genome.fa.s5.2.7.7.80.10.50.1000.138.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  138  of  208  ( 24913 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)
42126270--42126412	71	2.0	71	100	0	286	39	22	8	29	1.83
42129732--42129770	11	3.5	11	82	0	51	25	12	2	58	1.47
42129723--42129779	22	2.6	22	72	10	53	19	12	3	64	1.40
42129808--42129872	30	2.2	30	97	0	121	23	3	15	58	1.51
42131817--42131942	47	2.7	46	82	2	153	39	6	15	38	1.73
42131809--42132107	163	1.8	164	93	2	521	38	6	15	39	1.73
42131978--42132280	96	3.1	96	94	3	543	39	6	15	38	1.73
42131960--42132284	100	3.3	100	93	4	568	39	6	15	38	1.74
42132419--42132572	41	3.8	41	90	0	218	18	20	29	32	1.96
42132419--42132591	82	2.1	82	82	0	202	19	19	27	34	1.95
42135291--42135332	21	2.0	21	95	0	75	30	9	16	42	1.80
42137669--42137708	21	1.9	21	94	0	71	32	10	15	42	1.79
42140159--42140275	45	2.6	45	88	0	162	34	15	21	29	1.94
42140153--42140310	45	3.6	43	80	6	147	34	15	21	28	1.94
42140382--42140464	34	2.4	34	86	4	114	46	15	9	27	1.77
42147931--42148017	23	3.8	22	73	10	77	33	19	27	19	1.96
42153722--42153782	31	1.9	31	83	9	79	11	22	11	54	1.68
42154329--42154431	50	2.1	50	81	7	120	20	30	33	15	1.94
42160283--42160312	14	2.1	14	93	0	51	16	43	0	40	1.48
42165324--42165359	11	3.3	11	88	0	54	13	2	2	80	0.93
42190114--42190152	20	2.0	20	84	0	51	53	0	0	46	1.00
42190139--42190254	31	3.8	30	76	7	90	43	0	3	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42190125--42190193	16	4.2	16	71	15	61	46	0	1	52	1.09
42190141--42190257	61	1.9	61	89	3	182	43	0	3	52	1.24
42190241--42190279	21	1.9	20	84	5	51	38	7	7	46	1.61
42192910--42192968	16	3.6	16	78	14	59	67	0	3	28	1.06
42195342--42195378	9	4.1	9	92	0	65	45	13	10	29	1.77
42196406--42196431	5	5.2	5	100	0	52	19	19	19	42	1.90
42213001--42213044	14	2.8	16	86	10	56	31	0	4	63	1.14
42218220--42218275	25	2.3	25	77	17	64	51	0	1	46	1.11
42221696--42221721	13	2.0	13	100	0	52	61	15	15	7	1.55
42225982--42226046	4	15.8	4	73	23	55	24	4	0	70	1.06
42225981--42226046	14	5.2	12	79	13	71	24	4	0	71	1.05
42238051--42238085	13	2.6	14	86	9	54	54	37	0	8	1.31
42238620--42238669	22	2.3	22	92	0	82	6	26	46	22	1.74
42239192--42239263	10	7.9	9	73	22	53	23	4	0	72	1.02
42239196--42239256	4	14.5	4	75	21	54	24	4	0	70	1.07
42239196--42239263	16	4.2	15	77	20	66	25	4	0	70	1.05
42239426--42239459	10	3.6	9	88	11	50	20	2	2	73	1.09
42240836--42240898	31	2.0	31	96	0	117	28	20	19	31	1.97
42242944--42242989	18	2.5	18	85	3	56	34	15	15	34	1.89
42243030--42243066	9	4.1	9	92	0	65	45	13	10	29	1.77
42244034--42244079	5	9.2	5	100	0	92	19	19	19	41	1.91
42247746--42247783	11	3.3	12	82	14	53	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42247882--42247944	30	2.1	30	93	0	108	57	14	3	25	1.52
42263638--42263681	6	7.2	6	81	2	52	0	56	0	43	0.99
42263638--42263681	18	2.4	18	92	3	70	0	56	0	43	0.99
42263743--42263800	14	4.2	13	77	18	55	3	31	3	62	1.29
42263741--42263790	25	2.0	25	88	7	75	4	30	4	62	1.32
42263978--42264003	11	2.4	11	100	0	52	23	0	15	61	1.33
42270468--42270542	22	3.4	22	96	0	132	33	13	24	29	1.93
42271101--42271436	44	7.8	43	77	10	278	29	25	16	28	1.97
42271274--42271390	38	2.9	38	79	7	99	28	23	15	32	1.95
42271098--42271439	126	2.7	126	85	5	429	28	25	16	29	1.97
42271182--42271392	82	2.5	82	79	7	210	31	23	15	29	1.95
42271560--42271712	22	7.0	22	90	0	225	26	26	14	32	1.94
42271817--42272014	38	4.9	38	72	15	128	28	24	18	29	1.98
42271817--42272054	44	5.7	43	76	9	208	28	24	17	28	1.97
42271817--42272054	126	1.9	126	85	0	332	28	24	17	28	1.97
42272054--42272371	88	3.6	87	90	0	465	19	23	28	27	1.98
42272219--42272431	44	4.8	45	70	13	120	22	24	24	28	1.99
42272352--42272508	44	3.5	45	83	2	192	29	25	17	27	1.98
42277102--42277153	15	3.2	15	78	13	50	53	0	1	44	1.11
42277184--42277222	20	2.0	20	94	0	69	48	0	2	48	1.15
42277309--42277374	34	1.9	35	90	3	107	48	13	6	31	1.67
42282592--42282644	3	17.7	3	96	0	97	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42283635--42283682	19	2.6	19	83	3	62	35	2	12	50	1.52
42285214--42285297	42	2.0	42	95	0	150	29	8	13	48	1.71
42286931--42286990	31	1.9	31	96	0	111	30	5	13	51	1.62
42290154--42290280	59	2.1	60	91	4	204	49	15	12	22	1.78
42291333--42291371	13	3.1	13	81	3	53	38	15	7	38	1.76
42298713--42298738	9	2.9	9	100	0	52	53	11	0	34	1.37
42300234--42300267	18	2.0	16	88	11	50	44	0	2	52	1.16
42302141--42302190	23	2.1	24	85	3	66	20	6	14	60	1.55
42302796--42302833	2	19.0	2	94	0	67	47	0	0	52	1.00
42315071--42315110	20	2.0	20	90	0	62	42	17	7	32	1.77
42320282--42320349	27	2.5	27	87	0	109	41	4	11	42	1.61
42321775--42321802	13	2.2	13	100	0	56	32	17	0	50	1.47
42324330--42324704	184	2.0	185	90	1	590	36	9	16	38	1.81
42324547--42324581	18	1.9	18	88	0	52	42	14	20	22	1.88
42324590--42324628	20	1.9	21	89	5	62	28	5	17	48	1.68
42333797--42333831	5	7.2	5	90	3	54	22	20	34	22	1.97
42334074--42334255	76	2.5	70	85	10	274	33	11	13	41	1.81
42334089--42334240	76	2.0	76	98	0	295	34	10	14	40	1.80
42334984--42335029	22	2.1	23	84	8	60	34	2	2	60	1.21
42344523--42344557	15	2.4	15	90	4	54	48	0	8	42	1.33
42357021--42357047	13	2.1	13	100	0	54	77	7	7	7	1.12
42357015--42357161	34	4.1	35	80	10	136	71	8	9	10	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42357034--42357115	22	3.9	22	75	9	75	71	8	9	9	1.30
42357034--42357154	62	2.0	62	96	0	224	71	9	9	9	1.33
42357100--42357173	6	12.7	6	81	5	53	68	9	9	12	1.38
42357050--42357154	28	3.5	28	80	14	129	71	8	10	9	1.31
42357158--42357206	6	7.7	6	88	8	53	79	0	16	4	0.88
42357170--42357206	14	2.7	14	91	4	58	83	0	16	0	0.64
42358786--42359031	87	2.8	87	88	0	348	31	21	20	26	1.98
42361155--42361209	27	2.1	26	86	3	74	30	3	5	60	1.37
42361359--42361399	2	20.5	2	100	0	82	48	0	0	51	1.00
42365345--42365408	29	2.2	29	85	0	83	32	21	12	32	1.91
42366031--42366090	27	2.2	27	85	5	77	35	16	16	31	1.92
42366967--42367016	25	2.0	25	92	0	82	18	18	32	32	1.94
42366969--42367023	25	2.2	25	86	0	74	20	21	29	29	1.98
42369788--42369843	23	2.4	23	84	0	76	21	21	12	44	1.85
42374220--42374252	17	1.9	17	93	0	57	0	18	3	78	0.87
42387405--42387561	42	3.7	42	78	11	160	22	19	28	29	1.98
42392199--42392260	12	5.2	12	78	18	67	22	4	0	72	1.03
42399335--42399542	98	2.1	99	94	1	364	37	12	4	45	1.62
42406932--42406977	23	2.0	23	87	4	67	60	2	2	34	1.21
42410689--42410736	23	2.1	22	81	11	53	56	4	2	37	1.30
42411062--42411162	31	3.2	31	68	22	93	36	13	2	46	1.59
42411062--42411189	63	2.0	63	98	0	247	37	14	2	46	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42411945--42411986	20	2.2	20	86	4	59	38	0	0	61	0.96
42421510--42421662	53	2.9	53	83	0	173	35	11	23	29	1.89
42423898--42423963	34	1.9	34	84	6	89	37	13	15	33	1.86
42426601--42426833	119	1.9	122	88	2	355	44	5	6	44	1.52
42427494--42427598	49	2.1	50	87	1	149	27	0	28	42	1.62
42427696--42428354	126	5.3	126	83	1	795	39	13	18	28	1.89
42449952--42450116	84	2.0	84	90	0	258	30	14	24	29	1.95
42454821--42454859	10	3.8	10	83	6	51	58	2	0	38	1.12
42455094--42455223	37	3.4	37	66	19	104	42	10	10	36	1.75
42455093--42455251	79	2.0	79	98	0	309	42	11	9	36	1.74

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