genome.fa.s8.2.7.7.80.10.50.1000.130.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  130  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)
38607789--38608108	106	3.0	106	80	1	381	32	18	18	31	1.94
38608596--38608653	31	1.9	30	85	3	80	74	3	5	17	1.15
38613028--38613112	27	3.1	27	79	3	100	22	36	22	18	1.95
38614793--38614851	31	1.9	31	89	0	91	30	11	15	42	1.83
38616899--38617180	140	2.0	140	100	0	564	24	11	28	35	1.90
38620089--38620129	18	2.3	18	87	4	57	36	9	2	51	1.48
38625297--38625321	3	8.3	3	100	0	50	36	0	32	32	1.58
38632342--38632400	31	1.9	31	100	0	118	33	10	15	40	1.81
38632697--38632740	3	14.7	3	100	0	88	31	0	0	68	0.90
38642016--38642075	10	6.0	10	78	7	68	68	0	3	28	1.05
38642016--38642105	21	4.4	21	80	9	96	65	0	2	32	1.05
38642021--38642105	11	8.2	11	71	17	74	68	0	2	29	1.02
38642297--38642361	19	3.4	18	74	16	60	29	7	1	61	1.33
38644932--38645121	89	2.2	87	85	7	246	38	25	8	27	1.85
38645397--38645486	44	2.0	44	87	4	128	33	5	3	57	1.38
38645448--38645520	19	3.8	19	71	16	62	26	4	2	67	1.22
38650565--38650729	47	3.5	46	84	1	177	25	24	15	34	1.94
38652352--38652438	44	2.0	44	88	0	129	54	4	8	33	1.51
38653925--38653976	24	2.2	24	85	0	68	50	7	3	38	1.50
38658269--38658319	24	2.2	24	89	3	77	49	5	3	41	1.45
38659186--38659211	2	13.0	2	100	0	52	50	50	0	0	1.00
38659211--38659235	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38661336--38661398	31	2.0	31	96	0	117	22	19	11	47	1.80
38661441--38661469	14	2.0	15	93	6	51	51	20	0	27	1.47
38666185--38666213	10	2.9	10	100	0	58	0	31	68	0	0.89
38667671--38667734	31	2.1	31	82	5	76	40	9	7	42	1.66
38667781--38667812	2	17.0	2	87	12	50	53	0	0	46	1.00
38667781--38667812	11	2.8	12	86	13	50	53	0	0	46	1.00
38669098--38669144	24	2.0	24	91	4	78	55	0	4	40	1.19
38669195--38669248	26	2.0	27	82	3	65	53	1	9	35	1.44
38669393--38669460	3	22.7	3	100	0	136	67	0	0	32	0.91
38672319--38672375	14	3.9	14	75	15	53	31	8	1	57	1.39
38675226--38675263	20	1.9	20	84	10	51	57	5	7	28	1.49
38676498--38677309	167	4.9	164	78	13	773	22	13	20	44	1.85
38679596--38679650	18	2.9	18	81	13	58	40	0	0	60	0.97
38679611--38679666	22	2.7	20	86	10	69	48	0	0	51	1.00
38679641--38679674	14	2.3	15	90	5	52	52	0	0	47	1.00
38680749--38680825	3	25.7	3	100	0	154	32	0	0	67	0.91
38684776--38684818	21	2.0	21	90	0	68	51	13	11	23	1.74
38685127--38685165	16	2.4	17	87	8	55	64	0	5	30	1.15
38707397--38707978	50	11.6	50	74	2	497	22	19	23	35	1.96
38707397--38708014	100	6.2	100	87	1	819	22	19	24	34	1.96
38712054--38712143	47	1.9	47	88	0	135	16	18	18	45	1.86
38722785--38722828	14	3.2	13	81	9	52	9	0	40	50	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38722799--38722824	7	3.7	7	100	0	52	11	0	42	46	1.40
38722782--38722824	21	2.0	21	82	8	52	11	0	39	48	1.40
38723042--38723210	46	3.6	46	70	13	132	44	2	14	37	1.61
38722947--38723255	86	3.3	92	81	7	344	43	3	16	37	1.64
38723298--38723720	126	3.4	126	93	0	722	31	19	22	26	1.98
38726001--38726088	41	2.1	41	89	0	131	29	20	20	29	1.98
38726014--38726100	41	2.1	41	86	0	120	28	21	21	27	1.99
38728295--38728625	72	4.6	70	79	7	281	23	16	24	35	1.95
38728362--38728625	142	1.8	144	83	1	352	23	16	24	35	1.95
38731490--38731544	27	2.0	27	100	0	110	21	14	29	34	1.93
38735322--38735347	2	13.0	2	100	0	52	50	0	0	50	1.00
38738371--38738403	17	2.0	16	94	5	57	57	0	0	42	0.98
38739146--38739196	20	2.5	20	75	15	50	45	33	5	15	1.71
38745462--38745524	30	2.1	30	93	0	108	28	3	11	57	1.49
38750403--38750427	10	2.5	10	100	0	50	68	0	0	32	0.90
38750646--38750716	24	3.0	24	85	0	97	45	0	35	19	1.51
38755892--38755916	4	6.2	4	100	0	50	24	0	0	76	0.80
38765516--38765543	3	9.3	3	100	0	56	35	0	32	32	1.58
38775051--38775108	30	1.9	30	85	0	80	43	1	24	31	1.64
38775322--38775346	13	1.9	13	100	0	50	32	4	8	56	1.47
38775446--38775694	50	4.8	50	86	3	291	26	23	28	20	1.99
38775446--38775695	100	2.4	103	85	5	335	26	23	28	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38789310--38789335	12	2.2	12	100	0	52	46	0	0	53	1.00
38789521--38789553	16	2.1	16	100	0	66	30	0	6	63	1.18
38801107--38801148	19	2.3	19	91	4	68	57	0	0	42	0.99
38801567--38801602	2	18.5	2	94	5	65	52	0	0	47	1.00
38801893--38801917	2	12.5	2	100	0	50	48	0	0	52	1.00
38814859--38814902	21	2.0	23	86	8	65	52	0	4	43	1.22
38820105--38820140	5	7.2	5	100	0	72	22	0	19	58	1.40
38822122--38822156	7	5.0	7	100	0	70	42	0	28	28	1.56
38822216--38822253	20	1.9	20	89	10	60	44	5	0	50	1.24
38824703--38825110	211	2.0	210	91	1	660	37	9	9	42	1.71
38825162--38825187	2	13.0	2	100	0	52	50	0	0	50	1.00
38827004--38827114	57	2.0	56	90	1	177	27	21	17	34	1.95
38827870--38827941	36	2.0	36	100	0	144	36	8	19	36	1.82
38828618--38828659	20	2.1	20	82	8	50	69	2	2	26	1.13
38830182--38830231	22	2.4	22	83	6	68	32	0	4	64	1.12
38831692--38831728	17	2.1	18	90	5	58	45	5	5	43	1.49
38831781--38831806	2	13.0	2	100	0	52	50	0	0	50	1.00
38831815--38831877	3	20.7	3	96	3	117	66	0	1	31	1.01
38832353--38832556	18	11.6	17	68	19	91	40	11	14	33	1.82
38832355--38832601	18	13.9	18	68	15	76	40	12	13	34	1.82
38832337--38832412	36	2.1	38	85	7	104	42	10	11	35	1.76
38832355--38832422	20	3.6	19	86	7	86	39	10	13	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38832373--38832432	20	3.0	21	81	11	74	38	8	13	40	1.75
38832496--38832585	33	2.7	34	75	6	85	40	10	10	40	1.72
38832561--38832602	21	2.0	21	81	9	50	42	11	7	38	1.69
38833166--38833245	16	4.9	16	78	6	81	0	21	0	78	0.75
38833166--38833252	24	3.7	23	76	7	86	1	19	0	79	0.80
38833166--38833235	24	2.9	25	87	6	99	0	21	0	78	0.75
38833525--38833607	6	14.5	6	82	9	75	0	22	0	77	0.78
38833524--38833607	9	9.1	9	83	10	62	0	22	0	77	0.77
38833524--38833576	11	4.9	10	82	17	54	0	16	0	83	0.66
38833540--38833606	3	23.3	3	84	6	86	0	25	0	74	0.82
38833942--38834056	30	3.9	29	75	9	108	38	5	24	32	1.78
38834048--38834085	18	2.1	19	90	5	60	13	0	7	78	0.94
38834053--38834085	9	3.5	10	92	8	52	9	0	6	84	0.76
38835548--38835588	20	2.0	21	90	4	66	21	2	41	34	1.67
38836157--38836216	23	2.5	24	91	5	104	40	3	0	56	1.16
38836843--38836914	6	12.0	6	100	0	144	83	16	0	0	0.65
38837822--38837948	35	3.6	35	84	2	175	17	11	30	40	1.84
38841940--38841991	10	5.2	9	76	17	50	67	0	3	28	1.08
38842091--38842145	21	2.6	21	73	2	56	43	0	1	54	1.10
38842810--38842933	37	3.3	37	88	2	158	40	30	11	17	1.85
38843514--38843663	49	3.0	49	77	2	158	33	10	12	44	1.76
38844659--38844696	20	1.9	20	94	0	67	55	15	0	28	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38849030--38849084	27	2.0	27	83	13	69	27	3	3	65	1.26
38850987--38851041	2	27.5	2	100	0	110	49	0	0	50	1.00
38852866--38852916	24	2.1	24	81	0	57	23	60	3	11	1.47
38852950--38853007	12	4.8	12	78	0	62	24	60	6	8	1.51
38852950--38853097	24	6.2	24	76	9	140	25	59	4	10	1.50
38852950--38853097	48	3.1	48	78	5	156	25	59	4	10	1.50
38852967--38853384	72	5.9	71	69	15	202	23	58	4	12	1.52
38853070--38853100	3	10.3	3	92	0	53	29	67	0	3	1.06
38852952--38853143	24	8.4	24	73	14	95	23	59	4	12	1.52
38853115--38853309	36	5.2	36	69	14	110	23	58	5	12	1.54

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