genome.fa.s6.2.7.7.80.10.50.1000.58.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  58  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)
16557941--16557996	23	2.4	23	96	0	103	26	50	3	19	1.64
16563426--16563770	173	2.0	172	97	0	654	37	14	14	33	1.87
16565213--16565246	15	2.1	16	89	10	52	55	5	0	38	1.24
16567049--16567086	2	19.0	2	100	0	76	50	0	0	50	1.00
16572237--16572317	31	2.6	31	94	0	126	28	9	17	44	1.80
16572304--16572335	14	2.3	14	100	0	64	28	12	21	37	1.90
16572273--16572366	45	2.1	45	97	0	179	29	10	18	41	1.84
16572318--16572705	31	12.6	31	86	2	496	30	9	16	43	1.80
16572242--16572390	76	2.0	76	94	0	262	29	10	17	42	1.82
16572318--16572705	92	4.2	93	84	1	496	30	9	16	43	1.80
16572318--16572705	123	3.1	123	85	2	528	30	9	16	43	1.80
16577925--16577971	12	4.0	12	77	5	51	4	23	0	72	1.02
16577931--16577966	16	2.2	16	90	5	54	5	22	0	72	1.05
16581981--16582099	27	4.4	27	85	6	170	34	16	14	34	1.89
16582382--16582456	34	2.3	31	86	9	96	30	21	24	24	1.99
16586250--16586288	20	2.0	20	94	0	69	53	2	0	43	1.14
16586257--16586348	37	2.4	36	79	12	96	53	3	2	41	1.29
16588638--16588667	15	2.0	15	93	0	51	66	10	6	16	1.41
16600883--16601320	124	3.5	125	88	4	589	29	18	23	28	1.98
16604434--16604572	22	6.2	22	72	20	110	21	0	36	41	1.53
16604441--16604506	27	2.4	28	84	5	89	21	0	36	42	1.53
16604441--16604534	41	2.3	42	79	7	120	20	0	37	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16604478--16604540	27	2.3	28	81	13	78	19	0	39	41	1.51
16604456--16604540	41	2.1	41	91	4	136	20	0	38	41	1.52
16604766--16604806	21	2.0	21	85	9	57	4	19	41	34	1.73
16605775--16605812	20	1.9	20	84	10	51	55	7	2	34	1.43
16606705--16606742	10	3.8	10	89	10	60	68	0	0	31	0.90
16606799--16606844	12	3.9	12	81	13	60	39	0	32	28	1.57
16606740--16606841	51	2.0	53	82	7	129	44	0	27	27	1.61
16610310--16610351	20	2.0	22	90	9	70	66	2	0	30	1.04
16611779--16611808	2	15.5	2	93	6	53	50	0	0	50	1.00
16628155--16628233	39	2.1	38	85	2	104	34	10	21	34	1.87
16632249--16632337	23	3.8	23	78	7	99	44	35	2	16	1.61
16632560--16632693	6	22.2	6	93	4	225	82	14	0	1	0.78
16632555--16632690	1	136.0	1	66	0	65	83	13	0	2	0.79
16644039--16644372	51	6.6	50	79	7	329	29	26	14	29	1.95
16644033--16644375	102	3.4	102	85	2	433	29	25	14	30	1.95
16650609--16650660	21	2.7	18	80	11	59	32	9	32	25	1.88
16654378--16654463	42	2.0	42	100	0	172	34	23	20	20	1.96
16659104--16659525	9	47.9	9	69	20	234	32	1	19	46	1.60
16659103--16659188	42	2.0	42	84	6	111	34	2	19	43	1.64
16659126--16659269	62	2.3	62	81	12	172	34	1	18	45	1.58
16659183--16659298	37	2.9	42	70	20	111	32	0	18	47	1.55
16659088--16659363	55	5.0	54	74	18	216	33	2	18	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16659217--16659451	44	4.9	46	71	23	153	33	2	17	46	1.60
16659254--16659460	62	3.4	61	74	15	194	33	1	17	46	1.59
16660770--16660854	31	2.7	32	89	5	120	43	23	15	17	1.87
16661553--16661652	20	5.0	20	95	0	182	42	5	43	10	1.60
16661552--16661652	40	2.5	40	100	0	202	42	4	42	9	1.59
16663947--16664158	113	1.9	114	82	3	266	28	22	16	32	1.96
16667207--16667236	16	1.9	15	93	6	51	53	6	6	33	1.53
16676585--16676734	27	5.6	27	81	1	86	25	33	21	20	1.97
16678601--16678636	18	2.0	18	88	0	54	41	13	8	36	1.75
16691954--16692004	12	4.2	12	75	9	59	64	1	33	0	1.05
16691935--16691983	21	2.4	21	86	3	64	71	0	28	0	0.86
16691951--16692000	24	2.1	24	85	7	66	66	2	32	0	1.03
16691936--16692004	36	1.9	36	90	0	111	66	1	31	0	1.00
16691936--16692022	36	2.4	36	84	1	102	64	3	31	1	1.17
16692531--16692580	26	1.9	26	84	8	66	36	20	4	40	1.71
16692774--16692833	28	2.1	28	81	0	66	30	16	1	51	1.54
16694739--16694763	13	1.9	13	100	0	50	0	20	0	80	0.72
16695788--16695835	19	2.4	21	93	6	82	33	4	0	62	1.14
16710428--16710479	20	2.5	22	85	14	76	36	3	3	55	1.36
16726862--16726925	34	1.9	33	90	3	101	26	25	18	29	1.98
16727484--16727521	20	2.0	20	89	5	60	18	39	21	21	1.93
16735588--16735621	18	1.9	17	88	5	50	17	32	0	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16736720--16736744	6	4.2	6	100	0	50	52	0	0	48	1.00
16747078--16747132	29	1.9	28	96	3	101	32	3	3	60	1.32
16747084--16747129	14	3.1	16	71	28	55	34	4	2	58	1.30
16747079--16747139	29	2.1	28	87	3	86	32	3	8	55	1.45
16749168--16749415	50	4.9	50	78	9	234	27	20	27	24	1.99
16749167--16749415	106	2.4	101	81	9	281	28	20	27	24	1.99
16749983--16750014	16	2.0	16	100	0	64	25	0	18	56	1.42
16759154--16759265	55	2.0	55	98	0	215	25	4	27	42	1.74
16760228--16760281	24	2.2	24	83	0	63	50	3	7	38	1.48
16760242--16760290	24	2.0	24	88	0	71	55	0	6	38	1.25
16761818--16761870	22	2.4	22	90	3	79	28	9	16	45	1.79
16762194--16762249	18	3.1	18	77	10	60	32	0	19	48	1.49
16762966--16763006	12	3.2	13	83	12	50	31	21	2	43	1.66
16788834--16789071	50	4.7	50	80	4	210	27	22	28	21	1.99
16799483--16799730	50	4.8	50	84	5	284	25	20	29	23	1.99
16805333--16805579	50	4.8	50	85	3	289	26	21	29	23	1.99
16805499--16805618	49	2.4	49	80	5	136	31	20	23	25	1.98
16811802--16811978	51	3.5	50	79	4	203	24	16	27	31	1.97
16820162--16820193	15	2.1	15	94	0	55	15	6	9	68	1.36
16821465--16821489	13	1.9	13	100	0	50	44	8	16	32	1.76
16821844--16821917	17	4.5	17	70	21	59	41	4	1	52	1.28
16821827--16821920	48	2.0	48	87	4	136	41	3	2	53	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16821948--16822006	28	2.1	29	83	3	75	50	1	5	42	1.34
16831293--16831409	37	3.3	36	72	19	104	40	1	4	53	1.30
16836675--16836795	61	2.0	63	83	6	158	51	5	17	25	1.67
16840207--16840263	20	2.9	20	78	2	71	38	1	0	59	1.08
16840247--16840297	21	2.4	20	79	20	59	27	0	3	68	1.07
16840249--16840298	22	2.3	22	83	16	68	26	0	4	70	1.05
16840641--16840677	17	2.1	18	90	5	58	40	0	0	59	0.97
16841368--16841468	50	2.0	50	100	0	202	48	13	11	25	1.77
16842946--16842970	13	1.9	13	100	0	50	36	0	0	64	0.94
16843138--16843178	21	1.9	22	90	5	66	26	2	9	60	1.40
16847807--16847863	22	2.7	21	81	5	71	63	0	1	35	1.05
16847823--16847861	10	3.6	11	83	16	55	61	0	2	35	1.10
16849162--16849525	168	2.2	169	87	4	522	33	12	14	39	1.83
16857272--16857307	18	2.0	18	100	0	72	44	11	16	27	1.82
16858314--16858352	20	2.0	20	84	0	51	58	2	0	38	1.12
16858310--16858355	24	1.9	24	82	8	58	60	2	0	36	1.09
16860438--16860465	7	4.0	7	100	0	56	28	0	0	71	0.86
16868762--16868927	70	2.4	70	76	4	156	30	19	22	28	1.98
16869143--16869273	67	2.0	67	85	0	181	37	20	15	26	1.92
16886388--16886599	41	5.1	41	93	0	343	29	20	26	23	1.99
16890570--16890604	13	2.7	13	90	0	52	31	25	17	25	1.97
16892533--16892753	30	7.4	29	71	10	117	23	25	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16892530--16892753	60	3.8	60	77	5	231	23	25	12	37	1.90
16892641--16892697	29	2.0	29	92	0	96	15	24	15	43	1.86
16892533--16892755	89	2.5	88	76	7	234	23	25	13	38	1.90
16904993--16905132	40	3.5	40	83	2	156	24	29	14	32	1.94
16904995--16905144	80	1.9	80	80	5	178	23	29	14	33	1.93
16905935--16905961	12	2.2	12	100	0	54	29	33	22	14	1.94
16910584--16910919	51	6.6	51	78	7	317	29	15	25	28	1.96
16910584--16910919	102	3.3	102	85	6	416	29	15	25	28	1.96
16911118--16911177	12	4.9	12	72	9	50	40	3	20	36	1.69
16917413--16917465	6	8.5	6	86	13	72	81	1	1	15	0.87

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