genome.fa.s3.2.7.7.80.10.50.1000.59.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  59  of  150  ( 17918 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)
17595061--17595817	178	4.2	178	84	3	824	27	23	18	30	1.97
17595015--17595808	225	3.6	221	77	8	588	27	23	18	30	1.98
17596134--17596194	24	2.5	24	89	0	95	27	24	9	37	1.87
17598007--17598051	6	8.0	6	78	14	51	0	20	0	80	0.72
17598008--17598051	11	4.0	11	80	11	54	0	20	0	79	0.73
17598007--17598051	17	2.7	17	82	3	65	0	20	0	80	0.72
17598045--17598103	29	2.0	29	86	3	82	22	5	6	66	1.36
17602355--17602379	13	1.9	13	100	0	50	64	0	4	32	1.12
17603522--17603615	47	2.0	46	91	2	152	31	7	28	31	1.85
17614162--17614192	16	1.9	16	93	0	53	41	12	3	41	1.59
17614068--17614312	114	2.1	114	92	1	411	35	15	8	40	1.77
17622451--17622482	16	2.0	16	93	0	55	31	15	12	40	1.85
17629179--17629209	16	1.9	16	93	0	53	41	0	38	19	1.51
17639008--17639037	14	2.1	14	100	0	60	50	6	13	30	1.67
17647356--17647388	16	2.1	16	100	0	66	36	30	27	6	1.81
17651552--17651592	20	2.0	20	100	0	82	24	0	14	60	1.34
17652017--17652083	20	3.3	20	87	0	80	35	11	2	49	1.55
17657990--17658025	18	2.1	18	89	5	56	63	8	0	27	1.23
17668176--17668202	3	9.0	3	100	0	54	33	0	0	66	0.92
17673333--17673437	43	2.4	43	80	4	113	26	29	17	26	1.97
17673909--17673976	29	2.4	29	79	13	72	26	25	4	44	1.73
17679740--17680025	67	4.3	67	77	5	267	23	26	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17682585--17682656	37	1.9	37	100	0	144	41	19	15	23	1.89
17689318--17689426	32	3.5	33	67	14	79	37	21	4	36	1.74
17689829--17689897	32	2.2	32	92	5	113	27	2	21	47	1.65
17690713--17690761	21	2.3	21	85	0	62	30	16	32	20	1.94
17692522--17692677	78	2.0	78	94	0	276	53	10	11	24	1.69
17705298--17705354	28	2.0	28	96	0	105	45	12	21	21	1.83
17710922--17711004	21	4.0	21	82	3	89	45	18	20	15	1.85
17713431--17713485	15	3.6	15	71	20	51	61	0	10	27	1.29
17713929--17713955	2	13.5	2	100	0	54	0	0	51	48	1.00
17715308--17715438	51	2.6	51	80	0	136	36	11	25	25	1.90
17715354--17715453	51	2.0	51	81	0	119	35	14	28	23	1.93
17718348--17718435	23	3.9	23	71	12	65	35	2	21	40	1.66
17718279--17718542	138	1.9	138	92	1	449	32	3	21	41	1.71
17720223--17720387	58	2.9	56	82	10	174	42	1	3	53	1.24
17720545--17720609	16	4.4	16	74	21	70	27	26	7	38	1.83
17720549--17720601	26	2.0	26	92	0	88	24	28	7	39	1.82
17728002--17728038	9	4.1	9	92	0	65	45	13	10	29	1.77
17728397--17728433	20	1.9	19	89	10	58	24	32	0	43	1.55
17728402--17728475	35	2.1	36	82	7	89	22	32	0	44	1.53
17729440--17729473	14	2.4	14	85	0	50	67	5	2	23	1.26
17732714--17732743	11	2.6	11	94	5	51	36	0	6	56	1.26
17743028--17743072	21	2.1	21	87	0	63	20	17	22	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17750656--17750697	18	2.2	20	83	8	52	59	4	7	28	1.44
17750948--17751011	30	2.1	32	82	5	78	26	12	9	51	1.70
17775101--17775154	22	2.5	22	81	6	56	40	11	14	33	1.82
17775291--17775358	22	3.0	22	91	2	100	36	8	14	39	1.78
17775101--17775490	202	1.9	201	97	0	744	32	27	13	26	1.93
17789624--17789697	29	2.5	29	82	4	85	25	14	13	45	1.82
17791154--17791288	43	3.2	43	88	1	191	25	34	20	19	1.96
17791293--17791473	43	4.2	43	89	0	254	30	29	18	20	1.96
17791626--17791723	46	2.1	46	100	0	196	47	10	15	26	1.77
17791823--17791898	37	2.1	37	100	0	152	43	13	18	25	1.86
17792179--17792230	23	2.3	23	79	0	59	34	7	30	26	1.85
17792691--17792720	12	2.5	12	100	0	60	50	10	6	33	1.62
17794881--17794926	21	2.2	21	84	7	58	23	2	50	23	1.61
17801898--17801978	11	6.4	12	73	18	58	51	0	1	46	1.08
17801906--17801978	12	6.9	11	73	17	57	50	0	0	49	1.00
17801936--17802019	12	7.5	12	74	14	81	58	0	2	39	1.11
17801923--17802030	43	2.6	41	88	8	164	60	0	1	37	1.08
17802453--17802520	28	2.3	31	82	15	106	30	14	14	39	1.87
17802466--17802522	28	2.0	28	100	0	114	31	14	17	36	1.89
17805786--17805816	15	2.1	15	100	0	62	35	19	0	45	1.51
17809128--17809322	93	2.1	92	88	4	286	44	4	4	47	1.41
17809355--17809388	17	2.0	17	94	0	59	44	5	0	50	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17809355--17809393	17	2.4	16	87	8	53	43	5	0	51	1.24
17809359--17809398	17	2.3	18	83	12	57	47	5	0	47	1.24
17809478--17809612	15	8.9	15	67	24	70	42	2	3	51	1.32
17809354--17809572	120	1.8	119	89	6	345	40	3	5	50	1.43
17809580--17809621	15	2.7	16	82	14	52	45	0	2	52	1.13
17809571--17809868	154	1.9	156	95	2	537	47	5	3	44	1.40
17809721--17809755	18	2.0	17	88	5	52	45	0	0	54	0.99
17809988--17810026	16	2.4	16	86	0	51	28	33	2	35	1.71
17810001--17810057	16	3.6	16	90	0	78	33	35	0	31	1.58
17810792--17810841	25	2.0	25	100	0	100	16	40	24	20	1.91
17815806--17815854	19	2.7	18	84	6	55	42	0	2	55	1.11
17819887--17819917	5	6.2	5	92	0	53	19	0	41	38	1.51
17832294--17832345	18	2.8	18	82	2	59	78	7	1	11	1.02
17834393--17834762	103	3.6	103	93	2	600	30	29	20	20	1.97
17839364--17839455	25	3.7	24	80	11	105	28	26	21	23	1.99
17847163--17847236	25	3.0	25	82	4	87	28	27	22	21	1.99
17849805--17849840	16	2.2	17	90	5	56	30	0	2	66	1.06
17853082--17853296	85	2.5	84	82	3	261	28	29	18	23	1.97
17853082--17853296	43	5.0	42	82	4	252	28	29	18	23	1.97
17853646--17853686	21	2.0	21	90	0	64	0	39	19	41	1.52
17853647--17853692	21	2.2	21	84	0	56	0	41	19	39	1.52
17859216--17859256	22	1.9	22	85	5	57	36	0	2	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17860193--17860243	2	25.5	2	100	0	102	50	0	0	49	1.00
17860416--17860468	24	2.2	24	96	0	97	49	3	3	43	1.38
17860894--17860931	17	2.2	17	95	0	67	39	13	36	10	1.79
17861172--17861239	33	2.1	33	94	0	118	35	27	2	33	1.72
17861861--17861900	15	2.8	14	85	7	53	37	2	35	25	1.69
17861875--17861931	23	2.4	22	80	13	60	36	1	42	19	1.62
17861894--17861947	23	2.3	23	84	6	65	38	1	38	20	1.63
17862154--17862187	12	2.9	11	91	8	50	55	17	17	8	1.66
17862051--17862459	116	3.5	113	77	6	374	34	20	14	31	1.92
17862981--17863043	7	8.7	7	75	6	54	20	1	33	44	1.61
17862981--17863043	29	2.2	29	85	5	83	20	1	33	44	1.61
17863444--17863603	41	3.9	41	88	0	212	26	24	17	31	1.97
17865380--17865430	25	2.0	26	88	3	77	39	9	9	41	1.71
17865546--17865646	38	2.6	38	93	4	168	50	0	3	44	1.27
17865667--17865778	20	6.1	18	72	17	70	52	5	1	40	1.35
17869693--17869743	24	2.1	24	82	7	59	39	1	5	52	1.37
17873039--17873105	34	1.9	35	84	3	91	46	10	10	32	1.72
17876371--17876409	12	3.2	12	96	0	69	20	23	28	28	1.99
17876395--17876533	70	2.0	68	85	2	188	23	18	28	30	1.98
17881623--17881855	51	4.6	50	83	3	270	29	25	16	28	1.97
17881623--17881855	102	2.3	101	87	0	331	29	25	16	28	1.97
17882322--17882386	30	2.1	31	86	8	89	29	21	7	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17886672--17886747	39	1.9	39	94	0	134	32	17	32	17	1.93
17886687--17886747	20	3.1	20	72	13	72	29	14	37	18	1.90
17886678--17886739	19	3.2	19	71	13	63	33	16	33	16	1.91
17892002--17892026	11	2.3	11	100	0	50	84	0	0	16	0.63
17892567--17892656	45	2.0	45	80	6	101	41	7	20	31	1.80
17894683--17894729	25	1.9	24	82	4	58	17	21	19	42	1.89
17894766--17894821	27	2.1	27	83	3	69	17	28	16	37	1.91
17894824--17894876	24	2.2	24	83	6	63	18	18	26	35	1.95
17901836--17901952	25	4.8	24	75	7	83	18	29	18	32	1.95
17901861--17902026	25	6.6	25	73	9	124	18	28	18	34	1.95

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