genome.fa.s6.2.7.7.80.10.50.1000.105.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  105  of  168  ( 20060 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)
31061760--31062133	44	8.1	44	68	18	152	31	19	22	26	1.98
31061779--31062182	142	2.9	142	93	1	677	31	18	21	27	1.97
31061947--31062128	98	1.9	97	80	6	215	31	19	20	28	1.97
31062057--31062163	44	2.4	44	78	3	117	32	19	19	28	1.96
31065917--31065955	19	2.0	19	85	5	51	30	7	2	58	1.39
31066153--31066258	50	2.1	50	100	0	212	50	7	13	29	1.69
31066159--31066241	27	3.2	27	64	19	77	51	8	12	27	1.67
31068726--31068780	20	2.8	20	81	10	69	60	1	0	38	1.08
31068726--31068787	18	3.3	19	84	4	72	59	3	0	37	1.13
31068734--31068815	18	4.7	18	71	8	62	53	2	0	43	1.13
31068793--31068831	20	2.0	19	85	5	51	51	7	0	41	1.31
31073947--31074068	35	3.5	35	80	6	140	31	23	23	21	1.98
31074108--31074156	20	2.4	21	96	3	91	38	26	0	34	1.57
31080855--31080906	22	2.4	22	80	0	59	44	15	19	21	1.87
31080913--31081033	32	3.8	32	82	8	140	39	19	17	23	1.92
31081229--31081292	24	2.6	25	87	4	87	40	21	7	29	1.82
31081311--31081616	27	11.3	27	86	2	337	23	21	18	35	1.96
31081339--31081671	54	6.2	54	83	4	192	22	20	19	37	1.94
31081336--31081671	81	4.1	81	83	6	249	22	20	19	37	1.95
31081530--31081671	27	5.3	26	77	9	142	20	16	19	43	1.88
31084617--31084648	15	2.1	15	94	0	55	43	3	25	28	1.69
31088546--31088705	42	3.8	42	75	12	123	31	26	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31097709--31097742	6	5.7	6	96	0	59	0	61	0	38	0.96
31097753--31097778	13	2.0	13	100	0	52	23	15	30	30	1.95
31103820--31103854	2	17.5	2	100	0	70	48	0	0	51	1.00
31104024--31104280	42	6.1	42	92	0	408	29	20	21	28	1.98
31108520--31108681	40	4.2	40	80	6	179	36	23	17	22	1.95
31113657--31113704	24	2.0	24	87	0	69	16	22	8	52	1.71
31113873--31114008	40	3.5	40	65	15	113	32	19	22	25	1.97
31114171--31114224	27	2.0	27	100	0	108	48	14	3	33	1.62
31118993--31119190	40	5.2	40	65	14	146	25	21	23	29	1.99
31118971--31119267	76	3.9	76	83	6	386	25	21	22	30	1.98
31126651--31126700	19	2.7	18	87	9	73	36	2	14	48	1.55
31127972--31128147	31	5.7	31	85	2	239	30	9	17	43	1.79
31127972--31128147	61	2.9	61	87	0	244	30	9	17	43	1.79
31128265--31128376	43	2.6	44	80	7	131	26	17	23	32	1.97
31130389--31130525	50	2.7	50	79	0	130	27	20	29	22	1.98
31130782--31130820	20	2.0	20	90	10	62	56	5	23	15	1.59
31135539--31135586	23	2.1	23	96	0	87	22	14	12	50	1.77
31137484--31137580	45	2.2	45	98	1	187	42	21	11	24	1.86
31137584--31137612	14	2.1	14	100	0	58	31	34	0	34	1.58
31146557--31146596	20	2.0	20	100	0	80	40	5	5	50	1.46
31146627--31146656	7	4.3	7	91	0	51	26	3	0	70	1.03
31149187--31149231	24	1.9	23	82	13	56	62	8	2	26	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31160541--31160605	3	22.0	3	90	9	107	33	0	0	66	0.92
31164169--31164395	120	1.9	120	86	1	321	44	7	1	47	1.38
31171953--31172521	46	12.4	46	73	3	405	33	5	22	38	1.78
31171953--31172521	23	24.8	23	67	14	140	33	5	22	38	1.78
31171901--31172202	138	2.2	138	86	1	417	33	6	21	38	1.79
31171959--31172522	138	4.1	138	82	2	499	33	5	22	38	1.78
31172005--31172521	69	7.5	68	67	14	252	33	5	22	38	1.77
31172004--31172388	183	2.1	183	89	1	576	34	5	21	38	1.77
31177301--31177330	11	2.7	11	89	0	51	66	0	0	33	0.92
31180542--31180602	32	1.9	32	83	12	81	44	4	1	49	1.33
31181804--31181862	30	2.0	29	83	3	73	44	0	35	20	1.52
31190299--31190350	3	17.3	3	100	0	104	65	0	0	34	0.93
31192050--31192093	15	3.0	15	84	12	56	0	31	0	68	0.90
31211436--31211881	232	1.9	232	85	5	614	40	20	13	24	1.89
31213227--31213285	30	1.9	31	86	10	86	30	15	16	37	1.90
31213731--31213766	18	2.1	18	94	5	65	44	16	0	38	1.48
31214577--31214601	4	6.2	4	100	0	50	24	0	0	76	0.80
31218399--31218452	24	2.2	24	86	0	72	53	5	3	37	1.42
31222412--31222475	24	2.7	24	80	0	74	35	1	6	56	1.34
31223951--31223979	13	2.1	14	93	6	51	68	0	0	31	0.89
31225977--31226015	2	19.5	2	100	0	78	48	0	51	0	1.00
31228000--31228042	21	2.0	22	86	13	63	11	6	11	69	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31232138--31232182	20	2.1	22	84	8	58	17	24	22	35	1.95
31234167--31234201	2	17.5	2	100	0	70	51	0	48	0	1.00
31235466--31235602	65	2.2	63	85	7	188	50	4	4	40	1.42
31235521--31235608	17	5.2	17	68	20	58	53	2	2	42	1.26
31235485--31235624	68	2.1	65	80	9	149	52	2	4	40	1.36
31237740--31237766	5	5.4	5	100	0	54	81	0	0	18	0.69
31238276--31238384	46	2.4	46	87	3	148	33	23	9	33	1.87
31238298--31239006	23	30.8	23	69	13	325	39	23	6	31	1.79
31238298--31238838	230	2.3	227	82	8	619	38	24	6	31	1.80
31238489--31238929	209	2.1	206	91	1	711	38	24	5	31	1.79
31239507--31239540	15	2.3	15	94	0	59	50	20	2	26	1.63
31245430--31245461	16	2.0	16	100	0	64	50	12	18	18	1.78
31248142--31248196	21	2.4	23	85	14	71	40	1	0	58	1.09
31249781--31250070	50	5.7	50	86	2	339	23	29	21	25	1.99
31272391--31272465	29	2.6	29	76	14	82	50	6	12	30	1.65
31275056--31275112	14	4.1	14	76	0	51	33	17	17	31	1.93
31276172--31276303	67	2.0	67	95	0	237	28	32	18	20	1.96
31278087--31278130	11	3.9	11	82	5	52	63	2	0	34	1.07
31285007--31285065	29	2.0	29	90	0	91	35	6	18	38	1.78
31285943--31285997	27	2.0	27	96	0	101	43	5	10	40	1.63
31286160--31286200	18	2.3	18	95	0	73	14	9	17	58	1.62
31287604--31287660	27	2.1	28	87	9	82	59	1	0	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31293716--31293833	43	2.8	43	85	3	150	23	17	27	30	1.97
31295489--31295525	15	2.5	15	95	0	65	35	5	5	54	1.47
31298132--31298173	22	2.1	19	86	13	57	45	0	0	54	0.99
31298132--31298170	16	2.5	15	83	8	51	46	0	0	53	1.00
31298888--31298943	25	2.2	26	78	9	71	37	1	1	58	1.19
31301742--31301782	21	2.0	21	85	9	57	41	2	0	56	1.13
31305483--31305618	28	4.8	29	69	15	106	39	19	11	29	1.87
31305486--31305618	56	2.4	56	94	0	230	39	19	11	30	1.87
31315970--31316016	24	2.0	24	86	0	67	51	8	4	36	1.52
31320894--31320929	10	3.6	10	96	0	63	58	0	2	38	1.13
31322472--31322506	2	17.5	2	100	0	70	51	0	0	48	1.00
31328138--31328167	14	2.1	14	93	0	51	23	56	3	16	1.55
31329427--31329477	2	25.5	2	91	0	84	45	0	3	50	1.20
31331422--31331446	12	2.1	12	100	0	50	32	8	8	52	1.60
31332958--31332996	2	19.5	2	100	0	78	51	0	0	48	1.00
31334280--31334306	14	1.9	14	100	0	54	29	40	14	14	1.86
31337604--31337971	71	5.2	71	79	3	366	25	17	22	34	1.96
31345845--31345881	15	2.5	15	100	0	74	24	32	21	21	1.98
31346818--31346887	27	2.8	24	74	16	70	18	12	32	35	1.89
31347741--31347950	43	4.9	43	90	2	323	29	33	18	19	1.95
31348558--31348592	2	17.5	2	100	0	70	51	0	0	48	1.00
31349883--31349909	5	5.4	5	100	0	54	18	0	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31354037--31354105	28	2.4	30	71	11	72	34	37	1	26	1.65
31354124--31354156	14	2.3	15	94	5	59	36	33	0	30	1.58
31354563--31354673	41	2.7	41	94	0	186	31	28	20	18	1.97
31354705--31354841	40	3.4	40	81	6	161	19	21	21	37	1.95
31357344--31357402	27	2.2	27	87	0	82	42	16	28	11	1.84
31360323--31360397	39	1.9	39	97	0	141	53	8	6	32	1.56
31361330--31361985	323	2.0	323	88	0	972	34	26	12	27	1.92
31371594--31371779	93	2.0	93	98	0	363	23	22	12	41	1.88
31383638--31383684	14	3.4	14	82	5	51	59	8	6	25	1.50
31385004--31385048	2	22.5	2	100	0	90	51	0	0	48	1.00

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