genome.fa.s11.2.7.7.80.10.50.1000.162.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  162  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)
48885284--48885323	18	2.2	18	100	0	80	22	15	5	57	1.57
48886388--48886550	75	2.2	75	82	4	204	36	17	19	26	1.94
48886581--48886746	84	2.0	84	89	0	251	33	19	21	25	1.97
48886280--48886864	198	3.0	197	88	3	848	33	17	22	26	1.96
48886669--48887311	114	5.6	113	81	3	770	34	16	22	26	1.95
48886670--48887298	228	2.8	227	91	0	1008	33	16	22	27	1.95
48887605--48887672	13	5.5	13	75	19	65	5	0	47	47	1.26
48887608--48887671	7	9.3	7	83	6	69	6	0	50	43	1.27
48888204--48888230	12	2.2	12	100	0	54	59	0	0	40	0.98
48889554--48889632	39	2.0	39	87	4	115	16	10	20	53	1.71
48889741--48889839	45	2.2	44	80	10	112	32	9	17	41	1.80
48890168--48890206	21	1.9	20	89	5	60	23	7	5	64	1.40
48890904--48891498	41	14.5	40	77	12	448	41	16	3	39	1.65
48891077--48891134	25	2.3	25	82	5	64	43	15	3	37	1.64
48891139--48891270	25	5.2	25	69	17	76	41	15	2	40	1.60
48891098--48891514	142	2.9	140	81	7	415	41	15	2	39	1.62
48891274--48891327	25	2.2	25	93	0	90	44	16	1	37	1.59
48891188--48891463	105	2.6	105	92	2	444	41	17	2	38	1.64
48891413--48891479	16	4.7	15	68	21	54	41	14	4	38	1.67
48891447--48891532	25	3.5	24	76	6	73	44	13	1	40	1.52
48891447--48891606	50	3.2	50	75	11	139	42	15	3	38	1.65
48891468--48891606	25	5.5	25	74	13	124	42	15	3	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48891538--48891606	26	2.7	25	76	10	77	40	17	5	36	1.74
48893547--48893622	23	3.3	23	90	0	125	21	21	27	30	1.98
48899195--48899241	21	2.2	21	88	0	67	34	21	42	2	1.65
48902513--48902555	2	21.5	2	100	0	86	48	0	0	51	1.00
48906562--48907065	84	6.0	84	95	0	882	16	18	28	36	1.93
48907686--48907740	14	3.9	14	72	13	58	23	0	38	38	1.55
48908001--48908077	32	2.4	32	91	2	120	40	15	11	32	1.84
48908515--48908597	28	3.0	28	96	0	148	55	7	6	31	1.51
48909048--48909112	32	2.0	32	84	0	85	7	33	23	35	1.83
48910150--48910179	14	2.1	14	100	0	60	26	13	6	53	1.64
48910866--48910981	55	2.1	55	93	0	196	36	6	11	46	1.64
48911136--48911249	32	3.9	28	77	10	88	48	16	2	32	1.60
48911151--48911497	9	39.7	9	67	18	139	46	19	2	31	1.62
48911165--48911189	12	2.1	12	100	0	50	52	16	0	32	1.44
48911272--48911495	34	6.9	34	74	15	145	47	20	0	31	1.56
48911293--48911362	25	2.8	26	77	14	76	50	15	0	34	1.45
48911368--48911431	25	2.6	25	92	0	110	46	23	0	29	1.52
48911452--48911497	23	2.0	22	87	4	65	39	17	0	43	1.49
48919380--48919421	21	2.0	21	85	4	57	69	4	0	26	1.08
48926929--48926960	2	16.0	2	100	0	64	50	0	50	0	1.00
48938956--48939018	27	2.4	27	91	2	110	41	7	0	50	1.31
48940080--48940149	3	23.3	3	88	5	106	34	1	1	62	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48940213--48940256	2	22.5	2	86	4	63	47	4	0	47	1.22
48940399--48940451	2	26.5	2	100	0	106	49	0	0	50	1.00
48940500--48940555	21	2.7	21	78	13	53	30	5	1	62	1.28
48943408--48943526	43	2.8	43	84	3	134	26	15	26	31	1.96
48943400--48943544	43	3.4	43	79	6	107	28	15	26	29	1.96
48948057--48948381	163	2.0	163	95	0	578	33	11	20	34	1.88
48952905--48952941	9	4.1	9	92	0	65	29	10	13	45	1.77
48952994--48953024	9	3.4	9	90	0	53	38	22	12	25	1.90
48967844--48967894	25	2.0	25	100	0	102	33	31	31	3	1.76
48968841--48968921	29	2.7	30	84	5	101	46	13	7	32	1.71
48969450--48969503	27	2.0	27	85	0	72	24	9	7	59	1.54
48973327--48973405	39	2.0	39	100	0	158	17	17	20	44	1.87
48974884--48974938	25	2.2	25	96	0	101	38	10	18	32	1.85
48978585--48978697	54	2.1	54	96	0	208	53	12	10	23	1.68
48980572--48980612	18	2.1	18	86	13	55	68	2	4	24	1.22
48990419--48990564	73	2.0	72	91	1	238	36	8	10	43	1.71
48991218--48991348	64	2.0	64	80	2	147	24	19	26	29	1.99
48998725--48998810	44	2.0	44	83	4	111	27	19	19	32	1.97
48998863--48999375	44	11.5	44	80	6	552	30	21	18	30	1.97
49008970--49009000	16	1.9	16	93	0	53	58	0	0	41	0.98
49010646--49010704	29	2.0	30	86	3	84	49	15	6	28	1.70
49014241--49014273	7	4.7	7	100	0	66	45	12	0	42	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49016304--49016351	7	6.7	7	80	4	51	18	16	10	54	1.70
49016954--49017094	17	7.8	17	63	13	57	30	4	16	48	1.67
49016949--49017131	37	4.9	37	96	0	321	32	5	15	46	1.68
49016971--49017108	20	7.3	20	65	14	96	31	5	16	45	1.71
49017131--49017268	9	15.4	9	84	1	179	31	9	23	34	1.87
49017131--49017268	27	5.1	27	86	1	206	31	9	23	34	1.87
49017659--49017752	49	1.9	49	95	0	170	24	25	7	42	1.80
49019086--49019136	26	2.0	26	100	0	102	19	25	31	23	1.98
49019045--49019177	67	2.0	67	93	0	230	28	21	25	24	1.99
49019112--49019347	41	5.7	41	76	12	178	26	18	24	30	1.98
49022915--49022954	3	13.3	3	100	0	80	65	0	0	35	0.93
49026547--49026581	6	5.7	6	93	3	52	60	2	0	37	1.12
49028004--49028049	21	2.2	21	81	14	51	36	2	2	58	1.22
49028047--49028161	58	2.0	59	82	5	144	42	0	5	51	1.30
49033558--49033720	45	3.9	40	82	11	168	18	19	22	39	1.92
49033575--49033720	45	3.2	45	89	3	222	18	18	21	41	1.91
49033704--49033746	6	6.8	6	83	2	50	18	20	16	44	1.87
49039539--49039584	19	2.4	19	88	0	74	54	6	0	39	1.26
49042937--49043019	2	38.5	2	88	11	112	46	7	0	45	1.30
49042982--49043048	3	25.7	3	82	17	64	38	22	0	38	1.54
49042978--49043048	9	8.9	8	84	15	78	39	21	0	39	1.53
49043282--49043307	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49043994--49044035	21	2.0	21	90	4	68	2	26	0	71	0.98
49044110--49044142	13	2.6	13	90	4	50	57	0	3	39	1.14
49045767--49045807	20	2.1	19	90	4	64	34	4	14	46	1.66
49052082--49052225	42	3.4	42	81	4	164	26	14	27	31	1.95
49061376--49061418	23	1.9	23	85	4	61	34	2	0	62	1.08
49062170--49062213	22	2.0	22	82	8	54	22	11	4	61	1.48
49069885--49069923	9	4.0	9	81	18	51	56	0	0	43	0.99
49069889--49069925	7	5.3	7	100	0	74	56	0	0	43	0.99
49070544--49070605	29	2.1	30	84	6	81	40	14	0	45	1.45
49072219--49072250	15	2.1	15	100	0	64	25	15	12	46	1.81
49078235--49078260	6	4.3	6	100	0	52	19	0	0	80	0.71
49080505--49080569	15	4.3	15	70	14	53	30	32	1	35	1.67
49089320--49089363	18	2.5	18	88	3	63	50	2	2	45	1.27
49094947--49094983	19	1.9	19	100	0	74	10	13	27	48	1.75
49096545--49096586	7	5.9	7	97	2	75	71	0	0	28	0.86
49096545--49096586	4	11.5	4	80	19	56	71	0	0	28	0.86
49098791--49099063	43	6.4	43	68	9	153	24	16	19	39	1.91
49098788--49099019	85	2.7	84	82	5	270	24	15	20	39	1.91
49105568--49105619	18	2.9	18	75	8	52	57	0	1	40	1.10
49105711--49105794	40	2.1	40	84	8	109	35	3	2	58	1.28
49105788--49105885	29	3.3	28	77	11	72	37	7	2	53	1.40
49113347--49113397	19	2.7	18	80	14	59	76	1	5	15	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49113463--49113505	21	2.0	23	86	9	63	79	2	0	18	0.85
49118227--49118269	21	2.1	21	86	4	61	48	0	0	51	1.00
49119013--49119058	17	2.6	18	80	13	51	41	0	0	58	0.98
49119018--49119068	19	2.6	19	81	9	59	37	0	1	60	1.08
49119501--49119622	61	2.0	62	91	1	201	45	9	8	36	1.66
49120161--49120212	25	2.1	25	82	13	63	65	7	0	26	1.20
49120166--49120216	19	2.7	20	77	14	54	66	5	0	27	1.14
49120166--49120214	20	2.6	19	79	20	50	67	6	0	26	1.14
49123729--49123774	16	2.7	17	83	10	58	36	4	0	58	1.18
49123779--49123819	21	2.0	21	85	0	55	12	0	29	58	1.34

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