genome.fa.s6.2.7.7.80.10.50.1000.69.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  69  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)
20276981--20277019	20	2.0	20	94	0	69	48	2	0	48	1.15
20278897--20278957	31	2.0	31	93	0	104	40	14	19	24	1.89
20280880--20280914	18	2.0	17	94	5	61	37	0	62	0	0.95
20280886--20280925	18	2.2	18	86	0	53	40	0	60	0	0.97
20282440--20282500	31	2.0	31	83	3	79	49	11	4	34	1.61
20285186--20285334	37	4.1	38	79	10	168	38	26	16	18	1.92
20286422--20286446	13	1.9	13	100	0	50	32	4	24	40	1.73
20287442--20287493	26	2.0	26	82	14	63	44	0	7	48	1.31
20288104--20288212	41	2.7	40	84	5	128	28	18	21	32	1.96
20290012--20290069	21	2.8	20	75	17	57	43	1	15	39	1.57
20297172--20297204	15	2.3	14	94	5	57	63	0	6	30	1.18
20297259--20297318	4	14.5	4	75	19	52	75	0	5	20	0.99
20297249--20297319	19	3.5	21	76	17	78	74	0	5	19	1.01
20305890--20306306	108	3.9	108	91	3	653	32	18	16	32	1.93
20306696--20306731	9	4.0	9	89	10	56	80	0	0	19	0.71
20306684--20306727	5	9.0	5	80	14	56	77	0	2	20	0.88
20306684--20306727	19	2.2	20	92	4	72	77	0	2	20	0.88
20306769--20306795	12	2.2	12	100	0	54	70	0	0	29	0.88
20307787--20307816	15	1.9	16	93	6	53	0	6	10	83	0.81
20311062--20311111	3	16.7	3	100	0	100	34	0	0	66	0.92
20311914--20311953	20	2.1	19	90	9	64	17	35	37	10	1.83
20318704--20318741	16	2.4	16	90	0	58	47	28	2	21	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20327651--20327685	18	2.0	17	88	5	52	37	20	0	42	1.52
20329539--20329638	47	2.1	49	88	3	150	45	8	7	40	1.61
20330399--20330429	16	1.9	16	93	0	53	54	3	0	41	1.16
20334771--20334833	23	2.7	22	82	4	63	30	6	15	47	1.71
20334779--20334833	23	2.4	22	85	8	74	30	7	14	47	1.71
20345665--20345694	15	2.0	15	93	0	51	26	13	23	36	1.92
20351868--20351986	42	2.8	43	75	5	116	29	27	20	22	1.98
20352682--20352718	19	2.0	19	89	5	58	62	13	5	18	1.50
20358269--20358313	17	2.4	20	82	17	69	28	0	0	71	0.87
20359485--20359534	26	1.9	26	91	0	82	22	10	8	60	1.55
20365054--20365174	62	2.0	59	80	7	136	40	2	7	49	1.44
20368090--20368477	125	3.1	126	80	5	448	27	14	17	40	1.89
20368568--20368673	34	3.1	34	82	6	135	46	17	0	35	1.49
20368574--20368671	33	3.0	32	81	4	115	41	19	0	38	1.51
20369302--20369339	19	2.0	20	94	5	69	44	0	0	55	0.99
20369303--20369344	19	2.2	19	87	8	59	45	0	2	52	1.13
20370057--20370123	35	1.9	35	93	0	116	22	7	19	50	1.72
20370376--20370429	21	2.3	24	78	12	60	42	11	5	40	1.64
20376377--20376417	2	20.5	2	100	0	82	51	0	0	48	1.00
20376377--20376433	16	3.7	16	90	4	73	47	0	5	47	1.24
20388779--20388835	29	2.0	28	83	10	71	42	5	5	47	1.48
20391032--20391076	16	2.8	16	86	0	63	8	24	33	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20397854--20397910	28	2.0	29	83	10	73	54	1	1	42	1.21
20397872--20397902	15	2.0	16	93	6	55	51	0	3	45	1.17
20399102--20399229	45	2.9	44	89	1	193	42	14	21	21	1.87
20401926--20401968	21	2.0	21	90	4	68	48	0	16	34	1.46
20402392--20402433	22	2.0	21	86	9	59	42	2	14	40	1.58
20402489--20402778	93	3.1	92	83	4	311	39	6	14	39	1.72
20404606--20404958	172	2.0	173	96	1	656	43	5	5	45	1.51
20406757--20406827	22	3.1	22	76	15	72	49	1	2	46	1.25
20407486--20407511	3	8.7	3	100	0	52	34	0	65	0	0.93
20414030--20414092	33	1.9	33	96	0	117	28	14	17	39	1.89
20416861--20416892	16	2.0	16	100	0	64	18	12	6	62	1.50
20419343--20419375	2	16.5	2	100	0	66	48	0	0	51	1.00
20420543--20420739	100	2.0	99	91	3	324	47	5	7	40	1.54
20420562--20420767	100	2.1	98	83	7	254	49	7	5	38	1.54
20421022--20421055	17	1.9	18	88	5	52	52	0	2	44	1.16
20425765--20425800	15	2.4	15	90	0	54	72	2	0	25	0.98
20427693--20427767	2	37.5	2	97	0	141	48	0	1	50	1.09
20428617--20428654	20	1.9	20	88	0	58	28	7	13	50	1.69
20428611--20428660	20	2.5	20	80	0	55	34	8	12	46	1.70
20430570--20430610	14	2.8	15	78	14	50	56	2	0	41	1.13
20430643--20430699	15	3.5	15	73	17	60	50	1	0	47	1.11
20430921--20430973	26	2.0	26	100	0	106	45	11	7	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20434513--20434569	30	1.9	30	88	0	87	35	19	3	42	1.68
20434540--20434564	12	2.1	12	100	0	50	36	16	0	48	1.46
20436333--20436374	18	2.3	18	95	0	75	28	28	0	42	1.56
20436773--20436895	25	5.3	23	64	22	62	39	2	4	53	1.35
20436784--20436891	33	3.3	33	73	19	125	36	2	3	57	1.31
20436784--20436914	66	2.0	66	100	0	262	35	4	4	54	1.41
20440409--20440677	126	2.1	126	88	0	394	29	16	16	37	1.90
20440733--20440840	34	3.2	33	79	5	110	43	14	0	40	1.52
20440892--20440962	21	3.4	21	64	0	61	46	26	1	25	1.61
20440880--20440962	42	2.1	39	82	12	100	45	27	2	24	1.65
20440953--20440991	15	2.6	15	91	0	60	53	35	0	10	1.35
20440895--20440973	42	1.9	42	94	2	142	45	29	1	24	1.61
20441456--20441619	88	1.9	89	84	7	228	34	18	10	36	1.85
20441737--20441883	10	15.3	9	68	18	66	65	2	1	31	1.12
20442110--20442180	29	2.4	29	81	4	81	32	8	4	54	1.50
20442139--20442211	19	3.8	18	70	12	56	28	5	5	60	1.42
20442130--20442278	29	5.2	27	74	10	102	36	2	2	58	1.26
20442169--20442209	20	2.0	20	85	0	55	24	2	4	68	1.22
20442139--20442286	9	15.4	9	66	13	64	34	2	2	60	1.25
20442204--20442281	28	2.7	29	82	7	97	41	1	0	57	1.07
20450942--20450968	12	2.2	12	100	0	54	14	22	33	29	1.94
20456263--20456384	57	2.1	57	86	0	163	23	26	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20456438--20456484	24	2.0	24	86	0	67	29	2	46	21	1.63
20456444--20456494	24	2.1	24	82	7	59	33	3	41	21	1.72
20456481--20456641	66	2.4	66	92	0	259	14	13	44	27	1.83
20456617--20456656	12	3.3	12	92	0	71	17	2	50	30	1.59
20457090--20457363	43	6.4	43	80	4	286	28	26	17	27	1.98
20457090--20457380	129	2.3	128	83	5	349	29	26	17	27	1.97
20457664--20457755	21	4.4	21	79	5	105	5	43	15	35	1.69
20466655--20467043	25	15.6	27	81	10	322	30	0	21	46	1.55
20466651--20467067	16	26.2	16	74	16	270	30	0	22	46	1.58
20466663--20467089	50	8.3	50	82	10	461	30	0	22	46	1.58
20466655--20467089	9	52.4	9	73	15	359	30	0	22	46	1.58
20466905--20467089	56	3.2	57	87	6	187	31	1	21	45	1.59
20467039--20467087	25	2.0	25	91	0	80	28	4	24	42	1.73
20468358--20468435	28	2.9	25	82	14	93	23	19	25	32	1.98
20468370--20468424	28	2.0	28	96	0	101	21	18	25	34	1.96
20469072--20469123	26	1.9	28	84	7	72	21	11	11	55	1.66
20474078--20474187	29	3.8	29	82	2	132	36	15	20	27	1.93
20474078--20474187	57	1.9	58	83	1	141	36	15	20	27	1.93
20478430--20478457	14	2.0	14	100	0	56	35	42	0	21	1.53
20482845--20483243	127	3.2	126	89	2	611	27	17	19	36	1.93
20485680--20485706	2	13.5	2	100	0	54	48	0	0	51	1.00
20487912--20487941	15	1.9	16	93	6	53	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20490178--20490211	18	1.9	18	88	5	52	29	0	5	64	1.17
20498564--20499200	322	2.0	322	95	0	1139	32	13	19	35	1.90
20500603--20500643	21	2.0	21	90	0	64	34	39	0	26	1.57
20513506--20513551	22	2.1	22	84	8	58	13	15	0	71	1.14
20514054--20514083	14	2.1	14	93	0	51	40	3	0	56	1.16
20517182--20517263	24	3.3	24	67	18	69	17	9	35	37	1.82
20517149--20517262	50	2.3	50	96	1	212	14	9	35	40	1.78
20523057--20523082	5	5.2	5	100	0	52	19	19	19	42	1.90
20523131--20523191	20	2.9	21	71	7	61	22	1	4	70	1.15
20524344--20524410	34	2.0	34	87	0	98	46	16	5	31	1.71

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