genome.fa.s8.2.7.7.80.10.50.1000.166.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  166  of  190  ( 22705 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)
48511207--48511250	6	7.2	6	82	5	52	45	13	20	20	1.85
48511236--48511416	39	4.4	39	78	12	191	39	19	19	20	1.92
48511229--48511416	84	2.2	87	86	6	276	40	19	19	20	1.92
48511229--48511416	45	4.3	45	80	11	230	40	19	19	20	1.92
48515081--48515112	5	6.4	5	100	0	64	78	0	21	0	0.76
48520149--48520212	22	2.9	22	85	0	92	18	21	17	42	1.89
48528316--48528347	15	2.2	14	94	5	55	62	0	0	37	0.95
48529156--48529229	11	6.5	11	73	14	60	56	2	0	40	1.13
48529532--48529601	36	1.9	36	97	0	131	35	22	11	30	1.90
48530932--48531058	61	2.1	61	86	1	175	40	4	14	40	1.66
48534281--48534316	6	5.8	6	93	3	54	77	0	2	19	0.88
48542978--48543013	6	5.8	6	93	3	54	77	0	2	19	0.88
48545319--48545352	16	2.0	17	88	11	52	70	0	0	29	0.87
48547178--48547209	9	3.6	9	100	0	64	12	0	9	78	0.97
48547260--48547311	23	2.3	23	90	6	79	34	13	9	42	1.77
48547260--48547375	59	2.0	59	92	0	196	29	14	11	44	1.80
48547316--48547370	23	2.4	23	87	6	76	29	14	14	41	1.85
48551765--48551816	23	2.3	23	86	6	70	36	13	7	42	1.73
48551823--48551875	23	2.3	23	87	6	72	30	15	13	41	1.85
48551765--48551880	59	2.0	59	91	0	187	31	14	9	44	1.77
48555428--48555476	16	3.1	16	74	8	55	42	6	8	42	1.59
48557558--48557584	4	6.8	4	100	0	54	0	25	51	22	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48557590--48557631	2	21.0	2	87	0	57	4	2	42	50	1.36
48557590--48557689	12	8.3	12	93	0	119	16	1	33	50	1.52
48557619--48557695	4	19.8	4	92	5	131	23	0	25	50	1.49
48557775--48557807	17	1.9	17	100	0	66	36	12	27	24	1.91
48573796--48573825	2	15.0	2	92	0	51	0	0	46	53	1.00
48574958--48575019	30	2.0	32	84	9	85	56	8	0	35	1.29
48581859--48581895	16	2.2	17	90	4	58	37	2	54	5	1.38
48586980--48587031	24	2.2	24	85	0	68	38	3	7	50	1.50
48598985--48599052	33	2.1	33	94	0	118	36	25	16	22	1.94
48604465--48604528	12	5.8	11	72	20	62	18	3	0	78	0.89
48604463--48604527	22	3.0	20	82	13	76	20	3	0	76	0.91
48604466--48604536	17	4.4	16	78	15	76	19	4	0	76	0.96
48604465--48604529	5	12.0	5	74	19	51	20	3	0	76	0.91
48604472--48604535	27	2.3	27	82	10	69	20	4	0	75	0.99
48604465--48604536	22	3.1	23	79	16	71	19	4	0	76	0.95
48604466--48604536	33	2.2	33	83	14	87	19	4	0	76	0.96
48606281--48606325	20	2.2	20	100	0	90	33	8	44	13	1.75
48609983--48610032	20	2.5	20	77	3	57	38	6	0	56	1.24
48611564--48611613	23	2.2	23	82	7	57	66	2	4	28	1.21
48618351--48618415	29	2.2	30	78	10	73	75	6	1	16	1.08
48622274--48622430	23	6.8	24	72	15	105	55	4	7	32	1.48
48622275--48622436	47	3.5	46	77	11	136	55	4	8	32	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48623237--48623297	19	3.2	19	83	0	86	14	27	4	52	1.62
48624117--48624154	15	2.5	15	86	0	58	36	42	0	21	1.53
48624640--48625081	41	10.8	41	74	8	328	37	22	19	20	1.95
48624646--48625034	82	4.7	82	86	4	462	37	23	19	20	1.95
48624616--48625081	82	5.7	81	83	5	429	37	22	20	19	1.94
48631780--48631830	6	8.5	6	85	8	59	78	0	1	19	0.85
48652160--48652205	19	2.5	19	76	16	51	65	6	2	26	1.28
48666703--48666739	18	2.0	19	89	5	58	21	10	13	54	1.69
48671639--48671664	3	8.7	3	100	0	52	0	34	0	65	0.93
48672700--48672745	21	2.2	21	84	7	58	65	2	0	32	1.05
48673433--48673488	28	1.9	29	85	7	78	55	7	0	37	1.27
48673806--48673872	30	2.3	30	89	2	109	49	0	13	37	1.42
48682567--48682633	21	3.2	21	66	8	55	16	17	16	49	1.80
48682567--48682717	42	3.6	42	81	3	144	17	21	16	45	1.86
48687787--48687853	25	2.7	25	80	0	80	31	19	28	20	1.97
48687787--48687869	25	3.3	25	81	0	76	30	18	28	22	1.97
48691717--48691788	27	2.7	27	82	0	99	23	33	33	9	1.88
48691894--48692216	157	2.1	156	89	2	486	54	8	8	28	1.60
48692226--48692525	160	1.9	159	88	3	460	27	8	9	55	1.60
48719543--48719572	15	2.0	15	93	0	51	56	0	6	36	1.26
48722004--48722056	3	17.7	3	100	0	106	32	0	0	67	0.91
48742297--48742335	20	2.0	19	90	5	60	0	25	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48744902--48744934	2	16.5	2	100	0	66	48	0	0	51	1.00
48744966--48745078	41	2.8	41	94	2	192	23	29	19	28	1.98
48746696--48746777	25	3.3	25	81	1	103	17	23	21	37	1.93
48746774--48746803	12	2.4	13	88	11	53	20	23	16	40	1.91
48746787--48746835	22	2.3	21	83	13	64	14	24	18	42	1.87
48747758--48747795	2	19.0	2	100	0	76	50	0	0	50	1.00
48752834--48752884	3	17.0	3	78	8	50	33	35	1	29	1.69
48760933--48760974	17	2.4	18	84	11	52	47	14	0	38	1.44
48762375--48762476	43	2.4	42	81	6	123	26	27	11	34	1.91
48764222--48764313	19	4.8	19	91	0	157	38	17	8	35	1.81
48764199--48764313	38	2.9	38	92	5	176	39	17	7	35	1.79
48764975--48765819	88	9.6	88	80	2	890	23	24	24	27	2.00
48764967--48765819	176	4.8	176	89	0	1174	24	24	24	27	2.00
48766999--48767042	23	2.0	23	82	8	56	6	25	0	68	1.14
48767986--48768040	26	2.2	26	83	3	67	60	5	12	21	1.53
48770596--48770630	18	1.9	18	88	11	54	45	22	2	28	1.67
48771801--48771878	27	2.9	27	92	0	120	28	29	24	17	1.98
48771729--48771980	129	2.0	129	89	1	389	31	27	19	21	1.97
48772319--48772376	30	1.9	30	82	0	71	31	22	6	39	1.80
48779211--48779436	33	6.5	33	70	22	158	32	28	19	19	1.96
48779267--48779403	42	3.5	41	75	17	164	33	28	18	19	1.95
48779169--48779363	102	1.9	102	90	0	309	30	28	19	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48779265--48779438	75	2.3	75	94	0	303	33	28	18	18	1.96
48779413--48779465	27	2.0	27	92	3	90	32	33	18	15	1.92
48779804--48779861	30	1.9	30	85	0	80	31	24	6	37	1.82
48782255--48782401	43	3.5	42	76	4	143	29	27	14	27	1.95
48787215--48787265	15	3.6	14	81	7	59	35	1	1	60	1.19
48788085--48788126	16	2.5	17	92	7	68	45	0	0	54	0.99
48788233--48788293	14	4.3	14	76	12	61	32	44	0	22	1.54
48788238--48788365	28	4.6	27	71	17	82	36	41	0	21	1.59
48788291--48788400	7	15.9	7	71	9	64	42	34	1	20	1.63
48788250--48788330	28	2.9	29	83	8	89	34	43	0	22	1.54
48788291--48788456	14	11.9	14	70	7	95	44	31	1	22	1.60
48788320--48788400	21	3.9	21	81	0	99	44	34	2	18	1.63
48788764--48788972	41	4.9	41	79	14	233	28	31	22	18	1.97
48788764--48788969	42	4.8	42	81	11	229	28	31	21	18	1.97
48788859--48788961	51	2.0	52	94	1	181	30	33	21	14	1.93
48789837--48789928	19	4.8	19	91	0	157	38	17	8	35	1.81
48789814--48789928	38	2.9	38	92	5	176	39	17	7	35	1.79
48790094--48790427	64	5.2	63	93	2	551	39	17	11	32	1.84
48790094--48790429	32	10.5	32	81	2	390	39	16	11	32	1.84
48792554--48792657	54	1.9	55	90	2	165	34	22	10	32	1.88
48795524--48795556	15	2.2	15	94	0	57	15	0	30	54	1.41
48795525--48795567	22	2.0	21	90	4	68	18	0	34	46	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48797813--48797932	39	3.1	39	90	0	186	31	30	19	18	1.95
48799372--48799457	44	2.0	44	93	4	147	39	5	18	36	1.75
48800615--48800653	20	2.0	20	85	10	53	46	12	2	38	1.56
48800758--48800813	27	2.1	27	96	0	103	26	8	14	50	1.72
48801287--48801415	40	3.2	40	80	6	111	34	21	22	21	1.97
48801304--48801419	40	3.0	40	83	5	148	34	22	20	22	1.97
48801475--48801718	41	6.0	41	92	0	398	18	22	30	27	1.98
48802084--48802120	14	2.6	14	86	0	56	24	2	29	43	1.68
48802169--48802201	14	2.3	15	94	5	59	30	0	33	36	1.58
48802420--48802471	7	7.4	7	82	0	50	23	0	42	34	1.54

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