genome.fa.s11.2.7.7.80.10.50.1000.127.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   207   208   
          209   210   

This is table  127  of  210  ( 25152 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)
38646596--38646635	21	1.9	21	89	0	62	37	2	0	60	1.11
38646595--38646653	22	2.8	21	80	14	59	40	1	3	54	1.27
38646900--38647036	58	2.4	58	83	2	186	54	2	0	42	1.21
38647899--38648125	43	5.3	43	87	4	282	29	27	19	22	1.98
38649978--38650017	18	2.2	18	86	0	53	67	7	15	10	1.41
38652827--38652852	12	2.2	12	100	0	52	34	11	15	38	1.83
38654412--38654454	19	2.3	19	80	11	52	65	4	4	25	1.32
38654459--38654634	41	4.3	41	93	0	298	27	25	21	25	1.99
38654678--38654813	40	3.4	40	82	2	157	19	20	21	38	1.93
38656326--38656354	8	3.6	8	100	0	58	89	0	0	10	0.48
38658064--38658127	20	3.2	20	84	0	83	12	28	20	39	1.89
38658064--38658144	40	2.0	41	87	2	119	13	25	20	39	1.90
38660111--38660141	15	2.1	15	100	0	62	32	29	6	32	1.83
38674013--38674076	30	2.3	27	75	17	67	39	1	6	53	1.36
38674023--38674080	30	1.9	30	89	0	89	41	1	6	50	1.39
38674586--38674637	22	2.2	24	83	6	63	57	7	0	34	1.27
38675327--38675370	17	2.5	17	88	3	70	47	2	2	47	1.27
38675327--38675368	18	2.4	18	92	4	68	47	2	2	47	1.28
38675538--38675593	19	2.9	20	77	15	64	41	5	0	53	1.24
38681370--38681427	4	13.8	4	92	7	89	74	0	1	24	0.92
38686506--38686545	18	2.2	18	86	0	53	17	22	37	22	1.94
38691248--38691360	19	5.8	19	87	4	172	38	10	15	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38691249--38691355	40	2.7	40	94	2	182	39	11	14	35	1.81
38691248--38691367	59	2.1	56	87	6	170	39	10	15	35	1.80
38692127--38692175	25	2.0	25	91	0	80	28	8	6	57	1.52
38694939--38695029	39	2.3	39	79	9	96	36	6	4	52	1.47
38695471--38695667	98	2.0	98	93	2	333	29	10	23	37	1.88
38700802--38701096	132	2.2	132	86	3	398	27	17	25	29	1.97
38701060--38701373	44	7.1	44	65	13	126	29	21	24	25	1.99
38701043--38701467	132	3.2	132	94	0	735	29	20	24	25	1.99
38701459--38701648	44	4.4	41	75	12	125	26	22	23	26	2.00
38701043--38701530	264	1.8	264	87	3	732	29	20	24	25	1.99
38701538--38701648	44	2.5	44	87	10	163	25	21	26	27	2.00
38710021--38710073	3	16.7	3	86	7	70	62	3	0	33	1.13
38711664--38712467	44	18.4	43	70	13	417	28	24	19	28	1.98
38711833--38712113	84	3.3	84	75	4	319	29	24	19	26	1.99
38711786--38712479	177	4.0	177	92	2	980	28	24	19	28	1.98
38711612--38712036	217	2.0	217	96	0	778	27	23	20	28	1.99
38711664--38712249	217	2.7	216	85	6	699	27	24	19	28	1.99
38735233--38735266	12	2.7	13	86	9	52	82	2	0	14	0.79
38736127--38736186	23	2.6	24	79	12	72	70	0	16	13	1.18
38737392--38738519	129	8.8	128	88	2	1558	31	18	24	25	1.97
38745609--38745675	35	1.9	35	81	6	82	34	25	14	25	1.94
38750308--38750432	30	4.1	30	77	7	126	40	22	13	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38753073--38753183	29	3.8	29	92	4	172	25	17	24	33	1.96
38753139--38753261	29	4.3	28	76	7	106	22	17	22	37	1.94
38753081--38753261	58	3.1	56	78	11	163	23	17	23	36	1.94
38756890--38756958	34	2.0	34	94	0	120	31	11	40	15	1.84
38758398--38758482	23	3.8	21	73	14	71	44	17	14	23	1.85
38760726--38760835	45	2.4	45	87	0	157	38	18	20	23	1.93
38762625--38762670	21	2.3	20	78	14	51	45	17	6	30	1.73
38776264--38776387	50	2.5	50	82	2	151	22	28	23	25	1.99
38778810--38778853	22	2.0	22	82	8	54	36	20	9	34	1.84
38782255--38782386	65	2.0	65	98	0	255	40	21	9	28	1.84
38789695--38789726	14	2.2	15	94	5	57	78	0	18	3	0.89
38796833--38796875	20	2.0	21	86	13	61	72	2	0	25	0.97
38796833--38796914	30	2.7	31	76	14	91	67	3	1	28	1.15
38796838--38796917	29	2.8	28	81	9	90	66	3	1	28	1.17
38805310--38805337	6	4.7	6	100	0	56	32	17	17	32	1.94
38808462--38808521	27	2.2	27	82	5	68	30	15	30	25	1.95
38810241--38810288	19	2.5	19	79	0	60	47	2	6	43	1.40
38810241--38810313	20	3.8	19	82	8	76	43	1	6	47	1.38
38819416--38819452	2	19.0	2	88	5	58	51	0	0	48	1.00
38820006--38820051	19	2.4	19	81	0	56	60	2	2	34	1.21
38820002--38820050	25	2.0	25	84	8	64	59	2	2	36	1.21
38829377--38829419	17	2.5	17	92	7	70	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38838641--38838883	50	4.9	50	83	4	267	22	28	20	27	1.99
38844292--38844478	27	7.0	27	88	3	243	41	19	18	20	1.90
38844290--38844481	80	2.4	81	85	2	262	41	20	18	20	1.91
38845846--38846032	27	7.0	27	84	3	216	43	19	17	19	1.88
38845874--38846035	80	2.0	80	85	1	216	43	19	17	19	1.89
38847321--38847505	27	6.9	27	89	3	241	42	18	17	21	1.89
38847335--38847508	80	2.2	79	85	7	235	41	18	18	20	1.90
38852353--38852490	69	2.0	69	98	0	267	32	27	16	23	1.96
38866324--38866357	12	2.8	12	91	8	52	55	17	0	26	1.42
38866627--38866709	41	2.0	41	100	0	166	51	24	4	19	1.65
38870224--38870286	21	3.0	21	88	2	90	30	3	33	33	1.74
38871366--38871401	10	3.7	10	92	3	56	30	13	22	33	1.93
38874360--38874393	16	2.1	16	88	5	50	8	0	14	76	1.01
38880331--38880370	18	2.1	20	90	9	66	37	2	5	55	1.35
38892261--38892298	20	2.0	20	94	5	69	55	0	15	28	1.41
38892680--38892730	21	2.3	23	77	12	63	27	7	11	52	1.65
38900165--38900259	30	3.2	30	95	0	163	21	31	29	17	1.96
38904438--38904462	8	3.1	8	100	0	50	88	0	0	12	0.53
38905969--38905999	6	5.2	6	92	0	53	16	19	16	48	1.81
38926107--38926146	20	2.1	19	90	4	62	45	0	7	47	1.31
38929935--38930000	25	2.6	25	85	4	78	19	24	27	28	1.99
38932355--38932392	20	1.9	20	88	0	58	28	21	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38942627--38942691	34	1.9	34	87	6	96	24	24	24	26	2.00
38942949--38943001	27	2.0	27	85	7	74	45	15	9	30	1.77
38949134--38949482	58	6.0	57	73	6	213	37	18	17	26	1.92
38949169--38949339	87	2.0	86	85	5	229	38	17	18	25	1.93
38949185--38949384	87	2.3	87	80	6	210	38	19	17	25	1.93
38949178--38949445	29	9.2	29	78	3	177	37	19	17	25	1.93
38949360--38949465	29	3.6	28	81	7	113	36	19	15	28	1.92
38949401--38949473	29	2.5	29	82	4	85	41	13	15	30	1.85
38964083--38964202	60	2.0	60	95	0	213	25	12	15	47	1.80
38971101--38971220	38	3.2	38	72	10	111	33	23	18	25	1.97
38979080--38979141	26	2.4	26	91	0	97	35	12	12	38	1.82
38991423--38991455	17	2.1	16	88	11	50	57	0	3	39	1.14
38991610--38991665	26	2.2	25	87	3	76	42	17	10	28	1.83
38992930--38992974	3	15.0	3	100	0	90	33	0	0	66	0.92
39009083--39009185	30	3.4	30	85	7	138	37	14	28	19	1.91
39009142--39009200	30	2.0	30	86	0	82	35	15	22	27	1.94
39012584--39012631	25	1.9	25	87	8	71	43	22	16	16	1.87
39017452--39017497	23	2.0	23	95	0	83	45	8	10	34	1.70
39019014--39019065	22	2.4	22	81	9	63	61	0	5	32	1.20
39023129--39023165	2	18.0	2	94	5	65	48	0	2	48	1.15
39024441--39024469	2	14.5	2	100	0	58	51	0	0	48	1.00
39029873--39029927	22	2.5	22	84	0	74	40	23	21	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39030444--39030492	19	2.5	20	86	3	73	24	12	0	63	1.29
39035358--39035390	2	16.5	2	100	0	66	48	0	0	51	1.00
39041613--39041665	25	2.1	26	82	3	63	58	7	1	32	1.37
39044205--39044399	48	4.0	48	83	3	221	22	27	20	29	1.98
39044217--39044401	96	1.9	96	85	0	253	22	28	21	28	1.99
39045892--39045941	25	2.0	25	96	0	91	34	4	24	38	1.74
39054451--39054501	24	2.1	24	82	7	59	25	19	17	37	1.94
39055037--39055114	38	2.1	38	85	0	102	41	19	5	34	1.73
39058129--39058191	14	4.7	14	82	9	62	31	1	3	63	1.19
39058141--39058191	3	17.0	3	88	8	77	33	1	0	64	1.05

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   207   208   
          209   210