genome.fa.s6.2.7.7.80.10.50.1000.68.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  68  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)
19908556--19908828	136	2.0	136	96	0	501	32	21	19	26	1.97
19913151--19913284	54	2.5	54	83	2	171	34	26	17	21	1.95
19915212--19915247	18	2.0	18	94	0	63	30	5	11	52	1.59
19939137--19939177	6	6.7	6	88	5	55	0	0	21	78	0.76
19939137--19939177	19	2.2	18	86	4	55	0	0	21	78	0.76
19951120--19951848	363	2.0	362	92	0	1206	40	18	22	18	1.92
19953810--19953862	26	2.0	26	89	7	81	18	22	33	24	1.97
19953839--19953990	42	3.6	43	75	10	152	23	19	24	32	1.97
19957397--19957463	34	2.0	34	82	8	84	29	23	25	20	1.99
19960160--19960247	20	4.3	20	77	10	81	35	1	6	56	1.33
19967375--19967410	17	2.2	17	90	5	56	11	19	5	63	1.46
19970057--19970137	34	2.4	34	95	0	144	27	23	20	28	1.99
19970079--19970144	34	2.1	30	81	15	73	30	19	21	28	1.98
19970619--19970654	17	2.1	17	89	5	54	19	44	25	11	1.83
19972156--19972188	15	2.2	15	94	0	57	15	24	6	54	1.63
19977056--19977112	29	2.0	29	82	6	71	47	3	5	43	1.43
19977249--19977458	105	2.0	105	98	0	402	32	21	15	30	1.94
19981604--19981653	26	1.9	26	92	8	84	34	14	10	42	1.78
19985380--19985418	20	2.0	20	100	0	78	66	0	2	30	1.05
19986002--19986092	48	1.9	46	88	4	137	40	4	2	52	1.33
19990106--19990156	25	2.0	25	100	0	102	43	3	19	33	1.70
19996637--19996782	73	2.0	74	94	1	258	21	11	15	51	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20000691--20000715	2	12.5	2	100	0	50	52	0	48	0	1.00
20007149--20007203	22	2.3	25	81	12	71	30	0	3	65	1.10
20007151--20007203	24	2.3	22	87	6	70	30	0	3	66	1.10
20011647--20011713	25	2.7	25	76	0	71	35	19	26	17	1.94
20011717--20011801	25	3.3	25	79	9	100	34	22	24	18	1.96
20011705--20011809	25	4.2	26	76	12	94	35	21	24	18	1.96
20016174--20016231	27	2.1	27	81	12	66	51	3	8	36	1.49
20027817--20027882	28	2.4	28	86	0	96	30	24	24	21	1.99
20027835--20027897	28	2.2	28	88	0	90	34	19	17	28	1.94
20032491--20032523	5	6.6	5	100	0	66	78	0	0	21	0.75
20034632--20034750	58	2.1	58	86	0	166	36	11	20	31	1.88
20042631--20042693	29	2.2	29	88	0	90	28	23	20	26	1.99
20043218--20043276	29	2.0	29	86	0	82	23	22	25	28	1.99
20043396--20043425	15	2.0	15	93	0	51	56	6	13	23	1.60
20046814--20046839	13	2.0	13	100	0	52	38	0	0	61	0.96
20050783--20050899	50	2.3	50	83	5	137	35	13	17	32	1.89
20059600--20059637	19	2.0	19	85	10	51	21	42	0	36	1.53
20065200--20065250	26	2.0	26	96	0	93	15	23	31	29	1.95
20065226--20065545	85	3.8	84	83	3	365	24	17	25	33	1.96
20065226--20065503	43	6.5	42	72	11	192	24	17	25	33	1.96
20067998--20068044	23	2.0	23	100	0	94	29	29	12	27	1.93
20071215--20071250	14	2.6	14	90	0	54	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20077003--20077167	69	2.4	70	86	2	224	26	26	16	30	1.96
20080084--20080325	50	4.7	50	82	3	277	22	28	21	27	1.99
20085438--20085464	14	1.9	14	100	0	54	7	18	0	74	1.05
20088539--20088598	20	2.9	21	85	9	79	15	25	15	45	1.84
20088539--20088601	21	3.0	21	86	9	85	14	23	15	46	1.83
20094196--20094315	48	2.5	48	84	6	172	38	19	18	24	1.93
20102673--20102746	26	2.9	25	86	6	103	20	20	22	36	1.95
20102878--20102908	9	3.4	9	90	0	53	25	12	22	38	1.90
20103200--20103258	30	2.0	31	86	6	86	22	38	0	38	1.54
20104108--20104190	27	3.0	29	85	8	127	21	22	25	30	1.99
20104108--20104215	27	3.7	30	81	8	100	23	23	25	28	1.99
20107549--20107588	21	2.0	21	85	14	57	17	0	5	77	0.94
20119427--20119952	45	11.8	45	87	1	718	29	15	23	31	1.95
20120461--20120510	22	2.3	22	80	12	59	46	38	4	12	1.60
20130314--20130409	48	2.0	48	93	0	165	27	13	15	43	1.84
20133708--20133737	12	2.5	12	94	0	51	23	40	30	6	1.80
20139358--20139414	27	2.0	27	86	10	78	64	5	3	26	1.30
20142262--20142408	35	4.2	35	78	5	145	31	17	20	29	1.96
20143982--20144175	34	5.6	35	71	6	124	31	13	20	34	1.91
20144061--20144259	34	5.8	34	71	9	127	40	10	19	29	1.85
20144039--20144243	103	2.0	103	80	3	234	37	11	19	31	1.87
20147629--20147662	6	5.5	6	96	3	59	0	14	0	85	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20154004--20154033	14	2.1	14	93	0	51	40	0	13	46	1.43
20160973--20161036	27	2.4	26	82	10	76	15	6	1	76	1.06
20160983--20161035	8	6.2	8	83	12	61	13	5	1	79	0.99
20160974--20161034	17	3.5	17	78	14	61	14	4	1	78	0.99
20164028--20164054	14	1.9	14	100	0	54	18	14	14	51	1.76
20165259--20165288	14	2.1	14	93	0	51	40	0	13	46	1.43
20167830--20167872	20	2.2	20	100	0	86	44	4	9	41	1.57
20182131--20182264	72	1.9	72	88	0	205	39	19	7	33	1.80
20187989--20188013	2	12.5	2	100	0	50	52	0	0	48	1.00
20189456--20189546	47	2.0	44	83	14	114	23	0	27	49	1.50
20189517--20189640	33	3.9	31	80	8	142	37	0	16	45	1.48
20189533--20189640	30	3.5	29	76	15	101	41	0	13	44	1.44
20189692--20189958	125	2.1	125	84	4	342	35	16	19	28	1.93
20190040--20190093	28	1.9	28	100	0	108	46	1	29	22	1.62
20193129--20193188	21	2.9	21	82	0	75	18	40	23	18	1.92
20193129--20193200	21	3.4	21	80	0	72	18	37	23	20	1.94
20197633--20197676	23	1.9	23	86	9	63	68	6	9	15	1.38
20200146--20200216	37	1.9	37	94	0	124	36	1	22	39	1.63
20204286--20204378	41	2.2	41	94	3	159	22	6	20	50	1.71
20207096--20207125	2	15.0	2	100	0	60	50	0	0	50	1.00
20209318--20209382	30	2.2	30	86	5	87	23	9	6	61	1.48
20209497--20209609	9	12.4	9	73	19	69	22	5	19	53	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20209497--20209582	37	2.3	37	82	11	97	22	4	20	52	1.65
20209497--20209653	63	2.5	62	81	7	163	23	4	19	52	1.64
20209600--20209629	15	1.9	16	93	6	53	23	0	26	50	1.50
20209702--20209736	16	2.2	16	90	5	54	25	2	14	57	1.51
20209714--20209898	69	2.7	69	88	0	282	25	2	15	56	1.51
20209771--20209908	24	5.8	25	72	22	111	27	2	14	55	1.51
20209702--20209908	9	23.4	9	65	22	77	26	1	15	56	1.50
20209933--20209957	13	1.9	13	100	0	50	32	4	16	48	1.64
20212506--20212553	20	2.4	20	89	0	78	33	14	22	29	1.94
20214337--20214379	18	2.4	18	88	0	68	9	20	2	67	1.30
20214364--20214406	6	7.2	6	83	0	59	4	16	2	76	1.05
20214337--20214406	18	4.2	18	74	20	62	8	18	2	70	1.26
20214283--20214403	30	3.9	30	76	7	118	9	21	1	66	1.29
20214716--20214744	14	2.0	15	93	6	51	6	27	13	51	1.66
20217174--20217217	20	2.2	20	95	0	79	34	13	22	29	1.93
20218642--20218719	40	2.0	40	100	0	156	11	30	17	39	1.86
20218617--20218707	20	4.5	21	72	16	77	14	28	18	38	1.90
20219124--20219180	13	4.4	13	82	4	53	45	0	22	31	1.53
20221258--20221326	29	2.4	29	95	0	129	24	2	24	47	1.65
20238233--20238274	16	2.7	16	82	10	52	66	0	9	23	1.21
20243314--20243431	45	2.6	45	82	6	141	45	16	18	19	1.85
20244747--20244836	42	2.1	42	85	4	119	24	23	30	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20250424--20250471	10	4.5	11	89	5	64	64	6	2	27	1.28
20250424--20250461	11	3.6	10	92	3	58	63	7	0	28	1.23
20250414--20250471	21	2.8	20	79	7	62	67	5	1	25	1.21
20255799--20255937	3	44.7	3	80	12	120	3	30	0	66	1.09
20259685--20259723	20	2.0	20	85	10	53	12	12	20	53	1.71
20263460--20263550	44	2.1	44	87	4	130	17	21	31	28	1.96
20264138--20264196	22	2.7	22	78	0	64	20	18	15	45	1.85
20275244--20275295	21	2.5	21	87	0	77	28	7	32	30	1.85
20276546--20276601	21	2.7	21	97	0	103	26	8	35	28	1.87
20276546--20276611	21	3.3	19	89	6	62	27	10	36	25	1.89

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