genome.fa.s12.2.7.7.80.10.50.1000.111.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  111  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)
32397484--32397529	3	15.3	3	80	17	51	32	0	36	30	1.58
32404530--32404571	4	10.5	4	94	0	75	50	28	0	21	1.49
32406885--32406952	31	2.2	31	84	2	84	38	2	0	58	1.13
32408556--32408598	7	6.0	7	81	13	52	39	0	0	60	0.97
32408557--32408598	22	1.9	22	85	9	59	38	0	0	61	0.96
32430880--32430905	3	8.7	3	100	0	52	0	34	0	65	0.93
32433953--32434014	31	2.0	31	90	0	97	45	11	9	33	1.73
32437426--32437457	16	2.0	16	93	0	55	84	0	15	0	0.63
32438885--32438967	31	2.8	29	81	7	78	36	10	14	38	1.81
32440471--32440501	12	2.6	12	94	0	53	51	3	0	45	1.17
32446006--32446098	11	8.9	11	75	19	92	40	2	0	56	1.11
32445996--32446067	31	2.4	30	90	4	117	41	1	0	56	1.07
32446006--32446098	42	2.2	41	92	1	150	40	2	0	56	1.11
32447401--32447464	23	2.8	23	92	0	110	28	18	17	35	1.93
32452571--32452635	3	21.7	3	73	17	55	33	1	3	61	1.21
32452572--32452632	18	3.0	20	76	16	63	34	1	3	60	1.23
32452585--32452639	18	3.1	18	81	5	67	32	3	1	61	1.24
32452714--32452745	11	2.8	12	90	9	50	28	0	0	71	0.86
32453261--32453285	11	2.3	11	100	0	50	24	16	16	44	1.86
32453620--32453692	11	6.8	11	80	16	73	46	2	0	50	1.15
32455243--32455292	16	3.2	16	72	13	50	48	2	2	48	1.24
32458699--32458755	22	2.5	22	85	5	69	52	1	1	43	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32458722--32458772	26	2.0	26	92	0	84	54	1	5	37	1.36
32458724--32458779	26	2.2	26	86	0	76	57	1	5	35	1.32
32460375--32460407	2	16.5	2	100	0	66	51	0	0	48	1.00
32462766--32462796	16	2.0	16	93	6	55	58	0	19	22	1.40
32462956--32462995	18	2.2	18	90	0	62	50	15	0	35	1.44
32462886--32462984	2	50.5	2	93	4	157	51	3	0	45	1.16
32464481--32464574	21	4.5	21	69	0	62	19	7	52	21	1.70
32471494--32471742	46	5.3	46	87	5	318	35	14	21	28	1.92
32471494--32471742	98	2.6	92	87	7	381	35	14	21	28	1.92
32471428--32471743	144	2.2	144	94	0	551	35	14	21	28	1.93
32471706--32471925	37	6.0	37	95	1	381	38	15	20	25	1.92
32473009--32473056	18	2.6	18	86	3	60	60	0	4	35	1.16
32478360--32478389	14	2.1	15	93	6	53	46	0	0	53	1.00
32494461--32494490	15	1.9	16	93	6	53	53	6	0	40	1.27
32494642--32494672	4	7.8	4	92	0	53	48	0	3	48	1.17
32496198--32496236	16	2.5	15	84	8	51	41	0	0	58	0.98
32501004--32501094	25	3.7	24	75	11	69	31	19	25	23	1.98
32501018--32501191	24	7.0	24	69	16	70	32	17	29	20	1.95
32501119--32501208	27	3.4	27	84	6	114	33	16	30	20	1.94
32501237--32501316	25	3.2	24	80	7	70	36	20	28	15	1.92
32501272--32501333	25	2.5	25	89	5	90	32	24	25	17	1.97
32501313--32501366	25	2.2	25	83	6	65	24	24	27	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32504688--32504756	18	3.9	17	76	14	61	28	5	5	59	1.44
32505127--32505188	2	32.5	2	75	15	51	46	3	1	48	1.28
32505133--32505191	15	4.1	15	66	16	52	44	3	1	50	1.28
32505611--32505916	111	2.9	108	87	4	417	31	16	18	34	1.93
32527591--32527647	30	1.9	29	85	3	78	63	3	0	33	1.12
32527619--32527658	16	2.4	17	87	8	55	60	0	0	40	0.97
32530819--32530912	37	2.4	37	85	7	116	30	27	18	23	1.97
32531806--32531884	4	18.0	4	74	19	61	1	24	2	72	1.05
32531806--32531858	9	6.2	9	75	18	51	0	26	0	73	0.83
32531797--32531884	34	2.6	32	84	8	113	1	25	3	70	1.10
32531806--32531884	33	2.4	33	87	8	115	1	24	2	72	1.05
32531909--32531957	26	1.9	25	87	4	71	36	4	0	59	1.17
32534347--32534372	12	2.2	12	100	0	52	50	0	0	50	1.00
32535261--32535298	16	2.4	16	86	8	51	36	0	5	57	1.21
32539765--32539930	79	2.1	79	92	2	271	34	13	12	39	1.82
32543751--32543797	2	23.5	2	91	0	76	46	4	48	0	1.21
32545470--32545505	18	2.0	18	94	0	63	50	13	5	30	1.65
32557545--32557615	25	3.0	23	76	10	61	67	0	0	32	0.91
32558504--32558587	39	2.2	39	100	0	168	52	14	9	23	1.71
32559152--32559272	63	1.9	63	100	0	242	39	18	1	40	1.60
32559247--32559292	20	2.3	20	100	0	92	23	32	4	39	1.75
32559247--32559300	20	2.7	20	91	0	63	29	27	3	38	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32559129--32559359	83	2.8	86	71	10	262	42	16	2	38	1.60
32566935--32566967	2	16.5	2	100	0	66	51	0	0	48	1.00
32568577--32568621	23	1.9	24	82	13	58	68	2	0	28	1.01
32576167--32576205	19	2.1	19	90	9	62	43	0	2	53	1.14
32576169--32576215	24	2.0	23	87	4	67	46	0	2	51	1.13
32577311--32577343	17	1.9	17	100	0	66	42	9	0	48	1.35
32580923--32581611	44	15.8	43	69	11	364	28	21	18	30	1.97
32580862--32581439	129	4.4	129	78	7	562	29	21	19	29	1.97
32581012--32581349	175	1.9	175	92	1	570	28	22	18	30	1.98
32581062--32581612	263	2.1	262	93	1	924	28	21	19	31	1.97
32581325--32581659	175	1.9	175	90	1	537	28	20	19	31	1.97
32582699--32582745	21	2.2	21	88	0	67	25	38	10	25	1.88
32583704--32583742	7	5.4	7	81	6	51	0	15	0	84	0.62
32583699--32583744	6	7.8	6	83	9	51	0	19	0	80	0.71
32583757--32583790	16	2.2	16	89	5	52	5	0	11	82	0.83
32592392--32592434	8	5.4	8	86	8	61	62	0	0	37	0.95
32598397--32598430	12	2.8	12	86	0	50	47	14	8	29	1.75
32598476--32598530	16	3.6	16	73	14	62	43	25	3	27	1.71
32598473--32598547	29	2.6	29	93	0	123	45	21	4	29	1.70
32598827--32598946	9	14.2	9	77	13	121	47	18	1	32	1.58
32598831--32598946	16	6.9	17	74	16	100	47	18	1	32	1.59
32598827--32598946	25	4.8	25	86	0	177	47	18	1	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32598800--32598946	50	2.9	50	83	6	172	49	17	2	30	1.58
32604103--32604231	66	2.0	66	84	6	172	38	17	27	15	1.90
32604102--32604246	66	2.2	66	81	4	168	39	16	29	14	1.88
32604217--32604261	21	2.1	21	84	8	56	35	15	42	6	1.73
32604651--32604911	43	6.0	43	80	2	290	21	17	31	29	1.96
32604651--32604903	130	2.0	129	85	5	341	22	16	30	30	1.96
32604671--32604941	43	6.3	43	78	3	172	24	18	30	27	1.98
32604671--32604923	87	2.9	86	89	2	364	22	17	30	28	1.97
32609696--32609740	20	2.2	20	84	7	56	35	6	31	26	1.82
32614109--32614165	23	2.5	23	80	5	62	59	5	8	26	1.48
32614127--32614214	21	4.0	21	80	5	86	55	3	7	32	1.45
32615378--32615411	15	2.3	15	90	10	52	5	5	52	35	1.50
32618939--32618984	3	15.3	3	95	0	83	32	2	0	65	1.05
32619177--32619224	24	2.0	25	83	4	62	47	10	4	37	1.57
32622164--32622208	21	2.2	21	84	11	58	37	0	13	48	1.42
32622164--32622208	20	2.2	20	84	11	56	37	0	13	48	1.42
32623136--32623178	22	2.0	22	81	9	52	48	16	2	32	1.58
32626289--32626342	26	2.0	26	89	7	81	44	9	0	46	1.35
32629251--32629297	24	2.0	24	91	0	76	29	23	6	40	1.79
32633065--32633123	29	2.0	29	93	0	100	11	27	22	38	1.89
32633567--32633612	24	1.9	24	95	0	83	30	28	4	36	1.76
32635580--32635627	21	2.3	22	82	10	64	16	4	35	43	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32635663--32635700	19	2.0	19	89	0	58	23	10	31	34	1.89
32657347--32657371	10	2.5	10	100	0	50	20	16	0	64	1.30
32660970--32660999	13	2.2	14	94	5	53	26	0	20	53	1.46
32669155--32669203	19	2.5	21	84	15	61	36	2	0	61	1.08
32670275--32670316	15	2.8	15	80	20	52	26	2	2	69	1.13
32670851--32670897	23	1.9	23	83	12	58	51	6	8	34	1.58
32671822--32671889	35	1.9	35	88	5	102	38	14	4	42	1.66
32675273--32675340	35	1.9	35	91	5	111	39	14	2	42	1.61
32675273--32675330	20	3.2	19	68	31	54	39	15	1	43	1.57
32676716--32676767	24	2.2	24	85	0	68	53	9	3	32	1.51

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