genome.fa.s6.2.7.7.80.10.50.1000.56.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  56  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)
15897095--15897259	50	3.3	50	78	7	165	35	22	15	26	1.94
15897221--15897269	25	2.0	25	91	0	80	36	18	14	30	1.90
15898820--15898914	44	2.2	44	84	3	129	52	21	12	13	1.73
15898820--15898926	44	2.4	44	80	6	119	52	21	13	13	1.73
15906039--15906080	21	2.0	22	85	4	59	59	11	9	19	1.59
15906429--15906467	18	2.2	18	90	0	60	51	7	2	38	1.44
15909009--15909067	13	4.5	13	84	0	73	27	5	23	44	1.74
15931446--15931477	15	2.0	17	88	11	50	6	6	21	65	1.38
15931668--15932179	263	1.9	263	88	1	776	25	14	21	38	1.92
15933719--15933816	50	2.0	50	86	8	137	31	15	12	40	1.84
15938931--15938981	24	2.2	23	92	3	84	49	23	7	19	1.74
15944966--15945278	157	2.0	156	91	0	509	29	20	15	34	1.93
15946645--15946780	51	2.7	51	83	3	168	23	18	27	30	1.98
15946643--15946773	50	2.6	50	85	3	165	22	18	28	30	1.97
15946782--15946869	45	2.0	45	95	0	158	26	18	22	32	1.97
15950137--15950167	16	2.0	15	93	6	53	45	3	0	51	1.17
15956731--15956786	27	2.1	27	100	0	112	41	3	17	37	1.67
15959118--15959309	51	3.8	50	81	5	226	30	26	14	28	1.95
15961468--15961759	50	5.7	50	81	2	262	24	27	20	27	1.99
15962103--15962160	30	1.9	30	85	0	80	32	25	3	37	1.73
15967272--15967322	23	2.2	23	92	0	84	27	9	21	41	1.84
15971126--15971346	51	4.4	50	78	8	189	25	16	28	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15971122--15971309	51	3.7	50	82	4	218	25	17	27	30	1.97
15971122--15971327	101	2.0	101	82	4	245	25	17	27	29	1.97
15972845--15972874	14	2.1	14	93	0	51	36	16	0	46	1.47
15976639--15976746	21	5.1	21	73	0	99	43	17	23	15	1.87
15976586--15976747	42	3.9	42	79	3	148	44	16	22	16	1.86
15984399--15984439	21	2.0	21	85	0	55	51	21	14	12	1.75
15984403--15984548	42	3.5	42	78	5	143	43	17	22	16	1.87
15984429--15984481	21	2.5	21	71	0	52	43	16	24	15	1.87
15988965--15989017	18	2.9	18	82	0	61	43	26	11	18	1.84
15990572--15990622	19	2.6	19	76	11	59	43	9	9	37	1.71
15990907--15991233	173	1.9	172	90	0	528	35	13	12	39	1.82
15991658--15991742	31	2.7	31	87	7	91	51	5	0	42	1.26
15991693--15991742	17	3.1	17	70	24	54	52	6	0	42	1.26
15991677--15991742	31	2.2	31	94	2	116	53	4	0	42	1.21
15995152--15995202	20	2.5	20	90	0	75	35	13	5	45	1.68
15997834--15998072	43	5.6	44	75	10	235	34	24	15	25	1.95
15997791--15998111	85	3.8	85	88	2	439	34	23	16	24	1.95
15998085--15998137	26	2.0	26	88	0	79	28	32	22	16	1.96
16002998--16003039	8	5.5	8	80	11	52	35	16	0	47	1.47
16002998--16003041	22	2.0	22	95	0	79	36	15	0	47	1.46
16008922--16008964	19	2.3	19	84	11	61	62	0	9	27	1.25
16008923--16008970	22	2.4	19	82	10	51	60	0	8	31	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16014607--16014677	27	2.6	27	88	4	97	23	26	11	38	1.89
16014609--16014688	27	2.9	27	81	3	79	27	27	11	33	1.91
16014796--16014862	27	2.4	27	87	2	89	32	17	13	35	1.89
16016504--16016603	13	7.6	13	76	10	87	40	2	18	40	1.62
16016504--16016619	53	2.2	52	80	6	126	39	2	18	39	1.64
16016543--16016614	13	5.5	13	80	9	65	36	2	18	43	1.64
16022960--16023025	26	2.5	26	90	0	105	21	25	24	28	1.99
16030939--16030996	18	3.1	18	77	15	64	43	17	25	13	1.86
16030942--16031015	39	1.9	39	88	2	114	41	17	25	14	1.88
16037249--16037288	21	1.9	21	84	0	53	45	2	20	32	1.64
16042486--16042740	126	2.0	126	97	0	483	32	20	18	29	1.96
16057317--16057373	21	2.7	21	78	8	62	33	7	35	24	1.82
16065602--16065740	67	2.1	67	95	0	251	25	13	5	55	1.59
16066095--16066152	28	2.1	28	100	0	116	36	17	6	39	1.76
16069365--16069395	16	1.9	16	93	0	53	54	3	0	41	1.16
16070638--16070695	11	5.2	11	89	2	71	22	32	1	43	1.64
16070638--16070703	22	3.0	22	84	6	71	24	31	1	42	1.64
16070640--16070715	22	3.4	22	81	5	64	26	31	1	40	1.64
16070640--16070714	33	2.2	33	81	11	82	26	30	1	41	1.64
16070673--16070772	51	2.0	51	82	4	121	28	26	3	43	1.69
16070778--16070816	15	2.7	14	85	14	53	48	0	0	51	1.00
16073936--16074378	127	3.5	125	87	2	611	29	23	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16075168--16075212	21	2.1	21	87	0	63	40	0	13	46	1.43
16077416--16077484	26	2.7	26	79	0	66	18	13	34	33	1.90
16079177--16079212	6	6.0	6	93	0	54	55	0	27	16	1.42
16079178--16079216	18	2.2	18	95	0	69	61	0	23	15	1.33
16079178--16079216	12	3.2	12	88	0	60	61	0	23	15	1.33
16080079--16080159	42	2.0	40	92	7	137	39	12	8	39	1.74
16087343--16087486	41	3.5	40	90	1	207	23	29	21	25	1.99
16089501--16089525	13	1.9	13	100	0	50	68	24	0	8	1.16
16097462--16097500	19	2.0	20	85	14	55	7	10	17	64	1.48
16101700--16101726	7	3.9	7	100	0	54	25	0	0	74	0.83
16104352--16104423	36	2.0	36	97	0	135	31	16	18	33	1.93
16106053--16106078	12	2.2	12	100	0	52	61	7	15	15	1.55
16113719--16113988	35	7.5	34	75	10	252	40	14	21	24	1.90
16113716--16113988	36	7.6	35	75	14	198	39	14	20	24	1.90
16113715--16113988	109	2.5	107	85	4	354	39	14	20	25	1.90
16113716--16113988	73	3.8	72	80	8	306	39	14	20	24	1.90
16116574--16116675	41	2.5	41	88	3	152	27	19	25	27	1.99
16117255--16117288	16	2.2	15	89	5	50	38	2	0	58	1.13
16118213--16118283	34	2.3	31	86	13	101	56	4	2	36	1.34
16118222--16118290	34	2.0	34	100	0	138	53	5	2	37	1.40
16118478--16118733	139	1.8	140	86	4	374	31	21	19	26	1.98
16119981--16120038	27	2.1	27	81	6	64	31	37	17	13	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16125179--16125243	27	2.5	26	87	2	85	41	1	4	52	1.31
16128034--16128104	37	1.9	36	83	8	90	38	35	14	12	1.84
16130138--16130170	2	17.0	2	93	6	59	48	0	0	51	1.00
16130630--16130654	8	3.1	8	100	0	50	76	0	0	24	0.80
16131130--16131168	3	13.0	3	100	0	78	66	0	0	33	0.92
16134631--16134664	17	2.0	17	100	0	68	58	23	5	11	1.55
16137666--16137694	14	2.1	14	93	6	51	86	13	0	0	0.58
16138183--16138222	20	2.0	20	85	0	53	32	5	17	45	1.70
16142248--16142299	27	1.9	27	92	0	86	28	32	23	15	1.95
16142110--16142373	101	2.6	102	95	0	476	31	31	20	17	1.95
16144679--16144726	19	2.6	18	83	6	51	72	2	22	2	1.05
16152673--16152804	51	2.6	50	80	4	149	23	19	25	31	1.98
16152620--16152804	101	1.8	102	85	3	266	24	18	25	30	1.98
16162396--16162429	17	2.0	17	88	11	52	35	5	5	52	1.50
16164881--16165054	91	1.9	91	85	0	240	24	21	16	36	1.94
16167574--16167628	19	2.9	19	86	7	69	50	5	1	41	1.36
16167633--16167700	30	2.3	28	85	7	91	61	2	1	33	1.20
16167630--16167695	9	6.9	9	72	13	51	59	3	1	36	1.22
16170227--16170273	24	2.0	24	83	8	60	63	0	36	0	0.94
16174423--16174462	20	2.0	22	85	14	59	30	0	2	67	1.04
16174814--16174879	29	2.2	30	86	2	89	42	15	10	31	1.81
16176691--16176868	93	1.9	95	80	14	208	39	2	14	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16176907--16177327	126	3.3	126	94	0	727	31	19	21	27	1.97
16178427--16178458	7	4.6	7	96	0	55	53	15	3	28	1.57
16179579--16179635	29	2.0	29	92	0	96	54	3	1	40	1.28
16179632--16179698	11	6.2	10	78	11	62	44	1	28	25	1.63
16179632--16179695	33	1.9	33	84	6	85	43	1	28	26	1.64
16180942--16181017	40	1.9	40	83	0	98	27	21	35	15	1.94
16188447--16188635	92	2.1	92	98	0	369	35	21	19	23	1.96
16188827--16189017	69	2.8	69	83	0	220	35	23	20	20	1.96
16193689--16193739	21	2.3	21	83	10	57	39	9	3	47	1.55
16200488--16200524	9	4.2	9	86	6	58	78	0	18	2	0.87

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