genome.fa.s6.2.7.7.80.10.50.1000.90.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  90  of  168  ( 20060 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)
26757960--26758460	249	2.0	250	94	1	880	35	10	26	27	1.90
26759585--26759638	14	3.7	14	72	18	56	25	0	12	61	1.32
26759590--26759655	30	2.1	32	91	5	109	24	0	16	59	1.37
26760609--26760733	18	6.6	18	73	15	83	68	1	21	8	1.24
26760613--26760745	57	2.3	56	80	10	137	68	2	21	8	1.27
26766413--26766455	13	3.1	13	75	18	50	53	20	9	16	1.70
26766526--26766559	16	2.1	16	94	0	59	44	8	5	41	1.60
26768401--26768533	6	21.7	6	68	3	59	7	22	3	66	1.31
26768404--26768440	14	2.7	14	84	15	51	8	16	0	75	1.02
26768387--26768531	18	7.6	18	70	13	83	8	22	2	65	1.34
26770527--26770631	46	2.3	46	88	0	156	35	27	6	30	1.83
26770527--26770631	23	4.6	23	81	0	129	35	27	6	30	1.83
26772577--26772605	13	2.2	13	100	0	58	51	24	10	13	1.72
26772674--26772707	16	2.1	16	88	0	50	47	8	2	41	1.50
26778212--26778272	30	2.0	30	93	0	104	39	16	8	36	1.78
26778872--26778951	40	2.0	40	100	0	160	22	20	10	47	1.79
26787137--26787320	60	3.1	60	84	0	235	32	23	17	26	1.97
26789326--26789522	63	3.1	63	80	4	184	32	21	20	24	1.97
26789636--26789708	33	2.2	33	95	0	128	42	21	12	23	1.87
26789691--26789733	18	2.4	18	88	0	59	39	25	9	25	1.85
26800431--26800487	30	1.9	30	100	0	114	36	17	7	38	1.77
26800432--26800496	30	2.1	30	88	2	94	40	15	6	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26807002--26807160	77	2.1	77	95	0	282	37	16	19	27	1.93
26808434--26808473	21	1.9	21	94	0	71	40	22	7	30	1.81
26809574--26809723	60	2.5	60	85	0	201	32	26	17	24	1.96
26809574--26809757	60	3.1	60	82	2	174	32	24	17	25	1.97
26821046--26821348	27	11.3	27	80	6	228	36	21	21	20	1.95
26821060--26821338	53	5.2	53	80	5	258	36	21	22	20	1.95
26821060--26821348	80	3.6	81	78	6	284	36	21	21	20	1.95
26821393--26821458	24	2.8	24	81	6	73	21	7	24	46	1.76
26821533--26821590	27	2.1	27	81	12	66	20	24	20	34	1.97
26821636--26821748	32	3.5	32	85	2	147	23	21	20	35	1.96
26821636--26821818	32	5.7	32	81	5	140	22	21	19	36	1.95
26821636--26821755	64	1.9	64	84	6	163	24	21	19	35	1.96
26821888--26821940	26	2.0	26	81	0	61	20	26	18	33	1.96
26823617--26823754	62	2.2	63	81	8	167	32	26	19	21	1.97
26825302--26825361	18	3.0	20	71	14	52	31	18	25	25	1.97
26825438--26825510	33	2.2	33	92	0	119	42	20	12	24	1.86
26827350--26827630	27	10.4	27	82	1	321	43	20	17	18	1.88
26829412--26829595	101	1.8	102	86	3	273	23	17	26	33	1.96
26829412--26829595	51	3.6	51	76	9	144	23	17	26	33	1.96
26829513--26829613	51	2.0	51	80	0	112	24	17	24	32	1.97
26829600--26829694	45	2.1	45	90	0	154	26	17	24	31	1.97
26837996--26838039	22	2.0	21	83	12	54	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26843086--26843173	28	3.1	28	83	6	106	23	26	21	28	1.99
26847110--26847233	50	2.5	50	82	0	149	29	24	26	20	1.99
26847651--26847689	20	2.0	20	90	10	62	15	23	5	56	1.59
26847953--26848072	50	2.4	50	80	0	132	22	30	20	26	1.99
26848543--26849401	283	3.0	287	90	2	1311	38	16	13	31	1.88
26855709--26855747	20	2.0	20	90	10	62	15	23	5	56	1.59
26856013--26856132	50	2.4	50	81	0	141	22	30	20	26	1.99
26871403--26871635	45	5.2	45	95	0	403	25	21	15	37	1.92
26877881--26878113	45	5.2	45	96	0	412	25	20	15	38	1.92
26880478--26880517	18	2.3	17	83	8	53	77	2	15	5	1.04
26892966--26892998	15	2.1	16	88	5	50	9	15	0	75	1.03
26892965--26893009	21	2.1	21	88	8	65	8	17	0	73	1.08
26897889--26897932	22	2.0	22	90	0	70	25	34	4	36	1.76
26898146--26898190	19	2.3	20	84	7	65	77	2	13	6	1.05
26898209--26898238	15	2.1	15	93	6	53	73	0	20	6	1.05
26901199--26901257	30	2.0	30	86	6	84	32	25	13	28	1.94
26902389--26902432	22	2.0	22	90	0	70	25	34	4	36	1.76
26915530--26915658	50	2.6	50	86	2	170	27	20	27	24	1.99
26915911--26915949	20	2.0	20	90	10	62	56	5	23	15	1.59
26919227--26919254	9	3.1	9	100	0	56	53	0	25	21	1.46
26924049--26924190	50	2.8	50	79	0	167	28	20	28	22	1.98
26930250--26930362	40	2.8	39	81	5	136	36	15	26	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26931651--26931756	54	2.0	54	82	0	131	19	29	25	25	1.99
26932429--26932602	40	4.3	40	82	0	204	32	16	29	20	1.95
26932506--26932568	20	3.2	20	68	8	56	30	12	34	22	1.91
26933148--26933213	33	2.0	34	87	3	98	28	24	22	24	1.99
26933317--26933387	26	2.7	26	86	0	106	33	25	26	14	1.94
26933549--26934216	27	24.6	27	82	5	675	16	19	21	43	1.88
26933548--26934216	82	8.2	81	84	3	736	16	18	21	43	1.88
26938355--26938402	20	2.6	18	87	9	62	6	18	0	75	1.01
26940481--26940519	15	2.5	16	79	4	53	20	10	2	66	1.33
26940480--26940521	16	2.6	16	74	11	50	21	9	2	66	1.32
26961834--26961879	13	3.6	13	82	8	51	69	4	8	17	1.31
26961859--26961898	17	2.5	15	88	11	62	80	2	7	10	1.00
26961860--26961898	16	2.4	16	95	4	69	82	2	5	10	0.93
26964125--26964171	19	2.4	19	89	3	67	78	2	12	6	1.02
26973706--26973783	38	2.1	38	97	0	147	41	7	24	26	1.82
26973862--26973903	20	2.2	20	87	12	61	57	4	21	16	1.58
26984759--26984825	35	1.9	35	82	11	84	32	7	20	38	1.81
26986869--26986900	12	2.6	13	85	14	50	37	0	6	56	1.25
26989045--26989343	102	3.0	101	91	2	462	19	19	28	33	1.96
26990219--26990361	49	2.9	49	90	1	214	24	14	27	33	1.94
26991947--26992095	24	6.0	23	74	16	106	57	1	9	32	1.39
26991951--26992067	36	3.2	36	86	7	164	56	1	10	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26991964--26992078	12	9.5	12	75	15	94	57	0	9	32	1.37
27004059--27004123	10	6.5	10	69	13	53	36	0	3	60	1.13
27004060--27004112	11	4.8	11	79	6	54	35	0	3	60	1.15
27007279--27007329	20	2.7	18	80	11	66	47	9	39	3	1.55
27015530--27015563	16	2.1	17	88	5	52	38	11	5	44	1.65
27021611--27021679	26	2.7	26	95	0	129	24	34	23	17	1.96
27025637--27025682	19	2.3	20	81	7	58	34	19	10	34	1.87
27025648--27025685	19	2.0	19	100	0	76	36	26	10	26	1.89
27027184--27027224	16	2.6	16	96	0	73	48	0	31	19	1.49
27050861--27050922	26	2.4	26	84	12	76	59	0	3	37	1.13
27050858--27050991	34	3.7	35	88	8	198	59	0	2	36	1.18
27050911--27050977	11	6.8	10	74	17	52	52	1	4	41	1.31
27051612--27051725	47	2.3	49	82	7	135	38	23	13	24	1.90
27051597--27051725	48	2.6	49	78	10	147	38	24	12	24	1.90
27061000--27061330	27	12.3	27	86	1	423	17	19	19	43	1.88
27061001--27061330	81	4.1	81	88	3	470	17	19	19	43	1.88
27063074--27063239	79	2.1	79	93	1	280	24	24	24	26	2.00
27063227--27063340	27	4.2	27	82	0	138	28	22	13	35	1.92
27063231--27063333	54	1.9	54	87	0	152	25	23	11	39	1.88
27063792--27063917	61	2.1	61	95	0	225	33	20	9	36	1.85
27069053--27069125	26	2.8	26	85	0	101	41	31	10	16	1.83
27069701--27069790	42	2.1	42	97	0	171	41	21	6	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27086303--27086338	16	2.2	17	90	5	56	36	0	52	11	1.37
27090348--27090387	20	2.0	20	90	9	64	55	5	0	40	1.22
27096208--27096392	101	1.8	102	89	3	293	24	16	26	32	1.96
27096208--27096390	51	3.6	50	79	7	183	24	16	26	32	1.96
27096401--27096488	46	2.0	44	84	8	115	23	18	25	32	1.97
27096612--27096643	16	2.0	16	93	0	55	59	0	15	25	1.36
27099987--27100022	16	2.2	17	90	5	56	36	0	52	11	1.37
27102535--27102754	45	5.0	45	82	6	243	35	24	14	25	1.93
27102535--27102757	89	2.5	89	80	7	256	34	25	14	25	1.94
27113762--27113795	12	2.9	12	91	4	52	32	38	0	29	1.58

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