genome.fa.s5.2.7.7.80.10.50.1000.169.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  169  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)
51606616--51606760	30	4.8	30	83	1	155	35	6	14	42	1.72
51606616--51606760	60	2.4	62	82	2	186	35	6	14	42	1.72
51613725--51613793	34	2.0	34	85	0	93	39	4	13	43	1.63
51613705--51613871	64	2.7	63	84	7	200	32	7	16	43	1.75
51613696--51613871	30	5.7	30	79	9	185	32	6	15	44	1.73
51614907--51614936	15	2.0	15	100	0	60	20	13	33	33	1.91
51616510--51616552	11	3.7	11	88	11	68	46	2	0	51	1.13
51622084--51622155	27	2.7	27	80	0	99	26	34	30	8	1.86
51622248--51622300	20	2.7	19	81	13	63	69	0	28	1	0.99
51622254--51622298	13	3.4	14	81	9	58	66	0	31	2	1.04
51622264--51622306	6	7.2	6	80	19	54	65	0	32	2	1.06
51627685--51627907	41	5.4	41	89	1	304	15	19	27	37	1.92
51627687--51627947	82	3.2	82	82	5	289	17	19	24	38	1.93
51631233--51631291	6	9.3	6	85	14	75	15	3	13	67	1.35
51631229--51631291	13	4.9	13	83	9	85	15	3	12	68	1.33
51633142--51633308	12	14.0	12	69	12	94	46	21	1	30	1.62
51633360--51633449	9	10.7	9	78	13	93	46	18	0	34	1.50
51633360--51633450	25	3.6	25	93	0	155	46	18	0	35	1.50
51633368--51633451	16	5.1	16	80	11	82	46	17	0	35	1.49
51638945--51639082	66	2.1	66	93	2	233	41	18	25	15	1.89
51639448--51639565	43	2.8	42	89	5	166	26	19	27	27	1.99
51640899--51640938	15	2.7	15	100	0	80	7	25	22	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51648922--51648964	22	2.0	22	95	0	77	11	20	27	39	1.88
51649049--51649304	42	6.0	43	88	2	340	28	33	19	17	1.95
51649354--51649397	22	1.9	24	86	9	65	38	0	4	56	1.20
51653694--51653749	14	4.0	14	79	4	51	32	46	3	17	1.66
51654118--51654151	15	2.3	15	90	5	52	35	29	0	35	1.58
51654523--51655019	41	12.1	41	91	2	768	28	29	20	20	1.98
51655079--51655189	40	2.8	39	90	4	170	18	22	25	33	1.97
51659808--51659841	8	4.1	8	88	3	50	38	14	0	47	1.45
51665351--51665401	27	1.9	26	84	11	68	23	9	11	54	1.66
51667393--51667431	21	2.0	20	85	14	55	51	5	23	20	1.67
51676802--51677432	44	13.7	44	68	17	311	32	19	21	27	1.97
51676802--51677315	98	5.5	93	69	18	271	32	18	21	27	1.96
51676806--51677432	142	4.5	142	92	2	1019	32	19	20	27	1.97
51682595--51682634	10	3.8	10	81	12	53	37	0	5	57	1.21
51684931--51685003	8	9.2	8	75	14	71	35	0	2	61	1.10
51686178--51686224	25	2.0	24	91	8	78	12	21	0	65	1.25
51686432--51686479	25	2.0	25	83	4	62	56	2	2	39	1.23
51694768--51694803	18	2.0	18	89	10	56	27	13	13	44	1.82
51697569--51697602	6	5.8	6	93	6	61	0	14	0	85	0.60
51697669--51697693	7	3.6	7	100	0	50	32	16	16	36	1.90
51702361--51702395	11	3.1	11	88	8	52	0	14	0	85	0.59
51702366--51702396	12	2.6	12	89	0	53	0	9	0	90	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51702844--51703012	85	2.0	85	88	3	250	34	20	23	21	1.97
51702844--51703012	42	4.0	42	90	3	248	34	20	23	21	1.97
51703034--51703176	42	3.4	42	88	3	200	27	20	24	27	1.99
51703633--51703694	21	3.0	21	80	0	70	3	41	17	37	1.66
51704812--51704842	15	2.1	15	93	0	53	12	19	22	45	1.84
51706076--51706283	9	23.3	9	84	1	267	35	0	16	47	1.54
51706255--51706342	18	5.1	17	72	12	63	34	1	12	52	1.47
51706274--51706355	26	3.2	26	69	22	73	34	1	14	50	1.51
51706455--51706514	9	6.7	9	82	0	75	36	1	15	46	1.55
51706453--51706507	18	3.1	18	91	0	83	38	0	12	49	1.41
51706228--51706727	231	2.2	230	97	0	937	39	0	13	46	1.49
51706455--51706514	27	2.2	27	90	0	93	36	1	15	46	1.55
51706683--51706727	18	2.5	18	92	0	72	40	0	13	46	1.43
51708285--51708799	251	2.0	250	85	4	651	33	21	16	28	1.95
51725033--51725065	3	11.0	3	100	0	66	66	0	0	33	0.92
51727107--51727131	12	2.1	12	100	0	50	24	0	44	32	1.54
51731888--51731950	24	2.6	24	97	0	117	36	22	25	15	1.94
51735073--51735115	20	2.2	20	82	0	50	30	2	16	51	1.57
51740789--51740832	2	21.5	2	95	4	79	50	0	2	47	1.13
51740945--51740984	2	19.5	2	94	5	71	50	2	0	47	1.14
51744007--51744133	40	3.2	40	78	7	143	32	24	17	25	1.97
51745001--51745039	19	2.2	18	86	13	55	0	20	0	79	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51747736--51747790	19	3.0	19	81	5	51	45	3	0	50	1.19
51747856--51747897	20	2.0	21	86	4	59	38	0	0	61	0.96
51756412--51756460	22	2.2	22	85	0	62	26	16	22	34	1.95
51756361--51756508	69	2.1	69	80	3	163	27	15	16	39	1.89
51756496--51756694	69	2.9	68	88	2	310	24	16	18	41	1.90
51756531--51756645	22	5.1	22	71	11	90	23	16	20	40	1.91
51756361--51756619	117	2.2	116	86	4	369	27	15	17	40	1.89
51759947--51760020	19	3.8	19	75	18	71	60	4	1	33	1.24
51760212--51760246	14	2.4	14	90	4	52	11	8	2	77	1.10
51764612--51764643	14	2.4	14	90	10	50	65	0	6	28	1.16
51765974--51766013	20	2.0	20	100	0	80	35	20	5	40	1.74
51770467--51770529	30	2.1	30	93	0	108	25	3	12	58	1.49
51770651--51770685	13	2.9	12	88	12	54	65	0	0	34	0.93
51770904--51770947	3	14.7	3	100	0	88	65	0	0	34	0.93
51771823--51771893	9	7.6	9	74	10	54	33	0	2	63	1.09
51771817--51771887	30	2.4	30	84	13	94	36	0	2	60	1.11
51772855--51772898	22	2.0	23	91	8	74	45	4	0	50	1.22
51773029--51773120	47	2.0	47	95	0	166	39	11	7	41	1.71
51790999--51791038	20	2.0	20	100	0	80	30	15	25	30	1.95
51791822--51791847	6	4.3	6	100	0	52	19	15	30	34	1.93
51797195--51797231	10	3.7	10	88	0	56	40	13	0	45	1.43
51797418--51797475	29	2.0	29	83	3	73	48	10	1	39	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51805607--51805705	23	4.3	23	93	0	162	20	21	27	31	1.98
51812017--51812115	23	4.3	23	93	0	162	20	21	27	31	1.98
51814047--51814080	16	2.1	16	88	5	50	8	0	14	76	1.01
51817376--51817425	23	2.2	23	100	0	100	24	34	8	34	1.84
51817568--51817728	43	3.8	43	80	5	159	30	26	14	29	1.95
51824603--51824652	26	1.9	26	87	0	73	40	26	22	12	1.88
51824840--51825215	27	14.0	27	83	3	445	17	19	19	43	1.88
51827082--51827130	21	2.3	21	100	0	98	28	32	24	14	1.94
51830730--51830874	62	2.4	62	79	3	152	31	15	14	38	1.88
51836364--51836606	92	2.6	91	84	1	297	42	11	13	32	1.81
51849666--51849739	34	2.2	34	87	0	103	37	25	5	31	1.79
51851881--51852021	76	1.9	76	87	0	210	30	19	10	39	1.86
51853665--51853716	3	18.0	3	76	7	54	30	5	1	61	1.30
51853617--51853716	6	16.8	6	68	13	55	32	6	3	59	1.37
51853617--51853716	9	11.2	9	70	13	55	32	6	3	59	1.37
51853812--51853857	23	2.0	23	86	0	65	39	4	2	54	1.32
51854310--51854503	95	2.0	96	89	4	295	31	15	17	35	1.91
51858077--51858115	16	2.5	15	84	15	53	35	5	0	58	1.20
51863681--51863727	20	2.3	20	85	0	67	34	10	0	55	1.35
51865382--51865424	3	14.3	3	80	9	52	32	4	0	62	1.15
51865434--51865482	24	2.0	24	84	8	62	34	12	6	46	1.66
51865446--51865512	20	3.0	23	85	8	77	41	4	4	49	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51865479--51865512	2	17.0	2	100	0	68	50	0	0	50	1.00
51876045--51876095	22	2.3	22	96	0	93	29	31	0	39	1.57
51877271--51877295	7	3.6	7	100	0	50	28	0	12	60	1.32
51878125--51878433	21	13.2	20	71	24	116	45	25	0	27	1.60
51878119--51878409	50	6.0	51	77	13	253	45	26	1	27	1.60
51878161--51878355	23	8.5	21	75	18	117	45	26	1	26	1.62
51878161--51878439	73	3.9	74	88	6	364	45	25	1	27	1.62
51878366--51878434	22	3.2	22	90	8	99	44	26	0	28	1.54
51878436--51878653	116	1.9	116	95	0	391	38	9	9	42	1.70
51878629--51878670	17	2.4	18	80	4	50	42	9	2	45	1.49

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