genome.fa.s11.2.7.7.80.10.50.1000.90.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  90  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)
26404636--26404676	10	4.2	10	82	14	50	51	7	0	41	1.30
26407784--26407878	22	4.3	22	89	0	118	27	26	14	31	1.95
26409786--26409817	5	6.4	5	100	0	64	40	18	0	40	1.51
26425336--26425447	42	2.7	41	79	6	109	30	22	19	27	1.98
26425504--26425556	26	2.0	26	92	0	88	22	33	24	18	1.97
26443645--26443727	40	2.1	40	83	0	103	40	8	22	27	1.83
26444111--26444164	16	3.4	16	94	0	90	33	0	35	31	1.58
26444143--26444240	44	2.2	44	85	1	124	35	5	26	32	1.78
26444374--26444428	25	2.2	25	84	9	69	52	1	0	45	1.11
26444603--26444663	28	2.2	28	85	5	81	50	3	0	45	1.17
26444569--26444785	91	2.4	89	85	6	299	47	4	3	45	1.38
26444603--26444745	44	3.2	42	70	20	119	48	2	2	46	1.28
26444610--26444766	47	3.4	47	68	15	128	49	3	1	44	1.31
26450109--26450143	14	2.6	14	90	4	54	54	14	2	28	1.54
26462065--26462222	81	2.0	81	93	0	271	31	24	16	27	1.96
26463689--26463726	17	2.2	17	86	9	51	47	0	7	44	1.32
26470970--26471030	29	2.1	29	93	0	104	27	29	9	32	1.89
26470975--26471028	15	3.6	15	76	16	58	27	25	11	35	1.90
26471176--26471205	3	10.0	3	100	0	60	66	0	0	33	0.92
26471516--26471554	16	2.4	17	91	4	62	41	0	2	56	1.13
26472796--26472834	17	2.3	17	86	0	51	51	0	0	48	1.00
26478629--26478931	50	6.1	50	77	1	275	25	21	21	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26478625--26478884	100	2.6	100	90	0	394	24	21	21	33	1.97
26478625--26478923	100	3.0	99	81	5	350	25	20	21	32	1.98
26478983--26479084	44	2.3	44	91	5	161	31	23	20	24	1.98
26481227--26481303	6	12.7	6	89	8	120	0	16	0	83	0.66
26481339--26481378	20	2.0	21	90	5	64	12	5	5	77	1.09
26482460--26482520	25	2.5	24	79	10	61	57	6	14	21	1.60
26483378--26483412	9	3.9	9	88	0	52	8	42	0	48	1.33
26483920--26483982	27	2.3	27	80	0	81	22	33	28	15	1.95
26484279--26484364	40	2.3	36	80	13	93	32	5	9	52	1.57
26490286--26490423	10	14.0	10	70	20	71	1	28	0	69	1.02
26490275--26490421	38	3.7	39	77	16	151	1	27	0	70	1.00
26490269--26490421	44	3.4	44	75	15	134	1	27	0	70	1.00
26490276--26490422	30	4.7	30	71	21	97	1	27	0	70	1.00
26490265--26490422	14	11.9	14	68	23	85	1	27	0	70	1.00
26490236--26490436	82	2.5	79	77	13	207	0	30	0	67	1.01
26490475--26490539	27	2.4	27	81	0	76	18	30	32	18	1.95
26497221--26497563	170	2.0	173	90	3	539	32	18	18	30	1.95
26497708--26497741	18	1.9	18	94	5	61	29	2	5	61	1.34
26506318--26506364	25	2.0	24	87	8	69	12	23	21	42	1.87
26506296--26506375	25	3.3	23	72	17	56	15	28	21	35	1.93
26506476--26506535	25	2.5	23	74	10	57	20	26	23	30	1.98
26512153--26512211	20	2.8	20	78	14	57	23	5	1	69	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26517517--26517570	16	3.2	17	84	12	58	42	5	3	48	1.44
26517532--26517573	2	21.0	2	80	9	50	47	4	2	45	1.36
26519949--26519990	17	2.4	18	88	4	59	45	0	0	54	0.99
26522429--26522477	22	2.2	22	92	0	80	32	4	8	55	1.48
26523310--26523337	2	14.0	2	100	0	56	50	0	0	50	1.00
26528100--26528146	21	2.2	21	92	0	76	59	19	0	21	1.38
26529049--26529097	19	2.5	20	75	24	59	38	6	2	53	1.38
26532964--26533123	85	1.9	85	86	0	230	24	24	31	19	1.98
26533414--26533498	40	2.1	40	100	0	170	27	4	20	48	1.69
26533804--26533854	5	10.2	5	75	8	50	37	5	17	39	1.74
26539638--26539667	2	15.0	2	100	0	60	50	0	0	50	1.00
26554024--26554052	3	9.7	3	100	0	58	34	0	0	65	0.93
26571122--26571165	18	2.4	18	92	0	70	27	31	22	18	1.97
26572502--26572545	21	2.1	20	87	8	61	54	9	0	36	1.32
26572557--26572609	27	2.0	27	81	7	63	64	1	1	32	1.15
26572822--26572847	12	2.2	12	100	0	52	7	15	30	46	1.74
26572890--26573263	114	3.3	113	86	4	495	25	22	25	26	2.00
26573981--26574013	14	2.3	15	94	5	59	30	0	33	36	1.58
26574173--26574242	14	5.1	14	82	5	81	22	0	42	34	1.54
26574179--26574232	7	7.7	7	75	8	56	22	0	46	31	1.52
26574053--26574373	164	2.0	165	91	3	522	28	0	31	39	1.60
26574358--26574594	76	3.0	81	84	10	310	27	1	26	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26574643--26574696	21	2.6	21	72	21	51	50	1	5	42	1.36
26574691--26574751	9	7.1	9	78	17	58	63	0	4	31	1.15
26574686--26574741	19	3.2	18	87	7	80	60	0	5	33	1.19
26574691--26574739	9	5.4	9	85	9	64	63	0	6	30	1.19
26578606--26578855	43	5.9	42	82	2	302	28	18	25	27	1.98
26578606--26578855	85	2.9	85	86	0	302	28	18	25	27	1.98
26578612--26578855	128	1.9	129	88	2	375	27	18	25	27	1.98
26579060--26579121	2	31.5	2	96	3	117	50	0	0	50	1.00
26583189--26583216	13	2.2	13	100	0	56	75	10	7	7	1.20
26585293--26585345	21	2.6	21	77	16	67	37	3	5	52	1.43
26589919--26589957	18	2.2	18	86	4	53	43	10	25	20	1.83
26594476--26594578	51	2.0	51	98	0	197	44	17	8	29	1.78
26594529--26594634	33	3.2	33	81	13	96	41	16	9	33	1.80
26597734--26597763	16	1.9	16	93	6	53	43	0	0	56	0.99
26597834--26597875	15	2.7	16	82	14	52	50	0	2	47	1.14
26597816--26598123	155	2.0	156	95	1	557	48	6	3	42	1.44
26598175--26598265	45	2.0	45	85	2	121	38	28	5	27	1.79
26599651--26599758	51	2.1	51	100	0	216	16	7	37	37	1.77
26600313--26600583	142	1.9	142	93	0	461	28	20	18	32	1.96
26600681--26600957	44	6.3	44	72	11	147	27	22	19	30	1.98
26600455--26600933	175	2.7	175	91	0	798	28	21	18	31	1.97
26600921--26601124	44	4.4	44	75	17	196	23	26	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26601029--26601124	43	2.2	44	92	1	158	23	26	20	29	1.99
26602420--26602457	7	5.6	7	87	6	60	13	13	2	71	1.26
26602415--26602454	13	3.0	13	85	3	53	15	17	5	62	1.49
26609205--26609257	28	1.9	27	85	11	72	50	0	5	43	1.25
26616089--26616185	49	1.9	49	83	8	124	30	13	4	51	1.59
26616860--26616950	47	1.9	47	90	0	146	23	17	20	38	1.93
26621045--26621098	18	3.0	18	83	0	63	48	7	0	44	1.31
26622704--26623402	365	1.9	366	93	1	1211	27	16	26	30	1.97
26624167--26624205	16	2.4	17	86	4	53	30	0	2	66	1.05
26627892--26627924	16	2.1	16	94	0	57	27	27	12	33	1.92
26636700--26636737	5	7.8	5	94	5	69	81	0	0	18	0.69
26636692--26636743	15	3.5	15	80	17	56	80	0	1	17	0.80
26639476--26639500	13	1.9	13	100	0	50	36	24	0	40	1.55
26645374--26646023	27	24.3	27	84	1	727	18	16	22	42	1.88
26649340--26649392	25	2.1	25	92	0	88	9	1	39	49	1.46
26652537--26652630	41	2.3	41	83	3	118	31	26	17	24	1.97
26652566--26652651	41	2.1	41	88	0	127	32	25	13	27	1.94
26660210--26660300	41	2.2	41	86	0	128	29	24	17	28	1.97
26670219--26670258	3	13.3	3	100	0	80	67	0	0	32	0.91
26672039--26672108	21	2.8	26	81	16	87	38	4	37	20	1.72
26672039--26672117	27	3.2	26	75	20	87	40	3	35	20	1.70
26674075--26674123	18	2.6	19	80	6	55	71	4	6	18	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26675963--26675998	15	2.5	14	86	8	54	44	8	0	47	1.33
26676552--26676577	6	4.3	6	100	0	52	0	15	0	84	0.62
26677585--26677613	14	2.1	14	93	6	51	34	0	51	13	1.42
26677718--26677760	22	2.0	22	90	4	70	25	9	39	25	1.85
26684354--26684389	15	2.5	14	86	8	54	44	8	0	47	1.33
26688842--26688892	2	25.5	2	100	0	102	49	0	0	50	1.00
26688894--26688923	15	2.0	15	100	0	60	60	20	0	20	1.37
26688896--26688930	15	2.3	15	90	0	52	62	14	2	20	1.43
26689292--26689335	18	2.4	18	85	7	54	61	4	2	31	1.28
26690483--26690509	13	2.1	13	100	0	54	7	18	29	44	1.77

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