genome.fa.s12.2.7.7.80.10.50.1000.110.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  110  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)
31988336--31988401	27	2.4	27	82	0	78	7	34	31	25	1.84
31990864--31990919	25	2.3	25	81	9	62	12	12	10	64	1.51
31993474--31993522	18	2.7	20	81	15	61	26	6	0	67	1.14
31994399--31994439	18	2.3	18	88	12	59	36	0	2	60	1.10
31994723--31994748	9	2.9	9	100	0	52	80	0	7	11	0.89
31995244--31995305	9	6.8	9	73	10	54	27	1	1	69	1.07
31995253--31995302	19	2.7	18	81	9	57	26	2	2	70	1.09
31995245--31995304	27	2.2	27	82	5	68	28	1	1	68	1.09
31995371--31995427	17	3.6	16	77	20	57	29	0	1	68	1.00
31995370--31995424	14	3.4	17	78	16	55	27	0	1	70	0.97
31995445--31995480	16	2.2	16	90	0	54	27	0	0	72	0.85
32004064--32004102	15	2.6	15	84	11	53	12	2	2	82	0.89
32008965--32009092	43	3.0	43	87	1	150	21	20	21	35	1.96
32015922--32015982	28	2.2	28	88	8	90	32	8	0	59	1.27
32017846--32017870	10	2.5	10	100	0	50	12	0	0	88	0.53
32022499--32022542	2	22.5	2	95	4	81	47	0	0	52	1.00
32023758--32023782	13	1.9	13	100	0	50	72	0	0	28	0.86
32030457--32030503	22	2.1	22	92	0	76	42	17	23	17	1.88
32034132--32034169	19	2.0	20	84	5	51	57	2	0	39	1.12
32038390--32038431	2	21.0	2	100	0	84	0	50	0	50	1.00
32057329--32057353	12	2.1	12	100	0	50	24	36	24	16	1.94
32057513--32057607	9	10.4	9	87	6	138	38	28	10	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32075928--32075968	18	2.4	18	80	11	52	31	0	4	63	1.15
32076851--32076923	28	2.7	26	69	19	60	39	2	1	56	1.22
32084156--32084291	67	2.0	67	98	0	263	28	19	16	36	1.93
32100420--32100454	8	4.2	8	89	7	52	28	2	2	65	1.21
32100420--32100454	17	2.1	16	89	5	52	28	2	2	65	1.21
32100905--32100943	19	2.1	19	100	0	78	35	23	10	30	1.88
32100909--32100950	19	2.2	19	91	0	66	33	23	14	28	1.94
32101032--32101092	27	2.3	27	94	2	106	34	32	13	19	1.90
32104745--32104796	21	2.3	21	83	9	59	38	9	3	48	1.54
32108802--32108835	11	2.8	13	91	8	54	44	11	8	35	1.72
32109902--32110157	33	7.5	33	67	25	140	21	19	27	32	1.97
32109898--32110202	103	3.0	103	92	0	493	21	19	27	31	1.97
32113918--32113966	25	1.9	27	84	12	68	34	4	2	59	1.28
32123416--32123459	18	2.3	19	84	7	63	27	6	0	65	1.17
32123542--32123608	21	3.0	21	72	14	55	25	8	2	62	1.39
32129992--32130050	15	3.9	15	86	0	73	22	35	16	25	1.95
32130749--32130773	12	2.1	12	100	0	50	0	8	0	92	0.40
32134125--32134207	41	2.0	42	90	2	132	40	12	2	44	1.54
32142860--32143048	98	1.9	96	80	6	211	39	12	27	20	1.88
32143331--32143357	12	2.2	12	100	0	54	29	14	48	7	1.71
32144061--32144162	46	2.2	46	86	5	136	20	20	33	25	1.97
32146278--32146436	77	2.0	79	92	2	268	31	6	25	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32151257--32151314	29	2.0	29	86	6	82	44	13	6	34	1.71
32152378--32152415	17	2.3	17	86	13	53	36	0	0	63	0.95
32153636--32153660	4	6.2	4	100	0	50	24	0	0	76	0.80
32156582--32156619	15	2.5	15	87	8	51	31	0	2	65	1.06
32156870--32156920	13	3.9	13	89	0	84	31	7	25	35	1.85
32157670--32157710	21	2.1	20	86	13	59	51	0	4	43	1.23
32159695--32159741	22	2.2	22	85	7	62	55	0	4	40	1.19
32160041--32160065	10	2.5	10	100	0	50	60	0	0	40	0.97
32160938--32160962	8	3.1	8	100	0	50	24	0	24	52	1.48
32168502--32168636	25	5.3	25	80	8	139	34	20	25	20	1.96
32168501--32168658	25	6.3	25	76	10	126	35	19	25	18	1.95
32168488--32168648	52	3.2	51	78	10	161	35	21	24	19	1.96
32170354--32170397	18	2.4	18	82	10	54	52	2	0	45	1.13
32170547--32170577	16	1.9	16	93	0	53	35	6	9	48	1.62
32175353--32175415	31	2.0	31	84	0	81	31	19	14	34	1.91
32199669--32199694	12	2.2	12	100	0	52	69	0	0	30	0.89
32199666--32199694	12	2.3	13	88	11	51	68	0	0	31	0.89
32202640--32202669	14	2.1	14	100	0	60	30	26	6	36	1.82
32219987--32220025	5	7.4	5	83	11	51	61	15	0	23	1.33
32219985--32220025	16	2.5	17	92	7	68	60	14	0	24	1.34
32219987--32220025	11	3.6	11	86	3	53	61	15	0	23	1.33
32220812--32220889	40	2.0	40	84	0	102	32	28	14	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32227337--32227370	17	2.0	17	94	0	59	50	11	2	35	1.54
32229448--32229522	30	2.4	30	82	4	87	28	24	5	42	1.76
32232873--32232909	17	2.2	17	100	0	74	37	10	21	29	1.88
32235291--32235317	2	13.5	2	100	0	54	48	0	0	51	1.00
32236733--32236771	14	2.8	14	88	0	51	33	2	5	58	1.33
32236704--32236755	22	2.4	21	84	9	68	28	3	5	61	1.37
32242360--32242432	19	3.8	19	92	0	119	36	12	16	34	1.86
32245140--32245173	5	7.0	5	93	6	61	0	38	0	61	0.96
32254679--32254731	26	2.0	26	85	0	70	35	16	26	20	1.94
32254801--32255047	32	7.7	33	79	5	208	36	21	21	21	1.95
32254801--32255047	64	3.9	63	79	5	248	36	21	21	21	1.95
32254781--32255047	96	2.8	95	82	4	306	37	20	20	20	1.95
32255050--32255104	26	2.1	27	86	3	76	34	20	21	23	1.97
32258418--32258664	43	5.8	42	89	1	332	25	27	19	26	1.99
32258834--32258863	14	2.1	14	100	0	60	46	13	6	33	1.69
32264226--32264266	22	1.9	21	85	5	55	46	36	0	17	1.48
32264224--32264294	29	2.4	28	77	15	72	45	35	0	19	1.51
32264738--32265032	41	7.2	40	87	4	405	31	28	22	17	1.97
32264738--32265049	123	2.6	123	89	3	452	32	27	21	17	1.96
32265089--32265241	40	3.8	37	75	11	108	24	21	18	35	1.96
32265718--32265925	82	2.5	82	89	7	294	48	9	4	37	1.57
32269464--32269498	16	2.2	17	90	10	56	60	11	5	22	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32283245--32283289	23	2.0	23	95	0	81	40	0	6	53	1.27
32284492--32284527	18	1.9	19	88	5	56	50	5	0	44	1.25
32285214--32285259	23	2.0	23	82	0	56	47	0	2	50	1.13
32288704--32288744	21	2.0	21	85	0	55	58	2	0	39	1.11
32290567--32290652	20	4.2	20	88	7	120	55	3	6	33	1.44
32290564--32290651	22	4.2	22	90	9	141	56	3	6	32	1.42
32290567--32290652	42	2.1	39	93	6	145	55	3	6	33	1.44
32295500--32295596	33	2.8	35	72	20	89	44	3	1	51	1.24
32299225--32299264	20	2.0	20	85	9	55	17	35	0	47	1.48
32305366--32305395	6	5.0	6	100	0	60	16	0	0	83	0.65
32307787--32307849	29	2.1	30	85	2	83	47	7	7	36	1.62
32310934--32310982	2	24.5	2	100	0	98	48	0	0	51	1.00
32313034--32313072	20	2.0	20	90	5	62	76	10	0	12	1.01
32316827--32317156	27	12.2	27	92	1	518	35	22	20	22	1.96
32320556--32320596	16	2.4	18	84	8	50	48	4	12	34	1.62
32323273--32323321	24	2.0	24	92	0	80	10	34	36	18	1.85
32327035--32327078	2	22.5	2	95	4	81	52	0	0	47	1.00
32328435--32328517	43	1.9	43	85	0	112	37	7	13	42	1.72
32336010--32336065	29	1.9	29	85	0	76	35	8	19	35	1.83
32339305--32339353	23	2.1	23	100	0	98	40	4	0	55	1.19
32342782--32342837	5	11.2	5	100	0	112	41	0	0	58	0.98
32343078--32343117	16	2.4	17	87	8	64	62	2	0	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32354007--32354036	2	15.0	2	100	0	60	50	0	0	50	1.00
32377040--32377069	15	1.9	16	93	6	53	0	30	0	70	0.88
32380678--32380702	12	2.1	12	100	0	50	24	36	24	16	1.94
32380861--32380926	9	7.4	9	86	3	98	36	22	7	33	1.83
32380860--32380926	26	2.5	26	95	2	116	37	22	7	32	1.82
32380926--32381035	37	3.0	37	91	0	175	46	14	5	33	1.68
32380949--32381012	20	3.3	20	68	12	62	43	18	6	31	1.75
32381279--32381323	7	6.3	7	79	5	54	55	13	15	15	1.69
32381480--32381510	16	1.9	16	93	0	53	35	6	12	45	1.68
32395100--32395131	16	1.9	17	93	6	57	50	0	0	50	1.00

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