genome.fa.s8.2.7.7.80.10.50.1000.165.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  165  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)
48190732--48190955	114	2.0	112	84	6	292	22	20	25	31	1.98
48191236--48191288	7	7.4	7	82	4	70	13	0	39	47	1.43
48191175--48191250	31	2.6	30	75	6	75	21	1	40	36	1.61
48191227--48191288	21	2.9	22	82	4	72	17	0	38	43	1.49
48191621--48191695	31	2.4	32	84	2	98	21	1	38	38	1.62
48196823--48196969	66	2.2	66	86	4	199	38	18	29	13	1.89
48196941--48196984	21	2.1	21	91	0	70	36	18	43	2	1.63
48196948--48196991	21	2.1	21	86	0	61	34	20	43	2	1.64
48196960--48197052	42	2.2	42	84	3	116	34	13	44	7	1.73
48196988--48197052	21	3.1	20	72	16	60	33	12	44	9	1.74
48197382--48197481	43	2.3	43	91	3	157	35	30	17	18	1.93
48197407--48197540	43	3.1	43	82	1	135	27	28	20	23	1.99
48199984--48200013	14	2.1	15	93	6	53	33	0	6	60	1.23
48200353--48200383	2	15.5	2	100	0	62	51	0	0	48	1.00
48201444--48201483	18	2.2	18	86	0	53	47	0	5	47	1.24
48204950--48204974	2	12.5	2	100	0	50	48	0	0	52	1.00
48206328--48206370	18	2.4	18	80	0	59	44	0	4	51	1.22
48206784--48206811	12	2.3	12	100	0	56	28	14	0	57	1.38
48206804--48206903	51	2.0	51	82	7	123	24	30	2	44	1.65
48208705--48208747	18	2.4	18	88	0	59	18	27	9	44	1.80
48212333--48212618	124	2.3	124	92	1	457	29	20	18	31	1.96
48216867--48217000	46	2.9	46	90	4	191	31	10	26	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48216964--48217230	37	7.0	37	86	8	365	37	14	20	27	1.92
48216962--48217315	74	4.4	80	81	14	373	35	15	21	27	1.94
48216926--48217192	119	2.2	120	93	0	455	36	13	21	27	1.92
48216962--48217275	157	2.0	156	93	0	538	35	14	21	27	1.93
48217192--48217315	46	2.8	46	91	3	200	33	16	22	27	1.96
48218092--48218195	52	2.0	52	100	0	208	25	11	26	36	1.90
48227595--48227753	84	1.9	84	85	5	223	37	6	10	45	1.64
48241165--48241451	143	2.0	142	99	0	565	36	11	18	34	1.86
48247940--48248014	30	2.5	30	100	0	150	22	24	6	46	1.75
48249614--48249682	27	2.6	27	93	4	113	20	27	33	18	1.96
48250736--48250854	60	2.0	60	89	0	184	53	11	0	33	1.43
48250833--48250889	28	2.0	30	82	6	73	61	7	1	29	1.32
48251034--48251071	3	13.3	3	89	10	62	0	34	0	65	0.93
48252335--48252364	5	6.0	5	100	0	60	60	0	0	40	0.97
48262139--48262218	25	3.4	25	63	16	62	33	26	6	33	1.81
48265191--48265242	24	2.2	24	85	0	68	48	9	5	36	1.60
48266419--48266458	20	2.0	20	90	0	62	50	12	10	27	1.72
48266407--48266473	34	1.9	35	87	3	100	46	11	8	32	1.72
48266442--48266481	14	2.9	14	84	0	53	42	17	7	32	1.77
48267216--48267261	24	1.9	24	82	8	58	45	4	47	2	1.34
48274225--48274276	22	2.3	23	83	9	63	42	1	3	51	1.31
48276811--48276885	20	3.9	19	77	11	73	24	1	4	70	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48276803--48276900	11	9.7	10	68	21	62	24	1	5	69	1.15
48276801--48276868	21	3.6	19	77	14	61	25	1	5	67	1.21
48276803--48276868	18	3.5	18	78	12	62	22	1	6	69	1.19
48276843--48276897	10	5.3	11	78	6	53	23	0	3	72	1.00
48280625--48280651	14	1.9	14	100	0	54	51	0	0	48	1.00
48282286--48282332	19	2.4	20	75	13	53	42	0	0	57	0.98
48282294--48282359	26	2.5	25	78	9	69	39	1	0	59	1.07
48282341--48282370	14	2.1	14	93	0	51	50	0	0	50	1.00
48282400--48282465	15	4.1	16	76	17	66	53	3	0	43	1.16
48283330--48283367	14	2.7	15	88	8	53	50	0	5	44	1.24
48284222--48284258	18	2.1	18	100	0	74	51	21	5	21	1.68
48291268--48291318	6	8.2	6	77	14	50	43	3	0	52	1.19
48291323--48291415	40	2.3	41	81	5	109	34	4	5	55	1.42
48307492--48307542	18	2.9	18	74	14	52	29	31	0	39	1.57
48326695--48326752	29	1.9	30	82	6	73	31	6	17	44	1.75
48327542--48327579	19	2.0	20	89	5	60	63	5	0	31	1.17
48328533--48328624	46	2.0	46	95	0	166	45	17	10	26	1.81
48348487--48348533	24	2.0	24	95	0	85	46	12	29	10	1.76
48357216--48357257	19	2.2	20	82	4	50	54	11	0	33	1.37
48357346--48357373	14	2.0	14	100	0	56	14	21	21	42	1.88
48363900--48363940	2	20.5	2	94	0	73	46	0	2	51	1.14
48369844--48369871	10	2.8	10	100	0	56	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48369706--48369957	129	1.9	129	88	4	382	33	5	3	57	1.38
48369966--48370004	21	1.9	21	89	5	62	43	2	2	51	1.29
48370316--48370372	21	2.6	21	83	8	60	50	3	0	45	1.18
48370310--48370372	22	2.9	21	78	4	72	47	3	0	49	1.17
48370378--48370412	18	1.9	18	94	0	61	42	2	0	54	1.15
48370525--48370581	18	2.8	20	75	17	55	45	3	5	45	1.43
48393291--48393343	23	2.3	23	83	6	72	41	7	0	50	1.30
48393406--48393448	20	2.2	20	83	8	52	53	2	2	41	1.26
48395345--48395400	21	2.7	21	91	0	85	25	35	12	26	1.91
48401694--48401741	19	2.5	20	82	3	62	37	10	0	52	1.36
48401836--48401883	21	2.3	22	82	7	64	41	10	0	47	1.37
48401836--48401892	21	2.7	21	78	5	62	36	12	0	50	1.40
48406109--48406150	2	21.0	2	95	0	75	52	0	0	47	1.00
48408195--48408282	41	2.2	40	85	2	113	25	15	20	38	1.92
48409317--48409360	17	2.6	17	92	3	72	29	0	20	50	1.49
48410111--48410341	46	5.0	46	91	1	365	36	7	25	29	1.84
48416850--48416895	4	11.2	4	78	21	51	73	0	26	0	0.83
48416850--48416893	17	2.6	17	82	17	56	72	0	27	0	0.85
48428531--48428569	7	5.6	7	100	0	78	25	0	0	74	0.82
48428577--48428638	26	2.3	27	88	2	90	35	0	1	62	1.05
48430005--48430044	17	2.4	18	84	16	59	20	12	0	67	1.22
48430008--48430043	16	2.2	16	90	9	56	22	11	0	66	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48432495--48432519	5	5.0	5	100	0	50	60	0	0	40	0.97
48435117--48435223	21	5.2	21	76	2	83	46	15	21	15	1.83
48436617--48436665	2	24.5	2	100	0	98	51	0	0	48	1.00
48438930--48438978	20	2.5	21	87	9	68	34	8	10	46	1.67
48439791--48439827	19	1.9	19	88	0	56	16	8	16	59	1.59
48440848--48440905	21	2.8	21	76	7	55	36	13	12	37	1.82
48441920--48441976	29	2.0	29	83	6	73	54	8	3	33	1.48
48447107--48447149	21	2.1	20	82	4	50	37	0	0	62	0.95
48452222--48452557	167	2.0	167	97	0	636	31	31	10	26	1.90
48454101--48454160	31	1.9	31	86	0	84	21	20	11	46	1.82
48454102--48454168	31	2.2	31	83	0	80	20	20	8	49	1.76
48455172--48455373	98	2.1	98	92	0	332	37	24	10	28	1.88
48456233--48456265	17	1.9	17	88	11	50	54	15	0	30	1.41
48461977--48462057	39	2.1	39	92	0	135	50	7	17	24	1.71
48465432--48465480	23	2.0	25	88	7	75	36	0	10	53	1.35
48468174--48468212	7	6.1	7	77	22	50	38	0	0	61	0.96
48468174--48468212	19	2.1	19	95	0	69	38	0	0	61	0.96
48468175--48468213	12	3.2	12	92	7	62	38	0	0	61	0.96
48475210--48475253	15	2.8	16	79	10	54	72	6	0	20	1.07
48478610--48478640	9	3.4	9	90	0	53	38	22	12	25	1.90
48482546--48482664	58	2.1	58	100	0	238	42	20	15	21	1.89
48482721--48482840	58	2.1	58	100	0	240	46	10	8	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48482942--48482975	17	2.0	17	88	0	50	23	23	14	38	1.92
48484811--48484854	20	2.3	19	84	4	52	50	2	9	38	1.47
48485147--48485195	24	2.1	24	84	3	64	53	10	8	28	1.63
48494055--48494186	56	2.4	56	93	0	228	44	11	15	28	1.81
48496074--48496107	17	2.0	17	88	0	50	76	2	20	0	0.92
48496101--48496135	14	2.5	14	90	0	61	74	14	11	0	1.08
48502107--48502188	23	3.6	23	94	0	137	31	21	28	18	1.97
48502107--48502198	46	2.0	46	85	4	123	32	21	27	18	1.97
48508989--48509106	41	2.9	41	88	0	164	33	22	16	27	1.95
48511003--48511042	19	2.1	19	90	0	62	30	20	0	50	1.49

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