genome.fa.s11.2.7.7.80.10.50.1000.165.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  165  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)
49612629--49612688	22	2.8	21	85	12	77	28	3	3	65	1.25
49613835--49613893	29	2.0	29	93	0	100	38	3	3	54	1.34
49614579--49614823	45	5.6	45	88	9	355	28	22	15	33	1.95
49614629--49614801	84	2.1	84	95	0	310	28	21	16	32	1.95
49622629--49622671	18	2.4	18	88	0	59	39	11	27	20	1.88
49624482--49624546	30	2.2	30	91	0	103	38	3	29	29	1.72
49628170--49628214	23	2.0	23	82	4	56	64	2	0	33	1.06
49629158--49629188	8	3.9	8	95	0	53	35	0	9	54	1.33
49630878--49630909	2	16.0	2	100	0	64	50	0	0	50	1.00
49633998--49634079	41	2.0	41	92	0	137	30	6	14	48	1.68
49642509--49642580	3	24.0	3	80	5	83	37	30	1	30	1.66
49643745--49643788	9	4.9	9	81	8	54	63	2	0	34	1.07
49651128--49651183	27	2.1	27	100	0	112	46	10	3	39	1.56
49653956--49653980	12	2.1	12	100	0	50	32	16	0	52	1.44
49661499--49661546	2	24.0	2	100	0	96	50	0	0	50	1.00
49662033--49662058	2	13.0	2	100	0	52	50	0	0	50	1.00
49669029--49669059	16	1.9	16	93	0	53	25	22	16	35	1.94
49669655--49669718	31	2.1	31	93	0	110	37	15	10	35	1.83
49677669--49677741	37	2.0	37	84	10	96	63	1	0	35	1.04
49677607--49677727	20	6.4	19	69	13	72	61	1	1	35	1.16
49677660--49677741	28	2.9	27	76	10	76	60	1	1	36	1.12
49677781--49677844	28	2.3	26	78	5	65	62	1	1	34	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49678255--49678444	10	20.0	9	64	16	71	33	3	4	57	1.37
49678503--49678547	22	2.0	22	100	0	90	22	17	17	42	1.89
49681595--49681762	92	1.8	92	89	1	264	29	7	20	42	1.80
49686236--49686367	65	2.0	65	100	0	264	56	16	12	14	1.67
49691671--49691763	44	2.1	45	86	6	127	32	6	29	32	1.83
49691908--49691949	15	2.9	15	82	10	52	52	0	0	47	1.00
49692039--49692073	18	2.0	18	88	5	54	54	0	0	45	0.99
49691905--49692314	120	3.4	120	95	0	732	49	4	2	43	1.36
49692382--49692512	38	3.5	38	67	14	108	46	4	3	45	1.42
49699622--49699657	6	6.0	6	86	0	54	36	13	16	33	1.89
49707735--49707775	3	13.7	3	100	0	82	68	0	0	31	0.90
49708474--49708593	46	2.6	46	82	3	145	45	6	9	39	1.62
49712093--49712143	24	2.1	25	85	3	68	66	3	0	29	1.09
49712449--49712478	15	2.0	15	93	0	51	13	6	10	70	1.34
49717837--49717920	42	2.0	42	97	0	159	48	19	13	19	1.80
49722843--49722877	16	2.2	16	89	0	52	45	22	8	22	1.79
49727287--49727320	2	17.0	2	100	0	68	50	0	0	50	1.00
49740511--49740552	22	2.0	21	85	4	57	47	0	4	47	1.23
49746423--49746582	48	3.3	48	93	1	259	20	15	15	50	1.79
49750828--49750862	2	17.5	2	100	0	70	51	0	0	48	1.00
49751679--49751735	3	19.0	3	100	0	114	66	0	0	33	0.92
49757670--49757703	14	2.4	14	90	9	52	29	8	0	61	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49759153--49759229	34	2.3	34	79	4	84	12	14	10	62	1.55
49764049--49764082	13	2.6	13	100	0	68	35	5	38	20	1.77
49772309--49772337	3	9.7	3	100	0	58	34	0	0	65	0.93
49774261--49774303	18	2.4	18	88	7	61	53	0	0	46	1.00
49775682--49776113	132	3.3	131	79	6	441	33	13	28	24	1.94
49781856--49781885	2	15.0	2	92	0	51	50	0	3	46	1.18
49784244--49784323	28	2.9	28	90	0	124	32	12	13	41	1.82
49786518--49786581	21	3.0	21	81	0	83	15	26	17	40	1.89
49793613--49793646	17	2.0	17	94	0	59	32	5	11	50	1.63
49794772--49794811	21	2.0	21	90	5	64	25	15	12	47	1.80
49795959--49796004	20	2.4	18	82	13	56	71	2	15	10	1.23
49796159--49796265	53	2.0	53	87	3	153	59	2	5	31	1.35
49796237--49796274	19	2.0	19	89	0	58	55	5	7	31	1.51
49796195--49796265	24	2.7	25	76	16	81	60	4	5	29	1.38
49802921--49803013	31	3.0	31	80	4	116	33	19	6	40	1.77
49820532--49820558	14	1.9	14	100	0	54	48	0	0	51	1.00
49820762--49820808	24	2.0	24	100	0	94	46	8	8	36	1.65
49823631--49823764	40	3.4	40	87	3	173	32	23	23	20	1.98
49825317--49825361	21	2.1	23	88	12	69	68	8	8	13	1.38
49828187--49828383	34	5.7	34	86	2	259	40	17	23	18	1.91
49828173--49828384	69	3.1	68	84	2	262	42	16	22	18	1.89
49828187--49828383	103	1.9	103	94	0	349	40	17	23	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49828616--49828653	14	2.8	13	88	7	58	36	10	2	50	1.51
49829783--49829831	24	2.0	24	100	0	98	38	12	20	28	1.89
49834455--49834480	11	2.4	11	100	0	52	50	7	42	0	1.31
49835201--49835288	39	2.2	40	84	9	110	36	7	18	37	1.80
49835463--49835638	45	4.2	39	76	17	158	19	19	21	39	1.92
49835490--49835640	45	3.3	45	91	0	230	19	18	20	41	1.91
49843493--49843580	39	2.2	40	84	9	110	36	7	18	37	1.80
49843755--49843930	45	4.2	39	77	17	167	19	19	21	39	1.92
49843782--49843932	45	3.3	45	92	0	239	19	18	21	41	1.91
49847196--49847263	9	7.6	9	72	16	52	61	1	4	32	1.24
49850411--49850482	26	2.8	26	89	6	103	15	5	38	40	1.70
49850411--49850480	14	5.4	13	75	17	65	15	5	40	38	1.71
49852212--49852265	24	2.2	25	83	6	65	48	1	3	46	1.30
49852247--49852286	16	2.5	16	91	0	62	47	2	7	42	1.45
49852275--49852417	68	2.1	67	92	2	243	40	4	9	44	1.59
49852483--49852526	24	1.9	24	90	9	74	61	2	0	36	1.09
49853595--49853651	29	2.0	29	82	6	71	45	3	1	49	1.29
49857525--49857555	15	2.1	15	100	0	62	41	12	19	25	1.87
49857629--49857670	2	21.0	2	100	0	84	50	0	0	50	1.00
49858997--49859037	20	2.0	20	95	0	73	39	9	2	48	1.49
49875028--49875320	120	2.4	120	90	3	457	42	3	5	49	1.40
49875273--49875314	15	2.9	15	82	10	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)
49875424--49875458	18	2.0	17	88	5	52	45	0	0	54	0.99
49875257--49875571	155	2.0	157	93	1	544	47	4	3	44	1.40
49875619--49875713	45	2.1	44	88	1	136	33	27	6	32	1.82
49875692--49875761	16	4.4	16	92	0	95	32	37	0	30	1.58
49877943--49878017	35	2.1	35	80	4	80	34	14	12	38	1.83
49878799--49878855	24	2.3	24	84	6	78	24	8	15	50	1.72
49879815--49879945	66	2.0	66	96	0	244	30	11	22	35	1.90
49880230--49880448	102	2.2	102	96	0	404	42	0	4	52	1.28
49880317--49880382	26	2.4	28	78	19	75	43	0	1	54	1.09
49880331--49880605	118	2.3	119	96	1	498	43	0	4	52	1.25
49880433--49880465	17	2.0	16	94	5	57	42	0	0	57	0.98
49880749--49880838	45	2.0	44	87	6	128	37	25	4	32	1.76
49880817--49880854	16	2.4	16	95	0	67	26	34	2	36	1.71
49881501--49881572	29	2.4	29	81	6	74	34	8	16	40	1.79
49891185--49891227	11	4.0	11	84	6	52	69	4	0	25	1.07
49891190--49891237	21	2.3	22	82	17	66	66	6	0	27	1.15
49891619--49891667	18	2.8	18	81	9	57	53	4	4	38	1.39
49893789--49893840	3	17.3	3	95	0	95	65	0	1	32	1.04
49896417--49896449	2	16.5	2	93	0	57	48	0	3	48	1.17
49902559--49902591	15	2.2	16	89	10	52	9	0	3	87	0.63
49907768--49907818	27	2.0	27	84	7	70	35	3	1	58	1.28
49908838--49908871	16	2.1	16	89	10	52	26	0	2	70	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49909536--49909569	2	17.0	2	100	0	68	50	0	0	50	1.00
49911915--49911943	9	3.2	9	100	0	58	51	0	24	24	1.48
49916228--49916259	13	2.5	13	89	0	55	53	12	6	28	1.62
49916535--49916601	34	2.0	34	93	0	116	37	19	10	32	1.86
49920200--49920264	31	2.1	31	85	5	87	46	7	7	38	1.61
49924831--49924861	14	2.2	14	94	0	53	48	12	0	38	1.42
49925887--49926167	146	1.9	147	94	2	494	43	13	12	29	1.81
49928658--49928687	10	3.0	10	100	0	60	60	0	20	20	1.37
49929765--49929835	7	10.6	7	83	8	51	36	46	0	16	1.48
49929793--49929832	14	2.9	14	96	0	71	30	52	0	17	1.45

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