genome.fa.s4.2.7.7.80.10.50.1000.147.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  147  of  198  ( 23681 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)
46757444--46757514	37	1.9	37	100	0	142	49	0	11	39	1.39
46757450--46757518	19	3.7	19	82	5	97	52	0	10	37	1.36
46757588--46757670	27	3.1	26	85	1	103	19	32	18	30	1.95
46757743--46757792	27	2.0	25	88	11	75	52	0	12	36	1.39
46758637--46758673	18	2.1	18	89	0	56	51	13	8	27	1.69
46758732--46758813	30	2.7	30	96	1	146	21	43	0	34	1.53
46758916--46758974	30	2.0	30	90	6	93	20	44	0	35	1.52
46760632--46760710	34	2.4	32	76	16	81	51	3	0	44	1.19
46770917--46771045	64	2.0	64	90	0	204	19	20	25	34	1.96
46771109--46771184	26	3.0	25	77	7	82	21	19	19	39	1.93
46771201--46771254	23	2.4	22	84	9	72	16	22	20	40	1.91
46771215--46771293	26	3.2	26	71	16	69	15	17	21	45	1.85
46772383--46772540	79	2.0	79	98	0	307	33	13	28	24	1.94
46777979--46778075	12	7.9	12	71	15	65	52	8	11	27	1.65
46778000--46778067	23	2.9	23	82	12	77	50	10	14	25	1.74
46777984--46778121	25	5.3	25	73	18	113	53	9	11	25	1.67
46778061--46778105	15	2.9	15	77	6	54	62	8	4	24	1.43
46778000--46778132	12	10.2	13	70	20	73	54	9	12	23	1.68
46781044--46781091	23	2.0	24	88	4	71	29	0	29	41	1.56
46781472--46781528	6	9.3	6	80	17	64	77	0	1	21	0.86
46781472--46781505	11	3.1	11	87	12	52	82	0	0	17	0.67
46781473--46781549	25	3.2	25	79	15	74	72	0	3	23	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46781482--46781549	25	2.7	26	78	15	79	70	0	4	25	1.05
46788287--46788352	23	2.8	23	80	15	73	50	9	15	25	1.73
46791238--46791278	22	1.9	22	90	5	66	31	0	7	60	1.24
46793995--46794032	4	9.5	4	100	0	76	0	23	0	76	0.79
46794955--46795055	40	2.5	40	83	3	132	32	21	21	23	1.98
46795076--46795293	118	1.8	118	87	3	323	29	18	24	27	1.98
46795659--46795915	7	36.7	7	69	6	108	19	1	31	46	1.61
46795760--46795830	22	3.3	21	80	5	70	16	2	38	42	1.63
46795777--46795833	22	2.6	22	85	0	78	19	3	40	36	1.69
46795753--46795838	29	3.0	29	80	8	86	18	2	36	43	1.63
46795864--46795915	27	1.9	27	92	0	86	17	0	30	51	1.45
46796053--46796133	43	1.9	42	87	7	119	33	14	19	32	1.92
46796436--46796471	16	2.2	16	95	0	63	2	50	13	33	1.57
46797269--46797309	21	2.1	19	86	9	55	43	0	0	56	0.99
46797274--46797309	7	5.1	7	100	0	72	44	0	0	55	0.99
46797268--46797344	14	5.6	14	80	6	77	44	0	0	55	0.99
46797449--46797480	9	3.6	9	91	0	55	43	18	0	37	1.51
46797537--46797718	9	20.0	9	75	11	131	46	20	0	33	1.51
46797508--46797716	56	3.8	57	80	11	233	45	19	0	34	1.50
46797546--46797675	47	2.7	47	91	3	199	45	21	0	33	1.52
46803501--46803540	21	2.0	21	90	5	64	25	20	22	32	1.98
46805302--46805341	21	1.9	21	94	0	71	22	20	25	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46805352--46805447	42	2.3	42	83	3	113	30	22	15	31	1.95
46805731--46805802	21	3.4	21	82	3	90	5	43	15	36	1.70
46807034--46807077	21	2.1	21	95	0	79	18	11	25	45	1.82
46809060--46809137	41	2.0	39	90	7	122	37	3	5	53	1.41
46809439--46809510	7	10.0	7	85	5	99	43	38	1	16	1.57
46809694--46809744	14	3.7	13	77	12	57	37	43	0	19	1.51
46809689--46809735	15	3.2	14	77	17	51	34	44	0	21	1.52
46809803--46809829	14	1.9	14	100	0	54	44	29	0	25	1.54
46809853--46809912	28	2.1	28	84	0	75	51	28	0	20	1.47
46810019--46810180	76	2.2	73	85	5	209	34	20	16	28	1.94
46810195--46810256	31	2.0	31	96	0	115	24	16	20	38	1.92
46810391--46810443	24	2.2	24	83	12	65	43	11	15	30	1.81
46810439--46810768	115	2.9	113	85	4	430	26	22	19	31	1.98
46820697--46820723	7	3.9	7	100	0	54	40	0	0	59	0.98
46824609--46824635	2	13.5	2	100	0	54	51	0	0	48	1.00
46835985--46836148	12	13.0	12	73	14	98	26	14	9	48	1.75
46836066--46836124	23	2.5	24	81	15	70	22	13	10	54	1.69
46836078--46836125	23	2.1	23	88	11	73	22	14	10	52	1.72
46838653--46838684	11	2.6	13	90	9	50	43	12	6	37	1.68
46839414--46839532	33	3.4	33	71	20	114	21	18	27	31	1.97
46839280--46839509	102	2.3	103	85	3	315	20	18	28	32	1.97
46846259--46846507	50	4.8	50	82	4	282	20	29	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46846258--46846507	100	2.4	104	85	5	328	21	29	23	25	1.99
46846845--46846902	30	1.9	30	86	6	82	29	24	6	39	1.81
46853843--46854081	50	4.6	51	84	4	268	20	31	24	24	1.98
46853842--46854083	100	2.3	105	85	6	316	20	30	24	24	1.98
46854416--46854473	30	1.9	30	89	0	89	32	24	5	37	1.77
46856771--46856889	33	3.4	33	71	20	114	21	18	27	31	1.97
46856637--46856866	102	2.3	103	85	3	315	20	18	28	32	1.97
46861958--46862121	12	13.0	12	73	14	107	26	15	9	48	1.76
46862039--46862096	23	2.5	24	81	16	68	22	13	10	53	1.70
46866396--46866490	40	2.4	40	83	0	118	31	23	22	23	1.98
46866571--46866708	41	3.4	41	83	0	168	23	15	26	35	1.94
46866571--46866748	82	2.2	80	80	5	196	22	16	26	34	1.95
46870299--46870395	13	7.4	13	75	11	81	44	14	0	41	1.45
46870325--46870407	27	3.1	27	81	10	116	43	14	0	42	1.45
46870293--46870522	53	4.1	55	80	10	202	44	12	0	42	1.47
46870429--46870519	18	4.9	18	73	15	78	45	10	0	43	1.39
46870421--46870472	22	2.4	22	75	15	54	38	15	0	46	1.46
46870429--46870483	17	3.2	17	82	5	74	41	10	0	47	1.39
46870372--46870523	39	4.0	38	77	12	132	44	11	0	43	1.46
46872397--46872541	66	2.2	66	83	2	184	39	18	25	16	1.91
46872896--46873333	43	10.3	43	85	3	537	25	18	31	24	1.97
46872896--46873349	128	3.5	128	86	2	574	25	18	31	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46872896--46873333	171	2.6	170	84	3	576	25	18	31	24	1.97
46874522--46874798	134	2.1	134	94	0	482	34	10	16	37	1.84
46874881--46875229	174	2.0	174	91	1	565	32	12	24	30	1.92
46876901--46876990	44	2.0	44	97	0	171	37	13	24	24	1.91
46878139--46878211	6	11.7	6	73	13	58	17	1	6	73	1.11
46878144--46878199	24	2.4	23	85	8	69	16	1	7	75	1.11
46879925--46879967	5	8.6	5	86	0	50	30	4	23	41	1.74
46882966--46883016	21	2.2	23	83	13	61	43	27	5	23	1.77
46885670--46885866	98	2.0	98	93	3	335	37	22	9	29	1.86
46886822--46886861	3	13.7	3	86	5	55	65	0	0	35	0.93
46888275--46888861	132	4.4	132	92	0	879	28	22	19	28	1.98
46891824--46891898	1	75.0	1	70	0	51	0	0	14	85	0.60
46891824--46891896	6	12.7	6	90	9	109	0	0	15	84	0.61
46905952--46905999	21	2.3	21	85	0	60	29	20	31	18	1.97
46905968--46906010	21	2.0	21	90	0	68	25	20	34	18	1.96
46907549--46907595	17	2.7	18	77	9	53	27	31	21	19	1.97
46912723--46912784	31	2.0	31	100	0	124	25	32	9	32	1.88
46914199--46914223	7	3.6	7	100	0	50	36	0	0	64	0.94
46918260--46918284	2	12.5	2	100	0	50	52	0	0	48	1.00
46920987--46921197	108	1.9	108	88	2	316	31	18	20	29	1.96
46924165--46924203	19	2.0	20	95	5	71	53	5	25	15	1.62
46924322--46924349	13	2.2	13	100	0	56	39	0	14	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46925532--46925582	23	2.2	23	92	0	84	41	21	9	27	1.84
46925958--46925986	2	14.5	2	100	0	58	51	0	48	0	1.00
46937025--46937127	54	1.9	54	88	4	154	37	19	21	21	1.94
46940059--46940156	5	19.6	5	97	0	187	38	0	1	60	1.04
46940300--46940343	20	2.2	20	84	11	56	75	6	15	2	1.12
46940321--46940366	17	2.8	17	93	3	76	71	13	15	0	1.14
46940315--46940355	20	1.9	22	85	14	59	75	9	14	0	1.04
46941448--46941555	23	5.0	21	84	7	128	18	22	23	36	1.95
46944161--46944208	15	3.2	15	84	0	60	56	0	8	35	1.30
46944161--46944208	3	16.0	3	86	0	51	56	0	8	35	1.30

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