genome.fa.s4.2.7.7.80.10.50.1000.161.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  161  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)
50780474--50780510	16	2.3	16	86	13	58	40	0	0	59	0.97
50785302--50785343	22	2.0	22	86	9	61	14	28	14	42	1.84
50786250--50786287	20	1.9	19	89	5	58	55	2	0	42	1.14
50789701--50789751	9	6.0	8	84	6	57	49	0	1	49	1.12
50789671--50789751	34	2.3	35	83	10	94	44	0	4	50	1.23
50789693--50789749	18	3.3	18	78	14	66	47	0	1	50	1.11
50789694--50789761	34	2.0	34	83	11	86	50	1	1	47	1.19
50792668--50792724	28	2.0	28	100	0	114	38	24	10	26	1.88
50794951--50795017	27	2.5	27	82	0	89	13	19	16	50	1.77
50795997--50796030	17	2.1	17	88	5	52	50	0	17	32	1.47
50796913--50797012	42	2.4	42	91	0	155	38	10	26	26	1.87
50802070--50802178	58	1.9	57	88	1	164	38	13	5	42	1.68
50806556--50806608	26	2.0	26	100	0	106	24	22	7	45	1.78
50810277--50810317	3	13.7	3	94	0	64	0	60	0	39	0.96
50810268--50810308	18	2.3	18	95	0	73	2	56	0	41	1.13
50815966--50815992	2	13.5	2	100	0	54	0	51	0	48	1.00
50817285--50817324	20	2.0	21	90	5	64	47	20	2	30	1.63
50818826--50818850	13	1.9	13	100	0	50	8	8	20	64	1.46
50819143--50819176	17	1.9	18	88	5	52	58	5	0	35	1.22
50819554--50819591	20	1.9	20	88	0	58	76	2	2	18	1.02
50820533--50820586	23	2.3	24	79	17	60	25	11	7	55	1.61
50821595--50821938	46	7.6	46	93	2	590	28	22	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50821595--50821938	91	3.8	91	95	1	602	28	22	15	33	1.95
50821595--50821938	137	2.5	137	94	2	588	28	22	15	33	1.95
50824151--50824429	96	2.9	97	91	3	442	40	1	17	39	1.61
50826210--50826401	50	3.8	50	81	3	190	27	25	18	28	1.98
50827710--50827734	11	2.3	11	100	0	50	48	8	0	44	1.32
50828303--50828356	26	2.1	26	85	0	72	25	5	9	59	1.50
50828927--50828971	17	2.6	17	85	3	54	22	4	13	60	1.51
50830086--50830135	25	2.0	24	81	11	57	62	2	4	32	1.25
50833341--50833394	25	2.2	24	87	9	74	40	1	0	57	1.09
50833876--50834170	114	2.6	115	85	3	373	23	20	28	27	1.99
50834835--50834892	27	2.1	27	81	6	64	24	0	22	53	1.46
50835554--50835901	146	2.4	145	78	5	360	28	14	21	35	1.93
50835980--50836023	23	1.9	23	90	0	70	31	38	4	25	1.76
50837994--50838258	42	6.3	42	75	5	194	29	19	20	30	1.97
50838097--50838208	41	2.7	42	88	1	163	33	24	21	21	1.98
50845040--50845075	14	2.5	15	90	4	56	47	0	0	52	1.00
50845241--50845293	25	2.2	24	86	3	70	30	1	5	62	1.29
50850553--50850665	60	1.9	60	87	3	165	15	26	21	37	1.92
50851258--50851346	44	2.0	44	97	0	169	40	31	11	16	1.84
50855950--50855993	22	1.9	23	81	9	54	27	13	13	45	1.81
50866260--50866399	40	3.7	37	72	18	92	26	20	21	31	1.98
50866224--50866403	75	2.4	75	80	5	211	25	21	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50867187--50867370	66	2.8	66	80	4	192	21	25	25	27	2.00
50869956--50870431	44	10.5	45	72	11	285	32	19	19	28	1.96
50869956--50870225	132	2.0	132	82	2	337	34	17	18	28	1.94
50869956--50870433	132	3.5	132	74	10	331	32	19	19	28	1.96
50873094--50873123	2	15.0	2	92	0	51	46	0	3	50	1.18
50874634--50874923	141	2.1	140	80	5	316	27	21	20	31	1.98
50886144--50886219	23	3.3	23	90	0	125	31	26	19	22	1.98
50886445--50886483	18	2.2	17	86	13	53	46	20	0	33	1.51
50889898--50889931	17	1.9	18	88	5	52	35	26	0	38	1.57
50892535--50892564	2	15.0	2	92	0	51	46	0	3	50	1.18
50893294--50893325	14	2.1	16	88	11	50	3	18	3	75	1.08
50893329--50893400	5	14.4	5	75	20	62	56	4	0	38	1.18
50893330--50893372	19	2.3	19	92	8	70	58	0	0	41	0.98
50893336--50893401	24	2.7	25	81	9	73	59	4	0	36	1.18
50895040--50895079	12	3.3	12	80	13	55	55	22	12	10	1.67
50895031--50895079	24	2.0	24	100	0	98	51	24	12	12	1.73
50896394--50896465	25	2.9	25	84	12	94	34	19	23	22	1.96
50901838--50901943	54	2.0	54	92	0	176	33	20	13	33	1.91
50902214--50902247	16	2.1	17	88	5	52	14	58	0	26	1.36
50906418--50906471	19	2.6	22	77	19	62	44	1	7	46	1.42
50908370--50908420	17	2.9	17	77	5	57	15	17	33	33	1.92
50911274--50911428	85	1.8	85	87	4	233	34	25	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50911286--50911468	41	4.4	41	79	8	154	33	25	14	26	1.95
50924548--50924608	17	3.5	17	80	8	70	14	16	31	37	1.89
50924563--50924612	18	2.8	18	87	6	66	14	20	30	36	1.91
50946468--50946500	2	16.5	2	100	0	66	51	0	48	0	1.00
50947813--50947862	22	2.3	22	82	6	66	46	0	0	54	1.00
50949437--50949510	37	2.0	37	100	0	148	48	27	2	21	1.63
50953351--50953394	23	1.9	23	86	9	63	47	0	2	50	1.13
50953319--50953396	23	3.3	22	75	21	61	50	0	1	48	1.09
50962974--50963017	23	1.9	23	86	9	63	63	6	4	25	1.38
50965273--50965334	29	2.1	31	84	6	83	56	1	0	41	1.09
50965573--50965623	22	2.3	21	80	9	57	35	0	5	58	1.22
50977954--50978097	44	3.2	43	66	20	105	46	2	3	47	1.34
50977951--50978107	47	3.4	46	73	18	146	46	2	3	47	1.32
50978238--50978279	15	2.7	16	82	14	52	45	0	2	52	1.13
50978229--50978270	15	2.9	15	82	10	52	47	0	0	52	1.00
50978407--50978510	43	2.5	40	76	13	111	31	28	4	34	1.78
50983720--50983756	2	18.5	2	100	0	74	48	0	0	51	1.00
50985241--50985303	3	20.7	3	84	9	83	28	4	1	65	1.22
50989657--50989688	7	4.6	7	100	0	64	87	0	12	0	0.54
50989656--50989694	14	2.9	13	88	7	60	82	0	15	2	0.79
50991011--50991283	100	2.7	100	94	0	474	28	20	23	26	1.99
50991011--50991250	50	4.8	50	68	4	187	29	20	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50991420--50991573	50	3.1	50	73	5	159	28	21	25	24	1.99
50991431--50991589	50	3.2	51	73	10	157	29	20	25	24	1.99
50991384--50991573	100	1.9	100	89	4	294	27	22	24	24	2.00
50991586--50991767	44	4.1	44	67	10	111	29	18	25	26	1.98
50991583--50991935	132	2.8	126	84	6	430	27	17	24	29	1.97
50991720--50991953	122	1.9	122	89	0	360	26	18	23	31	1.97
50993432--50993492	3	19.7	3	86	6	86	29	4	1	63	1.24
50993619--50993662	2	22.5	2	90	4	72	47	0	2	50	1.13
51002077--51002106	15	2.0	15	93	0	51	60	0	3	36	1.14
51009385--51009423	19	2.0	20	85	5	53	25	0	7	66	1.18
51009752--51009790	20	2.0	20	85	10	53	25	2	7	64	1.33
51009763--51009880	10	12.4	10	73	13	63	29	3	1	65	1.19
51009774--51009847	19	3.8	18	68	19	51	33	2	2	60	1.25
51010469--51010506	18	2.1	18	85	9	51	2	18	0	78	0.86
51026341--51026384	23	2.0	22	90	4	70	52	4	0	43	1.22
51028038--51028139	49	2.1	49	96	0	186	40	11	5	42	1.66
51030228--51030255	10	2.8	10	100	0	56	10	17	21	50	1.77
51031549--51031575	14	1.9	14	100	0	54	37	3	14	44	1.63
51033452--51033485	17	2.0	17	100	0	68	23	23	11	41	1.87
51033754--51033817	32	2.0	32	96	0	119	40	14	23	21	1.90
51038716--51038942	113	2.0	113	98	0	436	35	20	17	26	1.94
51041787--51042169	189	2.0	189	90	3	601	23	26	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51044109--51044165	29	1.9	29	82	3	69	54	10	12	22	1.68
51045012--51045054	11	3.8	11	80	17	52	30	2	2	65	1.18
51045015--51045058	23	1.9	23	90	0	70	31	2	4	61	1.28
51046379--51046425	2	23.5	2	100	0	94	51	0	0	48	1.00
51047740--51047797	20	2.8	21	84	10	66	55	3	1	39	1.27
51047779--51047879	11	9.4	11	74	15	95	58	0	2	38	1.13
51047765--51047840	32	2.4	31	91	4	134	59	0	2	38	1.12
51047823--51047899	31	2.5	30	95	2	136	59	0	1	38	1.06
51047779--51047879	42	2.3	43	96	3	186	58	0	2	38	1.13
51047780--51047901	11	11.5	11	72	8	83	57	0	2	40	1.12

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