genome.fa.s2.2.7.7.80.10.50.1000.72.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  72  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)
20298796--20298825	14	2.1	14	100	0	60	40	13	6	40	1.71
20298918--20298951	16	2.1	16	94	0	59	11	35	0	52	1.38
20314191--20314254	17	3.8	17	85	0	83	71	9	1	17	1.19
20318350--20318423	35	2.1	35	92	0	121	40	28	13	17	1.87
20328508--20328576	22	3.1	22	93	0	111	30	17	26	26	1.97
20331211--20331336	43	2.9	42	80	14	150	21	19	28	30	1.97
20340862--20340997	4	34.0	4	74	20	92	70	0	29	0	0.87
20340862--20340997	18	8.2	17	72	23	80	70	0	29	0	0.87
20340867--20340994	36	3.6	36	76	14	138	70	0	29	0	0.88
20340853--20340997	64	2.3	64	78	15	149	68	0	31	0	0.89
20340871--20341042	36	5.2	32	76	13	131	71	0	28	0	0.86
20340893--20341036	44	3.3	42	79	14	114	72	0	27	0	0.85
20340933--20341043	22	4.9	22	65	12	57	73	0	26	0	0.83
20347550--20347575	3	8.7	3	100	0	52	69	30	0	0	0.89
20347639--20347677	19	2.0	21	85	10	55	64	10	2	23	1.37
20347826--20347910	27	3.1	27	86	0	125	16	27	29	27	1.97
20347962--20348029	26	2.6	27	90	6	104	45	0	10	44	1.38
20348740--20348786	15	3.1	15	87	0	67	0	21	0	78	0.75
20348746--20348809	3	21.7	3	80	3	67	0	26	1	71	0.94
20348737--20348811	6	12.0	6	78	13	53	0	24	1	74	0.89
20349168--20349261	20	4.6	21	74	18	65	23	13	2	60	1.44
20349170--20349242	21	3.6	21	75	14	55	23	15	0	61	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20349734--20349787	18	3.1	18	84	15	69	12	0	37	50	1.41
20357467--20357511	20	2.2	20	84	11	56	15	13	8	62	1.54
20357533--20357601	20	3.5	20	81	0	84	17	20	11	50	1.76
20357547--20357624	22	3.7	22	76	6	65	16	20	8	53	1.69
20357549--20357627	20	3.8	20	74	12	70	17	18	10	53	1.72
20358145--20358230	20	4.4	20	72	17	83	20	15	9	54	1.68
20358163--20358238	38	2.0	37	85	7	100	21	14	6	57	1.59
20358226--20358255	11	2.9	10	90	9	51	20	3	0	76	0.92
20358096--20358307	20	10.6	20	67	17	77	18	15	7	58	1.59
20358278--20358317	21	2.0	21	85	5	55	20	17	10	52	1.72
20358484--20358525	18	2.4	18	80	15	52	66	0	0	33	0.92
20358620--20358653	2	17.0	2	100	0	68	50	0	0	50	1.00
20358662--20358862	20	10.0	20	71	8	131	20	18	9	51	1.74
20358762--20358814	19	2.7	19	73	2	52	24	22	1	50	1.59
20358689--20358835	40	3.7	39	76	6	145	21	17	7	53	1.69
20358915--20358977	20	3.2	20	82	6	65	26	17	6	49	1.71
20358939--20358990	20	2.6	19	82	14	61	28	17	3	50	1.64
20359203--20359256	20	2.7	21	85	8	76	24	9	11	55	1.64
20359193--20359271	40	2.0	40	85	5	106	24	15	11	49	1.77
20359596--20359640	21	2.1	21	95	0	81	42	15	13	28	1.85
20359928--20359998	37	1.9	37	97	0	133	16	22	21	39	1.92
20366561--20366817	69	3.8	67	81	4	246	29	19	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20369906--20370001	41	2.3	41	80	7	106	27	14	25	33	1.94
20372462--20372570	41	2.8	41	86	5	145	27	17	20	34	1.95
20376828--20376857	14	2.1	14	100	0	60	43	13	0	43	1.43
20379043--20379092	24	2.1	24	96	0	91	38	22	14	26	1.91
20380276--20380315	2	20.0	2	85	10	55	47	5	0	47	1.24
20380401--20380446	18	2.5	20	76	20	55	36	4	0	58	1.18
20383514--20384005	247	2.0	247	93	0	849	42	12	23	20	1.86
20389756--20389891	68	2.0	68	100	0	272	27	19	23	29	1.98
20393037--20393140	44	2.4	44	86	3	138	26	22	24	26	2.00
20394882--20394933	2	26.0	2	88	7	79	48	3	0	48	1.20
20395015--20395060	18	2.5	20	76	20	55	36	4	0	58	1.18
20398289--20398531	96	2.5	96	93	0	405	35	32	18	12	1.89
20398452--20398609	78	2.0	78	93	0	271	34	32	20	12	1.90
20398648--20398721	24	3.2	24	75	11	82	24	54	2	18	1.57
20398695--20398738	21	2.1	21	82	0	52	15	52	9	22	1.71
20401127--20401192	3	21.7	3	77	22	50	63	0	7	28	1.21
20402668--20403238	44	12.6	44	70	13	282	28	21	18	31	1.96
20402607--20403216	319	1.9	317	83	6	775	29	20	17	32	1.96
20403406--20403533	44	2.9	43	76	4	114	28	20	17	33	1.95
20404820--20404862	16	2.7	15	79	10	50	0	20	0	79	0.74
20406286--20406310	13	1.9	13	100	0	50	8	0	24	68	1.16
20407543--20407593	2	25.5	2	100	0	102	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20408480--20408633	41	3.8	41	95	0	281	27	22	25	24	2.00
20408475--20408670	82	2.4	82	85	0	284	26	19	26	27	1.99
20413473--20413513	20	2.0	21	86	13	59	63	0	9	26	1.25
20413520--20413568	14	3.5	13	78	13	53	75	2	0	22	0.90
20413518--20413572	21	2.7	20	81	16	67	74	1	0	23	0.91
20418980--20419084	54	1.9	54	84	0	138	19	26	27	26	1.99
20428805--20428886	43	1.9	43	89	0	128	32	20	14	31	1.93
20449244--20449284	18	2.2	19	91	4	66	21	19	0	58	1.39
20450516--20450568	11	4.7	11	90	4	70	26	0	3	69	1.05
20456055--20456168	58	1.9	59	89	1	176	44	14	13	27	1.82
20456738--20456782	25	1.9	24	86	13	67	37	26	13	22	1.91
20470908--20470954	16	2.8	17	87	9	62	38	0	2	59	1.09
20470908--20470944	17	2.2	17	90	9	58	37	0	2	59	1.12
20474411--20474458	9	4.6	11	75	19	50	25	0	2	72	0.95
20477557--20477785	114	2.0	114	98	0	440	42	12	16	28	1.84
20482310--20482337	11	2.5	11	100	0	56	35	0	35	28	1.58
20484084--20484126	18	2.4	18	80	0	50	32	4	0	62	1.15
20486698--20486765	2	35.5	2	79	8	70	44	2	2	50	1.32
20488394--20488425	5	6.6	5	92	7	57	40	18	18	21	1.91
20489459--20489495	9	4.1	9	92	0	65	29	10	13	45	1.77
20495012--20495100	35	2.5	35	75	0	97	38	29	11	21	1.88
20499723--20499768	21	2.1	23	84	8	60	52	10	6	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20503203--20503251	25	2.0	25	84	8	64	22	24	8	44	1.79
20503230--20503320	44	2.1	44	89	0	137	29	14	9	46	1.77
20505176--20505266	44	2.1	44	91	0	146	28	9	14	47	1.76
20508319--20508591	78	3.5	78	87	4	374	31	11	12	43	1.79
20508316--20508626	78	4.0	79	82	6	271	31	12	11	44	1.78
20508318--20508630	156	2.0	155	82	6	384	30	12	12	44	1.79
20512535--20512646	39	2.9	39	89	0	161	35	29	16	18	1.93
20512616--20512675	29	2.1	29	93	0	102	31	28	20	20	1.97
20512580--20512714	68	2.0	68	86	0	189	33	29	18	18	1.95
20516703--20516918	113	1.9	113	86	0	306	30	24	17	27	1.97
20519482--20519582	3	34.3	3	76	11	93	35	0	2	60	1.19
20519448--20519499	25	2.1	25	85	7	70	32	3	5	57	1.40
20519531--20519568	19	2.0	20	84	5	51	42	2	0	55	1.14
20519573--20519620	23	2.1	22	85	11	62	35	8	2	54	1.42
20519608--20519666	29	2.0	29	100	0	118	27	16	0	55	1.41
20519608--20519655	14	3.1	17	66	27	52	27	18	0	54	1.44
20526954--20526986	17	1.9	17	100	0	66	24	24	27	24	2.00
20526990--20527113	29	4.3	28	79	10	106	21	20	21	36	1.95
20534634--20534691	24	2.5	24	81	8	59	34	0	0	65	0.93
20534634--20534685	15	3.4	14	78	17	50	32	0	0	67	0.91
20534629--20534689	32	1.9	32	86	6	88	34	0	0	65	0.93
20534760--20534803	16	2.6	17	85	7	54	68	4	0	27	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20538782--20538884	43	2.4	43	86	1	136	26	13	29	31	1.94
20541329--20541384	27	2.1	27	83	9	71	23	7	10	58	1.56
20541344--20541395	27	1.9	27	84	7	70	21	7	15	55	1.64
20543467--20543625	45	3.5	45	77	5	178	43	14	20	21	1.87
20543785--20543847	27	2.3	27	83	0	81	34	19	25	20	1.96
20543796--20543858	27	2.3	27	83	0	72	39	15	23	20	1.91
20553031--20553096	18	3.4	18	74	18	53	33	3	0	63	1.10
20554174--20554308	9	14.1	9	70	20	55	30	2	3	63	1.23
20554195--20554249	21	2.7	22	75	16	64	27	1	3	67	1.17
20554164--20554299	40	3.5	40	71	12	104	29	3	2	63	1.26

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