genome.fa.s6.2.7.7.80.10.50.1000.120.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  120  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)
34827373--34828262	132	6.7	132	93	0	1433	29	23	18	28	1.97
34827858--34828184	44	7.4	44	66	11	132	29	24	16	29	1.97
34835160--34835213	19	2.8	19	100	0	108	35	16	11	37	1.84
34837990--34838217	92	2.5	92	79	9	248	42	28	10	17	1.84
34839239--34839269	16	1.9	16	100	0	62	25	22	32	19	1.97
34839611--34839700	33	2.7	33	85	0	126	15	11	34	38	1.83
34841146--34841193	20	2.3	21	85	3	71	39	25	6	29	1.80
34841218--34841262	21	2.1	21	87	0	63	8	8	42	40	1.67
34841231--34841291	14	4.4	14	74	0	50	4	8	47	39	1.55
34852074--34852241	23	7.3	23	96	0	309	30	29	20	19	1.97
34854225--34854269	20	2.2	20	84	7	56	6	37	0	55	1.26
34864662--34864687	4	6.5	4	100	0	52	50	26	0	23	1.50
34867780--34867811	6	5.3	6	100	0	64	15	34	0	50	1.45
34876803--34876829	5	5.4	5	100	0	54	37	0	18	44	1.50
34876981--34877015	18	2.0	18	94	5	63	45	0	5	48	1.26
34881082--34881138	29	2.0	29	82	3	71	28	14	19	38	1.90
34885579--34885691	61	1.9	59	83	10	149	43	5	4	46	1.46
34889844--34890057	50	4.3	50	69	8	148	22	26	23	27	1.99
34889870--34890055	100	1.9	100	96	0	345	22	26	24	26	2.00
34902515--34902707	50	3.8	50	88	0	278	20	30	22	25	1.98
34904371--34904441	35	2.0	35	94	0	124	23	11	19	45	1.83
34907046--34907088	21	2.0	21	100	0	86	30	4	27	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34916387--34916434	24	2.0	24	95	0	87	45	16	14	22	1.84
34918232--34918272	22	1.9	21	85	14	57	70	0	0	29	0.87
34918232--34918272	21	1.9	22	90	5	66	70	0	0	29	0.87
34921141--34921188	23	2.1	23	96	0	87	35	6	0	58	1.23
34921238--34921296	27	2.2	26	87	3	82	33	22	25	18	1.96
34921371--34921440	19	3.7	19	82	3	97	37	10	0	52	1.35
34921376--34921446	37	1.9	37	100	0	142	39	11	0	49	1.39
34921653--34921722	19	3.7	19	82	3	97	37	10	0	52	1.35
34921658--34921728	37	1.9	37	97	0	133	40	9	0	49	1.36
34933580--34934733	320	3.6	320	94	2	2036	48	8	12	30	1.71
34939896--34939995	42	2.4	41	80	8	105	51	12	5	32	1.60
34942057--34942351	147	2.0	147	97	0	563	32	13	12	41	1.83
34943802--34943846	20	2.2	20	88	0	63	57	2	2	37	1.23
34944969--34945029	27	2.2	28	80	11	72	50	1	3	44	1.28
34945005--34945043	19	2.0	20	95	5	71	53	5	0	41	1.23
34944985--34945037	27	2.0	27	85	7	72	52	3	1	41	1.30
34945366--34945399	2	17.5	2	93	6	61	47	0	0	52	1.00
34952919--34952955	9	4.1	9	92	0	65	29	10	13	45	1.77
34953009--34953039	9	3.4	9	90	0	53	38	22	12	25	1.90
34960610--34960640	15	2.1	15	100	0	62	22	32	6	38	1.80
34963994--34964023	15	2.0	15	93	0	51	23	46	6	23	1.75
34964772--34964800	15	1.9	15	100	0	58	20	31	6	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34964898--34964928	15	2.1	15	93	0	53	22	29	9	38	1.86
34965461--34965918	158	3.0	146	80	9	447	24	10	17	47	1.79
34967360--34967434	7	10.7	7	77	5	62	46	13	0	40	1.43
34969683--34969734	16	3.3	15	78	10	59	38	23	23	15	1.92
34969759--34969823	28	2.3	28	83	0	85	43	21	23	12	1.86
34969737--34970122	101	3.9	101	77	7	367	40	19	24	15	1.90
34969859--34969913	28	2.0	28	89	7	85	40	20	21	18	1.92
34970009--34970094	45	1.9	45	83	4	111	41	19	24	13	1.88
34970054--34970123	28	2.5	28	83	4	88	42	21	22	12	1.87
34969989--34970172	73	2.5	73	84	4	246	41	18	25	15	1.89
34970083--34970195	45	2.5	45	88	0	163	39	18	27	14	1.89
34970014--34970240	118	1.9	118	84	1	303	42	19	24	13	1.87
34972571--34972632	28	2.2	28	85	0	79	33	20	33	11	1.89
34974685--34974776	39	2.4	39	75	8	91	48	14	4	32	1.63
34975986--34976057	19	3.7	19	76	10	67	31	4	18	45	1.68
34976145--34976206	23	2.6	23	75	14	56	61	3	3	32	1.28
34976239--34976347	19	5.6	20	77	6	91	34	2	14	47	1.59
34976239--34976339	39	2.6	39	76	3	105	35	2	14	46	1.60
34976402--34976458	20	2.9	21	76	12	57	36	1	14	47	1.54
34984611--34984686	23	3.3	23	83	0	107	31	23	19	25	1.98
34984912--34984950	18	2.2	17	86	13	53	46	20	0	33	1.51
34985672--34986076	109	3.7	109	88	4	573	33	19	17	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34986746--34986790	8	5.6	8	86	0	54	48	0	8	42	1.34
34986746--34986790	18	2.5	18	92	0	72	48	0	8	42	1.34
34986746--34986780	10	3.5	10	96	0	61	51	0	5	42	1.25
34986996--34987035	12	3.2	12	89	3	53	60	2	5	32	1.32
34987987--34988025	17	2.3	17	90	0	60	17	23	48	10	1.78
34993534--34993586	9	5.8	9	82	4	52	75	7	0	16	1.02
34993532--34993586	18	2.9	19	86	5	85	72	9	0	18	1.10
34993613--34993645	13	2.5	13	90	9	50	84	0	15	0	0.61
34995703--34996074	46	8.1	46	90	3	500	28	17	26	27	1.98
34996083--34997631	132	11.7	132	95	0	2720	31	19	23	25	1.98
35001537--35001776	73	3.3	74	77	7	220	33	26	12	27	1.93
35007905--35007944	21	1.9	21	85	10	55	75	0	15	10	1.05
35012991--35013020	15	2.0	15	100	0	60	40	33	6	20	1.78
35015673--35015724	20	2.5	20	84	9	59	59	5	1	32	1.32
35015687--35015726	20	2.0	20	95	0	71	65	0	2	32	1.06
35022038--35022452	207	2.0	207	91	5	678	25	20	20	33	1.97
35025579--35025618	17	2.4	17	79	4	55	27	32	20	20	1.97
35043380--35043423	20	2.4	19	82	14	56	65	4	4	25	1.30
35043351--35043408	23	2.6	22	75	20	57	65	6	5	22	1.37
35043826--35043865	21	1.9	20	85	10	53	62	22	2	12	1.42
35050948--35051045	46	2.2	46	92	1	162	33	4	19	42	1.70
35055598--35055695	46	2.2	46	94	1	171	33	3	19	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35056489--35056528	21	1.9	21	94	0	71	60	0	0	40	0.97
35066950--35066997	24	2.0	24	91	0	78	16	16	27	39	1.90
35067788--35067824	9	4.1	9	92	0	65	45	13	10	29	1.77
35067972--35068044	30	2.4	30	95	0	128	27	23	0	49	1.50
35068561--35068650	44	2.0	44	95	0	162	53	11	17	17	1.72
35071746--35071771	7	3.7	7	100	0	52	42	0	0	57	0.98
35076836--35076905	21	3.3	21	69	0	59	15	18	20	45	1.85
35076783--35076905	42	2.9	43	82	3	142	18	17	17	45	1.86
35087878--35087908	2	15.5	2	100	0	62	48	0	0	51	1.00
35089327--35089353	3	9.0	3	100	0	54	33	66	0	0	0.92
35090566--35090604	20	2.0	20	89	0	60	25	2	2	69	1.14
35098251--35098277	6	4.5	6	100	0	54	18	0	0	81	0.69
35100427--35100634	107	2.0	105	89	1	317	33	17	19	29	1.95
35102919--35103685	44	17.7	44	80	5	710	24	24	20	29	1.99
35102920--35103685	131	5.9	130	83	5	696	24	24	21	29	1.99
35103309--35103550	83	2.8	85	80	8	240	23	23	21	30	1.99
35102920--35103681	214	3.5	217	84	4	862	24	25	20	29	1.99
35104941--35104967	13	2.1	13	100	0	54	14	14	0	70	1.17
35105985--35106024	19	2.1	19	100	0	80	27	17	25	30	1.97
35108590--35108797	107	2.0	105	89	1	317	32	18	20	28	1.96
35110219--35110245	2	13.5	2	100	0	54	0	0	48	51	1.00
35112625--35112907	117	2.4	120	92	3	491	43	0	4	51	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35112688--35112872	61	3.1	61	69	13	195	42	1	5	51	1.32
35113118--35113155	16	2.4	16	95	0	67	26	34	2	36	1.71
35113575--35113642	26	2.6	26	76	15	68	20	1	4	73	1.08
35113586--35113670	8	10.0	8	77	8	53	20	1	4	74	1.07
35113594--35113670	17	4.5	17	73	14	61	20	1	3	74	1.06
35113612--35113677	16	4.1	16	79	11	71	22	1	3	72	1.06
35113581--35113649	27	2.6	25	80	15	68	20	1	4	73	1.07
35119147--35119203	17	3.4	16	78	9	53	63	1	1	33	1.15
35119147--35119209	33	1.9	33	83	6	83	63	3	1	31	1.19
35122386--35122433	13	3.8	13	81	18	66	52	0	0	47	1.00

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