genome.fa.s11.2.7.7.80.10.50.1000.34.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  34  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)
10960184--10960227	23	1.9	23	81	9	54	68	0	6	25	1.14
10961308--10961352	23	2.0	24	86	8	67	51	8	4	35	1.54
10971824--10971873	24	2.1	24	85	3	66	58	2	0	40	1.10
10978571--10978649	37	2.1	38	90	2	124	22	16	25	35	1.95
10978548--10978680	40	3.4	38	77	14	121	23	16	27	33	1.96
10979387--10979429	21	2.1	20	82	4	50	39	0	18	41	1.51
10990863--10990904	20	2.2	20	86	4	59	33	4	7	54	1.49
10991394--10991492	27	3.5	27	71	25	71	48	3	2	46	1.29
10991394--10991508	57	2.0	59	81	13	141	48	3	1	46	1.29
10991563--10991608	16	2.9	16	75	24	53	52	0	4	43	1.21
10994607--10994667	4	15.0	4	86	10	88	47	0	1	50	1.10
10999211--10999244	14	2.5	13	90	4	50	26	0	0	73	0.83
10999276--10999305	3	10.0	3	92	0	51	33	3	0	63	1.11
11002222--11002262	20	2.1	20	86	4	57	29	4	9	56	1.53
11002752--11002855	27	3.6	27	71	24	72	48	2	1	47	1.28
11002752--11002866	57	2.0	59	80	16	134	47	3	1	46	1.29
11002895--11002966	33	2.3	31	82	4	81	48	2	6	41	1.44
11008914--11009082	39	4.3	39	79	3	153	18	22	27	31	1.97
11008907--11009082	78	2.2	80	82	5	198	18	22	27	31	1.97
11032537--11032576	6	6.7	6	86	11	55	20	0	0	80	0.72
11032943--11033016	32	2.3	32	80	15	82	28	2	5	63	1.30
11032983--11033189	26	8.2	26	73	10	144	28	7	4	59	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11033005--11033064	28	2.3	27	81	13	72	33	8	0	58	1.28
11033083--11033189	50	2.1	52	85	3	146	28	7	4	59	1.44
11034274--11034393	21	5.7	22	68	9	72	17	22	17	42	1.89
11034274--11034412	63	2.2	63	82	0	161	17	21	17	42	1.89
11036344--11036394	14	3.8	13	81	5	57	11	21	17	49	1.79
11036344--11036402	27	2.1	28	84	9	77	10	20	20	49	1.77
11036364--11036402	14	2.8	13	85	11	51	10	20	20	48	1.78
11039733--11039888	25	6.3	25	74	5	129	32	23	26	17	1.97
11039749--11039906	49	3.2	50	77	8	135	32	22	26	18	1.97
11039829--11039912	25	3.4	25	74	12	82	32	20	27	20	1.97
11046493--11046540	25	1.9	25	87	8	71	33	25	22	18	1.97
11046726--11046781	23	2.3	23	84	6	67	41	19	19	19	1.91
11047019--11047058	21	1.9	21	84	0	53	45	22	0	32	1.53
11048708--11049671	482	2.0	482	99	0	1919	23	24	14	38	1.91
11057086--11057148	30	2.1	30	82	11	76	20	50	0	28	1.48
11057561--11057621	18	3.5	17	79	16	63	31	1	8	59	1.37
11061649--11061673	3	8.3	3	100	0	50	68	0	0	32	0.90
11067353--11067393	19	2.2	19	95	0	73	34	4	17	43	1.70
11067431--11067512	41	2.0	41	97	0	155	28	7	15	48	1.72
11068387--11068713	170	1.9	169	96	0	600	29	17	13	40	1.87
11071371--11071411	19	2.2	19	95	0	73	36	4	12	46	1.63
11071449--11071529	41	2.0	41	97	0	153	30	6	13	49	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11075103--11075143	22	2.0	21	90	9	66	48	2	0	48	1.14
11078198--11078367	85	2.0	85	98	0	331	49	13	8	28	1.71
11085833--11085895	28	2.2	30	83	13	80	41	1	1	55	1.19
11086175--11086210	14	2.6	14	90	0	63	25	25	30	19	1.98
11086495--11086926	125	3.5	123	87	3	605	28	19	22	30	1.98
11090533--11090575	19	2.2	20	80	12	54	55	0	11	32	1.36
11090566--11090614	2	25.0	2	81	4	55	48	2	2	46	1.25
11090676--11090704	11	2.7	11	94	5	51	65	0	0	34	0.93
11090802--11090838	2	18.5	2	100	0	74	51	0	0	48	1.00
11092514--11092764	44	5.9	43	70	11	142	24	19	22	33	1.97
11092544--11092774	127	1.8	128	85	4	333	24	18	23	33	1.97
11092785--11093044	128	2.0	128	89	0	394	24	23	20	31	1.98
11093118--11093583	86	5.4	86	88	1	664	25	23	21	29	1.99
11093295--11093429	43	3.1	43	68	16	125	27	24	20	27	1.99
11093706--11094136	171	2.5	173	88	5	636	29	22	18	29	1.97
11096325--11096405	39	2.0	41	85	7	112	7	11	6	75	1.19
11100910--11100952	19	2.2	20	80	12	54	55	0	11	32	1.36
11100943--11100997	2	28.0	2	83	3	67	49	1	1	47	1.23
11103293--11103478	22	8.3	22	72	14	139	22	1	30	46	1.59
11103377--11103422	7	6.6	7	79	18	51	15	0	36	47	1.45
11103377--11103422	14	3.3	14	79	11	58	15	0	36	47	1.45
11103377--11103436	28	2.1	28	87	3	84	18	1	35	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11103409--11103479	21	3.3	21	88	2	97	23	2	29	43	1.68
11103384--11103443	28	2.1	28	84	6	77	16	3	35	45	1.64
11103483--11103576	29	3.3	28	81	8	102	24	1	28	45	1.60
11103545--11103607	21	3.0	20	76	17	58	22	0	31	46	1.52
11103539--11103642	42	2.5	42	79	7	104	22	0	31	46	1.52
11103664--11103716	15	3.6	15	76	2	54	18	0	32	49	1.48
11103689--11103766	22	3.6	22	83	8	106	17	0	33	48	1.48
11104269--11104308	18	2.2	18	86	0	53	42	5	30	22	1.75
11106219--11106262	11	3.8	12	80	19	58	43	0	31	25	1.55
11110350--11110446	49	2.0	49	100	0	194	35	18	10	36	1.85
11110602--11110682	20	3.9	21	77	8	85	58	2	1	38	1.20
11113229--11113318	40	2.3	40	83	12	107	55	1	1	42	1.14
11113260--11113353	24	3.7	24	77	8	89	57	0	2	40	1.11
11113258--11113364	50	2.2	49	82	12	132	57	0	1	40	1.09
11122152--11122214	17	3.5	18	76	12	58	39	0	7	52	1.31
11122164--11122224	17	3.7	16	75	12	61	40	0	6	52	1.27
11123411--11123459	14	3.4	14	83	5	62	55	2	10	32	1.45
11123406--11123444	14	2.7	15	88	8	62	51	0	15	33	1.44
11138860--11138899	20	2.0	21	90	5	64	77	2	5	15	1.04
11142426--11142475	26	1.9	26	95	0	91	30	2	0	68	1.01
11142417--11142482	26	2.4	27	82	7	89	34	1	0	63	1.04
11150803--11150986	91	2.0	91	100	0	368	25	11	13	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11155102--11155190	46	1.9	46	83	0	115	26	16	21	34	1.95
11157364--11157431	31	2.2	31	84	7	84	30	1	1	66	1.10
11157376--11157442	31	2.2	30	82	12	84	28	1	1	68	1.07
11157900--11157964	34	1.9	34	100	0	130	50	16	3	29	1.60
11162375--11162545	58	2.9	58	81	5	184	35	6	8	49	1.58
11165781--11165830	25	2.0	25	100	0	100	28	20	12	40	1.87
11165788--11165854	25	2.6	25	85	7	80	31	16	7	44	1.75
11165946--11166018	29	2.5	29	77	2	83	30	20	5	43	1.74
11169987--11170054	33	2.1	33	94	0	118	36	10	17	35	1.84
11182755--11182997	129	1.9	129	90	1	389	43	19	14	23	1.87
11183382--11183414	2	16.5	2	100	0	66	51	0	0	48	1.00
11185131--11185163	17	1.9	17	93	0	57	33	24	6	36	1.80
11185176--11185239	32	2.0	31	81	3	74	50	9	10	29	1.69
11193664--11193701	19	2.0	19	89	0	58	31	10	31	26	1.90
11193992--11194107	62	1.9	59	84	8	153	43	2	3	50	1.33
11195706--11195743	19	2.0	19	100	0	76	31	26	10	31	1.90
11199505--11199590	45	1.9	45	85	0	118	44	12	19	23	1.85
11199625--11199862	74	3.2	74	86	2	334	33	16	21	28	1.95
11199876--11199965	27	3.3	27	80	0	108	38	17	23	20	1.93
11209796--11209843	23	2.1	23	100	0	96	29	4	16	50	1.64
11209800--11209851	23	2.5	21	84	12	54	28	1	15	53	1.52
11211894--11211919	6	4.3	6	100	0	52	34	0	65	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11212324--11212364	20	2.0	20	95	0	73	41	9	7	41	1.66
11212415--11212445	6	5.2	6	92	0	53	64	0	3	32	1.09
11213596--11213638	20	2.2	20	100	0	86	18	27	13	39	1.89
11226793--11227083	124	2.4	122	82	2	350	30	18	8	42	1.80
11228998--11229074	36	2.2	36	90	4	122	29	16	18	35	1.93
11229315--11229361	24	2.0	24	86	0	67	48	12	4	34	1.61
11233723--11233774	24	2.2	24	85	0	68	50	7	3	38	1.50
11239192--11239226	15	2.2	17	90	10	56	31	2	5	60	1.35
11239301--11239498	45	4.5	44	82	6	188	39	17	18	24	1.92
11239434--11239590	45	3.5	44	75	11	120	45	14	20	20	1.85

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