0	40	0.97
6172202--6172226	7	3.6	7	100	0	50	48	36	0	16	1.46
6172307--6172351	21	2.1	21	87	0	63	51	24	0	24	1.49
6172395--6172448	28	1.9	27	82	14	65	50	22	1	25	1.59
6171151--6172775	692	2.3	692	92	1	2781	52	23	1	22	1.55
6172659--6172701	20	2.1	21	86	4	61	53	23	0	23	1.46
6172885--6173013	15	8.7	15	75	14	92	47	31	1	20	1.59
6172927--6173018	7	12.4	7	75	10	67	45	31	2	20	1.63
6172946--6173012	8	8.9	8	70	16	54	46	32	1	19	1.59
6173575--6173653	20	3.9	20	78	8	70	55	21	1	21	1.50
6173621--6173660	21	1.9	21	84	0	53	62	15	0	22	1.32
6173629--6173660	14	2.3	14	100	0	64	65	12	0	21	1.25
6173712--6173745	14	2.4	14	95	0	59	44	29	0	26	1.55
6175127--6175219	20	4.6	20	78	8	89	54	20	1	23	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6175414--6175464	7	7.4	7	73	4	50	49	31	1	17	1.58
6175455--6175512	30	1.9	31	85	3	82	50	25	1	22	1.59
6175502--6175567	27	2.4	27	84	0	69	50	30	1	18	1.56
6175948--6175990	20	2.1	21	86	4	61	53	23	0	23	1.46
6176054--6176157	27	3.8	29	72	17	73	53	26	0	19	1.45
6176085--6176150	13	4.9	13	75	12	53	54	24	0	21	1.45
6176050--6176144	20	4.7	19	74	17	77	52	28	0	18	1.46
6176095--6176178	33	2.5	33	83	7	98	52	26	0	21	1.47
6176054--6176179	40	3.1	41	80	8	132	52	28	0	19	1.46
6177599--6177641	20	2.1	21	86	4	61	53	23	0	23	1.46
6177701--6177755	20	2.8	19	79	17	67	54	30	0	14	1.41
6177778--6177802	7	3.6	7	100	0	50	60	0	0	40	0.97
6177771--6177810	14	2.9	14	78	14	55	52	10	0	37	1.35
6177800--6177928	15	8.7	15	73	14	74	47	29	1	21	1.60
6177799--6177896	36	2.7	35	73	14	92	47	28	1	22	1.58
6177842--6177933	7	12.4	7	76	10	58	45	30	2	21	1.64
6177865--6177914	22	2.2	23	92	3	84	48	30	2	20	1.61
6177840--6177916	22	3.5	22	79	10	77	44	31	2	22	1.66
6178431--6178509	20	3.9	20	78	8	70	55	21	1	21	1.50
6178477--6178516	21	1.9	21	84	0	53	62	15	0	22	1.32
6178485--6178516	14	2.3	14	100	0	64	65	12	0	21	1.25
6178568--6178601	14	2.4	14	95	0	59	44	29	0	26	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6178574--6178646	14	5.5	13	74	22	53	50	28	1	19	1.56
6179763--6179801	14	2.8	14	77	14	53	53	10	0	35	1.35
6179791--6179998	7	28.9	7	70	17	106	47	28	1	22	1.60
6179790--6179869	26	2.9	27	79	7	81	48	27	0	23	1.51
6179825--6179998	22	7.9	22	75	14	130	46	29	1	22	1.62
6179811--6179937	68	1.9	68	82	9	163	48	26	1	23	1.60
6179878--6180032	7	21.9	7	74	13	77	47	28	1	23	1.60
6180372--6180435	15	4.3	15	70	23	55	48	25	0	26	1.51
6180575--6180617	20	2.1	21	86	4	61	53	23	0	23	1.46
6180677--6180753	20	3.8	20	75	16	79	54	24	0	20	1.45
6180697--6180733	13	2.7	13	91	8	56	62	21	0	16	1.33
6180669--6180754	20	4.2	21	75	12	74	52	23	0	24	1.47
6181321--6181359	14	2.8	14	77	14	53	53	10	0	35	1.35
6181349--6181556	7	28.9	7	69	17	97	47	27	1	23	1.60
6181348--6181427	26	2.9	27	79	7	81	48	27	0	23	1.51
6181383--6181556	22	7.9	22	74	14	121	46	28	1	22	1.62
6181350--6181474	55	2.3	53	82	6	144	49	26	1	22	1.59
6181369--6181495	68	1.9	68	82	9	163	48	26	1	23	1.60
6181436--6181590	7	21.9	7	72	13	68	47	27	1	23	1.60
6181626--6181668	20	2.1	21	86	4	61	53	23	0	23	1.46
6181728--6181782	20	2.8	19	79	17	67	54	30	0	14	1.41
6181805--6181829	7	3.6	7	100	0	50	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6181870--6181941	22	3.2	22	80	5	83	45	33	2	18	1.63
6181869--6181960	7	12.4	7	75	10	67	45	31	2	20	1.63
6181827--6181955	15	8.7	15	73	14	83	47	30	2	20	1.62
6181888--6181954	8	8.9	8	70	16	54	46	32	1	19	1.59
6182182--6182276	15	6.7	14	72	11	70	50	27	0	22	1.49
6182186--6182229	8	5.8	8	84	7	56	47	34	0	18	1.49
6182458--6182537	20	4.0	20	74	9	72	55	22	1	21	1.51
6182493--6182557	27	2.4	28	82	5	80	56	20	0	23	1.42
6183358--6183396	20	2.0	20	90	5	62	56	28	0	15	1.40
6183502--6183617	7	16.4	7	73	8	65	47	28	0	23	1.58
6183492--6183612	27	4.2	29	72	16	83	46	28	0	24	1.59
6183494--6183568	22	3.4	22	80	10	89	44	30	1	24	1.62
6183809--6183842	14	2.4	14	95	0	59	44	29	0	26	1.55
6183815--6183887	14	5.5	13	74	22	53	50	28	1	19	1.56
6184019--6184082	15	4.3	15	70	23	55	48	25	0	26	1.51
6184328--6184404	20	3.8	20	75	16	79	54	24	0	20	1.45
6184348--6184384	13	2.7	13	91	8	56	62	21	0	16	1.33
6184320--6184405	20	4.2	21	75	12	74	52	23	0	24	1.47
6184566--6184638	21	3.5	21	68	20	55	54	23	1	20	1.52
6184566--6184678	20	5.6	20	72	13	70	55	21	0	22	1.49
6184837--6184880	20	2.1	21	83	4	54	52	22	4	20	1.65
6185151--6185206	13	3.9	14	77	11	51	48	26	1	23	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6185149--6185206	7	8.1	7	75	11	55	46	27	1	24	1.62
6185228--6185300	20	3.6	20	81	9	85	53	20	1	24	1.54
6185956--6185998	20	2.1	21	86	4	61	53	23	0	23	1.46
6186062--6186165	27	3.8	29	72	17	73	53	26	0	19	1.45
6186093--6186158	13	4.9	13	75	12	53	54	24	0	21	1.45
6186058--6186152	20	4.7	19	74	17	77	52	28	0	18	1.46
6186103--6186186	33	2.5	33	83	7	98	52	26	0	21	1.47
6186062--6186187	40	3.1	41	80	8	132	52	28	0	19	1.46
6186626--6186668	20	2.1	21	86	4	61	53	23	0	23	1.46
6186728--6186782	20	2.8	19	79	17	67	54	30	0	14	1.41
6186763--6186804	13	3.2	13	86	0	57	50	26	2	21	1.61
6186785--6186836	14	3.8	14	78	16	56	51	13	0	34	1.41
6186826--6187019	7	26.9	7	69	16	85	47	27	1	22	1.60
6186825--6186877	26	2.0	27	88	3	81	52	24	0	22	1.47
6186860--6186997	15	9.1	15	68	17	54	47	28	2	22	1.63
6186825--6187053	22	10.7	21	68	13	65	48	27	1	23	1.59
6186828--6186968	41	3.5	38	75	14	104	48	29	1	21	1.59
6186899--6187053	7	21.9	7	73	13	68	47	27	1	23	1.60
6187089--6187131	20	2.1	21	86	4	61	53	23	0	23	1.46
6187197--6187274	40	2.0	40	82	5	95	51	26	1	20	1.55
6187698--6187748	20	2.5	21	76	17	63	56	25	0	17	1.41
6187718--6187753	13	2.7	13	95	4	63	63	19	0	16	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6187832--6187864	7	4.7	7	92	0	57	45	24	0	30	1.53
6188039--6188092	15	3.8	15	78	14	60	48	29	0	22	1.51
6188037--6188092	7	8.0	7	76	6	51	46	28	0	25	1.53
6188060--6188176	41	2.9	38	72	15	92	53	23	1	20	1.54
6188107--6188178	20	3.5	20	85	9	92	58	19	2	19	1.52
6188155--6188219	14	4.7	14	75	1	51	49	26	0	24	1.51
6188242--6188285	21	2.0	23	91	8	74	59	22	0	18	1.38
6188407--6188444	20	1.9	20	100	0	76	55	34	0	10	1.34
6188380--6188450	27	2.7	27	82	2	81	53	29	2	14	1.55
6188405--6188457	7	7.6	7	83	8	63	50	35	0	13	1.41

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