genome.fa.s2.2.7.7.80.10.50.1000.154.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  154  of  206  ( 24623 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)
46670782--46670995	27	7.9	26	81	8	207	15	21	20	42	1.88
46674742--46674782	17	2.3	18	84	12	50	43	0	12	43	1.41
46674740--46674783	18	2.3	18	84	11	52	40	0	15	43	1.47
46676352--46676386	15	2.3	15	90	0	52	20	0	0	80	0.72
46678673--46678751	24	3.3	22	74	10	68	27	20	25	26	1.99
46678686--46678790	48	2.2	48	89	0	156	31	25	19	23	1.98
46678686--46678790	24	4.4	24	80	0	120	31	25	19	23	1.98
46678879--46678987	42	2.6	42	89	2	157	37	17	12	32	1.88
46678880--46679009	42	3.1	42	84	4	129	38	17	13	30	1.89
46686110--46686169	29	2.1	29	87	6	86	33	15	5	46	1.67
46686729--46686782	18	2.9	19	79	17	69	62	1	35	0	1.06
46686883--46686990	11	11.0	10	75	21	52	75	0	25	0	0.81
46686883--46686989	7	15.4	7	75	19	59	74	0	25	0	0.81
46686920--46687023	31	3.4	30	73	19	83	77	0	21	0	0.82
46686885--46687054	42	4.0	42	74	19	136	75	0	21	1	0.93
46686890--46687023	62	2.2	63	84	11	179	76	0	23	0	0.84
46686916--46687024	8	14.4	7	70	21	69	77	0	21	0	0.82
46686879--46687054	18	10.2	16	72	20	90	75	0	22	1	0.93
46686895--46687024	25	5.8	22	72	20	83	76	0	22	0	0.83
46688022--46688075	3	18.0	3	92	0	90	31	1	0	66	1.02
46689393--46689445	17	3.1	17	83	5	70	30	13	11	45	1.78
46701146--46701583	76	5.8	75	86	5	481	29	15	18	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46701170--46701583	75	5.4	76	86	5	482	29	15	19	34	1.94
46701770--46701800	5	6.4	5	92	7	55	0	0	16	83	0.64
46702635--46702741	22	5.0	21	75	18	96	76	0	21	1	0.88
46702631--46702741	33	3.4	32	80	12	111	76	0	21	1	0.88
46702639--46702798	28	6.2	26	71	16	91	77	1	17	3	0.98
46702636--46702798	11	16.2	9	73	17	85	77	1	17	3	0.98
46702668--46702798	17	7.7	17	69	15	65	78	1	16	3	0.97
46702636--46702730	43	2.2	44	81	9	97	77	0	20	2	0.86
46702683--46702746	15	4.4	14	75	13	58	79	0	17	3	0.85
46702681--46702780	28	3.7	27	79	16	100	78	1	16	5	0.99
46702762--46702801	20	2.0	20	85	9	55	77	5	12	5	1.09
46720776--46720816	3	13.7	3	100	0	82	34	0	0	65	0.93
46721149--46721195	3	15.7	3	100	0	94	34	0	0	65	0.93
46721559--46721642	31	2.7	31	87	9	127	51	13	4	30	1.61
46723150--46723222	31	2.4	31	79	4	76	19	41	20	19	1.91
46725157--46725254	27	3.6	27	87	5	144	33	17	19	29	1.95
46731907--46732003	39	2.4	41	77	10	110	34	5	19	41	1.74
46731920--46732046	39	3.3	39	81	6	123	34	4	17	43	1.70
46741353--46741401	16	3.1	17	77	14	59	57	6	2	34	1.35
46741505--46741554	17	2.9	17	84	3	64	38	4	4	54	1.38
46742440--46742480	8	5.2	8	83	16	59	60	0	2	36	1.10
46742440--46742480	15	2.7	15	82	17	57	60	0	2	36	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46747549--46747618	30	2.3	30	83	7	88	62	2	1	32	1.18
46747531--46747618	13	7.2	12	71	19	58	61	4	1	32	1.24
46747575--46747632	30	2.0	29	82	3	71	62	6	0	31	1.22
46748353--46748406	27	2.0	27	100	0	108	40	3	7	48	1.49
46750975--46751019	12	3.8	13	77	16	53	64	0	28	6	1.19
46751201--46751268	31	2.2	31	87	7	95	22	11	23	42	1.86
46751251--46751288	20	1.9	20	89	10	60	31	5	31	31	1.80
46751906--46751960	18	3.1	18	74	15	51	67	1	3	27	1.17
46752075--46752152	9	8.4	9	71	10	59	60	1	5	33	1.27
46756255--46756308	3	18.0	3	96	0	90	33	3	0	62	1.12
46757567--46757601	15	2.3	15	90	0	52	51	2	0	45	1.16
46757957--46758045	45	2.0	45	95	0	160	29	14	28	28	1.95
46761102--46761134	2	17.0	2	93	6	59	51	0	0	48	1.00
46761287--46761338	19	2.7	19	82	14	70	57	0	5	36	1.23
46761494--46761531	2	19.0	2	94	0	67	50	0	2	47	1.15
46761814--46761858	21	2.1	23	84	12	60	42	4	0	53	1.21
46761904--46761963	28	2.1	29	87	3	86	30	10	8	51	1.64
46772903--46772958	29	2.0	28	82	6	69	33	10	7	48	1.65
46773670--46773718	26	1.9	25	91	4	80	38	6	36	18	1.76
46775607--46775634	14	2.0	14	100	0	56	85	0	0	14	0.59
46775602--46775688	44	1.9	46	88	4	133	64	0	2	33	1.06
46776592--46776625	3	11.3	3	100	0	68	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46791976--46792265	50	5.7	50	83	3	305	22	28	21	27	1.99
46814248--46814277	12	2.4	13	94	5	53	20	6	6	66	1.38
46816638--46816667	16	1.9	15	93	6	51	53	6	6	33	1.53
46823171--46823224	27	2.0	28	85	3	74	46	1	9	42	1.46
46831902--46831948	20	2.4	19	89	7	67	6	27	23	42	1.78
46833742--46833990	81	3.1	80	78	6	214	27	26	16	30	1.96
46837798--46837865	34	2.0	34	94	0	118	44	0	29	26	1.55
46846280--46846316	18	2.0	19	89	5	58	5	43	0	51	1.24
46853292--46853345	27	2.0	27	85	0	72	35	31	0	33	1.58
46854654--46854693	21	1.9	21	89	0	62	50	0	40	10	1.36
46858188--46858221	17	1.9	18	88	5	52	23	14	20	41	1.89
46862595--46862642	23	2.1	23	92	0	78	27	10	22	39	1.87
46865453--46865482	15	1.9	16	93	6	53	56	0	0	43	0.99
46873267--46873377	20	5.6	19	71	13	80	36	18	29	14	1.91
46873262--46873377	40	2.9	40	81	2	117	37	20	28	13	1.91
46876852--46876896	15	3.1	15	93	3	74	53	0	26	20	1.46
46878954--46879139	32	5.8	32	88	0	237	35	20	20	23	1.96
46878954--46879139	96	1.9	96	86	0	264	35	20	20	23	1.96
46879431--46879765	27	12.4	27	85	1	386	25	23	16	34	1.95
46879430--46879819	81	4.8	81	82	2	390	25	22	16	35	1.95
46879727--46879866	27	5.2	27	80	8	153	22	16	17	43	1.88
46879727--46879858	54	2.5	54	87	1	176	21	17	18	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46879460--46879866	81	5.0	80	79	3	219	25	20	16	36	1.94
46882862--46883098	51	4.7	50	77	7	192	25	16	27	30	1.96
46882867--46883140	101	2.7	100	80	10	308	27	14	27	30	1.95
46889019--46889153	41	3.3	41	89	0	207	22	27	15	34	1.95
46889664--46889732	30	2.3	30	94	0	120	15	26	37	20	1.93
46892185--46892744	138	4.1	138	88	4	801	40	8	6	45	1.59
46892433--46892644	71	3.0	70	62	24	158	38	8	6	46	1.60
46898416--46898455	21	1.9	21	84	0	53	7	45	5	42	1.54
46901863--46901906	3	14.7	3	100	0	88	0	0	31	68	0.90
46902027--46902097	3	23.7	3	100	0	142	33	0	32	33	1.58
46902553--46903062	42	12.2	42	85	1	585	36	22	18	22	1.95
46920959--46921125	42	4.0	42	84	0	156	26	23	20	29	1.99
46920988--46921127	42	3.4	41	83	6	183	25	23	21	29	1.99
46924219--46924294	28	2.7	28	93	0	125	30	25	22	22	1.99
46924540--46924680	32	4.4	31	75	6	120	38	22	19	19	1.94
46924543--46924680	64	2.2	64	87	0	195	37	22	19	20	1.94
46924851--46924911	24	2.5	25	81	7	72	47	21	6	24	1.74
46924869--46924938	24	2.9	24	82	4	79	42	21	7	28	1.79
46924961--46925074	27	4.2	25	74	13	77	22	20	17	39	1.92
46925040--46925234	27	7.2	27	81	10	195	24	16	16	43	1.87
46924999--46925234	54	4.4	53	80	9	219	23	16	18	42	1.89
46925025--46925234	81	2.6	82	80	8	243	23	16	17	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46937023--46937073	25	2.1	24	85	10	68	56	1	0	41	1.10
46937232--46937282	3	17.0	3	100	0	102	33	33	0	33	1.58
46938155--46938198	3	13.3	3	82	17	52	29	40	0	29	1.57
46938154--46938195	7	6.1	7	94	5	77	28	42	0	28	1.56
46941424--46941492	30	2.3	29	83	11	86	34	8	8	47	1.65
46941734--46941848	4	29.2	4	77	10	58	35	1	62	0	1.06
46941734--46941848	8	14.4	8	82	10	110	35	1	62	0	1.06
46941743--46941843	39	2.6	39	93	1	166	32	1	65	0	1.04
46944025--46944086	5	12.2	5	78	10	63	22	22	14	40	1.90
46945101--46945128	13	2.2	13	100	0	56	25	0	0	75	0.81

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206