genome.fa.s4.2.7.7.80.10.50.1000.162.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  162  of  198  ( 23681 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)
51047791--51047910	20	6.4	19	70	25	94	60	0	1	38	1.07
51047765--51047908	74	2.0	74	90	4	231	59	0	2	38	1.10
51049223--51049261	5	7.8	5	100	0	78	41	0	0	58	0.98
51049266--51049374	21	5.0	21	74	21	75	71	6	16	5	1.26
51049296--51049408	4	26.0	4	79	15	77	69	5	23	0	1.14
51049296--51049408	9	13.0	8	77	15	77	69	5	23	0	1.14
51049311--51049357	5	9.8	5	93	6	64	65	12	21	0	1.25
51049348--51049417	34	2.1	34	100	0	140	71	0	28	0	0.86
51050083--51050129	24	2.0	24	84	16	62	31	0	17	51	1.46
51064373--51064407	13	2.7	13	90	0	52	25	0	0	74	0.82
51064423--51064447	11	2.3	11	100	0	50	16	0	0	84	0.63
51070220--51070307	41	2.1	41	89	2	131	35	28	11	25	1.90
51071005--51071095	36	2.5	36	81	1	110	40	31	10	16	1.83
51081880--51081948	21	3.2	21	77	2	75	2	27	17	52	1.59
51083323--51083360	18	2.1	18	85	9	51	15	15	7	60	1.57
51083348--51083477	12	10.2	12	71	12	64	26	14	8	50	1.72
51083415--51083472	25	2.4	23	83	11	64	25	15	6	51	1.68
51085699--51085761	31	2.0	32	96	3	119	42	15	9	31	1.79
51091888--51091949	31	2.0	31	100	0	124	41	16	9	32	1.80
51092487--51092595	49	2.2	49	98	0	209	24	9	48	17	1.76
51092616--51092826	31	6.9	31	96	0	381	52	0	9	37	1.35
51098725--51098777	21	2.5	21	84	0	70	32	30	5	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51111453--51111486	10	3.5	10	88	4	52	79	0	0	20	0.73
51111526--51111588	31	2.0	31	90	0	99	31	20	3	44	1.67
51112534--51112609	35	2.2	34	79	13	84	32	2	1	63	1.17
51119476--51119597	23	5.3	23	89	0	190	20	21	27	31	1.98
51119478--51119597	46	2.6	46	95	0	213	20	21	27	30	1.98
51127000--51127118	23	5.2	23	90	0	193	21	21	26	30	1.99
51127002--51127114	46	2.5	46	98	0	217	20	22	27	30	1.98
51129091--51129195	54	1.9	54	82	0	129	32	14	26	26	1.94
51132135--51132235	34	3.0	34	97	0	184	29	4	28	36	1.78
51137805--51137834	5	5.8	5	96	4	51	23	0	0	76	0.78
51137934--51138005	20	3.5	20	80	10	90	26	0	23	50	1.50
51138621--51138727	53	2.0	53	100	0	214	27	20	31	20	1.97
51149203--51149235	17	1.9	18	88	11	52	60	0	0	39	0.97
51151179--51151223	9	5.1	9	82	15	58	44	0	2	53	1.13
51154013--51154044	15	2.1	15	100	0	64	12	21	21	43	1.86
51159106--51159147	17	2.5	16	82	17	50	69	7	4	19	1.31
51164296--51164392	49	2.0	49	89	0	149	24	25	6	43	1.77
51166449--51166489	19	2.2	18	86	4	55	34	21	0	43	1.53
51172138--51172283	50	2.9	50	83	2	186	21	29	21	27	1.99
51175337--51175378	22	2.0	22	85	4	59	40	9	0	50	1.35
51175696--51175733	19	2.0	20	89	5	60	50	2	13	34	1.55
51185820--51186015	29	6.7	29	66	12	78	51	4	0	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51185860--51185889	15	1.9	16	93	6	53	50	6	0	43	1.28
51185847--51186154	61	5.1	60	70	21	259	50	4	0	43	1.30
51185814--51186154	120	2.8	120	96	0	619	50	4	0	43	1.29
51185952--51185987	18	2.1	17	90	10	56	61	0	0	38	0.96
51185971--51186155	37	4.8	37	65	19	99	49	4	1	44	1.31
51186072--51186107	18	2.1	17	90	10	56	61	0	0	38	0.96
51192193--51192483	98	2.9	99	83	8	362	29	0	15	54	1.46
51192193--51192474	99	2.9	98	85	6	360	29	0	15	54	1.45
51192528--51192585	27	2.1	27	81	6	64	25	34	25	13	1.93
51192679--51192713	13	2.7	13	86	0	52	68	0	0	31	0.90
51198788--51198880	43	2.2	43	98	0	177	44	13	6	35	1.70
51199194--51199261	29	2.3	30	87	7	95	44	8	16	30	1.78
51202115--51202451	168	2.0	167	92	0	566	44	3	18	34	1.66
51207292--51207400	41	2.6	41	95	1	191	26	21	29	22	1.99
51208905--51208968	31	2.1	31	88	5	94	34	0	29	35	1.58
51210530--51210562	15	2.2	15	94	0	57	18	45	12	24	1.83
51220025--51220073	14	3.4	14	76	15	55	63	0	0	36	0.95
51219989--51220076	29	3.2	26	85	6	104	64	1	0	34	1.01
51220054--51220115	25	2.5	22	76	20	61	69	0	1	29	0.98
51220676--51220706	9	3.4	9	90	0	53	38	22	12	25	1.90
51225707--51225754	23	2.1	23	100	0	96	20	33	12	33	1.90
51227019--51227044	6	4.3	6	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51228911--51228962	21	2.4	22	78	15	72	40	7	17	34	1.78
51228898--51228953	19	2.8	19	91	5	85	39	8	16	35	1.80
51229084--51229117	12	2.9	11	87	12	50	85	0	11	2	0.71
51229161--51229199	19	2.0	21	85	10	55	15	10	5	69	1.34
51229424--51229463	3	13.3	3	84	10	55	32	0	0	67	0.91
51229491--51229553	31	2.1	31	82	5	76	42	6	1	49	1.37
51230719--51230763	22	2.0	22	100	0	90	17	20	17	44	1.87
51234929--51234975	15	2.9	16	79	20	62	70	2	14	12	1.26
51234929--51234982	7	7.0	8	85	8	60	70	1	14	12	1.25
51234942--51234982	7	5.7	7	94	5	73	73	0	14	12	1.11
51234942--51234988	14	3.3	15	91	8	80	72	0	14	12	1.13
51236229--51237252	132	7.8	132	92	0	1688	31	19	23	25	1.98
51237344--51237634	133	2.2	133	89	0	438	30	19	23	26	1.98
51237344--51237680	133	2.5	133	85	3	403	30	19	23	26	1.98
51237339--51237804	44	10.7	43	71	14	222	30	19	23	27	1.98
51238115--51238192	21	3.7	21	96	0	138	41	10	11	37	1.75
51238322--51238356	12	3.0	11	88	12	52	85	0	11	2	0.69
51238662--51238717	3	18.3	3	96	3	103	33	0	0	66	0.92
51238669--51238727	18	3.2	19	85	7	59	35	5	0	59	1.20
51241592--51241623	17	1.9	17	93	6	57	43	0	3	53	1.16
51251088--51251116	15	2.0	15	93	6	51	51	0	34	13	1.42
51250995--51251174	76	2.4	76	80	10	208	40	3	37	18	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51251108--51251238	64	2.0	64	80	2	147	45	5	32	17	1.71
51252389--51252443	18	3.2	17	72	12	51	7	14	5	72	1.24
51252403--51252450	23	2.1	23	84	7	62	6	14	6	72	1.24
51252407--51252456	23	2.2	23	82	7	57	6	18	4	72	1.22
51257790--51257840	22	2.3	22	83	9	68	54	0	3	41	1.19
51258139--51258175	18	2.0	19	89	5	58	48	0	0	51	1.00
51258405--51258447	19	2.3	19	87	0	59	32	6	4	55	1.47
51263261--51263332	16	4.5	16	67	25	53	65	13	0	20	1.27
51263672--51263702	3	10.7	3	93	6	55	0	35	0	64	0.94
51263815--51263921	32	3.4	32	77	5	110	16	22	36	24	1.94
51270559--51270586	12	2.3	12	100	0	56	10	25	32	32	1.90
51271233--51271780	132	4.2	132	91	2	870	28	24	18	28	1.98
51272954--51273065	42	2.7	42	90	0	179	25	29	12	32	1.93
51278080--51278115	2	18.0	2	94	0	63	47	0	2	50	1.15
51278209--51278245	3	12.7	3	94	5	67	67	0	0	32	0.91
51279892--51280123	114	2.0	115	92	0	385	37	17	12	32	1.88
51280341--51280396	29	1.9	29	82	7	69	32	0	3	64	1.11
51281591--51281655	27	2.4	26	78	16	69	30	3	4	61	1.31
51282125--51282162	9	4.1	9	89	3	58	36	0	0	63	0.95
51282127--51282163	18	2.0	19	94	5	67	37	0	0	62	0.96
51294004--51294036	17	2.0	17	88	5	50	42	9	24	24	1.83
51294033--51294179	53	2.8	53	96	0	267	31	17	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51296721--51296782	29	2.1	30	90	3	99	37	24	1	37	1.65
51297940--51297964	7	3.6	7	100	0	50	28	0	12	60	1.32
51301731--51301764	17	2.0	17	100	0	68	23	52	11	11	1.70
51302118--51302605	126	3.9	125	90	2	732	25	19	18	37	1.94
51302118--51302604	248	2.0	250	89	2	755	25	19	18	36	1.94
51302693--51302790	33	3.0	33	87	3	126	43	18	1	36	1.57
51305657--51305702	24	1.9	24	95	0	83	26	17	13	43	1.85
51311011--51311059	20	2.4	22	90	10	77	55	4	4	36	1.38
51311011--51311062	21	2.6	19	84	9	68	55	3	3	36	1.36
51311869--51311900	11	2.8	12	90	9	50	68	18	0	12	1.20

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