genome.fa.s2.2.7.7.80.10.50.1000.56.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  56  of  206  ( 24623 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)
15808568--15808760	80	2.4	78	74	9	183	43	22	15	19	1.88
15808967--15809047	26	3.1	26	85	3	110	19	23	24	32	1.98
15812732--15812849	25	4.7	26	72	12	86	26	26	18	28	1.98
15822855--15822913	31	1.9	31	86	6	84	49	8	0	42	1.33
15826743--15826805	31	2.0	32	81	12	76	58	11	3	26	1.47
15827563--15827613	25	2.1	23	82	7	57	64	1	7	25	1.31
15828468--15828515	12	3.8	12	80	5	51	41	10	20	27	1.85
15843584--15843624	20	2.0	20	95	0	73	48	14	17	19	1.81
15844217--15844346	65	2.0	65	93	0	224	40	11	16	31	1.84
15846599--15846683	42	2.0	42	83	0	107	36	16	16	30	1.91
15846599--15846683	14	6.1	14	76	0	62	36	16	16	30	1.91
15846609--15846689	42	1.9	42	87	0	117	38	13	18	29	1.89
15847265--15847392	54	2.4	54	79	0	139	19	25	28	26	1.99
15849631--15849675	2	22.5	2	100	0	90	51	0	0	48	1.00
15854286--15854421	49	2.8	48	80	4	148	27	30	16	25	1.97
15857762--15857844	33	2.5	33	84	3	96	49	14	4	31	1.64
15858477--15858515	18	2.2	18	100	0	78	53	0	10	35	1.35
15858506--15859058	273	2.0	276	90	3	886	41	7	6	44	1.58
15858506--15859058	138	4.0	138	89	2	855	41	7	6	44	1.58
15860905--15861025	45	2.7	45	84	2	154	23	22	14	39	1.91
15861532--15861585	26	2.1	26	100	0	108	38	14	11	35	1.82
15863217--15863262	21	2.1	22	84	4	58	23	10	6	58	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15863223--15863297	20	3.7	20	75	10	64	25	12	9	53	1.67
15864407--15864443	16	2.3	16	100	0	74	0	10	29	59	1.31
15866390--15866426	16	2.3	16	100	0	74	0	10	29	59	1.31
15868249--15868273	2	12.5	2	100	0	50	48	0	0	52	1.00
15869528--15869562	2	17.5	2	100	0	70	0	48	0	51	1.00
15872417--15872455	7	5.4	7	87	6	60	87	0	12	0	0.55
15872408--15872457	11	4.6	11	90	2	75	86	0	14	0	0.58
15874139--15874225	44	2.0	44	88	6	133	21	8	14	55	1.66
15876381--15876424	3	14.7	3	95	0	79	34	31	2	31	1.70
15877760--15877792	2	17.0	2	93	6	59	48	0	51	0	1.00
15891667--15891859	102	1.9	101	84	5	255	26	20	25	27	1.99
15899516--15899566	14	3.6	14	76	7	50	54	3	7	33	1.47
15902565--15902616	21	2.4	22	87	6	79	30	34	15	19	1.93
15902950--15903009	30	2.0	30	83	3	77	41	5	23	30	1.75
15903219--15903250	13	2.5	13	94	0	55	31	0	12	56	1.37
15903345--15903586	50	4.7	50	85	5	279	27	23	29	19	1.98
15903345--15903594	100	2.4	103	86	5	344	26	23	29	20	1.99
15909389--15909574	41	4.5	41	95	1	320	23	28	18	29	1.98
15909389--15909628	82	2.9	81	84	7	306	24	26	18	30	1.98
15909389--15909628	123	2.0	123	82	8	301	24	26	18	30	1.98
15922576--15922626	26	2.0	26	84	0	66	29	29	17	23	1.97
15925627--15925658	16	1.9	17	93	6	57	37	21	0	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15925819--15925989	43	4.0	43	76	11	158	32	26	17	22	1.96
15925819--15925973	84	1.8	84	85	8	217	30	27	18	23	1.97
15931109--15931182	35	2.1	35	100	0	148	41	5	17	35	1.72
15931896--15931969	22	3.4	22	86	0	103	18	14	25	40	1.89
15932223--15932366	43	3.3	43	86	3	200	29	25	18	26	1.98
15933627--15933745	7	16.7	7	71	10	53	42	35	1	20	1.62
15933685--15933745	14	4.3	14	79	4	68	50	27	1	19	1.57
15933679--15933745	22	3.1	22	80	4	73	49	29	1	19	1.57
15933679--15933808	14	9.1	14	70	10	66	48	28	0	22	1.56
15933941--15934000	7	8.4	7	75	10	50	36	38	0	25	1.56
15933963--15933996	15	2.3	15	89	0	50	41	44	0	14	1.45
15934011--15934045	14	2.5	14	85	0	52	37	40	0	22	1.55
15934386--15934527	41	3.5	41	88	0	203	28	28	19	23	1.98
15941173--15941230	30	1.9	30	85	0	80	43	3	22	31	1.70
15941443--15941473	13	2.4	13	94	0	53	32	0	12	54	1.38
15941568--15941809	50	4.7	50	86	3	286	27	23	28	19	1.99
15941568--15941817	100	2.4	103	87	5	353	26	23	28	20	1.99
15949416--15949446	9	3.4	9	90	0	53	25	12	22	38	1.90
15950549--15950574	5	5.2	5	100	0	52	19	19	19	42	1.90
15955100--15955133	17	2.0	17	100	0	68	35	5	11	47	1.65
15966934--15967026	49	2.0	47	83	8	118	29	10	9	50	1.69
15973427--15973492	13	5.1	13	80	7	71	40	25	4	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15974421--15974472	25	2.1	25	96	0	95	36	11	11	40	1.78
15975629--15975743	30	3.8	30	91	0	140	27	15	22	33	1.95
15980955--15981009	28	2.0	28	89	7	85	21	7	12	58	1.59
15990392--15990431	20	2.0	20	90	0	62	27	10	12	50	1.72
15990530--15990568	20	2.0	20	94	0	69	48	2	0	48	1.15
15993475--15993505	14	2.2	14	94	0	53	16	9	58	16	1.63
15997983--15998053	11	6.4	11	77	8	54	22	23	4	49	1.67
15997995--15998053	22	2.7	22	81	5	66	22	25	5	47	1.71
15999242--15999267	7	3.7	7	100	0	52	26	0	15	57	1.38
16000480--16000521	8	5.0	8	81	18	50	50	0	0	50	1.00
16000382--16000560	98	1.8	97	86	5	263	46	14	1	36	1.55
16000541--16000583	21	2.0	21	95	0	77	46	37	0	16	1.47
16003741--16004172	126	3.5	125	92	0	704	29	21	18	31	1.97
16003741--16004172	124	3.5	122	89	2	496	29	21	18	31	1.97
16007335--16007403	6	11.5	6	85	11	97	33	0	30	36	1.58
16007480--16007505	10	2.6	10	100	0	52	26	19	0	53	1.45
16013257--16013411	40	3.8	39	91	5	238	34	2	0	63	1.08
16013310--16013421	11	10.9	11	68	27	68	37	1	0	60	1.07
16013859--16013925	34	1.9	35	90	3	109	34	8	10	46	1.70
16014312--16014363	21	2.5	21	100	0	104	28	30	3	36	1.75
16018190--16018275	29	2.9	27	74	16	73	52	0	0	47	1.00
16023291--16023373	26	3.1	26	72	11	78	38	0	6	55	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16025287--16025330	22	2.0	22	100	0	88	4	22	9	63	1.42
16033470--16033499	2	15.0	2	100	0	60	50	0	0	50	1.00
16036607--16036681	20	3.8	19	75	8	71	44	13	9	33	1.76
16039642--16039681	2	20.0	2	100	0	80	50	0	0	50	1.00
16044040--16044366	162	2.0	165	87	3	473	31	15	15	37	1.89
16050998--16051049	2	26.0	2	100	0	104	50	0	0	50	1.00
16068052--16068087	17	2.1	17	100	0	72	50	5	22	22	1.70
16071832--16071874	17	2.4	18	88	3	61	60	0	2	37	1.10
16082252--16082290	19	2.0	20	85	5	53	25	0	15	58	1.37
16082243--16082279	19	2.0	19	89	5	58	27	0	13	59	1.35
16085438--16085482	22	2.0	24	91	8	76	53	2	22	22	1.57
16085758--16085823	3	22.0	3	100	0	132	33	0	0	66	0.92
16101305--16101394	4	22.5	4	97	0	171	48	25	1	24	1.58
16105401--16105482	25	3.3	24	80	13	94	20	24	21	32	1.98
16107348--16107473	22	5.3	24	80	10	127	38	21	25	15	1.92
16108730--16108815	5	17.2	5	71	21	56	55	3	0	40	1.17
16108730--16108770	16	2.6	16	92	0	73	60	0	0	39	0.96
16108735--16108764	8	3.8	8	90	0	51	60	0	0	40	0.97
16110117--16110171	24	2.3	24	93	0	92	29	16	5	49	1.68
16112598--16112663	14	4.3	15	73	19	55	45	0	1	53	1.09
16128406--16128518	40	2.8	41	78	4	124	36	20	21	22	1.95
16128580--16128812	41	5.7	40	89	5	326	18	22	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16129879--16129981	21	5.0	21	72	9	79	20	1	41	35	1.63
16129911--16129944	14	2.4	14	95	0	59	23	0	44	32	1.54
16133356--16133604	43	5.8	43	89	2	333	21	18	31	28	1.97
16133356--16133604	129	1.9	129	88	0	372	21	18	31	28	1.97
16135578--16135603	2	13.0	2	100	0	52	50	0	0	50	1.00
16135999--16136151	22	7.0	22	90	0	225	32	14	26	26	1.94
16138173--16138201	15	1.9	15	100	0	58	55	0	20	24	1.44
16141236--16141331	50	1.9	50	86	0	138	36	14	20	28	1.92
16146316--16146359	18	2.3	19	84	7	63	50	0	6	43	1.29
16147628--16147673	15	2.9	17	78	15	55	41	0	13	45	1.43

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206