genome.fa.s6.2.7.7.80.10.50.1000.158.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  158  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)
47219888--47219931	21	2.0	23	86	8	65	38	0	4	56	1.20
47219888--47219931	22	2.0	22	82	8	54	38	0	4	56	1.20
47221484--47221509	5	5.2	5	100	0	52	42	19	19	19	1.90
47225388--47225423	18	2.0	18	88	0	54	27	2	8	61	1.39
47232052--47232089	3	12.7	3	100	0	76	34	0	0	65	0.93
47232163--47232225	32	2.0	32	83	0	81	46	4	6	42	1.50
47232952--47233148	102	1.9	101	87	3	288	43	2	7	46	1.45
47233676--47233763	11	8.4	11	72	18	62	39	3	1	55	1.24
47233659--47233751	39	2.4	39	90	0	141	34	3	1	61	1.19
47233712--47233785	11	6.6	11	72	9	60	40	1	1	56	1.16
47233747--47233801	22	2.5	22	84	3	74	36	0	3	60	1.15
47235463--47235495	16	2.1	16	94	0	57	45	0	0	54	0.99
47243031--47243064	17	2.0	17	88	0	50	64	0	0	35	0.94
47242994--47243137	40	3.5	41	84	11	195	59	0	2	37	1.12
47245172--47245207	2	18.5	2	88	5	56	47	0	2	50	1.15
47252249--47252287	20	2.0	20	89	0	60	35	0	0	64	0.94
47261105--47261403	158	1.9	156	85	4	411	33	21	22	22	1.98
47266023--47266048	13	2.0	13	100	0	52	30	7	15	46	1.74
47293899--47293932	15	2.3	15	90	10	52	26	0	0	73	0.83
47293895--47293932	14	2.7	14	88	8	51	26	0	0	73	0.83
47295102--47295141	20	2.1	20	86	9	57	20	2	5	72	1.15
47295114--47295149	12	3.0	12	88	11	56	22	0	2	75	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47299947--47299996	26	2.0	25	84	7	66	18	14	22	46	1.84
47307605--47307797	58	3.2	58	83	10	235	34	10	25	29	1.90
47307707--47307745	7	5.6	7	90	0	51	38	7	33	20	1.81
47307649--47307797	64	2.3	64	90	1	235	36	10	25	27	1.89
47310329--47310365	3	12.7	3	94	5	67	35	0	0	64	0.94
47313866--47313900	14	2.5	14	90	0	52	40	5	0	54	1.24
47313874--47313901	14	2.0	14	100	0	56	35	7	0	57	1.26
47319426--47319517	41	2.3	39	87	7	139	33	3	0	63	1.11
47319454--47319557	30	3.3	30	80	15	122	34	2	0	61	1.17
47319467--47319500	17	2.0	17	88	0	50	35	0	0	64	0.94
47319495--47319538	21	2.2	20	88	8	63	31	4	0	63	1.14
47319443--47319468	11	2.4	11	100	0	52	38	7	0	53	1.30
47320238--47320270	6	5.5	6	100	0	66	51	15	0	33	1.43
47323385--47323425	21	2.0	21	90	0	64	24	17	26	31	1.97
47324333--47324426	49	1.9	49	95	0	170	43	14	15	25	1.86
47333956--47334006	23	2.2	23	89	0	75	41	21	7	29	1.81
47337289--47337366	22	3.5	22	87	0	111	28	15	26	29	1.96
47339426--47339472	18	2.6	18	89	0	67	14	34	36	14	1.88
47340943--47341092	21	7.1	21	70	1	104	44	18	22	15	1.87
47340943--47341096	42	3.7	42	84	2	177	44	18	22	14	1.86
47344832--47344944	56	2.0	56	94	0	199	26	15	28	29	1.96
47352344--47352417	25	3.0	25	72	7	78	33	21	24	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47358231--47358264	7	5.0	7	85	7	52	29	0	2	67	1.05
47358231--47358264	13	2.5	14	85	4	52	29	0	2	67	1.05
47360883--47360949	22	3.1	22	80	2	82	64	1	5	28	1.26
47360883--47360928	19	2.4	19	81	0	56	67	2	4	26	1.21
47360883--47360934	3	17.7	3	80	7	54	67	1	3	26	1.18
47362561--47363111	44	12.7	44	73	8	373	29	21	17	30	1.97
47362540--47362935	129	3.1	129	97	0	720	30	21	17	30	1.96
47362739--47363108	173	2.1	173	98	0	722	28	22	18	30	1.97
47362540--47363132	129	4.6	128	89	3	549	29	22	18	30	1.97
47363100--47363328	44	5.3	43	75	7	135	23	24	24	27	2.00
47362902--47363176	129	2.1	129	85	4	394	26	24	18	29	1.98
47363119--47363323	44	4.7	44	79	3	243	21	25	23	28	1.99
47362610--47363176	302	1.9	302	91	2	924	28	23	18	29	1.98
47362927--47363323	129	3.1	128	81	7	378	25	23	22	28	1.99
47363126--47363323	87	2.3	87	83	2	236	21	25	24	28	1.99
47363337--47363767	88	5.0	86	85	5	512	24	24	22	27	2.00
47363508--47363645	43	3.2	42	70	11	125	25	25	22	26	2.00
47363467--47363677	44	4.8	42	67	14	122	25	24	24	26	2.00
47364996--47365028	7	4.9	7	85	7	50	12	15	0	72	1.12
47365405--47365452	15	3.3	14	74	8	51	10	12	12	64	1.50
47365401--47365470	30	2.4	27	75	17	68	8	10	11	70	1.35
47381927--47381959	17	1.9	17	93	0	57	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47382541--47382589	18	2.6	19	78	15	57	18	6	14	61	1.53
47384415--47384492	26	3.2	26	59	23	60	57	6	16	19	1.60
47385601--47385660	27	2.2	27	96	0	111	41	8	0	50	1.33
47386300--47386358	19	3.2	19	82	4	84	37	13	0	49	1.43
47394417--47394457	19	2.1	20	86	4	57	60	4	2	31	1.30
47394458--47394507	8	6.1	8	78	17	50	36	0	2	62	1.07
47394465--47394507	17	2.6	16	85	10	52	34	0	2	62	1.08
47394560--47394602	22	2.0	22	81	9	52	20	4	37	37	1.74
47394801--47394854	21	2.6	21	80	11	65	14	3	5	75	1.12
47395468--47395507	19	2.0	20	86	13	57	32	0	5	62	1.17
47395468--47395519	19	2.8	17	75	16	50	34	0	3	61	1.14
47399247--47399329	40	2.1	40	88	0	121	27	7	12	53	1.64
47408082--47408169	44	2.0	44	100	0	176	40	13	11	34	1.81
47417343--47417376	16	2.1	16	88	0	50	26	26	0	47	1.53
47418251--47418288	3	12.7	3	100	0	76	0	34	0	65	0.93
47434530--47434580	15	3.5	15	71	15	52	23	13	13	49	1.78
47437114--47437143	7	4.4	7	95	4	53	0	13	0	86	0.57
47447027--47447094	24	2.9	24	71	4	68	44	0	2	52	1.16
47447024--47447160	59	2.3	60	80	10	154	44	1	2	51	1.25
47447531--47447561	7	4.4	7	100	0	62	12	29	25	32	1.93
47448472--47448521	25	2.0	25	85	14	68	70	0	22	8	1.13
47448688--47448712	7	3.6	7	100	0	50	36	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47449110--47449143	16	2.1	16	100	0	68	11	0	17	70	1.16
47451367--47451438	36	2.0	36	100	0	144	19	25	22	33	1.97
47482235--47482283	25	2.0	25	88	8	73	65	6	2	26	1.27
47493386--47493412	2	13.5	2	100	0	54	48	0	51	0	1.00
47495321--47495392	36	2.0	36	100	0	144	36	11	8	44	1.70
47497491--47497544	27	2.0	27	100	0	108	40	3	3	51	1.37
47499484--47499583	50	2.0	50	92	0	164	36	20	7	37	1.79
47499905--47499959	24	2.3	24	93	0	92	54	3	0	41	1.18
47499972--47500044	29	2.5	29	88	4	103	35	5	2	56	1.37
47500001--47500070	19	3.7	19	74	12	72	30	4	1	64	1.21
47500030--47500070	20	2.0	20	90	9	66	26	4	0	68	1.10
47500072--47500121	19	2.7	19	81	6	59	46	0	0	54	1.00
47499992--47500138	29	5.2	28	76	12	106	36	2	1	59	1.20
47500182--47500359	91	2.0	91	82	6	218	35	8	17	37	1.81
47501569--47501682	40	2.8	40	98	0	219	28	18	24	28	1.98
47501886--47501928	7	6.1	7	97	0	68	34	13	13	37	1.85
47501869--47501935	7	9.6	7	86	4	64	32	13	14	38	1.86
47501869--47501928	21	2.9	21	82	5	77	33	13	13	40	1.83
47502883--47502920	12	3.0	13	85	14	53	44	0	0	55	0.99
47508466--47508534	26	2.7	26	88	4	104	17	23	21	37	1.94
47508461--47508607	26	5.9	24	75	11	84	20	23	21	34	1.96
47515327--47515363	2	18.5	2	100	0	74	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47516736--47516774	17	2.3	17	100	0	78	20	7	30	41	1.80
47522767--47522850	33	2.5	33	76	0	78	16	60	2	20	1.46
47522822--47522851	15	2.0	15	93	0	51	13	63	0	23	1.29
47537426--47537575	37	4.1	37	93	2	252	24	21	16	38	1.93
47537542--47537600	29	2.0	29	96	0	109	23	16	20	38	1.92
47537571--47537878	46	6.4	46	84	8	373	28	21	14	34	1.93
47537575--47537872	98	3.0	98	84	9	392	28	21	14	35	1.93
47537571--47537878	144	2.1	144	95	0	544	28	21	14	34	1.93
47549854--47549899	21	2.2	21	88	3	67	54	4	0	41	1.20
47568160--47568225	10	6.7	9	72	16	51	63	3	1	31	1.19

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