genome.fa.s11.2.7.7.80.10.50.1000.156.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  156  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)
47243579--47243792	59	3.7	59	73	16	205	47	7	5	40	1.53
47244184--47244226	18	2.4	18	88	0	59	44	9	27	18	1.80
47244288--47244347	30	2.0	30	86	0	84	5	16	45	33	1.69
47246028--47246100	11	6.6	11	78	6	85	49	0	28	21	1.50
47246028--47246100	23	3.3	21	87	9	101	49	0	28	21	1.50
47246862--47246904	20	2.3	18	84	8	50	2	30	4	62	1.28
47266322--47266387	3	22.0	3	100	0	132	66	0	0	33	0.92
47271771--47271848	38	2.1	38	97	0	147	48	10	17	23	1.78
47272995--47273085	43	2.1	43	87	2	130	42	12	12	32	1.79
47275663--47275709	24	1.9	23	83	12	58	34	12	10	42	1.78
47278996--47279179	41	4.5	41	80	6	194	34	30	17	17	1.93
47278996--47279179	82	2.2	82	84	3	228	34	30	17	17	1.93
47285595--47285625	16	1.9	16	93	0	53	61	32	6	0	1.21
47286481--47286523	21	2.0	21	82	8	52	41	4	2	51	1.35
47299734--47299776	11	3.7	11	76	11	50	65	0	2	32	1.06
47307797--47307851	21	2.7	20	80	5	65	67	3	27	1	1.17
47308612--47308720	37	2.8	40	78	17	138	22	15	25	35	1.94
47318228--47318285	22	2.6	22	91	0	89	24	25	15	34	1.95
47323450--47323490	22	1.9	21	85	14	57	24	4	4	65	1.32
47325146--47325204	19	3.2	18	81	13	68	28	1	1	67	1.10
47325146--47325191	18	2.6	18	86	10	60	30	2	0	67	1.03
47325164--47325273	22	4.6	24	72	19	79	37	0	1	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47327671--47327783	25	4.5	25	82	8	140	29	23	23	23	1.99
47327671--47327784	50	2.3	50	87	3	158	28	22	24	23	1.99
47335033--47335123	25	3.6	25	80	5	112	27	20	26	25	1.99
47345560--47345589	2	15.0	2	100	0	60	50	0	0	50	1.00
47351839--47351878	21	1.9	21	89	0	62	47	5	10	37	1.59
47354272--47354967	344	2.0	344	96	0	1284	32	15	20	30	1.94
47367563--47367965	164	2.5	164	95	0	716	34	22	18	24	1.96
47379616--47379659	6	7.2	6	94	5	79	15	15	15	52	1.75
47381233--47381479	50	4.8	50	81	5	221	23	27	21	27	1.99
47388985--47389112	50	2.6	49	80	3	150	32	21	24	22	1.98
47388985--47389121	49	2.8	49	79	3	159	30	21	24	23	1.99
47391745--47391830	31	2.7	31	84	8	95	18	32	37	11	1.87
47391770--47391822	18	3.2	17	70	25	51	13	33	41	11	1.80
47391770--47391846	31	2.5	31	87	4	111	16	32	37	12	1.87
47393396--47393468	37	2.0	37	89	5	112	30	8	26	35	1.85
47395132--47395184	19	2.7	19	83	11	63	50	3	0	45	1.19
47395143--47395187	20	2.2	20	84	7	56	53	4	0	42	1.21
47397448--47397502	16	3.8	15	77	11	53	41	3	3	50	1.37
47397792--47397829	14	2.7	15	88	12	62	26	0	31	42	1.56
47398120--47398146	14	1.9	14	100	0	54	33	0	29	37	1.58
47398183--47398240	22	2.6	23	76	15	61	25	1	36	36	1.67
47398459--47398563	47	2.1	49	86	13	146	47	8	0	42	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47399104--47399145	21	2.0	22	85	4	59	64	4	2	28	1.26
47398962--47399270	153	2.0	153	90	6	484	55	6	8	30	1.54
47399212--47399313	50	2.1	50	82	14	124	45	8	1	44	1.46
47399858--47399908	16	3.2	16	74	0	57	11	43	21	23	1.85
47400408--47400437	14	2.1	14	100	0	60	26	13	6	53	1.64
47400653--47400696	22	2.0	22	95	0	79	31	13	15	38	1.87
47401118--47401152	2	17.5	2	100	0	70	51	0	0	48	1.00
47401189--47401236	12	4.3	12	71	28	52	52	14	0	33	1.42
47401184--47401240	20	2.9	20	87	12	75	49	14	0	36	1.43
47401146--47401334	54	3.5	54	74	15	151	48	14	3	33	1.60
47401259--47401456	9	23.7	9	66	20	99	44	22	2	30	1.66
47401259--47401397	63	2.4	56	79	17	158	46	20	3	29	1.68
47401277--47401411	63	2.2	63	90	4	193	46	22	2	28	1.66
47401288--47401434	25	6.0	25	68	19	78	44	22	2	30	1.67
47401371--47401452	41	2.0	41	90	0	128	45	21	0	32	1.53
47401402--47401479	25	3.3	25	80	8	92	44	19	0	35	1.51
47401265--47401427	16	9.9	16	72	13	125	46	22	2	29	1.65
47403219--47403276	21	2.8	21	100	0	116	39	20	34	5	1.75
47403616--47403751	43	3.2	42	85	5	166	25	22	28	24	1.99
47404981--47405069	9	10.2	9	68	20	64	61	1	0	37	1.03
47404964--47405074	26	4.2	26	83	12	138	59	1	0	38	1.08
47404962--47405065	50	2.0	52	87	9	151	60	0	0	38	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47406154--47406237	28	2.9	27	77	10	78	44	0	1	54	1.07
47406189--47406246	15	3.2	20	71	28	65	46	0	0	53	1.00
47409538--47409600	31	2.0	32	81	3	74	17	14	9	58	1.61
47410306--47410349	22	2.0	22	86	0	61	38	2	2	56	1.24
47426293--47426356	22	2.9	22	97	2	119	15	17	25	42	1.88
47426293--47426351	10	5.4	10	81	18	73	16	18	22	42	1.89
47432085--47432118	17	1.9	17	88	5	50	82	2	5	8	0.93
47439702--47439821	43	2.8	43	97	0	222	28	19	26	25	1.99
47446679--47446845	45	3.7	45	75	7	153	42	12	19	25	1.86
47446930--47447010	27	3.0	27	76	3	83	40	14	23	20	1.90
47464927--47465028	17	5.9	17	74	2	78	43	20	7	28	1.80
47465959--47466028	32	2.2	31	87	7	97	44	15	5	34	1.71
47468065--47468097	2	16.5	2	100	0	66	51	0	0	48	1.00
47472494--47472545	24	2.1	25	86	10	72	44	1	42	11	1.51
47478644--47478704	30	2.0	31	87	3	88	40	6	26	26	1.80
47483282--47483360	25	2.9	28	87	12	119	45	7	22	24	1.78
47483280--47483368	30	3.1	30	87	12	134	42	6	24	25	1.79
47483312--47483365	15	3.7	15	73	11	58	42	7	22	27	1.80
47483315--47483365	14	3.5	14	70	19	50	43	5	23	27	1.77
47483513--47483539	2	13.5	2	100	0	54	0	48	0	51	1.00
47496612--47496656	17	2.6	17	82	0	54	42	17	8	31	1.80
47504085--47504136	24	2.1	25	86	10	72	44	1	42	11	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47509162--47509233	25	2.6	27	80	14	85	50	5	22	22	1.70
47509191--47509249	30	1.9	31	86	10	86	49	6	18	25	1.72
47514223--47514444	43	5.2	43	80	9	184	28	30	19	21	1.98
47514283--47514444	87	1.9	86	82	1	207	27	33	17	21	1.96
47516111--47516137	5	5.4	5	100	0	54	81	0	0	18	0.69
47517775--47517807	17	1.9	17	100	0	66	60	12	3	24	1.46
47519196--47519241	20	2.3	20	92	0	74	52	15	4	28	1.61
47520553--47520802	50	4.8	51	83	5	281	22	30	22	24	1.99
47520553--47520802	100	2.4	104	86	6	348	22	30	22	24	1.99
47521875--47521900	13	2.0	13	100	0	52	46	15	7	30	1.74
47526757--47526821	23	3.0	22	74	14	64	30	13	21	33	1.92
47534257--47534283	12	2.2	12	100	0	54	18	7	0	74	1.05
47538368--47538451	41	2.0	41	97	0	159	53	20	2	23	1.57
47543032--47543074	22	2.0	21	86	4	59	11	0	37	51	1.39
47543240--47543339	51	2.0	51	82	4	121	46	2	26	26	1.64
47545021--47545065	24	1.9	24	95	4	83	31	20	4	44	1.71
47545683--47545720	4	9.5	4	83	11	51	26	0	0	73	0.83
47545681--47545730	20	2.5	20	90	3	73	26	2	2	70	1.09
47546612--47546670	26	2.3	26	84	0	73	59	0	8	32	1.28
47548186--47548245	23	2.7	23	82	10	70	8	18	8	65	1.45
47549456--47549486	13	2.3	14	94	5	55	70	0	0	29	0.87
47552329--47553251	477	1.9	478	89	2	1446	30	13	26	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47555426--47555462	19	1.9	19	88	0	56	67	8	0	24	1.17
47558302--47558634	171	1.9	171	91	0	549	29	19	16	34	1.94
47559934--47559978	24	1.9	24	86	13	67	40	2	33	24	1.68
47562300--47562380	40	2.0	40	100	0	162	50	7	9	32	1.63
47562858--47562937	23	3.3	23	80	5	79	22	22	22	32	1.98
47565978--47566025	16	2.9	16	81	6	51	62	4	0	33	1.14
47569310--47569361	24	2.2	24	89	0	77	55	9	1	32	1.43
47569373--47569430	28	2.1	28	100	0	116	41	10	3	44	1.55
47569758--47569811	24	2.3	22	79	20	56	33	11	7	48	1.67
47569875--47569927	18	2.9	18	76	15	56	64	1	0	33	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