genome.fa.s5.2.7.7.80.10.50.1000.157.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  157  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)
47783267--47783313	15	3.1	15	70	11	51	27	23	8	40	1.83
47798502--47798578	37	2.1	37	81	13	88	42	1	1	54	1.16
47798521--47798648	67	1.9	69	88	9	201	45	2	3	49	1.30
47798588--47798705	50	2.4	48	81	13	141	44	3	3	48	1.36
47804171--47804259	37	2.5	35	78	10	99	43	3	2	50	1.31
47804220--47804352	61	2.2	58	81	9	153	42	4	3	49	1.38
47805266--47805304	10	4.1	9	86	6	51	35	0	2	61	1.10
47809104--47809140	18	2.1	18	89	0	56	70	2	0	27	1.01
47821524--47821581	29	2.0	29	100	0	116	37	27	10	24	1.88
47823390--47823430	21	1.9	22	95	5	75	43	24	9	21	1.83
47829706--47829744	5	7.8	5	100	0	78	58	0	0	41	0.98
47830646--47830806	46	3.5	46	84	2	173	20	21	13	44	1.86
47830784--47830897	45	2.5	45	84	0	138	24	16	18	40	1.91
47831364--47831394	16	1.9	16	93	0	53	32	22	0	45	1.53
47837420--47837772	45	7.8	47	74	10	200	21	18	13	45	1.84
47846581--47846779	59	3.3	58	71	14	197	41	1	3	54	1.24
47846559--47846801	120	2.0	120	98	0	468	42	1	4	51	1.30
47846701--47846835	18	8.0	17	70	19	95	40	0	1	57	1.13
47846716--47846855	26	5.5	25	68	20	85	42	0	2	55	1.17
47846729--47846784	15	4.0	15	73	17	57	44	0	0	55	0.99
47846637--47846820	41	4.6	40	67	23	118	41	1	3	53	1.29
47846992--47847088	45	2.2	45	83	9	128	31	27	4	36	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47847729--47847753	11	2.3	11	100	0	50	40	8	0	52	1.31
47847769--47847801	17	2.0	17	94	5	59	54	6	3	36	1.41
47850390--47850434	23	2.0	23	86	4	65	37	6	17	37	1.76
47854620--47854660	21	2.0	21	85	9	57	46	0	29	24	1.53
47854698--47854734	9	4.1	9	92	0	65	29	10	13	45	1.77
47861610--47861642	16	2.1	16	100	0	66	33	12	18	36	1.88
47861785--47861859	33	2.3	33	97	0	141	53	8	0	38	1.31
47876494--47877110	304	2.0	305	92	0	1011	33	19	14	32	1.92
47880409--47880458	17	2.9	17	93	0	91	24	26	6	44	1.76
47885037--47885086	17	2.9	17	87	0	82	22	26	8	44	1.80
47887200--47887351	69	2.2	69	87	4	209	38	23	17	21	1.93
47888860--47889259	69	5.8	69	81	1	435	37	22	20	19	1.95
47888860--47889259	137	2.9	137	82	3	462	37	22	20	19	1.95
47904087--47904148	32	1.9	33	90	6	101	22	16	29	32	1.95
47907595--47907620	8	3.2	8	100	0	52	23	0	0	76	0.78
47915595--47915852	27	9.5	27	83	3	288	18	15	21	45	1.85
47915595--47915851	54	4.7	54	87	5	340	18	15	21	45	1.86
47915595--47915851	109	2.4	108	87	4	365	18	15	21	45	1.86
47919873--47919923	14	3.5	15	72	17	54	43	0	9	47	1.36
47920765--47920815	26	2.0	26	84	7	68	17	17	27	37	1.93
47941235--47941286	25	2.1	25	100	0	104	36	7	19	36	1.80
47954612--47954835	50	4.5	50	85	7	285	20	30	22	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47954653--47954835	100	1.8	100	92	4	316	20	31	21	25	1.98
47956262--47956413	78	1.9	78	83	0	196	19	13	28	39	1.89
47956262--47956413	26	5.8	26	79	1	171	19	13	28	39	1.89
47956265--47956432	26	6.5	25	77	5	147	20	13	28	37	1.90
47956254--47956432	52	3.4	52	83	4	218	20	13	29	36	1.91
47956267--47956432	78	2.1	78	80	2	181	21	13	28	36	1.91
47960306--47960350	10	4.5	10	100	0	90	62	8	0	28	1.25
47964057--47964190	41	3.3	40	79	12	146	33	11	28	26	1.92
47964132--47964190	20	2.9	21	68	14	59	27	11	33	27	1.92
47967252--47967288	12	3.1	12	88	0	56	75	0	0	24	0.80
47967249--47967293	15	2.8	16	86	10	65	73	0	0	26	0.84
47967774--47967865	19	4.8	19	93	0	157	38	15	8	38	1.78
47967751--47967865	38	2.9	38	92	5	176	39	15	7	37	1.77
47968511--47968621	44	2.5	42	80	9	123	30	18	19	30	1.96
47968549--47968708	44	3.6	45	74	18	115	27	24	18	29	1.98
47968460--47968854	217	1.8	217	89	1	630	27	22	20	29	1.98
47969202--47969323	44	2.8	44	84	9	151	28	24	18	27	1.98
47969323--47969636	88	3.6	88	95	0	538	19	24	29	26	1.98
47969400--47969631	44	5.3	44	65	4	162	18	24	31	25	1.98
47975913--47975943	16	1.9	16	93	0	53	77	0	0	22	0.77
47976398--47976493	19	4.8	19	89	5	129	39	16	7	36	1.77
47987336--47987412	27	2.9	27	82	0	91	27	19	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47994830--47994863	16	2.0	18	88	11	54	47	5	5	41	1.52
48000104--48000182	27	2.9	27	78	0	95	29	20	13	36	1.91
48004164--48004206	17	2.4	18	81	14	54	62	4	4	27	1.35
48005843--48006348	45	11.7	44	69	11	183	26	26	18	28	1.98
48005937--48006305	44	8.6	44	66	17	204	27	24	19	28	1.98
48005889--48006356	216	2.2	216	91	0	740	27	25	18	28	1.98
48006163--48006321	82	1.9	82	87	2	230	27	22	20	30	1.98
48018809--48018851	17	2.4	18	81	14	54	62	4	4	27	1.35
48020181--48020216	6	5.7	6	87	12	54	16	0	33	50	1.46
48020184--48020227	20	2.2	20	83	0	52	20	0	31	47	1.50
48029221--48029247	2	13.5	2	100	0	54	0	48	0	51	1.00
48031687--48031956	114	2.4	113	80	7	271	28	18	17	35	1.94
48032376--48032429	27	2.0	27	82	7	65	18	0	31	50	1.48
48032420--48032474	21	2.6	20	80	11	65	12	0	43	43	1.42
48034576--48034679	45	2.3	44	85	11	131	32	6	18	42	1.76
48034621--48034645	10	2.5	10	100	0	50	28	8	20	44	1.79
48035009--48035065	14	4.4	14	74	14	59	33	0	3	63	1.12
48035005--48035056	25	2.1	25	96	0	95	32	0	3	63	1.12
48035857--48036236	9	44.4	9	66	19	147	43	17	2	36	1.62
48035887--48035988	25	4.1	25	77	14	95	43	19	1	35	1.63
48035929--48036199	41	6.4	41	73	14	178	44	16	2	36	1.62
48036034--48036124	43	2.2	41	82	7	103	45	17	2	35	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48035857--48036223	16	22.6	16	67	19	99	43	17	2	36	1.61
48035973--48036159	25	7.4	25	77	10	159	43	16	2	37	1.62
48036153--48036223	25	2.8	25	91	0	106	47	16	0	35	1.47
48041632--48041683	21	2.5	20	87	6	68	38	15	44	1	1.58
48042078--48042260	43	4.3	43	75	6	156	26	18	24	30	1.98
48044452--48044497	16	3.0	15	90	9	67	32	2	0	65	1.05
48044584--48044676	47	2.0	47	97	0	177	37	8	3	50	1.49
48046743--48046772	6	5.0	6	95	0	51	20	16	16	46	1.84
48048862--48048900	9	4.3	9	90	0	60	28	7	28	35	1.85
48048871--48048911	18	2.3	18	86	0	55	26	12	24	36	1.91
48048854--48048911	27	2.1	27	83	0	71	29	10	24	36	1.88
48051617--48051743	62	2.1	58	88	5	182	49	4	4	40	1.45
48055863--48055908	3	15.3	3	100	0	92	65	0	0	34	0.93
48056570--48056629	22	2.6	23	86	5	77	50	1	3	45	1.28
48062098--48062135	19	2.0	20	89	5	60	68	2	0	28	1.03
48062102--48062130	15	1.9	15	100	0	58	68	3	0	27	1.05
48063056--48063280	40	5.6	40	84	0	279	19	28	18	33	1.96
48063059--48063280	120	1.9	120	92	1	374	19	27	18	33	1.96
48067132--48067187	20	2.8	20	72	8	60	33	21	26	17	1.96
48068697--48068750	16	3.4	16	89	0	81	37	5	33	24	1.79
48069072--48069115	14	3.2	14	78	15	56	61	0	0	38	0.96
48078552--48078583	14	2.3	14	94	0	55	28	34	28	9	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48082379--48082456	26	3.0	26	81	7	79	20	17	20	41	1.91
48090372--48090412	3	13.7	3	84	0	55	36	0	36	26	1.57
48093710--48093754	5	9.0	5	100	0	90	40	40	0	20	1.52
48096364--48096473	54	2.0	54	85	5	150	25	8	15	50	1.71
48101739--48101792	9	6.2	9	89	6	85	33	20	11	35	1.88
48101738--48101791	17	3.2	17	89	7	83	35	20	11	33	1.88
48101739--48101792	26	2.1	26	96	0	99	33	20	11	35	1.88
48101789--48101830	21	2.2	18	75	25	50	28	4	7	59	1.44
48102445--48102474	13	2.3	13	94	0	51	20	6	13	60	1.55
48102460--48102622	44	3.5	44	85	13	229	21	3	31	44	1.68

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