genome.fa.s8.2.7.7.80.10.50.1000.181.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  181  of  190  ( 22705 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)
53155485--53155551	34	2.0	34	96	0	125	43	13	14	28	1.84
53170552--53170593	15	2.9	15	79	13	52	80	4	4	9	0.99
53175457--53175509	24	2.2	24	86	0	70	39	3	7	49	1.49
53175474--53175519	24	1.9	24	86	8	67	41	6	4	47	1.49
53189705--53189766	32	1.9	34	87	9	94	45	9	4	40	1.58
53190932--53190984	21	2.5	21	84	0	70	32	35	7	24	1.84
53191083--53191120	13	2.9	13	88	0	58	31	7	21	39	1.82
53193165--53193335	72	2.4	72	88	4	258	55	13	5	25	1.59
53195677--53195733	25	2.4	24	88	5	80	52	19	26	1	1.55
53195803--53195832	14	2.1	14	100	0	60	50	23	26	0	1.50
53198736--53198774	21	1.9	20	84	5	51	69	0	5	25	1.09
53200354--53200396	2	21.5	2	95	0	77	46	0	2	51	1.13
53208775--53208855	41	2.0	41	87	0	117	29	8	12	49	1.70
53209897--53209970	11	6.8	11	82	8	82	51	0	1	47	1.09
53209931--53210038	9	12.0	9	75	18	68	56	0	1	41	1.10
53209953--53210040	32	2.6	33	91	7	133	60	0	2	37	1.10
53211377--53211402	3	8.7	3	100	0	52	69	0	30	0	0.89
53213056--53213090	17	2.1	17	88	0	52	42	5	0	51	1.25
53218546--53218607	4	16.0	4	90	6	83	25	4	24	45	1.73
53226773--53226801	9	3.2	9	100	0	58	34	10	20	34	1.87
53234578--53234615	13	3.0	13	85	14	53	52	0	13	34	1.40
53239738--53239777	21	1.9	21	100	0	80	67	0	15	17	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53239891--53239918	13	2.2	13	100	0	56	42	32	7	17	1.77
53241578--53241791	84	2.6	84	87	0	304	33	19	16	29	1.94
53241578--53241825	84	3.0	84	83	3	277	33	19	16	31	1.94
53242286--53242355	19	3.6	19	75	11	70	34	42	2	20	1.66
53242340--53242501	82	2.0	81	89	3	245	44	27	2	25	1.67
53242517--53242551	14	2.5	14	95	0	61	31	51	0	17	1.45
53242416--53242741	114	3.0	111	79	11	345	40	33	3	23	1.70
53242536--53242893	93	3.9	93	80	11	357	43	28	2	25	1.68
53242733--53242914	81	2.2	82	87	0	249	41	28	2	27	1.69
53243436--53243511	40	1.9	40	83	5	100	18	21	22	38	1.94
53246828--53246938	57	1.9	60	83	9	149	37	15	9	37	1.79
53251444--53251470	11	2.5	11	100	0	54	88	0	11	0	0.50
53254434--53254472	18	2.1	18	85	4	51	58	2	10	28	1.44
53256288--53256364	39	2.0	39	97	0	145	51	10	0	37	1.36
53256534--53256577	22	2.0	22	86	8	63	2	31	0	65	1.05
53262725--53262750	8	3.2	8	100	0	52	38	0	11	50	1.39
53286416--53286446	16	1.9	16	93	0	53	67	6	16	9	1.39
53288324--53288405	31	2.8	31	71	12	75	25	15	10	47	1.78
53292875--53292906	3	10.7	3	100	0	64	34	34	0	31	1.58
53294086--53294111	4	6.5	4	100	0	52	23	0	0	76	0.78
53301792--53301976	51	3.6	51	75	10	164	25	17	25	31	1.97
53301792--53301976	101	1.8	102	91	3	311	25	17	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53301987--53302073	45	1.9	45	90	4	140	25	16	24	34	1.95
53302118--53302161	23	1.9	22	82	17	54	38	0	25	36	1.56
53302149--53302221	37	1.9	38	86	13	107	43	4	20	31	1.70
53305342--53305470	43	3.0	42	76	15	147	22	19	28	29	1.98
53306277--53306495	47	4.7	47	89	2	341	26	18	14	41	1.88
53306277--53306538	94	2.8	94	84	4	341	26	18	14	39	1.90
53306457--53306634	71	2.5	70	79	7	173	29	15	17	38	1.90
53306574--53306629	23	2.4	23	84	0	67	33	12	17	35	1.88
53312869--53312950	34	2.5	33	78	9	94	34	1	18	46	1.57
53313015--53313276	126	2.1	125	93	2	445	34	17	17	30	1.93
53316561--53316606	24	1.9	24	91	8	76	17	4	47	30	1.67
53318777--53318845	30	2.3	30	89	0	111	37	1	27	33	1.66
53319622--53319696	29	2.5	29	80	6	87	32	6	12	49	1.66
53319648--53319710	29	2.2	29	85	5	83	31	12	9	46	1.74
53320355--53320394	10	3.9	10	80	6	53	50	0	5	45	1.23
53320359--53320407	21	2.4	21	86	6	66	57	0	4	38	1.18
53323670--53323761	46	2.0	46	100	0	184	30	15	15	39	1.88
53329929--53329955	4	6.8	4	100	0	54	0	48	0	51	1.00
53332829--53332931	53	1.9	53	84	7	138	8	21	13	56	1.64
53333075--53333141	9	7.3	9	80	12	57	82	0	17	0	0.68
53333076--53333141	12	5.3	12	70	13	53	81	0	18	0	0.68
53333102--53333127	3	8.7	3	100	0	52	69	0	30	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53345469--53345542	25	3.0	26	74	7	73	32	20	22	24	1.98
53346740--53346773	17	2.1	17	88	5	52	52	17	8	20	1.71
53346789--53346826	16	2.4	16	90	0	58	31	0	34	34	1.58
53347060--53347094	18	2.0	17	88	5	52	54	0	0	45	0.99
53350677--53350773	12	7.8	12	75	19	83	58	20	9	11	1.59
53350713--53350741	9	3.3	9	90	9	51	55	24	10	10	1.65
53352771--53352939	78	2.2	78	91	0	266	33	14	21	30	1.93
53377535--53377716	7	25.7	7	75	12	68	46	32	0	20	1.55
53377609--53377637	13	2.1	14	93	6	51	34	48	0	17	1.47
53378073--53378218	40	3.8	40	77	3	138	23	24	24	26	2.00
53378019--53378366	174	2.0	173	82	5	416	25	23	20	29	1.99
53378287--53378373	40	2.2	40	87	0	120	25	19	20	34	1.96
53383913--53384024	56	2.0	56	98	0	215	44	19	8	27	1.79
53384515--53384539	2	12.5	2	100	0	50	52	0	0	48	1.00
53388740--53388771	7	4.7	7	96	3	57	31	15	37	15	1.89
53404461--53404496	18	1.9	18	88	5	54	47	0	19	33	1.50
53404458--53404505	19	2.6	18	83	3	60	43	0	25	31	1.55
53405045--53405149	37	2.7	38	85	5	131	24	16	23	35	1.95
53405045--53405179	40	3.4	39	82	7	166	24	17	25	33	1.96
53411228--53411296	33	2.1	34	97	2	131	43	21	8	26	1.81
53419087--53419206	63	1.9	63	100	0	240	46	10	6	36	1.64
53419061--53419188	29	4.3	29	69	14	91	45	9	8	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53419745--53419811	34	1.9	35	90	3	109	32	7	11	47	1.68
53422677--53422757	22	3.7	22	91	0	117	27	28	14	29	1.95
53427636--53427666	3	10.3	3	100	0	62	35	32	0	32	1.58
53432394--53432433	21	2.0	20	90	5	62	30	10	5	55	1.54
53432395--53432439	21	2.2	20	84	7	56	26	13	6	53	1.64
53436804--53436858	22	2.5	21	80	11	56	54	18	12	14	1.71
53437488--53437571	40	2.1	40	97	0	159	45	1	10	42	1.46
53443517--53443562	21	2.3	20	79	17	51	36	10	21	30	1.88
53447303--53447336	18	2.0	17	88	11	52	35	35	14	14	1.87
53452619--53452698	42	2.0	42	82	9	103	42	5	10	42	1.60
53454319--53454352	9	3.9	9	96	3	61	20	8	0	70	1.13
53454888--53454942	29	1.9	28	82	10	67	21	21	3	52	1.62
53456297--53456348	24	2.2	24	85	0	68	53	9	3	32	1.51
53459054--53459151	46	2.2	46	94	1	171	33	3	19	43	1.66
53463715--53463812	46	2.2	46	94	1	171	33	3	19	43	1.66
53464790--53464821	17	1.9	17	93	6	57	6	28	0	65	1.16
53465764--53465789	12	2.2	12	100	0	52	23	0	7	69	1.14
53473389--53473442	23	2.4	22	84	9	65	35	5	0	59	1.21
53474677--53474753	32	2.4	32	77	10	86	57	1	3	37	1.26
53475065--53475118	15	3.7	15	76	11	51	40	1	0	57	1.09
53483568--53483634	32	2.1	32	88	0	98	38	19	8	32	1.83
53484597--53484643	25	2.0	24	83	8	60	46	0	4	48	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53490204--53490275	31	2.4	31	86	6	94	51	11	9	27	1.69
53493492--53493522	3	10.3	3	100	0	62	0	0	32	67	0.91
53507202--53507364	46	3.6	46	91	3	262	28	21	15	34	1.94
53512649--53512682	2	17.0	2	100	0	68	50	0	0	50	1.00
53512975--53513047	20	3.7	20	67	15	53	60	4	4	31	1.34
53514718--53514752	7	4.9	7	96	3	61	40	17	28	14	1.88
53515803--53515827	11	2.3	11	100	0	50	0	8	12	80	0.92
53532290--53532315	2	13.0	2	100	0	52	50	0	0	50	1.00
53536970--53536996	6	4.5	6	100	0	54	44	0	0	55	0.99
53545479--53545798	160	2.0	160	96	0	586	32	14	17	36	1.89

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