genome.fa.s11.2.7.7.80.10.50.1000.139.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  139  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)
42359295--42359404	25	4.4	25	79	4	80	20	27	22	30	1.98
42361193--42361240	24	2.0	24	83	0	60	25	29	18	27	1.98
42361361--42361440	25	3.2	24	70	18	74	21	31	20	27	1.98
42369293--42369357	8	7.4	8	80	19	76	75	0	12	12	1.05
42369291--42369357	19	3.8	17	88	11	91	74	0	13	11	1.07
42369297--42369360	4	16.5	4	72	6	51	75	0	14	10	1.06
42370800--42370894	31	3.1	29	72	17	77	31	13	8	46	1.73
42370777--42370865	29	3.0	29	72	18	83	30	12	11	46	1.76
42370777--42370894	60	2.0	60	84	0	155	29	12	11	46	1.76
42371447--42371494	14	3.4	14	79	2	60	66	2	0	31	1.03
42371422--42371498	28	2.6	29	79	20	81	62	1	2	33	1.17
42374631--42374694	19	3.5	17	80	16	74	45	9	0	45	1.36
42374643--42374694	9	5.7	9	90	4	86	42	9	0	48	1.36
42375154--42375297	76	1.9	76	82	2	182	31	20	17	31	1.95
42380577--42380623	5	9.4	5	77	9	51	40	19	0	40	1.51
42382553--42382604	25	2.1	26	89	7	81	59	7	0	32	1.26
42387563--42387614	24	2.2	24	92	0	86	51	9	1	36	1.46
42395047--42395113	25	2.5	24	88	9	80	31	5	0	62	1.19
42395047--42395448	26	15.2	26	72	13	241	30	7	3	58	1.42
42395239--42395324	28	3.2	27	79	9	97	30	6	1	61	1.29
42395397--42395444	24	2.0	23	88	4	69	29	10	4	56	1.52
42405199--42405234	19	1.9	20	88	11	58	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42410607--42410673	33	2.0	33	100	0	134	40	14	20	23	1.90
42423357--42423784	44	9.9	44	71	12	271	29	20	21	27	1.98
42423323--42423838	173	3.0	173	93	0	854	29	20	22	27	1.98
42423532--42423766	129	1.8	128	80	8	280	28	22	21	28	1.99
42423314--42423823	44	11.7	44	70	9	233	29	20	21	28	1.98
42424010--42424129	45	2.7	43	73	15	102	29	17	25	27	1.98
42424097--42424180	44	1.9	44	82	0	105	33	17	19	29	1.95
42426312--42426508	98	2.0	98	96	0	367	27	10	24	37	1.88
42429625--42429659	18	2.0	17	88	5	52	45	0	0	54	0.99
42429895--42429946	16	3.2	16	97	0	95	40	36	0	23	1.55
42430250--42430277	2	14.0	2	100	0	56	50	0	0	50	1.00
42435598--42435628	6	5.2	6	100	0	62	67	0	0	32	0.91
42442377--42442421	2	22.5	2	95	0	81	48	0	2	48	1.13
42442825--42442992	41	4.1	41	78	10	164	28	18	24	28	1.98
42445744--42445830	43	2.0	42	84	2	111	34	17	20	27	1.95
42449989--42450043	25	2.2	25	90	0	83	49	1	29	20	1.59
42450120--42450280	83	1.9	83	81	5	191	26	18	15	39	1.91
42455133--42455187	19	2.9	19	71	12	51	65	1	14	18	1.36
42455186--42455216	16	1.9	16	93	0	53	83	0	6	9	0.79
42461580--42461633	25	2.3	25	75	18	62	53	7	3	35	1.47
42467986--42468022	4	9.2	4	93	0	65	21	0	2	75	0.92
42468209--42468302	3	31.3	3	90	4	145	32	3	0	63	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42468322--42468350	4	7.2	4	100	0	58	24	0	0	75	0.80
42474222--42474485	44	6.0	44	73	9	198	30	19	21	27	1.98
42474222--42474485	88	3.0	88	81	4	239	30	19	21	27	1.98
42474356--42474954	143	4.2	143	84	3	699	30	19	22	27	1.98
42475005--42475170	45	3.7	45	81	2	165	32	21	20	25	1.97
42476633--42476754	64	1.9	65	80	13	144	31	6	2	59	1.36
42476836--42476929	3	31.3	3	93	0	116	35	6	0	58	1.24
42478839--42478878	19	2.2	18	86	4	53	35	0	5	60	1.19
42480593--42480623	9	3.4	9	90	0	53	38	22	12	25	1.90
42484111--42484141	6	5.2	6	100	0	62	67	0	16	16	1.23
42486485--42486661	92	1.9	92	89	2	275	44	9	21	24	1.82
42489174--42489238	24	2.7	24	73	20	71	18	7	6	67	1.36
42489217--42489262	22	2.1	21	84	15	58	15	6	4	73	1.19
42492694--42492796	30	3.4	30	89	2	154	24	21	26	28	1.99
42492660--42492796	60	2.3	60	87	2	186	26	22	24	26	2.00
42495409--42495465	21	2.8	21	81	10	73	38	3	0	57	1.16
42495480--42495531	24	2.2	24	93	6	88	32	11	0	55	1.36
42495580--42495624	24	1.9	24	90	4	74	42	0	4	53	1.21
42495636--42495671	14	2.6	14	91	4	56	58	2	0	38	1.13
42495677--42495720	22	2.1	20	84	12	61	52	2	0	45	1.13
42495652--42495739	24	3.9	22	73	16	65	57	1	0	40	1.06
42495782--42495815	17	2.1	17	94	5	61	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42495905--42495965	24	2.5	24	83	2	77	75	4	4	14	1.14
42501034--42501099	35	1.9	34	87	9	98	51	1	7	39	1.40
42502302--42502345	19	2.3	20	85	14	58	52	0	22	25	1.48
42512237--42512278	19	2.2	19	86	0	57	66	2	2	28	1.16
42517755--42517812	30	1.9	30	85	0	80	39	6	20	32	1.79
42518144--42518468	33	9.4	33	69	22	163	20	20	27	31	1.98
42518204--42518340	42	3.5	41	77	17	173	21	18	27	32	1.97
42518167--42518342	75	2.3	75	96	0	316	20	19	27	32	1.97
42518243--42518444	102	2.0	102	96	0	368	19	21	28	30	1.98
42518139--42518479	177	1.9	177	93	0	592	21	21	27	30	1.98
42519856--42519966	49	2.4	47	87	6	163	29	15	6	48	1.69
42524840--42525028	100	1.9	100	90	5	303	46	12	7	33	1.71
42526267--42526296	15	1.9	16	93	6	53	63	3	0	33	1.11
42528444--42528610	28	6.5	25	66	18	69	56	1	13	28	1.44
42528444--42528655	76	2.8	76	82	4	230	55	1	13	29	1.49
42528443--42528654	27	8.1	27	62	16	81	55	1	13	29	1.49
42528624--42528820	48	4.3	47	74	12	162	58	1	11	28	1.40
42528733--42528804	21	3.4	22	70	14	62	62	0	6	30	1.21
42528778--42528818	19	2.2	19	86	8	57	63	0	7	29	1.21
42528814--42528843	12	2.6	12	94	5	53	43	0	30	26	1.55
42528814--42528892	5	14.6	5	72	15	50	55	0	21	22	1.43
42528814--42528890	11	7.0	11	80	5	66	55	0	20	23	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42528814--42528892	16	4.8	16	76	3	68	55	0	21	22	1.43
42530962--42531075	53	2.2	53	84	7	146	34	14	19	31	1.92
42534160--42534226	32	2.1	32	100	0	134	35	2	8	52	1.48
42534284--42534333	21	2.3	23	80	16	61	52	0	4	44	1.20
42534451--42534503	20	2.8	19	80	8	56	28	0	5	66	1.15
42535034--42535097	31	2.1	31	96	0	119	43	6	10	39	1.65
42539012--42539050	3	13.0	3	100	0	78	66	0	0	33	0.92
42540853--42540889	4	9.2	4	93	0	65	27	0	21	51	1.48
42542557--42542582	3	8.7	3	100	0	52	0	30	0	69	0.89
42542657--42542733	22	3.4	22	67	19	68	35	2	25	36	1.70
42542652--42542746	46	2.1	46	100	0	190	33	2	23	41	1.66
42543881--42543918	2	19.0	2	100	0	76	50	0	0	50	1.00
42544233--42544257	2	12.5	2	100	0	50	52	0	0	48	1.00
42546055--42546297	44	5.5	43	81	5	245	29	23	18	29	1.97
42546086--42546596	133	3.8	131	74	11	450	28	23	17	30	1.97
42546264--42546378	41	2.8	41	95	0	212	33	23	18	25	1.97
42562844--42563050	20	10.4	19	69	10	85	13	31	20	34	1.91
42562832--42562909	40	2.0	40	82	5	95	21	29	17	30	1.97
42562837--42562998	60	2.7	60	80	1	164	16	30	19	33	1.93
42562901--42563039	60	2.3	59	85	3	179	10	30	21	36	1.88
42565035--42565129	44	2.2	42	81	7	102	27	18	24	29	1.98
42570315--42570339	8	3.1	8	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42575372--42575396	7	3.6	7	100	0	50	12	0	40	48	1.40
42575469--42575753	125	2.3	126	88	1	412	31	19	21	27	1.97
42576119--42576166	21	2.3	21	85	0	60	4	27	41	27	1.74
42578299--42578401	11	9.9	10	70	19	61	46	2	27	23	1.66
42578299--42578401	22	4.4	22	70	19	75	46	2	27	23	1.66
42578287--42578388	51	2.0	51	98	0	195	45	2	26	25	1.68
42578807--42578857	9	5.6	9	80	15	52	29	0	3	66	1.09
42578806--42578856	20	2.7	19	80	11	61	29	0	3	66	1.09
42584015--42584073	28	2.1	28	100	0	118	33	16	13	35	1.88
42595512--42595638	62	2.0	62	95	0	227	30	11	16	40	1.84

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