genome.fa.s2.2.7.7.80.10.50.1000.35.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  35  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)
10322982--10323044	32	2.0	32	93	3	110	31	7	15	44	1.76
10331131--10331301	44	3.9	44	81	9	197	31	19	22	26	1.98
10331093--10331328	44	5.4	43	73	17	161	30	19	21	28	1.98
10331562--10331676	45	2.6	44	78	13	128	28	18	23	29	1.98
10331933--10331961	15	2.0	15	93	6	51	41	27	20	10	1.85
10336135--10336207	3	24.3	3	94	0	128	30	1	1	67	1.08
10340459--10340519	26	2.3	26	86	5	79	22	13	4	59	1.53
10341343--10341375	14	2.3	15	89	5	50	27	12	33	27	1.92
10342844--10343066	44	5.1	42	62	13	101	26	26	26	21	2.00
10343249--10343389	43	3.2	42	66	5	102	26	29	26	17	1.98
10342702--10343627	88	10.5	88	86	1	1264	28	26	23	20	1.99
10343627--10343748	44	2.8	43	86	5	156	27	18	25	27	1.98
10342702--10343797	264	4.2	264	81	4	771	28	25	23	21	1.99
10344062--10344220	44	3.7	44	77	7	148	29	21	20	28	1.98
10345768--10345820	27	2.0	27	88	7	81	45	9	0	45	1.36
10347278--10347310	2	16.5	2	100	0	66	48	0	0	51	1.00
10352887--10352915	2	14.5	2	100	0	58	51	0	0	48	1.00
10355707--10355735	11	2.6	11	100	0	58	34	17	6	41	1.76
10370714--10370779	30	2.2	30	89	2	98	18	24	28	28	1.98
10373776--10373819	22	2.0	22	100	0	88	27	18	13	40	1.88
10378696--10378729	16	2.1	16	100	0	68	41	5	11	41	1.66
10381535--10381621	42	2.1	42	89	4	131	64	0	2	33	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10382702--10382744	22	2.0	22	90	0	68	9	18	27	44	1.80
10382894--10383094	43	4.7	42	77	4	188	26	31	18	22	1.98
10382894--10383094	86	2.3	86	81	1	233	26	31	18	22	1.98
10383408--10383509	21	4.9	21	85	0	123	4	43	15	36	1.69
10383491--10383637	66	2.2	66	86	4	199	12	28	17	40	1.87
10383530--10383660	66	2.0	66	87	3	192	14	25	18	41	1.88
10388598--10388758	9	19.4	9	70	15	82	37	1	16	44	1.58
10388598--10388717	16	7.9	16	66	22	80	35	2	16	45	1.61
10388612--10388747	25	5.5	25	73	13	93	38	2	15	44	1.59
10388638--10388757	34	3.4	34	72	14	91	37	2	15	44	1.61
10388916--10389404	9	52.3	9	66	21	66	38	1	13	45	1.53
10388916--10388946	16	1.9	16	93	0	53	32	0	16	51	1.44
10388911--10388960	25	2.0	25	88	0	73	32	2	16	50	1.56
10388919--10388994	25	2.9	25	80	5	71	39	0	14	46	1.45
10388930--10389017	34	2.6	35	78	5	92	43	0	14	42	1.46
10389002--10389033	16	2.0	16	100	0	64	31	0	25	43	1.55
10389017--10389383	65	5.7	64	81	8	426	38	1	13	46	1.54
10389042--10389383	31	10.8	31	78	13	342	38	2	12	46	1.53
10389370--10389402	16	2.1	16	100	0	66	30	0	24	45	1.53
10389501--10389533	16	2.1	16	100	0	66	30	18	0	51	1.46
10390873--10390973	32	2.9	34	89	10	152	46	14	15	22	1.83
10390856--10390973	38	3.3	38	83	13	176	45	14	17	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10392780--10393105	41	8.0	41	91	1	521	33	24	22	19	1.97
10392780--10393105	163	2.0	164	92	1	548	33	24	22	19	1.97
10393131--10393265	40	3.4	40	76	4	114	20	20	20	39	1.93
10399154--10399190	16	2.2	17	86	13	51	54	0	2	43	1.14
10399179--10399504	47	7.1	45	68	20	176	47	3	3	45	1.37
10399232--10399474	44	5.4	43	70	18	181	48	3	2	45	1.33
10399207--10399504	91	3.3	91	93	0	506	46	3	3	46	1.38
10405083--10405117	13	2.6	14	86	9	54	34	0	0	65	0.93
10405078--10405116	12	3.2	12	85	7	51	41	0	0	58	0.98
10415941--10416007	34	1.9	35	87	3	100	46	10	10	32	1.72
10416108--10416168	9	6.4	9	76	10	59	62	3	3	31	1.27
10419627--10419653	13	2.1	13	100	0	54	40	7	0	51	1.30
10425342--10425383	21	2.0	21	95	0	75	30	28	11	28	1.92
10447015--10447268	95	2.7	95	87	5	338	49	11	9	29	1.70
10448238--10448264	6	4.5	6	100	0	54	0	0	14	85	0.61
10456862--10456892	16	1.9	16	93	0	53	38	9	12	38	1.77
10457650--10457680	6	5.2	6	100	0	62	16	0	67	16	1.23
10460286--10460315	15	2.0	15	93	0	51	56	6	16	20	1.62
10460345--10460376	4	7.8	4	96	3	55	75	3	0	21	0.95
10460590--10460628	15	2.5	16	87	4	53	38	5	10	46	1.60
10460621--10460685	10	6.4	10	68	10	51	55	1	4	38	1.30
10460622--10460719	48	2.0	48	81	13	112	53	2	7	37	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10460940--10461000	31	2.0	31	90	6	97	60	0	1	37	1.07
10460940--10461031	11	8.9	11	71	18	65	59	0	2	38	1.09
10460940--10461084	40	3.6	40	92	3	220	63	0	2	33	1.09
10460977--10461043	31	2.2	31	81	5	84	65	0	1	32	1.02
10462067--10462104	19	1.9	20	89	10	60	84	0	7	7	0.79
10462496--10462588	28	3.2	28	74	14	98	13	2	40	43	1.57
10462515--10462624	31	3.6	31	76	11	129	12	0	40	45	1.48
10462496--10462622	59	2.2	59	97	0	236	13	1	40	44	1.53
10462893--10463322	50	8.9	50	75	9	328	26	20	21	32	1.97
10462953--10463322	189	2.0	190	90	0	589	25	20	21	31	1.98
10462953--10463322	95	3.9	95	92	0	589	25	20	21	31	1.98
10462956--10463317	50	7.6	50	76	9	360	26	20	21	31	1.98
10463366--10464219	46	18.6	46	90	0	1282	29	29	15	25	1.96
10465308--10465354	21	2.2	21	84	0	58	27	38	8	25	1.85
10465439--10465490	16	3.3	16	81	2	61	11	7	1	78	1.02
10465439--10465475	8	4.6	8	89	0	56	10	5	0	83	0.79
10466325--10466372	20	2.5	18	83	12	60	8	2	10	79	1.02
10468650--10469047	109	3.7	109	91	0	600	33	19	15	30	1.93
10469100--10469129	15	2.0	15	93	0	51	56	6	16	20	1.62
10469168--10469246	4	18.8	4	71	14	52	70	5	5	18	1.24
10469399--10469437	15	2.5	15	87	4	51	38	2	10	48	1.51
10469430--10469494	10	6.4	10	68	10	51	55	1	4	38	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10469431--10469528	48	2.0	48	81	13	112	53	2	7	37	1.40
10470406--10470452	13	3.6	13	78	16	53	82	0	8	8	0.83
10470411--10470452	22	1.9	22	85	9	59	83	0	7	9	0.81
10470406--10470458	22	2.4	22	78	6	54	81	0	11	7	0.88
10470844--10470959	31	3.8	31	78	12	141	11	0	43	44	1.46
10470847--10470957	59	1.9	59	98	0	213	11	0	42	45	1.47
10475938--10475974	17	2.2	17	90	0	56	51	13	18	16	1.76
10475955--10476030	37	2.1	37	85	5	100	44	11	10	32	1.75
10475984--10476044	19	3.3	19	75	9	63	36	11	9	42	1.74
10475971--10476025	19	2.9	18	76	7	56	41	10	10	36	1.75
10475971--10476044	37	2.0	38	86	7	107	39	12	10	37	1.78
10475928--10476176	18	14.0	18	66	8	107	43	11	14	31	1.80
10476727--10476791	8	8.1	8	77	17	64	0	20	0	80	0.72
10476729--10476806	9	8.7	10	68	28	52	0	20	0	79	0.73
10476728--10476789	16	3.9	16	78	14	74	0	19	0	80	0.71
10476730--10476790	24	2.5	24	86	5	88	0	19	0	80	0.72
10477093--10477161	15	4.5	15	78	20	63	0	21	0	78	0.76
10477095--10477173	25	3.0	28	80	14	96	1	22	0	75	0.87
10477096--10477169	4	18.5	4	74	20	66	1	21	0	77	0.85
10477109--10477189	15	5.4	14	72	15	63	1	25	0	72	0.92
10477682--10477822	29	4.8	29	76	5	104	43	5	17	32	1.73
10481122--10481161	20	2.0	20	90	0	62	42	7	0	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10488314--10488373	25	2.6	22	73	19	59	63	6	1	28	1.29
10488948--10489004	18	2.9	19	75	15	53	28	1	1	68	1.09
10489829--10489860	16	2.0	16	93	0	55	40	12	0	46	1.42
10489949--10490031	28	3.0	28	87	0	103	27	14	19	38	1.90
10494278--10494334	2	29.0	2	77	10	55	47	3	5	43	1.43
10494404--10494445	2	21.5	2	95	4	77	50	0	0	50	1.00
10494941--10495085	41	3.6	41	83	2	177	28	21	26	23	1.99
10498796--10498830	14	2.5	14	90	0	52	68	11	5	14	1.37
10500435--10500514	17	4.4	18	72	14	67	51	3	1	43	1.27
10503161--10503289	42	3.0	42	76	6	143	28	15	25	30	1.96

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