genome.fa.s5.2.7.7.80.10.50.1000.36.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  36  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)
9979230--9979298	21	3.3	21	79	0	75	2	40	21	34	1.68
9987961--9988230	25	10.7	25	80	1	306	30	3	20	44	1.69
9987961--9988300	50	7.1	50	83	4	293	30	3	20	46	1.66
9988024--9988328	41	7.8	41	76	16	288	30	2	19	47	1.64
9987961--9988320	75	4.7	76	86	7	426	30	3	19	46	1.66
9987962--9988322	25	14.3	26	77	8	220	31	3	19	46	1.66
9987956--9988351	16	23.9	16	71	14	145	30	3	18	47	1.64
9988731--9988883	9	17.9	9	67	15	67	30	3	17	47	1.66
9988712--9988773	18	3.4	17	73	6	52	29	1	20	48	1.59
9989886--9989915	14	2.1	14	100	0	60	53	6	13	26	1.64
9991434--9991510	7	10.3	7	74	10	55	42	32	2	22	1.67
9991434--9991510	15	5.1	15	71	18	54	42	32	2	22	1.67
9991434--9991513	16	5.3	15	71	11	56	42	33	2	21	1.66
9991625--9991676	27	1.9	27	100	0	104	42	38	0	19	1.51
9991571--9991697	7	18.0	7	68	13	57	40	39	1	18	1.61
9991655--9991858	90	2.3	90	98	1	392	42	28	2	25	1.70
10005173--10005205	2	16.5	2	100	0	66	51	0	48	0	1.00
10008057--10008129	19	3.8	19	98	0	128	39	10	13	35	1.80
10008632--10008700	34	2.0	34	83	5	86	23	4	2	69	1.20
10008654--10008707	15	3.7	14	79	16	65	24	0	1	74	0.92
10008653--10008707	10	5.4	10	74	18	51	23	0	1	74	0.91
10008777--10008814	18	2.1	19	90	5	60	23	2	5	68	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10008764--10008826	22	2.9	22	79	9	58	30	1	3	65	1.18
10008780--10008822	18	2.4	18	84	0	59	27	2	4	65	1.25
10011299--10011344	24	1.9	24	86	0	65	45	15	26	13	1.82
10015372--10015558	44	4.2	44	67	15	116	29	18	24	28	1.98
10015276--10016043	132	5.8	132	93	1	1310	29	18	23	28	1.98
10018365--10018439	39	1.9	38	84	7	98	42	0	0	57	0.98
10019554--10019678	55	2.3	56	83	6	175	23	38	0	37	1.61
10021095--10021119	2	12.5	2	100	0	50	0	48	0	52	1.00
10026911--10026951	14	3.0	13	86	10	55	17	0	4	78	0.93
10029908--10029947	22	1.9	20	85	10	53	35	5	20	40	1.74
10031076--10031204	45	2.9	45	84	2	170	41	13	20	24	1.88
10036525--10036575	25	2.0	26	84	3	68	41	7	9	41	1.67
10038249--10038312	30	2.1	30	91	0	101	26	20	12	40	1.88
10044514--10044556	20	2.2	20	100	0	86	13	9	41	34	1.77
10051549--10051584	17	2.1	17	89	0	54	16	33	27	22	1.95
10052264--10052315	3	17.7	3	92	4	88	71	0	0	28	0.87
10055206--10055297	17	5.5	17	88	5	125	50	0	0	50	1.00
10055196--10055295	30	3.4	30	82	8	134	48	0	0	52	1.00
10055196--10055312	5	24.0	5	78	11	91	45	0	0	52	1.12
10056445--10056503	21	2.8	21	76	2	64	20	22	22	35	1.96
10062761--10062799	6	6.5	6	100	0	78	15	0	0	84	0.62
10069722--10069753	14	2.3	14	94	0	55	71	15	0	12	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10071275--10071309	17	2.1	17	88	0	52	71	5	0	22	1.07
10074546--10074598	13	4.1	13	80	0	70	33	28	5	32	1.81
10074535--10074590	26	2.2	26	86	0	76	32	26	3	37	1.74
10075710--10075761	10	5.0	10	80	17	52	59	5	0	34	1.21
10076460--10076504	5	9.8	5	84	15	62	0	13	0	86	0.57
10076460--10076504	18	2.5	18	92	7	74	0	13	0	86	0.57
10082471--10082511	10	3.7	11	84	9	57	56	7	0	36	1.27
10085001--10085043	14	3.0	14	86	10	52	60	2	0	37	1.10
10085307--10085333	14	1.9	14	100	0	54	22	14	29	33	1.94
10090062--10090092	11	2.7	12	95	5	55	51	16	3	29	1.59
10094198--10094344	73	2.0	73	95	0	267	38	8	15	37	1.79
10095179--10095460	93	3.0	93	92	1	449	36	12	17	33	1.88
10095740--10095791	27	1.9	27	84	7	70	63	19	5	11	1.47
10103664--10103777	55	2.1	55	100	0	228	32	10	17	39	1.84
10104501--10104534	16	2.1	16	100	0	68	41	17	0	41	1.50
10124135--10124190	28	2.0	28	82	0	67	32	25	10	32	1.90
10126616--10126660	3	15.0	3	100	0	90	66	0	33	0	0.92
10131216--10131681	233	2.0	233	100	0	932	31	14	23	30	1.94
10133598--10133694	22	4.6	19	71	19	61	60	0	4	35	1.16
10133588--10133633	11	4.5	11	76	17	55	58	0	0	41	0.98
10133598--10133644	18	2.5	20	82	10	62	63	0	0	36	0.94
10133588--10133700	31	3.7	29	73	22	81	59	0	3	37	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10133588--10133716	10	12.6	10	68	20	63	58	0	4	36	1.19
10134137--10134364	87	2.6	86	80	6	244	36	9	16	37	1.81
10134775--10135197	125	3.4	124	84	2	569	29	18	21	30	1.97
10137719--10137806	45	2.0	45	90	0	140	50	12	1	36	1.48
10138225--10138261	18	2.1	18	94	0	65	43	5	18	32	1.73
10140096--10140160	22	2.9	22	84	11	80	43	1	30	24	1.64
10140096--10140161	11	5.9	11	77	19	66	43	1	30	24	1.63
10140602--10140662	29	2.1	28	81	3	68	26	13	16	44	1.84
10150226--10150271	25	1.9	24	82	8	58	15	26	19	39	1.91
10153422--10153462	22	1.9	22	90	5	66	53	0	4	41	1.22
10157812--10157862	21	2.5	21	90	3	77	39	11	1	47	1.52
10161250--10161280	16	1.9	16	93	0	53	38	0	0	61	0.96
10174182--10174211	2	15.0	2	100	0	60	50	0	0	50	1.00
10175032--10175070	19	2.1	19	90	0	60	30	0	5	64	1.15
10177295--10178260	487	2.0	484	89	2	1499	36	8	16	37	1.81
10178862--10178911	20	2.5	20	90	0	73	8	22	20	50	1.74
10186119--10186178	26	2.2	26	82	5	75	23	5	5	66	1.31
10187089--10187168	40	2.0	41	85	7	110	38	0	7	53	1.29
10188981--10189024	4	10.5	4	82	7	52	68	4	4	22	1.27
10189042--10189072	16	1.9	16	93	0	53	32	9	22	35	1.87
10203210--10203293	30	2.8	29	84	8	98	16	21	32	29	1.95
10203232--10203293	29	2.1	30	87	3	90	14	20	33	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10212019--10212167	41	3.7	40	81	5	158	33	24	20	21	1.97
10215811--10215847	15	2.5	15	95	0	65	32	24	35	8	1.85
10220154--10220193	21	1.9	21	100	0	80	15	35	17	32	1.91
10223078--10223139	30	2.0	31	84	9	83	53	8	4	33	1.52
10233346--10233504	46	3.5	46	81	1	176	25	20	19	33	1.96
10233388--10233531	46	3.1	46	77	4	146	29	22	17	30	1.97
10235222--10235274	20	2.6	19	80	11	61	39	9	3	47	1.54
10235520--10235578	20	3.0	20	71	0	64	45	20	3	30	1.67
10235557--10235645	40	2.2	40	82	4	99	40	15	2	41	1.60
10235739--10235814	20	3.8	20	84	3	109	38	18	7	35	1.80
10235739--10236407	40	16.4	40	69	16	223	39	16	5	37	1.74
10235780--10235863	20	4.2	20	77	6	64	38	14	7	40	1.73
10235908--10236311	60	6.6	60	68	12	212	37	17	6	38	1.74
10235939--10235992	20	2.7	20	97	0	99	33	18	9	38	1.83
10235764--10236184	168	2.5	168	81	8	486	39	17	5	38	1.72
10236095--10236707	80	7.6	80	70	9	357	39	15	6	38	1.73
10236095--10236405	20	15.6	20	73	5	180	41	16	6	36	1.74
10236504--10236715	20	10.6	20	73	8	119	39	13	8	39	1.74
10236561--10236736	80	2.2	80	78	7	196	38	12	7	40	1.72
10236567--10236736	20	8.5	20	72	14	72	39	12	8	40	1.73
10244766--10244826	26	2.3	26	88	0	95	34	6	14	44	1.72
10247193--10247252	2	30.0	2	96	0	111	48	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10247470--10247593	21	5.9	21	70	6	81	16	24	18	41	1.90
10247443--10247574	42	3.1	41	79	6	131	17	25	18	38	1.92
10253321--10253372	27	1.9	27	88	0	77	34	28	25	11	1.91
10253330--10253394	27	2.4	27	86	0	85	32	29	23	15	1.95
10254573--10254659	45	1.9	45	83	0	111	21	21	13	42	1.88
10261715--10261763	24	2.0	24	88	7	73	36	4	42	16	1.67
10265753--10265890	40	3.5	40	79	6	129	29	21	18	29	1.97
10266769--10266813	23	2.0	21	84	16	56	4	17	6	71	1.25
10271973--10271999	3	9.0	3	100	0	54	33	33	0	33	1.58
10274005--10274040	15	2.4	15	95	0	63	41	33	25	0	1.55

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