genome.fa.s2.2.7.7.80.10.50.1000.143.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   199   200   201   202   203   204   205   206   

This is table  143  of  206  ( 24623 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)
43798356--43798381	5	5.2	5	100	0	52	19	19	19	42	1.90
43799797--43799825	15	1.9	15	100	0	58	55	6	0	37	1.27
43811051--43811199	60	2.5	61	80	1	174	48	14	25	11	1.76
43812404--43812571	50	3.4	50	74	0	183	28	21	26	23	1.99
43812565--43812808	132	1.8	132	92	1	409	29	18	23	28	1.98
43812671--43812768	44	2.2	44	81	0	106	27	19	24	28	1.98
43812575--43812852	132	2.1	132	85	2	362	29	20	23	27	1.99
43812752--43813004	44	5.8	44	73	7	185	29	22	22	26	1.99
43819332--43819365	15	2.4	14	85	5	50	67	2	11	17	1.34
43819434--43819487	19	2.8	20	71	21	60	68	0	3	27	1.06
43819486--43819526	19	2.1	19	86	9	55	41	0	4	53	1.22
43820173--43820221	26	1.9	25	84	12	64	28	2	2	67	1.13
43821049--43821111	30	2.1	30	96	0	117	26	3	12	57	1.51
43821225--43821258	12	2.8	12	90	0	50	67	0	0	32	0.91
43831043--43831068	12	2.2	12	100	0	52	34	0	0	65	0.93
43842000--43842032	2	16.5	2	93	0	57	48	3	0	48	1.17
43846516--43846638	29	4.2	29	81	6	133	25	14	21	38	1.92
43846519--43846650	58	2.3	58	81	5	153	25	14	23	37	1.92
43850725--43850803	39	2.0	39	87	4	115	30	6	11	51	1.62
43851406--43851456	13	3.9	14	78	21	58	23	0	1	74	0.92
43851407--43851455	25	2.0	25	87	0	71	24	0	2	73	0.94
43855442--43855494	26	2.0	26	85	7	72	15	1	5	77	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43855447--43855502	26	2.2	25	81	9	60	16	3	3	76	1.06
43857112--43857154	6	6.5	6	80	19	50	13	2	4	79	1.00
43857396--43857426	10	3.1	10	90	0	53	25	9	12	51	1.70
43857701--43857874	61	2.9	61	85	0	233	27	24	16	31	1.96
43859793--43859829	19	1.9	19	94	0	65	64	8	0	27	1.21
43862222--43862246	10	2.5	10	100	0	50	60	0	8	32	1.26
43863183--43863220	17	2.2	17	100	0	76	28	10	10	50	1.70
43871090--43871130	14	2.6	17	74	18	52	29	9	26	34	1.88
43875506--43875611	20	5.3	20	67	10	65	37	22	21	17	1.94
43875495--43875700	40	5.2	40	76	4	157	35	22	22	19	1.96
43875537--43875691	80	1.9	80	81	5	188	34	21	23	20	1.96
43875626--43875691	20	3.3	20	66	8	53	36	27	24	12	1.91
43883478--43883672	96	2.0	96	98	0	381	29	12	18	38	1.88
43884635--43884676	21	2.0	21	85	0	57	33	2	2	61	1.21
43888169--43888212	18	2.4	18	85	7	54	65	0	6	27	1.17
43888178--43888213	18	1.9	19	94	5	65	63	0	5	30	1.17
43891523--43891630	9	11.6	9	85	7	117	35	35	8	21	1.83
43891637--43891734	17	5.4	17	64	13	52	51	12	3	33	1.55
43891631--43891743	37	3.1	37	94	1	192	48	13	4	33	1.62
43891784--43891842	24	2.5	24	94	0	100	30	27	0	42	1.56
43895340--43895373	16	2.1	16	100	0	68	50	11	0	38	1.39
43895340--43895383	16	2.6	16	89	7	52	47	11	0	40	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43896289--43896329	17	2.5	17	92	4	66	26	4	31	36	1.78
43922174--43922254	37	2.3	35	80	15	96	33	27	11	28	1.91
43922470--43922649	41	4.4	41	87	2	236	21	28	21	28	1.98
43929138--43929285	41	3.6	41	84	0	197	19	28	18	33	1.95
43929909--43930129	63	3.5	63	81	2	239	33	32	9	24	1.87
43942515--43942606	40	2.3	38	83	9	121	34	18	22	23	1.96
43942653--43942799	41	3.6	40	80	8	163	23	21	25	28	1.99
43943251--43943275	13	1.9	13	100	0	50	8	0	60	32	1.26
43943264--43943406	76	1.9	76	92	2	245	29	0	27	43	1.55
43943384--43943441	7	8.3	7	84	0	53	22	0	43	34	1.54
43943387--43943437	20	2.5	20	83	6	57	19	0	47	33	1.50
43943390--43943441	21	2.5	22	78	9	63	21	0	44	34	1.52
43943390--43943442	7	7.6	7	81	8	54	20	0	45	33	1.52
43943390--43943442	13	3.8	14	75	9	54	20	0	45	33	1.52
43943570--43943599	14	2.1	14	93	0	51	20	0	50	30	1.49
43947568--43947837	43	6.3	43	86	3	321	29	33	18	18	1.95
43954170--43954242	38	1.9	38	86	5	103	32	45	1	20	1.60
43954170--43954238	7	9.1	7	74	13	57	31	46	1	20	1.60
43954190--43954277	15	5.9	15	75	9	56	37	42	0	20	1.52
43954191--43954240	23	2.1	24	92	3	84	36	48	0	16	1.46
43954577--43954689	41	2.8	41	91	0	181	30	26	22	20	1.98
43954747--43954862	40	2.9	39	80	8	110	22	18	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43956476--43956587	41	2.7	42	81	12	131	18	16	29	35	1.93
43957212--43957242	13	2.4	13	94	0	53	22	32	32	12	1.92
43961577--43961628	20	2.5	21	84	9	72	42	21	23	13	1.88
43973988--43974041	3	18.0	3	94	0	90	62	0	35	1	1.06
43974057--43974121	24	2.7	23	69	9	58	70	0	26	3	1.01
43974158--43974204	20	2.2	20	82	14	51	14	0	10	74	1.07
43974329--43974477	76	1.9	77	86	4	212	30	3	11	54	1.52
43974407--43974509	40	2.6	40	74	17	99	33	3	6	56	1.44
43974287--43974504	76	2.8	77	73	9	192	35	3	9	51	1.52
43974485--43974521	3	12.3	3	100	0	74	32	0	0	67	0.91
43977067--43977126	29	2.1	29	93	0	102	21	15	5	58	1.56
43977236--43977814	152	3.6	158	88	8	849	28	10	8	52	1.65
43977801--43977832	17	1.9	17	93	6	57	9	9	6	75	1.20
43977967--43978005	20	2.0	20	95	5	71	71	7	0	20	1.10
43978045--43978136	6	14.5	6	78	13	51	0	39	2	58	1.10
43978084--43978131	9	5.0	9	80	14	51	0	39	0	60	0.97
43978129--43978205	10	7.7	10	79	0	82	1	29	0	68	0.97
43978121--43978205	30	2.8	30	98	0	161	1	30	0	68	0.97
43978081--43978211	20	6.3	20	77	12	97	0	35	0	64	0.99
43981428--43981530	33	3.2	33	62	22	81	49	6	9	33	1.62
43981695--43981786	45	2.1	44	83	2	112	35	28	5	30	1.80
43981766--43981801	16	2.2	16	95	0	63	38	33	0	27	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43987618--43987648	16	1.9	16	93	0	53	32	0	9	58	1.31
43997294--43997489	29	6.8	29	82	5	209	21	28	13	36	1.92
43997292--43997463	59	3.0	58	86	4	240	21	29	13	36	1.91
43997294--43997489	88	2.3	86	87	5	270	21	28	13	36	1.92
44000697--44000775	27	3.0	26	83	7	104	17	17	24	40	1.91
44005232--44005451	29	7.6	29	78	5	201	22	26	11	39	1.89
44005225--44005477	58	4.3	58	78	5	249	22	26	13	38	1.90
44005690--44005733	23	1.9	23	95	0	79	36	9	0	54	1.32
44008892--44009032	50	2.8	51	83	4	178	28	26	20	24	1.99
44011745--44011826	42	2.0	42	85	4	112	30	24	14	30	1.95
44013158--44013513	43	8.3	43	82	2	383	31	30	16	22	1.95
44016123--44016168	21	2.2	21	84	7	58	23	2	50	23	1.61
44017353--44017425	33	2.2	33	85	0	101	34	42	4	19	1.70
44018232--44018555	41	7.9	41	89	0	450	30	27	21	21	1.98
44018591--44018725	40	3.4	39	80	6	148	20	20	22	37	1.95
44025506--44025576	25	2.8	24	78	16	72	23	25	16	33	1.96
44025529--44025621	25	3.7	25	76	8	73	29	24	17	29	1.97
44026734--44026763	16	1.9	16	93	6	53	30	0	20	50	1.49
44034880--44034904	11	2.3	11	100	0	50	16	8	44	32	1.76
44034943--44035001	11	5.5	11	92	4	95	18	11	44	25	1.84
44040262--44040362	48	2.1	48	96	0	184	25	23	18	31	1.98
44041847--44041894	20	2.4	20	89	6	71	27	33	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44043126--44043651	262	2.0	262	94	0	928	34	22	13	29	1.93
44045090--44045127	15	2.5	15	87	12	51	42	7	26	23	1.81
44045958--44046021	30	2.1	30	85	0	83	32	31	21	14	1.93
44047158--44047325	29	5.8	29	82	5	171	21	27	13	37	1.91
44048660--44048693	11	3.0	11	91	4	50	52	5	0	41	1.25
44051247--44051328	39	2.0	40	86	9	114	64	4	1	29	1.22
44051173--44051294	24	5.0	24	71	14	81	65	6	1	26	1.26
44051137--44051328	38	4.9	39	71	18	125	63	5	2	28	1.30
44051359--44051448	26	3.4	25	87	4	108	63	3	2	31	1.23
44052946--44053141	44	4.5	44	79	3	153	28	21	19	29	1.98

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   199   200   201   202   203   204   205   206