genome.fa.s4.2.7.7.80.10.50.1000.152.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  152  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)
48123120--48123154	12	2.9	12	100	0	70	42	17	5	34	1.73
48123275--48123333	21	2.8	21	79	5	66	52	15	18	13	1.74
48128111--48128631	127	4.2	126	81	6	619	28	14	16	39	1.88
48128791--48128868	28	2.9	28	88	3	115	34	21	1	42	1.61
48134605--48134691	11	7.9	11	75	8	79	2	6	32	58	1.37
48134651--48134708	22	2.6	22	83	5	64	3	6	29	60	1.39
48135222--48135252	3	10.3	3	92	0	53	35	3	32	29	1.73
48136801--48136866	8	8.0	8	80	9	53	36	3	0	60	1.12
48136808--48136899	36	2.7	33	83	6	103	36	1	2	59	1.17
48136821--48136901	18	4.7	17	72	15	60	34	1	2	61	1.17
48137090--48137145	28	2.0	28	85	0	76	35	0	1	62	1.06
48137099--48137159	8	6.7	9	75	15	54	34	0	1	63	1.04
48137090--48137154	10	6.6	10	73	16	55	36	0	1	61	1.05
48137177--48137202	7	3.7	7	100	0	52	38	0	0	61	0.96
48138797--48138835	2	19.5	2	100	0	78	51	0	0	48	1.00
48145517--48145549	2	16.5	2	100	0	66	48	0	0	51	1.00
48146114--48146166	15	3.5	15	85	7	72	66	0	0	33	0.92
48146110--48146164	16	3.6	16	82	7	69	69	0	0	30	0.89
48146258--48146288	16	1.9	16	100	0	62	38	35	0	25	1.56
48149054--48149130	14	5.0	15	71	20	52	45	15	6	32	1.72
48149058--48149124	34	1.9	35	87	3	100	49	13	5	31	1.66
48150733--48150759	14	1.9	14	100	0	54	48	0	37	14	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48151055--48151079	11	2.3	11	100	0	50	24	0	0	76	0.80
48151477--48151575	41	2.4	42	83	5	121	15	25	17	42	1.88
48151939--48152006	35	1.9	37	85	8	97	35	4	1	58	1.27
48168550--48168597	17	2.9	17	84	3	53	54	8	10	27	1.63
48179142--48179231	45	2.0	45	97	0	171	43	22	8	25	1.82
48179498--48179565	25	2.7	25	76	0	82	33	20	16	29	1.94
48190234--48190319	4	21.5	4	80	17	99	54	0	1	44	1.07
48190233--48190320	13	7.2	13	80	18	109	55	0	1	43	1.07
48190217--48190320	9	12.3	9	79	18	93	55	0	1	42	1.10
48192175--48192204	13	2.3	13	94	0	51	50	0	3	46	1.18
48197961--48197996	19	1.9	18	88	5	54	33	0	5	61	1.19
48201436--48201512	33	2.3	33	84	0	100	44	11	19	24	1.84
48203672--48203718	21	2.2	21	88	0	67	21	27	25	25	1.99
48207257--48207297	21	2.0	21	85	0	55	46	0	9	43	1.36
48211311--48211353	23	1.9	23	90	4	70	44	11	4	39	1.62
48227061--48227135	26	2.9	26	80	6	98	22	24	21	32	1.98
48232347--48232376	15	2.0	15	100	0	60	20	0	0	80	0.72
48244663--48244785	61	2.0	62	83	1	158	43	11	17	27	1.83
48260425--48260478	27	2.0	27	100	0	108	29	14	11	44	1.80
48260563--48260652	44	2.0	44	86	0	126	37	10	2	50	1.48
48264712--48264739	2	14.0	2	100	0	56	50	0	0	50	1.00
48264868--48264973	41	2.6	41	90	0	167	29	25	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48272737--48272842	41	2.6	41	92	0	176	30	25	21	22	1.99
48279477--48279528	23	2.3	23	93	0	86	40	23	9	26	1.85
48282675--48282721	24	1.9	25	83	12	62	44	2	10	42	1.51
48283845--48283927	30	2.8	30	83	0	94	34	22	15	26	1.94
48292687--48292738	25	2.1	25	100	0	104	19	0	51	28	1.47
48301741--48301783	18	2.4	18	88	0	59	18	27	9	44	1.80
48302024--48302071	21	2.3	21	82	7	62	31	41	20	6	1.77
48302039--48302085	21	2.2	21	85	7	60	27	42	25	4	1.73
48302716--48302987	96	2.8	94	83	4	341	41	17	2	37	1.63
48304447--48304487	22	1.9	21	85	5	55	58	4	2	34	1.32
48316064--48316171	57	2.0	54	84	14	141	7	53	2	36	1.43
48319227--48319281	27	2.0	27	96	0	101	40	5	34	20	1.75
48320018--48320045	13	2.2	13	100	0	56	28	0	25	46	1.53
48321470--48321496	13	2.1	13	100	0	54	29	40	14	14	1.86
48321740--48321901	27	6.0	27	79	5	150	37	20	19	23	1.95
48321751--48321901	54	2.8	54	82	2	178	37	19	19	23	1.94
48322063--48322127	27	2.4	27	83	14	82	20	24	23	32	1.98
48322171--48322405	32	7.4	32	76	10	178	18	19	23	38	1.93
48322173--48322375	64	3.2	63	76	9	207	17	19	25	38	1.93
48324355--48324396	2	21.0	2	95	0	75	47	0	0	52	1.00
48335125--48335201	22	3.6	21	76	11	68	25	0	22	51	1.48
48341442--48341715	139	2.0	139	93	0	467	25	17	20	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48343265--48343295	16	1.9	16	93	0	53	35	6	9	48	1.62
48346343--48346372	14	2.1	14	93	0	51	46	0	0	53	1.00
48366956--48366990	15	2.2	16	90	5	54	31	0	0	68	0.90
48367047--48367102	22	2.6	21	75	11	51	51	5	3	39	1.42
48369119--48369172	23	2.3	23	90	3	81	18	5	7	68	1.33
48382203--48382286	42	2.0	42	100	0	168	19	4	28	47	1.69
48390202--48390275	34	2.3	33	80	17	84	60	2	22	13	1.45
48400609--48400663	22	2.5	22	82	5	58	21	12	23	41	1.88
48400874--48401004	70	1.9	70	95	0	235	26	7	20	45	1.78
48405703--48405911	92	2.3	91	83	5	242	44	4	4	46	1.44
48405996--48406037	15	2.7	16	82	14	52	45	0	2	52	1.13
48405941--48406028	15	6.1	15	67	23	55	47	0	1	51	1.08
48405915--48406059	55	2.6	53	78	7	157	44	0	2	52	1.17
48406133--48406189	30	2.0	27	86	10	78	49	3	0	47	1.18
48406176--48406206	16	1.9	16	93	0	53	58	6	0	35	1.24
48406243--48406277	18	2.0	17	88	5	52	45	0	0	54	0.99
48408221--48408433	109	2.0	109	96	0	390	31	12	15	41	1.83
48413908--48414111	68	3.0	68	76	2	196	25	22	15	37	1.93
48416780--48416806	2	13.5	2	100	0	54	0	0	48	51	1.00
48418892--48418942	21	2.4	21	100	0	102	23	11	21	43	1.85
48423578--48423606	2	14.5	2	100	0	58	0	0	48	51	1.00
48427322--48427395	21	3.7	20	77	12	71	37	4	1	56	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48432966--48433015	12	3.9	13	77	12	59	60	2	0	38	1.09
48435463--48435695	54	4.1	54	73	16	227	43	1	7	47	1.42
48435478--48435563	28	3.1	27	65	24	63	46	2	8	43	1.46
48435574--48435620	16	3.0	16	78	12	53	46	0	2	51	1.13
48435517--48435737	120	1.8	121	99	0	435	42	1	6	48	1.38
48435694--48435735	15	2.7	16	82	14	52	45	0	2	52	1.13
48435685--48435726	15	2.9	15	82	10	52	47	0	0	52	1.00
48435837--48435871	18	2.0	17	88	5	52	45	0	0	54	0.99
48435837--48435894	16	3.6	16	78	21	52	44	0	1	53	1.10
48437397--48437564	84	2.0	84	96	0	309	41	13	14	30	1.84
48439574--48439623	13	3.2	16	70	18	52	48	0	0	52	1.00
48439566--48439623	29	2.0	30	83	10	75	46	1	0	51	1.11
48439577--48439642	29	2.2	30	86	10	91	42	0	0	57	0.98
48439632--48439668	19	1.9	19	88	0	56	48	2	0	48	1.15
48442377--48442421	21	2.1	22	84	12	58	60	2	0	37	1.09
48443362--48443441	42	1.9	42	86	0	115	32	26	22	18	1.97
48444866--48444927	31	2.0	31	100	0	124	32	19	6	41	1.77
48452410--48452443	11	3.1	11	91	0	50	17	23	5	52	1.66
48452415--48452446	11	2.9	11	95	0	55	18	21	6	53	1.67
48452452--48452495	12	3.8	12	81	3	54	40	0	0	59	0.98
48454271--48454309	18	2.2	18	95	0	69	23	30	7	38	1.83
48454718--48454749	9	3.7	9	95	4	57	34	0	9	56	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48454748--48454795	25	1.9	25	95	0	87	43	0	16	39	1.48
48454798--48454834	9	4.2	9	96	3	67	29	0	10	59	1.31
48454865--48455633	44	17.4	45	87	4	875	47	25	0	26	1.55
48454861--48455612	67	11.4	66	87	6	940	47	25	0	26	1.55
48454865--48455612	198	3.8	198	88	5	1043	47	25	0	26	1.55
48458891--48459240	123	2.8	123	89	1	513	33	22	14	29	1.93
48461985--48462058	38	1.9	38	97	0	139	21	17	13	47	1.82
48467018--48467062	12	4.0	12	80	13	60	55	2	0	42	1.12
48471950--48472006	27	2.1	27	83	0	69	21	33	17	28	1.96
48472398--48472450	24	2.2	24	86	0	70	37	5	9	47	1.60

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