genome.fa.s7.2.7.7.80.10.50.1000.130.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  130  of  204  ( 24458 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)
39809545--39809588	17	2.6	17	80	20	56	56	0	4	38	1.20
39810293--39810365	10	7.2	10	71	13	51	24	1	8	65	1.28
39812848--39813097	54	4.6	54	78	4	202	26	14	18	41	1.88
39812866--39813097	81	2.9	80	76	5	223	25	14	17	42	1.87
39812890--39813097	27	7.7	27	80	4	186	24	13	19	42	1.87
39813320--39813345	7	3.7	7	100	0	52	88	0	0	11	0.52
39818138--39818385	27	9.3	27	72	18	128	28	14	17	39	1.89
39818138--39818387	54	4.7	53	75	11	213	28	15	17	39	1.90
39818141--39818417	27	10.3	26	73	12	98	27	15	17	39	1.90
39821656--39821708	17	3.1	16	78	13	52	75	1	15	7	1.11
39821658--39821711	21	2.6	21	77	8	58	74	1	16	7	1.14
39828092--39828132	11	3.7	11	80	0	55	19	14	9	56	1.66
39828169--39828231	30	2.1	30	93	0	108	25	3	14	57	1.52
39828728--39828777	18	2.9	17	78	21	59	58	0	2	40	1.10
39828806--39828850	23	2.0	22	87	8	65	53	0	0	46	1.00
39829465--39829533	31	2.2	31	85	10	88	40	7	14	37	1.74
39833649--39833705	24	2.4	24	100	0	114	36	15	7	40	1.75
39849450--39849542	36	2.6	36	79	6	107	39	17	16	26	1.90
39849477--39849571	37	2.6	36	78	11	104	40	20	15	24	1.91
39853975--39854036	27	2.3	27	82	0	70	48	20	17	12	1.80
39856913--39856965	27	2.0	27	96	0	97	45	24	15	15	1.84
39857132--39857212	26	3.1	26	89	0	90	20	18	22	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39857296--39857356	27	2.2	28	82	8	72	27	24	21	26	1.99
39881394--39881446	17	3.2	17	76	15	56	26	35	20	16	1.94
39881402--39881435	16	2.1	16	89	10	52	20	38	17	23	1.93
39881505--39881537	17	1.9	17	93	0	57	33	27	6	33	1.81
39881624--39881666	18	2.4	18	80	0	50	30	2	20	46	1.63
39882323--39882385	17	3.7	17	82	0	81	31	1	23	42	1.64
39882323--39882409	34	2.6	34	83	0	111	31	4	21	42	1.73
39882441--39882503	18	3.5	17	80	8	56	22	6	14	57	1.60
39888590--39888636	16	2.8	17	87	3	69	34	44	0	21	1.52
39888906--39889237	113	2.9	113	89	2	524	26	26	20	26	1.99
39889140--39889308	73	2.3	72	90	1	266	26	27	20	24	1.99
39889027--39889430	186	2.2	186	85	2	560	27	27	19	25	1.99
39889210--39889537	114	2.9	113	82	8	389	26	26	21	25	2.00
39889437--39889609	74	2.4	72	85	9	219	21	20	27	30	1.98
39889678--39889703	12	2.2	12	100	0	52	46	30	15	7	1.74
39889998--39890068	6	11.8	6	98	0	97	25	7	0	67	1.15
39892172--39892222	16	3.2	16	91	0	84	39	3	33	23	1.73
39892202--39892291	45	2.0	44	85	6	119	30	4	27	37	1.76
39892455--39892489	18	2.0	17	88	5	52	54	0	0	45	0.99
39892509--39892555	24	2.0	24	84	15	64	51	4	4	40	1.41
39892441--39892849	59	6.8	59	67	12	244	49	4	2	43	1.36
39892695--39892729	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39892721--39892750	15	1.9	16	93	6	53	50	6	0	43	1.28
39892813--39892849	16	2.2	17	86	13	51	54	0	2	43	1.14
39892441--39892850	120	3.4	120	96	0	757	49	4	2	43	1.36
39892548--39892920	57	6.6	54	68	19	199	49	4	2	43	1.37
39892847--39892995	47	3.3	45	72	17	139	46	3	4	46	1.38
39892857--39893068	88	2.4	90	88	4	313	45	4	3	46	1.40
39893609--39893676	22	3.1	22	66	19	52	44	22	10	23	1.83
39896995--39897121	3	42.3	3	87	3	175	31	4	1	62	1.25
39897120--39897148	3	9.7	3	100	0	58	34	0	31	34	1.58
39901363--39901398	2	18.0	2	100	0	72	50	0	0	50	1.00
39901635--39901685	25	2.0	25	81	7	59	49	0	3	47	1.20
39905295--39905726	218	2.0	222	83	6	549	39	11	7	41	1.70
39905814--39905854	18	2.3	18	100	0	82	53	9	4	31	1.55
39905934--39905990	6	9.8	6	80	14	50	50	33	0	15	1.44
39906436--39906491	6	9.5	6	96	1	96	71	0	0	28	0.86
39906381--39906495	12	9.3	12	75	8	88	66	0	0	32	0.97
39907923--39907974	18	2.9	18	77	2	61	28	9	23	38	1.86
39908130--39908174	18	2.5	18	85	7	65	15	13	44	26	1.83
39909877--39910018	75	1.9	75	92	0	239	24	21	17	35	1.95
39911912--39911981	33	2.1	33	81	5	79	40	1	0	58	1.07
39912009--39912062	27	1.9	29	82	14	69	40	5	3	50	1.44
39913134--39913172	18	2.0	20	90	9	64	56	20	0	23	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39914124--39914150	10	2.7	10	100	0	54	44	0	14	40	1.46
39914501--39914529	10	2.7	11	89	10	51	20	6	0	72	1.07
39915619--39915646	11	2.5	11	100	0	56	60	0	0	39	0.97
39915912--39915975	29	2.2	29	82	2	74	48	7	1	42	1.41
39916697--39917879	540	2.2	540	96	0	2190	33	13	14	38	1.85
39920716--39920824	34	3.1	34	70	15	105	10	35	11	42	1.76
39930676--39930743	22	3.1	22	91	0	109	35	14	25	25	1.94
39932014--39932086	27	2.8	25	74	8	74	27	23	26	23	2.00
39939832--39939896	25	2.5	25	87	5	85	30	26	23	20	1.98
39940894--39940933	9	4.3	9	83	3	53	80	2	17	0	0.83
39941853--39941877	12	2.1	12	100	0	50	32	8	0	60	1.26
39946031--39946100	25	2.8	25	82	10	81	21	17	7	54	1.66
39946862--39946972	12	8.8	12	73	9	60	73	8	7	10	1.24
39946861--39946966	51	2.1	51	82	3	124	73	8	7	10	1.25
39946861--39946972	6	17.8	6	74	9	53	74	8	7	10	1.23
39946879--39946976	32	3.0	30	75	7	79	73	7	10	9	1.25
39949337--39949521	44	4.2	44	67	10	135	28	18	22	30	1.97
39949281--39949809	132	4.0	132	88	3	646	29	20	23	27	1.99
39949334--39949907	132	4.4	131	86	6	573	29	20	24	26	1.99
39949981--39950150	50	3.4	50	73	3	162	31	24	21	22	1.98
39950395--39950434	11	3.8	10	83	9	53	82	2	0	15	0.77
39958853--39958882	15	2.0	15	100	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39964482--39964533	3	17.3	3	95	0	95	65	1	32	0	1.04
39966949--39966991	22	1.9	23	85	4	61	39	13	20	25	1.90
39970266--39970309	8	5.2	8	82	17	54	84	2	0	13	0.73
39970264--39970300	15	2.4	16	86	9	58	81	2	0	16	0.81
39970259--39970309	7	7.4	7	76	12	52	82	1	0	15	0.76
39971249--39971291	22	2.0	22	81	9	52	6	18	4	69	1.29
39972907--39972934	14	2.0	14	100	0	56	57	0	7	35	1.26
39976195--39976260	11	6.1	11	70	10	55	68	3	0	28	1.05
39976958--39976995	19	2.0	19	100	0	76	21	5	36	36	1.76
39978177--39978668	165	3.0	165	93	0	867	34	6	23	35	1.81
39981026--39981228	105	1.9	104	84	1	271	23	22	30	23	1.99
39984029--39984065	14	2.6	15	83	12	51	56	5	5	32	1.45
39985880--39985926	25	1.9	24	83	12	60	34	2	8	55	1.42
39987732--39987769	17	2.2	18	95	4	69	15	5	2	76	1.08
39989228--39989255	2	14.0	2	100	0	56	50	0	0	50	1.00
39989933--39990009	21	3.8	20	75	13	68	28	5	1	64	1.22
39997031--39997063	16	2.1	16	94	0	57	24	9	36	30	1.86
39997681--39997771	40	2.3	40	80	0	92	40	9	18	30	1.83
39999817--39999910	49	1.9	48	86	2	134	29	15	8	45	1.76
40025587--40025817	117	2.0	119	85	8	321	36	22	11	29	1.89
40026076--40026159	42	2.0	41	83	2	105	20	25	23	30	1.98
40026080--40026168	42	2.1	41	80	8	99	23	25	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40032082--40032134	28	1.9	28	84	3	72	30	26	24	18	1.98
40032068--40032141	28	2.7	26	77	10	67	31	25	21	21	1.98
40032250--40032302	26	2.0	26	85	0	70	33	20	26	18	1.96
40032296--40032360	22	3.0	21	73	13	60	46	18	18	16	1.85
40032352--40032519	32	5.3	32	79	6	180	38	22	20	19	1.94
40032540--40032604	27	2.5	26	77	22	73	30	20	24	24	1.98
40032668--40032740	24	3.1	23	78	5	83	47	23	8	20	1.76
40032771--40033098	27	12.2	27	86	2	430	23	25	20	30	1.98
40040643--40040669	13	2.1	13	100	0	54	7	29	11	51	1.64
40043819--40043891	36	2.0	36	94	0	128	34	16	12	36	1.86

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