genome.fa.s6.2.7.7.80.10.50.1000.153.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  153  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)
45379589--45379635	9	4.8	10	77	15	53	31	0	6	61	1.21
45379584--45379654	29	2.4	30	84	11	85	35	1	4	59	1.26
45383687--45383748	20	3.1	20	95	0	106	43	30	6	19	1.76
45383689--45383760	9	7.6	9	82	11	81	40	29	6	23	1.81
45383761--45383873	37	3.1	37	93	1	192	46	15	5	32	1.68
45383784--45383847	20	3.3	20	68	12	62	45	15	4	34	1.67
45383804--45383864	17	3.4	17	68	12	50	50	13	3	32	1.57
45385673--45385698	12	2.2	12	100	0	52	23	7	11	57	1.59
45386540--45386576	8	4.5	8	86	6	56	13	37	32	16	1.87
45393626--45393679	20	2.7	21	80	5	58	35	0	9	55	1.32
45398100--45398150	17	3.0	17	82	0	57	43	5	17	33	1.73
45398960--45399016	27	2.1	28	80	9	64	45	0	24	29	1.53
45398979--45399014	19	1.9	19	88	5	56	41	0	25	33	1.55
45400737--45401065	152	2.2	152	89	1	498	23	24	32	19	1.97
45406389--45406519	61	2.1	62	91	1	210	31	9	7	51	1.61
45412128--45412153	6	4.3	6	100	0	52	15	30	38	15	1.88
45419725--45419779	27	2.0	27	82	6	67	45	9	5	40	1.59
45437932--45438014	39	2.2	39	86	6	116	20	19	20	39	1.92
45437932--45438058	45	3.1	39	83	12	125	19	19	19	40	1.91
45437959--45438148	45	4.1	45	82	7	245	20	18	19	42	1.90
45437957--45438168	96	2.2	96	83	4	300	20	19	18	41	1.91
45441428--45441479	24	2.2	24	89	0	77	55	9	1	32	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45448439--45448469	8	3.9	8	100	0	62	38	0	0	61	0.96
45449944--45449998	19	3.1	18	80	19	55	30	3	0	65	1.10
45452866--45452903	6	6.3	6	100	0	76	34	31	0	34	1.58
45454512--45454610	51	1.9	51	97	0	189	39	13	19	28	1.89
45458557--45458604	21	2.3	21	78	7	53	18	6	2	72	1.15
45459761--45459790	13	2.3	13	94	0	51	60	0	0	40	0.97
45467194--45467229	19	1.9	19	88	5	56	72	0	0	27	0.85
45467198--45467246	11	4.5	11	82	5	55	73	4	0	22	1.00
45467196--45467248	22	2.3	23	81	12	65	71	3	0	24	1.02
45476489--45476545	22	2.6	22	83	8	64	35	3	1	59	1.25
45477218--45477275	23	2.6	22	81	10	73	15	13	17	53	1.73
45487211--45487263	23	2.4	22	84	6	72	18	9	13	58	1.61
45487674--45487708	5	7.0	5	100	0	70	40	0	0	60	0.97
45503126--45503165	14	2.9	14	84	0	53	42	17	7	32	1.77
45503091--45503157	34	1.9	35	84	3	91	46	10	8	34	1.70
45503618--45503720	41	2.5	40	84	1	143	25	19	24	31	1.98
45513330--45513367	2	19.0	2	100	0	76	50	0	0	50	1.00
45517441--45517471	15	2.1	15	100	0	62	29	19	19	32	1.96
45542919--45543257	86	3.7	87	81	10	383	36	6	12	44	1.68
45543036--45543230	96	2.0	99	87	4	288	34	6	12	46	1.68
45543173--45543376	71	2.8	75	82	6	263	34	6	12	46	1.67
45551064--45551168	4	25.8	4	73	19	60	71	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45551071--45551165	10	9.3	10	76	11	68	71	0	28	0	0.86
45551057--45551164	33	3.1	33	73	20	94	70	0	29	0	0.88
45551055--45551165	43	2.6	43	85	5	145	69	0	30	0	0.89
45551067--45551167	14	7.1	14	78	4	76	72	0	27	0	0.85
45551496--45551969	158	3.0	152	79	12	526	50	6	10	32	1.63
45554031--45554100	10	6.5	11	77	12	65	52	0	2	44	1.15
45554043--45554108	32	2.1	31	91	5	107	59	0	1	39	1.07
45554096--45554151	9	5.9	9	76	15	51	67	0	3	28	1.07
45554303--45554425	59	2.1	59	98	0	237	31	32	17	18	1.94
45557661--45557699	18	2.2	17	86	13	53	46	20	0	33	1.51
45559879--45559903	3	8.3	3	100	0	50	0	32	0	68	0.90
45564752--45564802	15	3.5	15	69	15	52	27	3	9	58	1.47
45565719--45565767	19	2.5	19	80	3	53	61	0	4	34	1.15
45568451--45568508	22	2.8	22	79	7	59	17	15	0	67	1.24
45581697--45581758	21	3.0	20	79	11	63	43	1	0	54	1.09
45582501--45582525	2	12.5	2	100	0	50	52	0	0	48	1.00
45595891--45596045	69	2.2	69	84	6	188	31	16	25	25	1.97
45606108--45606351	50	4.9	50	88	1	312	21	30	22	25	1.99
45606741--45606798	30	1.9	30	82	6	73	32	24	3	39	1.72
45618293--45618339	14	3.4	14	77	14	53	76	2	2	19	0.99
45619179--45619256	22	3.5	22	87	0	111	28	15	26	29	1.96
45619968--45620000	17	1.9	17	100	0	66	24	0	18	57	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45621223--45621361	46	3.0	46	94	0	242	34	8	26	30	1.86
45626946--45626979	13	2.6	13	90	9	52	44	0	2	52	1.16
45628972--45629093	23	5.3	23	86	0	181	22	20	26	31	1.98
45628974--45629093	46	2.6	46	93	0	204	21	20	26	30	1.98
45631097--45631183	24	3.6	24	73	17	72	24	22	21	31	1.99
45633851--45633905	28	2.0	29	89	7	87	49	0	1	49	1.11
45649066--45649227	91	1.8	86	89	6	252	35	7	12	45	1.70
45656614--45656792	25	7.2	25	71	13	75	18	27	20	34	1.96
45656672--45656792	24	5.0	23	73	14	73	16	28	22	33	1.95
45659066--45659137	28	2.5	28	77	6	83	30	20	20	27	1.98
45659248--45659318	26	2.8	25	82	6	90	40	21	19	18	1.91
45659476--45659546	27	2.6	27	84	0	79	26	18	15	39	1.90
45659526--45659939	27	15.3	27	82	1	380	20	14	18	45	1.85
45659526--45659944	81	5.2	81	81	1	444	20	15	18	45	1.85
45663874--45664031	79	2.0	79	98	0	307	12	17	21	48	1.80
45686615--45686639	9	2.8	9	100	0	50	32	0	0	68	0.90
45687039--45687087	20	2.4	20	75	3	53	28	51	6	14	1.66
45689461--45689493	17	2.1	16	88	11	50	51	6	9	33	1.58
45711973--45712006	6	6.0	6	90	10	54	67	0	0	32	0.91
45711995--45712029	17	2.0	18	88	5	54	48	2	0	48	1.16
45713037--45713067	15	2.1	14	94	5	53	25	3	6	64	1.33
45725050--45725089	19	2.0	20	85	4	55	52	5	5	37	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45725108--45725159	10	5.3	9	78	15	50	55	3	0	40	1.18
45725680--45725881	10	21.2	9	64	20	56	31	3	3	60	1.33
45725681--45725746	28	2.3	29	82	10	73	33	4	6	56	1.44
45725795--45725839	22	2.0	22	86	0	63	24	6	4	64	1.37
45726330--45726384	22	2.7	19	69	15	56	50	0	3	45	1.19
45741171--45741268	43	2.3	40	78	14	101	52	1	2	44	1.19
45741207--45741272	25	2.4	28	85	12	84	51	1	3	43	1.26
45749538--45749586	3	16.3	3	100	0	98	67	0	0	32	0.91
45749610--45749656	6	7.5	6	86	9	67	78	4	0	17	0.90
45749614--45749668	20	2.8	20	83	5	67	78	3	1	16	0.98
45749609--45749668	26	2.3	26	88	5	86	76	5	1	16	1.04
45753159--45753183	10	2.5	10	100	0	50	24	32	0	44	1.54
45758141--45758171	9	3.4	9	90	0	53	25	12	22	38	1.90
45758225--45758252	9	3.1	9	100	0	56	46	10	10	32	1.73
45759852--45759983	40	3.4	39	73	10	119	32	23	18	25	1.97
45762802--45762910	11	10.7	11	76	19	80	57	0	1	40	1.09
45762809--45762864	16	3.0	18	78	21	62	55	0	1	42	1.10
45762803--45762958	40	4.2	40	82	13	167	61	0	1	37	1.04
45762808--45762941	9	14.3	9	73	22	57	61	0	1	37	1.05
45764855--45764891	16	2.4	16	90	4	58	70	0	13	16	1.17
45765299--45765349	26	1.9	27	84	4	68	7	52	1	37	1.42
45777273--45777319	21	2.2	21	81	7	60	19	6	8	65	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45778778--45778841	32	2.0	32	100	0	128	31	9	12	46	1.73
45794830--45794867	20	1.9	20	84	10	51	26	2	5	65	1.27
45795318--45795808	163	3.0	163	99	0	973	40	5	12	40	1.66
45796959--45796985	11	2.5	11	100	0	54	29	7	25	37	1.83
45819977--45820012	2	18.0	2	88	0	54	55	44	0	0	0.99
45819978--45820016	6	6.5	6	96	0	51	58	41	0	0	0.98
45819978--45820016	12	3.2	12	92	0	60	58	41	0	0	0.98
45831714--45831745	17	2.0	17	88	11	50	62	0	0	37	0.95
45844311--45844338	14	2.0	14	100	0	56	57	0	7	35	1.26
45849822--45849851	3	10.0	3	100	0	60	33	0	33	33	1.58

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