genome.fa.s12.2.7.7.80.10.50.1000.60.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  60  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)
17040433--17040497	34	1.9	34	96	0	121	29	21	15	33	1.94
17042020--17042054	14	2.4	15	90	4	54	45	0	0	54	0.99
17043767--17043823	10	5.9	10	80	15	75	38	1	0	59	1.08
17043766--17043839	28	2.7	27	85	8	89	39	1	0	59	1.06
17043793--17043844	16	3.1	16	82	15	61	42	0	0	57	0.98
17043973--17044011	21	1.9	21	94	5	71	30	25	10	33	1.89
17045931--17045967	15	2.5	15	90	0	56	45	8	2	43	1.47
17045940--17045969	15	2.0	15	100	0	60	40	6	6	46	1.56
17046560--17046602	21	2.0	21	100	0	86	48	4	23	23	1.69
17049958--17051047	559	1.9	559	88	2	1645	33	17	13	35	1.89
17051040--17051086	14	3.1	15	82	8	60	17	46	0	36	1.48
17061402--17061560	35	4.5	35	86	1	212	39	27	12	20	1.89
17074664--17074955	27	10.6	27	76	6	219	29	25	12	32	1.93
17074664--17074955	54	5.3	54	79	6	259	29	25	12	32	1.93
17074773--17074834	32	1.9	32	86	0	88	30	27	11	30	1.91
17074715--17074888	86	2.0	86	87	2	251	28	27	12	32	1.92
17074695--17074955	113	2.4	113	81	4	300	28	24	12	34	1.92
17081457--17081483	7	3.9	7	100	0	54	74	0	25	0	0.83
17084048--17084096	20	2.5	20	81	15	66	8	24	10	57	1.59
17084361--17084484	50	2.5	50	82	0	140	19	28	25	27	1.99
17087607--17087805	30	6.7	30	76	5	116	23	21	15	40	1.91
17087637--17087856	30	7.4	29	73	9	106	20	23	15	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17087630--17087797	89	1.9	89	84	7	225	22	21	16	40	1.91
17087784--17087859	29	2.6	29	87	2	116	19	28	11	39	1.87
17087611--17087893	119	2.4	119	83	2	365	22	23	15	38	1.92
17097846--17097889	23	1.9	23	85	0	61	50	6	0	43	1.29
17099830--17100124	50	5.9	50	88	0	392	22	30	20	26	1.98
17099781--17100124	100	3.5	100	83	2	397	23	29	20	27	1.99
17099791--17100212	150	2.8	148	82	5	447	23	28	19	27	1.99
17104271--17104301	14	2.2	14	94	0	53	48	12	0	38	1.42
17106140--17106170	14	2.2	14	94	0	53	48	12	0	38	1.42
17108912--17108941	5	6.0	5	92	0	51	16	0	20	63	1.31
17112237--17112275	2	19.5	2	94	0	69	48	2	0	48	1.15
17116739--17116768	3	10.0	3	100	0	60	33	0	0	66	0.92
17119612--17119654	18	2.4	19	76	11	54	51	6	6	34	1.56
17121106--17121196	22	4.3	22	73	18	86	54	1	1	42	1.14
17121117--17121222	40	2.6	40	89	1	167	58	0	1	38	1.15
17121174--17121241	29	2.4	28	88	7	102	64	0	1	33	1.02
17125062--17125101	3	14.3	3	80	15	50	65	0	35	0	0.93
17125288--17125358	23	3.0	22	80	10	79	15	9	4	70	1.30
17125444--17125476	16	1.9	18	88	11	52	33	0	0	66	0.92
17130300--17130369	25	2.8	25	82	4	79	21	21	22	34	1.97
17131940--17132133	102	1.9	102	89	3	302	26	17	25	30	1.97
17131936--17132133	51	3.9	49	80	3	209	26	17	26	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17132128--17132222	45	2.1	45	88	0	145	27	17	23	31	1.97
17132354--17132378	8	3.1	8	100	0	50	64	0	24	12	1.27
17134770--17134799	16	1.9	16	93	6	53	30	0	20	50	1.49
17139388--17139417	8	3.8	8	90	0	51	13	0	3	83	0.77
17141742--17141888	36	4.1	36	86	0	186	34	10	19	34	1.87
17141742--17141869	18	7.1	18	69	10	91	34	9	19	36	1.84
17141819--17141885	18	3.7	18	76	7	64	38	14	17	28	1.90
17142335--17142386	27	1.9	27	88	0	77	32	21	17	28	1.96
17153176--17153212	18	2.1	18	94	0	65	51	8	21	18	1.72
17157884--17157936	11	4.6	11	76	15	54	60	5	5	28	1.42
17158016--17158063	3	16.0	3	100	0	96	66	0	0	33	0.92
17159573--17159938	100	3.7	99	87	2	473	23	21	23	32	1.98
17159573--17159932	50	7.2	50	72	5	251	23	20	23	32	1.98
17159573--17159938	200	1.8	200	87	0	552	23	21	23	32	1.98
17159915--17159961	23	2.0	23	91	0	76	17	25	19	38	1.92
17160081--17160172	44	2.1	44	87	0	130	26	22	20	30	1.98
17162434--17162467	15	2.3	15	90	5	52	11	0	5	82	0.83
17167393--17167427	3	11.7	3	100	0	70	65	0	0	34	0.93
17172299--17172342	23	1.9	22	82	17	54	36	27	0	36	1.57
17172479--17172626	50	3.0	49	81	4	188	29	30	18	20	1.97
17172438--17172631	101	1.9	99	83	9	250	31	28	17	23	1.96
17178958--17179001	20	2.1	21	84	12	56	15	4	4	75	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17186660--17186693	16	2.2	15	89	5	50	55	2	0	41	1.15
17191983--17192039	16	3.8	16	70	13	57	22	26	21	29	1.99
17194891--17194923	17	1.9	17	93	0	57	75	6	0	18	1.00
17208407--17208443	17	2.2	17	90	0	56	75	5	2	16	1.10
17208438--17208478	21	2.0	21	85	0	55	56	9	9	24	1.62
17215817--17216112	103	2.9	103	95	2	531	29	29	20	20	1.98
17216144--17216200	30	1.9	30	82	3	71	29	22	8	38	1.85
17218837--17218894	23	2.5	23	78	13	66	68	6	6	17	1.34
17236374--17236401	6	4.7	6	100	0	56	67	0	0	32	0.91
17236769--17236805	13	3.1	12	92	7	58	75	0	8	16	1.02
17242016--17242055	21	1.9	21	84	0	53	22	25	27	25	2.00
17247452--17247517	22	3.0	22	93	0	105	31	15	27	25	1.95
17248465--17248511	20	2.3	20	77	0	58	8	25	25	40	1.84
17252658--17252711	12	4.9	11	91	8	76	1	7	0	90	0.51
17252658--17252711	1	54.0	1	81	0	63	1	7	0	90	0.51
17258184--17258226	22	2.0	22	100	0	86	23	25	13	37	1.92
17259927--17259957	12	2.5	13	94	5	55	12	9	0	77	0.99
17272719--17272757	12	3.2	12	85	0	51	20	23	5	51	1.67
17272957--17273192	50	4.6	50	77	7	174	23	28	21	27	1.99
17280529--17280760	50	4.5	50	82	5	218	23	26	21	28	1.99
17286724--17286756	17	1.9	17	93	0	57	15	15	15	54	1.71
17289400--17289444	18	2.4	19	81	11	56	66	0	26	6	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17297322--17297485	87	1.9	86	86	3	231	25	16	23	35	1.95
17297866--17297909	19	2.3	19	84	7	54	50	6	15	27	1.70
17299097--17299225	40	3.2	40	85	3	170	34	17	27	20	1.95
17313311--17313409	44	2.2	44	96	0	180	24	28	21	26	1.99
17319939--17320083	56	2.6	57	82	6	181	43	4	20	31	1.72
17320041--17320123	41	2.0	42	88	2	123	49	2	22	25	1.62
17325656--17325796	57	2.5	57	90	3	216	41	5	21	30	1.76
17325756--17325836	43	1.9	41	87	5	117	53	2	22	22	1.58
17331787--17331820	7	4.7	7	85	7	50	11	0	0	88	0.52
17331787--17331822	15	2.4	15	90	9	56	13	0	0	86	0.58
17331795--17331819	13	1.9	13	100	0	50	12	0	0	88	0.53
17332038--17332072	18	1.9	18	94	0	61	20	0	20	60	1.37
17332312--17332520	106	2.0	106	94	0	364	28	19	19	33	1.96
17337082--17337106	12	2.1	12	100	0	50	40	40	20	0	1.52
17343894--17344598	84	8.4	84	94	1	1193	34	24	20	20	1.96
17346146--17346187	8	5.4	8	88	5	68	11	0	0	88	0.53
17346146--17346187	14	3.2	13	83	6	50	11	0	0	88	0.53
17346154--17346188	14	2.4	15	95	4	63	14	0	0	85	0.59
17346401--17346435	18	1.9	18	94	0	61	20	0	20	60	1.37
17346675--17346883	106	2.0	106	95	0	373	27	19	20	33	1.96
17350994--17351027	2	17.0	2	100	0	68	50	0	0	50	1.00
17352799--17353001	98	2.1	98	91	0	325	37	23	10	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17354901--17355285	132	2.9	132	92	1	621	25	24	20	29	1.99
17355099--17355283	44	4.2	44	66	10	126	25	25	20	28	1.99
17366172--17366374	98	2.1	98	90	1	318	36	23	10	29	1.88
17366759--17366786	13	2.2	13	100	0	56	53	0	14	32	1.41
17379101--17379155	24	2.3	24	96	0	101	43	3	20	32	1.69
17396192--17396259	23	3.0	23	88	0	100	32	25	22	20	1.98
17396478--17396516	18	2.2	17	86	13	53	43	20	2	33	1.65
17402922--17402963	17	2.5	17	92	0	66	52	23	4	19	1.65
17403468--17403543	23	3.3	22	80	7	89	32	23	18	25	1.97
17404581--17404702	60	2.0	60	85	3	165	22	26	16	34	1.95

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