genome.fa.s12.2.7.7.80.10.50.1000.47.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  47  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)
12753667--12753774	23	4.7	23	76	1	108	42	25	2	28	1.69
12753667--12753774	46	2.3	46	85	1	135	42	25	2	28	1.69
12757084--12757243	66	2.4	66	89	0	248	25	26	28	20	1.99
12758319--12758416	25	4.0	25	78	5	94	33	21	23	21	1.97
12759840--12760115	52	5.1	53	73	13	201	23	16	23	36	1.94
12759893--12760001	54	2.0	56	80	7	125	28	20	21	30	1.98
12766760--12766784	13	1.9	13	100	0	50	16	8	12	64	1.49
12773948--12774006	30	2.0	29	90	3	91	27	5	11	55	1.56
12774795--12774848	25	2.1	26	83	16	69	29	3	3	62	1.29
12775740--12775813	3	24.7	3	100	0	148	66	0	33	0	0.92
12779108--12779174	22	3.1	21	72	16	64	44	20	22	11	1.84
12779344--12779400	27	2.2	26	80	3	60	19	15	21	43	1.87
12792979--12793049	27	2.7	27	71	16	67	29	25	4	40	1.74
12793302--12793328	5	5.4	5	100	0	54	22	22	0	55	1.44
12793839--12793959	60	2.0	61	82	7	149	41	21	28	9	1.83
12793839--12793959	20	6.0	20	77	4	118	41	21	28	9	1.83
12801200--12801314	51	2.2	52	83	4	144	43	5	20	31	1.73
12805705--12805742	20	1.9	20	94	0	67	44	15	0	39	1.47
12805710--12805752	20	2.2	20	86	0	59	46	20	2	30	1.63
12822727--12822784	28	2.1	28	96	0	107	36	6	1	55	1.37
12829037--12829080	7	6.3	7	89	0	52	27	0	27	45	1.54
12829098--12829153	21	2.8	19	87	12	78	21	1	5	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12829098--12829153	20	2.8	18	78	19	58	21	1	5	71	1.15
12833015--12833047	15	2.3	15	89	5	50	30	0	0	69	0.88
12833926--12833950	13	1.9	13	100	0	50	28	40	8	24	1.83
12834805--12834843	14	2.8	14	80	0	51	35	10	12	41	1.77
12835032--12835076	23	2.0	23	83	8	58	35	0	6	57	1.25
12835059--12835132	37	2.0	36	84	10	96	45	1	4	48	1.29
12836173--12836213	15	2.5	17	80	11	59	65	0	0	34	0.93
12836179--12836235	22	2.6	22	76	13	55	57	1	0	40	1.09
12839054--12839100	22	2.1	22	84	7	60	51	2	8	38	1.45
12842401--12842446	16	2.9	16	78	15	51	69	2	4	23	1.17
12843812--12843922	19	5.8	19	90	0	177	36	11	15	36	1.84
12844485--12844542	3	19.0	3	83	16	75	32	1	1	63	1.14
12844646--12844718	24	2.9	24	76	13	67	30	2	2	64	1.21
12844950--12845139	98	1.9	98	95	0	344	27	10	24	37	1.87
12846949--12846973	2	12.5	2	100	0	50	52	48	0	0	1.00
12848384--12848451	19	3.6	19	74	12	61	42	1	0	55	1.08
12848642--12848706	30	2.2	30	88	5	96	60	4	4	30	1.37
12850118--12850149	15	2.1	15	94	0	55	15	6	9	68	1.36
12854293--12854331	2	19.5	2	100	0	78	51	48	0	0	1.00
12856431--12856522	17	5.4	17	65	23	50	43	3	5	47	1.42
12858467--12858542	37	2.1	37	100	0	152	56	2	5	35	1.36
12866390--12866420	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12869639--12869775	29	4.8	29	76	1	123	23	14	21	40	1.90
12869957--12870011	5	11.0	5	100	0	110	40	0	20	40	1.52
12873899--12873960	31	2.0	31	100	0	124	35	3	16	45	1.63
12880254--12880305	16	3.2	16	94	0	86	34	36	0	28	1.58
12880894--12880951	22	2.6	22	81	7	64	41	15	5	37	1.70
12881677--12881779	51	2.0	51	81	3	118	25	26	19	29	1.99
12881691--12881799	51	2.1	51	80	6	114	25	26	18	29	1.98
12881757--12882021	100	2.7	100	94	0	458	26	23	20	30	1.98
12881757--12882027	50	5.4	50	71	3	195	26	23	20	29	1.99
12882160--12882274	44	2.6	44	86	2	151	29	24	18	27	1.98
12882243--12882382	34	3.8	34	77	20	147	28	26	20	24	1.99
12882277--12882410	44	3.3	44	78	20	180	28	27	17	26	1.98
12882199--12882410	78	2.7	78	92	1	354	28	27	18	25	1.98
12889816--12889882	22	3.0	22	93	2	107	35	17	7	38	1.78
12889838--12889895	22	2.8	20	89	7	82	32	15	10	41	1.81
12890562--12890801	125	1.9	124	88	4	367	29	14	23	33	1.94
12894136--12894602	23	20.3	22	77	17	363	29	2	22	46	1.64
12894165--12894202	17	2.2	17	95	0	67	28	2	15	52	1.56
12894179--12894616	51	9.3	49	78	15	305	29	2	21	46	1.64
12894136--12894616	96	5.2	95	78	16	424	29	2	22	46	1.64
12894350--12894419	28	2.5	28	93	4	115	34	2	18	44	1.65
12894406--12894439	17	2.0	17	94	0	59	32	0	20	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12894467--12894502	17	2.1	17	94	0	63	30	2	11	55	1.49
12894487--12894616	28	5.0	27	81	18	154	28	3	20	47	1.65
12894482--12894616	23	5.4	25	83	13	156	27	2	21	48	1.65
12896795--12896828	15	2.3	15	90	5	52	67	5	0	26	1.13
12913049--12913240	30	6.5	30	79	8	205	34	13	27	24	1.93
12913049--12913324	89	3.1	88	81	6	272	37	14	25	22	1.92
12913048--12913323	119	2.3	119	87	1	374	37	14	25	22	1.92
12913227--12913298	30	2.4	30	83	0	90	47	12	23	16	1.81
12913777--12913812	17	2.1	17	100	0	72	33	5	0	61	1.19
12915887--12915928	19	2.2	19	80	12	50	57	2	0	40	1.12
12915888--12915928	20	2.1	19	86	4	55	58	2	0	39	1.11
12919345--12919450	41	2.6	41	77	5	108	28	18	27	25	1.98
12927502--12927611	42	2.6	43	84	4	143	30	18	22	29	1.97
12928254--12928295	2	21.0	2	90	9	68	50	0	2	47	1.14
12930752--12930843	41	2.2	41	90	5	141	33	4	16	45	1.67
12935267--12935311	23	2.0	23	90	0	72	57	4	6	31	1.44
12936151--12936195	23	2.0	22	86	4	63	31	20	6	42	1.77
12936174--12936227	19	2.8	20	86	8	85	33	12	11	42	1.79
12947051--12947107	30	1.9	30	88	0	87	17	26	26	29	1.97
12948572--12948623	23	2.3	23	82	0	68	34	11	15	38	1.83
12948749--12948774	6	4.3	6	100	0	52	15	0	0	84	0.62
12948748--12948781	12	3.0	11	87	8	50	20	0	0	79	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12957010--12957098	44	2.0	44	95	0	160	38	21	14	25	1.92
12959973--12960141	74	2.3	74	83	2	214	42	18	13	26	1.87
12971481--12971573	40	2.2	40	81	9	98	41	24	1	32	1.62
12983357--12983409	27	2.0	27	88	0	79	26	30	22	20	1.98
12983427--12983631	33	5.6	33	65	22	115	31	25	20	21	1.98
12983384--12983636	76	3.4	76	89	3	388	30	26	20	22	1.98
12991877--12991933	29	1.9	30	89	3	89	22	31	12	33	1.91
13000425--13000509	39	2.2	39	85	6	109	42	2	0	55	1.12
13012678--13012737	30	2.0	30	83	3	75	26	8	13	51	1.69
13013922--13013956	2	17.5	2	100	0	70	0	48	0	51	1.00
13013956--13013997	2	21.0	2	100	0	84	50	0	0	50	1.00
13032844--13032894	27	1.9	26	88	11	77	43	23	19	13	1.87
13044154--13044206	8	6.4	8	78	8	52	64	1	1	32	1.15
13044136--13044206	34	2.1	34	94	0	124	60	4	2	32	1.30
13048897--13048999	45	2.3	44	86	5	145	48	10	19	21	1.79
13048921--13048993	22	3.3	21	75	16	76	47	10	19	21	1.79
13050513--13050542	16	1.9	16	93	6	53	20	13	16	50	1.78
13054852--13054892	21	2.0	21	85	9	57	17	9	4	68	1.35
13060851--13060934	25	3.4	25	98	0	159	30	26	21	21	1.98
13060848--13060959	50	2.2	50	87	0	161	31	22	23	23	1.99
13069377--13069445	25	2.8	24	82	4	75	23	26	21	28	1.99
13069403--13069471	25	2.8	25	86	0	93	23	27	23	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13069468--13069519	25	2.1	25	82	3	61	32	25	17	25	1.97
13075396--13075479	25	3.4	24	82	12	116	21	22	20	35	1.96
13075398--13075517	50	2.4	50	81	4	136	27	23	19	30	1.98
13076625--13076654	16	1.9	16	93	6	53	30	0	20	50	1.49
13076968--13076997	16	1.9	15	93	6	51	40	0	13	46	1.43
13093476--13093508	14	2.4	14	94	0	57	30	36	0	33	1.58
13094667--13094707	20	2.0	20	86	9	57	58	4	4	31	1.40
13096550--13096830	127	2.2	125	81	8	302	32	16	20	31	1.94
13099557--13099637	31	2.7	30	82	5	92	44	11	9	34	1.73
13136448--13136715	29	9.2	29	80	5	290	24	25	13	36	1.91

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