genome.fa.s6.2.7.7.80.10.50.1000.140.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  140  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)
41077348--41077558	85	2.5	84	83	6	264	27	20	20	30	1.98
41077349--41077556	43	4.9	41	86	3	218	26	21	21	30	1.98
41078998--41079198	94	2.1	94	83	1	242	36	12	18	32	1.88
41090660--41090726	9	7.4	9	84	0	89	44	22	7	25	1.78
41093951--41093980	14	2.1	14	100	0	60	26	6	13	53	1.64
41103117--41103212	47	2.0	47	100	0	192	38	23	10	27	1.87
41107951--41108023	33	2.2	33	76	9	78	27	1	13	57	1.45
41117632--41118399	193	4.0	193	81	5	865	35	14	12	37	1.84
41117667--41118359	378	1.8	380	83	3	933	35	14	12	37	1.84
41123134--41123362	37	6.0	37	86	9	304	26	20	15	37	1.93
41123134--41123315	75	2.5	75	94	4	320	25	21	16	36	1.94
41123279--41123652	46	7.6	46	75	16	304	28	22	14	35	1.93
41123326--41123646	46	6.2	52	85	9	378	27	23	14	34	1.93
41123368--41123494	59	2.2	58	94	2	218	25	24	12	37	1.91
41126574--41126624	24	2.1	24	92	0	84	33	21	25	19	1.97
41126641--41126716	25	3.1	24	74	9	64	40	19	23	15	1.90
41126775--41126837	25	2.5	25	89	0	99	39	22	20	17	1.92
41129405--41129441	17	2.2	17	90	0	56	45	0	13	40	1.43
41132991--41133041	14	3.7	13	78	14	50	33	1	0	64	1.05
41143592--41143622	3	10.3	3	100	0	62	0	32	0	67	0.91
41156713--41156866	55	2.8	55	97	0	290	37	13	18	30	1.89
41166030--41166075	23	2.0	23	83	8	58	63	6	4	26	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41172854--41172914	30	2.0	30	83	3	77	44	1	13	40	1.53
41175438--41175548	55	2.0	55	94	0	195	30	10	15	43	1.81
41178286--41178334	22	2.4	21	83	10	57	73	0	20	6	1.04
41184757--41184808	16	3.3	15	74	15	52	67	1	1	28	1.12
41184756--41184812	30	1.9	30	89	7	89	66	1	1	29	1.12
41184758--41184820	15	4.2	15	75	15	51	63	1	4	30	1.24
41185049--41185120	24	3.0	23	78	9	74	45	2	0	51	1.15
41185049--41185104	23	2.5	23	82	8	62	46	1	0	51	1.11
41186144--41186207	33	2.0	32	85	14	87	20	31	0	48	1.50
41193831--41193930	51	1.9	52	90	6	159	44	6	11	39	1.64
41199312--41199595	43	6.7	43	86	6	355	22	19	27	30	1.98
41202254--41203632	458	3.0	457	93	0	2380	24	26	14	33	1.94
41205734--41205791	30	1.9	30	89	0	89	41	3	24	31	1.71
41206003--41206034	13	2.5	13	94	0	55	31	0	12	56	1.37
41206129--41206377	50	4.8	50	87	3	327	26	22	28	21	1.99
41211268--41211340	30	2.4	30	88	2	101	31	16	5	46	1.70
41215054--41215081	2	14.0	2	100	0	56	50	0	0	50	1.00
41215525--41215621	50	1.9	51	83	6	126	44	18	17	19	1.87
41215535--41215644	26	4.4	25	73	11	82	40	19	20	20	1.92
41217392--41217531	68	2.1	66	85	10	185	27	18	5	49	1.68
41225553--41225698	54	2.6	53	84	8	168	43	10	11	34	1.75
41227843--41227942	51	1.9	52	90	6	159	44	6	11	39	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41231121--41231157	14	2.6	14	95	0	65	16	59	8	16	1.59
41231981--41232019	15	2.6	15	87	0	51	28	2	0	69	1.02
41232572--41232624	25	2.1	25	96	0	97	39	3	9	47	1.54
41240634--41240683	22	2.2	23	89	3	75	30	10	18	42	1.82
41241187--41241246	18	3.3	18	85	0	84	31	28	15	25	1.95
41253794--41253832	18	2.1	18	85	4	51	53	7	0	38	1.30
41253811--41253848	19	2.0	19	90	10	60	52	10	0	36	1.36
41255279--41255337	21	2.8	20	80	14	57	54	3	1	40	1.27
41255319--41255376	11	5.4	11	74	17	59	58	0	1	39	1.08
41255304--41255383	31	2.5	31	95	2	142	58	0	1	40	1.06
41262558--41262584	11	2.5	11	100	0	54	88	11	0	0	0.50
41269850--41269887	19	2.0	19	85	10	51	52	0	2	44	1.14
41271665--41271836	72	2.4	72	85	7	231	55	13	5	25	1.58
41272276--41272341	18	3.7	18	97	0	123	39	12	13	34	1.82
41274893--41274936	23	1.9	23	95	0	79	50	18	29	2	1.59
41286385--41286423	19	2.1	19	85	4	53	46	15	0	38	1.46
41286930--41286988	31	1.9	31	100	0	118	23	23	1	50	1.58
41286824--41287263	218	2.0	218	97	0	826	32	20	8	38	1.83
41287292--41287382	22	4.0	22	74	13	62	36	19	24	19	1.95
41287332--41287392	25	2.4	25	97	0	113	42	18	19	19	1.89
41290089--41290118	16	1.9	16	93	6	53	60	3	0	36	1.14
41292178--41292267	39	2.2	41	84	3	112	53	6	3	36	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41292366--41292426	18	3.3	18	76	13	52	49	1	1	47	1.21
41299560--41299602	19	2.2	20	87	4	61	18	16	13	51	1.77
41301818--41301885	34	2.0	34	100	0	136	44	14	8	32	1.76
41302021--41302061	19	2.2	19	86	8	57	48	4	2	43	1.37
41310498--41310548	19	2.8	18	85	14	61	74	1	3	19	1.07
41310938--41310974	18	2.1	18	94	0	65	40	0	2	56	1.13
41310981--41311021	19	2.1	19	86	4	55	58	9	0	31	1.31
41311111--41311156	20	2.3	20	85	3	58	28	2	10	58	1.43
41318189--41318236	24	2.0	24	100	0	96	20	12	25	41	1.87
41319484--41319560	21	3.7	21	70	19	63	62	1	3	32	1.22
41320838--41320867	13	2.2	14	94	5	53	13	0	13	73	1.10
41326682--41326742	25	2.4	26	83	8	81	39	8	18	34	1.80
41332448--41332565	58	2.0	59	96	1	220	40	19	21	18	1.91
41349449--41349497	24	2.0	25	84	11	66	8	30	4	57	1.47
41355908--41355971	31	2.1	31	100	0	128	42	12	25	20	1.87
41356412--41356458	2	23.5	2	100	0	94	51	0	0	48	1.00
41356452--41356491	20	2.0	22	85	14	59	60	7	2	30	1.38
41356842--41356930	37	2.4	37	88	0	142	42	13	7	35	1.73
41356973--41357048	33	2.3	33	97	0	143	43	15	5	35	1.70
41358895--41359143	50	4.8	50	83	4	282	20	28	23	27	1.99
41358894--41359143	100	2.4	104	86	5	337	20	28	23	27	1.99
41366691--41366939	50	4.8	50	84	4	291	20	28	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41366690--41366939	100	2.4	104	87	5	346	20	28	23	26	1.99
41367277--41367334	30	1.9	30	89	0	89	31	24	3	41	1.71
41372316--41372452	52	2.8	46	80	18	154	33	13	24	27	1.94
41372330--41372481	52	2.9	52	96	0	268	34	15	23	26	1.94
41372455--41372601	37	4.0	37	93	1	244	36	16	22	24	1.94
41375055--41375114	26	2.3	26	77	8	68	36	21	5	36	1.76
41375066--41375118	13	4.1	13	81	13	65	35	24	7	32	1.84
41375066--41375118	26	2.0	26	88	0	79	35	24	7	32	1.84
41381859--41381893	11	3.1	11	88	8	52	28	0	2	68	1.04
41385131--41385167	19	1.9	19	94	0	65	40	2	0	56	1.13
41387174--41387252	31	2.5	31	77	4	79	43	15	8	32	1.77
41387298--41387355	2	28.5	2	92	3	98	48	1	1	48	1.22
41399277--41399320	21	2.1	21	86	0	61	25	4	20	50	1.67
41406628--41406675	17	2.8	18	78	6	55	29	0	4	66	1.10
41414726--41414768	19	2.3	18	84	4	50	27	9	18	44	1.80
41415828--41415861	17	2.0	17	88	0	50	38	2	0	58	1.13
41425694--41425733	19	2.0	20	85	4	55	27	0	2	70	1.01
41426297--41426321	13	1.9	13	100	0	50	72	28	0	0	0.86
41427252--41427291	20	2.0	20	85	0	53	45	2	0	52	1.14
41443117--41443141	7	3.6	7	100	0	50	28	28	16	28	1.97
41445782--41445854	22	3.1	24	78	16	82	45	1	0	53	1.09
41445817--41445854	11	3.5	11	85	0	58	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41446444--41446501	25	2.3	24	80	11	64	51	1	1	44	1.21
41451026--41451069	22	1.9	24	86	9	65	40	4	4	50	1.43
41453479--41453539	28	2.2	27	82	8	70	55	3	6	34	1.42
41458944--41458999	28	2.0	27	86	10	78	44	3	0	51	1.18
41467678--41467725	2	24.0	2	100	0	96	50	0	0	50	1.00
41486462--41486509	23	2.1	23	85	11	64	77	2	8	12	1.08
41487119--41487219	38	2.8	37	76	14	111	45	11	8	33	1.72
41487190--41487251	18	3.5	17	82	6	79	43	12	12	30	1.81
41487378--41487442	18	3.4	19	77	12	62	40	7	12	40	1.71
41487546--41487588	22	2.0	21	90	4	68	39	9	13	37	1.78

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