genome.fa.s5.2.7.7.80.10.50.1000.160.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  160  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)
48880187--48880243	18	3.3	18	85	11	84	54	22	0	22	1.45
48880200--48880245	15	2.9	15	90	9	65	56	21	0	21	1.42
48880315--48880383	34	2.0	34	100	0	138	40	2	23	33	1.69
48884153--48884183	14	2.2	14	100	0	62	19	6	29	45	1.75
48884445--48884474	12	2.5	12	94	0	51	13	23	20	43	1.86
48888028--48888235	91	2.3	91	87	2	292	45	4	3	47	1.39
48888265--48888307	15	2.8	16	79	10	54	44	0	2	53	1.13
48888251--48888904	120	5.4	120	98	0	1263	42	2	6	48	1.42
48888376--48888427	15	3.6	15	80	12	56	44	0	1	53	1.11
48888492--48888526	18	2.0	17	88	5	52	45	0	0	54	0.99
48888612--48888646	18	2.0	17	88	5	52	45	0	0	54	0.99
48888251--48888904	361	1.8	360	98	0	1263	42	2	6	48	1.42
48888737--48888788	15	3.6	15	80	12	56	44	0	1	53	1.11
48888251--48888904	241	2.7	240	98	0	1263	42	2	6	48	1.42
48888866--48888907	15	2.7	16	82	14	52	45	0	2	52	1.13
48888857--48888898	15	2.9	15	82	10	52	47	0	0	52	1.00
48888841--48889113	147	1.9	147	96	1	503	46	3	3	46	1.35
48889000--48889034	18	2.0	17	88	5	52	45	0	0	54	0.99
48889179--48889285	44	2.6	40	76	15	117	30	28	6	34	1.82
48889194--48889288	45	2.1	44	90	1	145	33	27	6	32	1.82
48889269--48889320	16	3.2	16	94	0	86	34	36	0	28	1.58
48891730--48891794	31	2.1	31	85	2	87	43	6	6	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48893171--48893292	54	2.3	54	81	11	144	24	29	23	22	1.99
48893171--48893292	27	4.5	26	73	10	102	24	29	23	22	1.99
48893559--48893673	40	2.8	40	79	8	117	34	4	11	49	1.58
48893692--48893760	16	4.3	16	86	0	102	40	5	30	23	1.78
48893693--48893760	32	2.1	32	94	0	118	41	5	29	23	1.78
48893740--48893829	44	2.0	44	86	2	126	28	4	27	38	1.76
48893954--48894017	18	3.4	19	82	10	78	56	4	1	37	1.30
48900733--48900770	9	4.2	9	86	0	58	42	2	36	18	1.64
48901643--48901712	30	2.3	30	100	0	140	58	15	14	11	1.63
48901774--48901807	16	2.1	17	88	5	52	26	29	2	41	1.70
48914130--48914201	21	3.3	21	80	7	74	77	4	2	15	1.03
48914229--48914259	16	1.9	16	93	0	53	74	12	9	3	1.19
48914581--48914606	5	5.2	5	100	0	52	0	19	0	80	0.71
48916961--48917027	34	2.0	34	96	0	125	37	19	8	34	1.83
48921642--48921671	2	15.0	2	100	0	60	50	0	0	50	1.00
48922096--48922141	18	2.6	18	85	0	56	21	26	17	34	1.95
48922883--48922917	9	4.0	9	96	3	63	34	0	0	65	0.93
48925965--48926011	18	2.8	17	81	18	62	46	0	0	53	1.00
48925965--48926017	15	3.2	16	82	15	56	45	0	1	52	1.11
48926233--48926268	16	2.2	16	100	0	72	38	36	0	25	1.56
48926455--48926490	16	2.2	16	95	0	63	25	0	33	41	1.55
48926726--48926760	18	2.0	18	88	5	54	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)
48926920--48926971	15	3.6	15	80	12	56	53	1	0	44	1.11
48926828--48927096	120	2.2	120	92	3	445	49	4	3	42	1.40
48926914--48927126	54	3.7	54	69	19	162	50	3	2	43	1.34
48927084--48927280	92	2.1	92	85	5	272	48	4	3	44	1.38
48940988--48941416	213	2.0	213	87	0	617	29	21	14	34	1.93
48942296--48942339	19	2.4	18	77	7	52	70	4	0	25	1.06
48945070--48945179	57	1.9	57	88	3	168	26	25	31	16	1.96
48945081--48945201	57	2.2	56	80	5	138	28	27	27	17	1.98
48946832--48946906	4	18.8	4	100	0	150	25	0	24	50	1.49
48947554--48947607	16	3.6	15	76	18	51	12	20	24	42	1.87
48948207--48948249	17	2.5	17	80	3	50	55	0	2	41	1.12
48949755--48949800	22	2.1	22	84	11	60	19	2	4	73	1.10
48953076--48953100	9	2.8	9	100	0	50	32	20	12	36	1.89
48968531--48968621	31	2.9	31	78	3	103	60	6	13	19	1.55
48976221--48976251	16	1.9	16	93	0	53	74	0	3	22	0.96
48980803--48980881	36	2.2	36	95	0	140	37	12	11	37	1.80
48981846--48981871	13	2.0	13	100	0	52	30	0	0	69	0.89
48984384--48984490	42	2.5	43	83	1	135	28	26	19	25	1.99
48986223--48986283	28	2.2	28	87	0	86	27	31	19	21	1.97
48986231--48986288	28	2.1	28	93	0	98	25	32	22	18	1.97
48987020--48987066	13	3.4	14	80	14	53	53	6	0	40	1.27
48987179--48987215	19	1.9	19	89	10	58	67	8	0	24	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48988654--48988707	28	1.9	28	96	0	99	59	14	5	20	1.55
49008056--49008099	19	2.3	19	96	0	79	31	13	27	27	1.94
49008958--49009046	27	3.3	27	90	1	124	25	23	29	21	1.99
49009122--49009214	35	2.7	35	84	0	114	32	17	18	32	1.94
49015226--49015293	16	4.2	16	81	7	84	27	26	2	42	1.70
49023737--49023774	13	2.8	14	92	8	69	47	28	7	15	1.74
49029137--49029260	40	3.0	41	91	5	196	61	0	2	35	1.15
49029197--49029276	29	2.7	29	83	11	92	65	0	2	32	1.06
49029164--49029230	11	6.4	11	72	20	54	61	0	2	35	1.12
49034261--49034293	14	2.4	14	94	0	57	51	15	15	18	1.77
49035356--49035425	20	3.5	19	80	9	68	30	8	15	45	1.76
49043465--49043504	21	1.9	21	89	0	62	35	7	15	42	1.75
49049297--49049566	28	9.8	28	87	3	266	37	15	22	23	1.93
49049297--49049566	55	4.9	55	84	5	260	37	15	22	23	1.93
49062822--49062875	26	2.1	26	100	0	108	27	22	18	31	1.97
49064966--49065010	18	2.6	18	86	10	58	60	11	0	28	1.31
49065401--49065441	19	2.2	19	95	0	73	46	0	36	17	1.48
49069048--49069118	27	2.6	27	88	2	97	39	32	18	9	1.83
49070132--49070211	12	6.8	11	76	19	65	82	0	12	5	0.82
49070145--49070211	6	10.8	6	81	13	75	82	0	13	4	0.82
49070152--49070212	28	2.2	28	88	5	88	83	0	13	3	0.76
49070129--49070212	10	7.9	10	76	10	69	82	0	13	4	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49073174--49073235	25	2.4	25	73	21	58	30	3	6	59	1.38
49083148--49083271	39	3.2	39	82	5	137	31	19	33	16	1.94
49084163--49084201	16	2.4	17	83	16	55	23	0	7	69	1.14
49101582--49101662	23	3.5	23	74	17	62	65	8	6	19	1.42
49101619--49101663	22	2.1	21	87	4	63	71	6	2	20	1.20
49101790--49101875	28	3.1	27	77	11	75	58	4	3	33	1.36
49101790--49101875	30	3.0	29	81	9	97	58	4	3	33	1.36
49102035--49102078	17	2.6	17	85	3	63	47	0	11	40	1.39
49102210--49102251	3	14.0	3	89	0	66	64	2	2	30	1.19
49102573--49102670	21	4.7	21	87	8	121	40	15	8	35	1.77
49103548--49103915	44	8.5	44	80	6	403	28	23	19	28	1.98
49103562--49103875	126	2.4	125	88	4	430	29	23	18	28	1.98
49103915--49104237	88	3.7	88	94	0	547	19	23	28	28	1.98
49103997--49104223	44	5.2	44	66	8	156	18	24	29	26	1.98
49111648--49111726	21	3.7	21	88	6	97	41	15	7	35	1.75
49123088--49123123	18	2.0	18	88	0	54	52	2	0	44	1.15
49123106--49123144	20	1.9	20	84	5	51	43	0	0	56	0.99
49127540--49127572	3	11.0	3	100	0	66	66	0	0	33	0.92
49130030--49130330	33	8.5	33	70	19	182	20	19	27	32	1.97
49130053--49130338	75	3.8	75	92	0	491	20	19	27	31	1.97
49130165--49130301	42	3.5	42	72	20	159	21	18	27	32	1.97
49145015--49145062	22	2.0	25	88	11	75	35	16	0	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49146447--49146479	17	1.9	17	93	0	57	42	0	12	45	1.41
49146471--49146495	4	6.2	4	100	0	50	28	0	0	72	0.86
49146835--49146883	20	2.4	22	83	12	61	38	10	2	48	1.48
49155286--49155339	25	2.1	26	96	3	101	35	9	14	40	1.78
49157006--49157030	11	2.3	11	100	0	50	76	8	0	16	1.02
49163430--49163612	101	1.8	102	86	3	271	23	17	26	32	1.96
49163430--49163610	51	3.6	50	76	5	159	23	17	25	32	1.97
49163838--49163869	16	2.0	16	93	0	55	59	0	15	25	1.36
49176029--49176406	99	3.9	99	92	2	595	34	7	19	37	1.81
49187487--49187591	42	2.5	43	84	4	142	40	16	24	18	1.90

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