genome.fa.s6.2.7.7.80.10.50.1000.156.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  156  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)
46503079--46503233	13	11.8	13	71	10	91	44	4	10	40	1.60
46503079--46503214	53	2.6	53	91	0	227	44	4	11	38	1.61
46503425--46503510	44	1.9	44	85	4	118	48	2	4	44	1.36
46503848--46503896	7	6.9	7	80	13	55	71	12	12	4	1.28
46504180--46504794	305	2.0	306	92	1	1018	40	11	13	34	1.80
46505412--46505879	198	2.4	197	94	1	812	34	20	16	28	1.94
46506327--46506367	18	2.3	18	87	8	57	12	4	0	82	0.81
46506319--46506367	19	2.6	19	78	18	57	12	4	2	81	0.91
46507474--46507535	7	8.9	7	80	7	72	30	50	1	17	1.56
46507320--46507504	95	1.9	95	81	4	221	40	29	2	28	1.68
46507647--46507681	7	5.0	7	85	0	52	34	51	0	14	1.42
46507655--46507685	14	2.2	14	94	0	53	41	41	0	16	1.48
46507636--46507687	21	2.6	19	88	8	77	40	44	0	15	1.46
46507715--46507748	15	2.3	15	90	5	52	35	29	0	35	1.58
46507795--46507836	19	2.2	20	86	4	59	42	23	0	33	1.55
46507984--46508479	114	4.4	112	77	6	480	30	24	22	22	1.99
46507978--46508479	228	2.2	228	82	2	600	30	24	22	22	1.99
46512720--46512854	63	2.1	64	83	2	164	49	11	3	34	1.57
46520451--46520478	3	9.3	3	100	0	56	0	32	0	67	0.91
46538887--46538978	47	1.9	47	84	6	123	44	11	14	29	1.80
46542523--46542563	21	2.0	21	95	0	73	60	0	17	21	1.35
46548603--46548639	5	7.8	5	96	3	60	64	13	0	21	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46549033--46549067	2	17.5	2	100	0	70	48	0	0	51	1.00
46554714--46554753	21	2.0	20	95	5	71	47	15	17	20	1.83
46566175--46566234	28	2.1	29	84	6	77	63	6	0	30	1.20
46566207--46566240	17	2.1	16	88	5	50	52	5	0	41	1.25
46567685--46567720	2	18.0	2	100	0	72	50	0	0	50	1.00
46567914--46568003	33	2.7	33	85	0	126	28	25	14	31	1.95
46577586--46577628	17	2.5	17	92	0	68	23	20	0	55	1.43
46579111--46579225	57	2.0	57	89	0	176	28	3	5	62	1.33
46579120--46579248	57	2.3	57	82	5	145	34	3	3	58	1.32
46582936--46583037	44	2.3	44	87	0	150	32	18	30	18	1.95
46593361--46593392	6	5.3	6	100	0	64	31	50	0	18	1.48
46595618--46595642	2	12.5	2	100	0	50	0	52	0	48	1.00
46606250--46606276	5	5.4	5	100	0	54	18	0	59	22	1.38
46609413--46609463	23	2.3	21	74	12	50	29	5	7	56	1.51
46613281--46613405	30	3.9	32	80	13	123	60	0	3	36	1.13
46613304--46613366	11	5.4	11	76	12	63	58	0	3	38	1.14
46613254--46613373	36	3.1	37	88	9	170	62	0	2	34	1.14
46613254--46613397	77	1.9	77	89	7	229	61	0	3	34	1.18
46613238--46613398	77	2.2	73	85	11	220	59	0	3	36	1.18
46614833--46614869	17	2.1	18	85	14	51	59	0	0	40	0.97
46620436--46620464	14	2.0	15	93	6	51	72	0	0	27	0.85
46631217--46631372	78	2.0	78	100	0	312	23	16	16	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46631980--46632017	2	19.0	2	100	0	76	50	0	0	50	1.00
46636108--46636162	2	27.5	2	100	0	110	49	0	0	50	1.00
46637755--46637786	15	2.3	15	89	10	50	71	0	0	28	0.86
46639536--46639598	29	2.1	31	88	5	94	46	9	14	30	1.76
46640696--46640892	105	1.9	105	81	6	238	34	16	24	25	1.95
46643727--46643778	24	2.2	23	82	6	59	7	21	1	69	1.24
46645300--46645331	9	3.7	9	95	4	57	21	0	0	78	0.76
46645795--46645829	15	2.4	15	90	4	54	31	0	0	68	0.90
46647505--46647538	16	2.1	16	100	0	68	44	5	11	38	1.65
46659891--46659961	27	2.6	27	77	4	72	26	35	28	9	1.88
46660153--46660512	156	2.3	157	93	1	607	53	8	8	30	1.60
46660742--46660779	20	1.9	20	88	0	58	42	5	0	52	1.24
46665008--46665061	24	2.2	24	90	6	83	40	22	22	14	1.90
46669929--46669962	14	2.5	13	90	4	50	44	0	0	55	0.99
46678706--46678779	37	2.0	37	94	0	130	40	21	10	27	1.86
46682308--46682339	2	16.0	2	100	0	64	50	0	0	50	1.00
46691541--46691573	6	5.5	6	96	0	57	57	0	0	42	0.98
46693220--46693246	2	13.5	2	100	0	54	51	0	0	48	1.00
46697866--46698084	37	6.0	37	95	2	381	24	21	16	37	1.93
46698048--46698467	46	8.6	46	76	14	333	28	20	14	36	1.92
46698100--46698461	46	7.1	52	86	8	382	27	21	14	36	1.92
46698137--46698263	59	2.2	58	94	2	218	25	24	12	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46698059--46698355	157	1.9	151	89	4	459	27	20	14	36	1.92
46698048--46698467	92	4.3	94	79	12	434	28	20	14	36	1.92
46700863--46700901	19	2.1	19	100	0	78	33	25	10	30	1.89
46706182--46706210	3	9.7	3	100	0	58	31	0	0	68	0.89
46711549--46711582	2	17.0	2	100	0	68	50	0	0	50	1.00
46712838--46712885	24	2.0	25	83	4	62	68	6	6	18	1.32
46714892--46714940	24	2.0	24	100	0	98	24	22	8	44	1.79
46718004--46718045	15	2.8	16	78	10	52	73	9	7	9	1.24
46724408--46724571	9	17.6	9	70	17	86	61	2	1	34	1.20
46724397--46724582	21	9.2	20	70	15	89	62	2	2	32	1.21
46724508--46724552	10	4.5	10	81	8	56	53	0	2	44	1.13
46724507--46724571	30	2.2	29	83	8	78	56	1	1	40	1.18
46724524--46724620	48	2.0	51	82	10	121	57	3	5	34	1.36
46725062--46725101	17	2.4	18	84	16	59	30	0	17	52	1.45
46725073--46725109	17	2.2	17	95	0	65	27	0	18	54	1.44
46726320--46726415	46	2.1	46	96	0	174	34	8	28	29	1.86
46728293--46728369	9	8.6	9	74	14	70	33	1	2	62	1.17
46728293--46728359	19	3.7	19	80	11	70	34	0	2	62	1.10
46728290--46728390	28	3.7	26	81	13	107	34	1	1	61	1.19
46729912--46729941	11	2.7	11	94	0	51	26	6	0	66	1.16
46730663--46730756	47	2.0	47	100	0	188	27	10	17	44	1.81
46731027--46731059	16	2.1	16	100	0	66	36	6	12	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46734364--46734397	12	2.6	13	86	13	52	50	0	0	50	1.00
46741324--46741575	123	2.0	125	89	2	391	30	22	16	29	1.96
46741956--46742009	22	2.5	22	87	0	90	46	9	18	25	1.79
46742253--46742286	17	2.0	17	100	0	68	35	11	5	47	1.65
46744684--46744709	13	2.0	13	100	0	52	38	0	7	53	1.30
46748002--46748539	120	4.5	120	96	0	918	43	2	5	48	1.39
46748123--46748157	18	2.0	17	88	5	52	45	0	0	54	0.99
46748367--46748418	15	3.6	15	80	12	56	44	0	1	53	1.11
46748683--46748770	45	2.0	44	84	10	117	34	23	5	36	1.79
46748751--46748783	16	2.1	16	94	0	57	21	33	6	39	1.78
46748966--46749008	20	2.2	20	100	0	86	37	4	9	48	1.56
46775301--46775335	8	4.2	8	96	3	61	22	11	28	37	1.89
46778636--46778706	34	2.1	33	92	2	115	47	5	7	39	1.54
46778999--46779062	31	2.1	30	88	5	94	51	7	0	40	1.31
46780491--46780530	17	2.4	17	83	8	55	20	2	0	77	0.88
46780488--46780530	18	2.4	18	77	14	54	20	2	0	76	0.89
46780487--46780541	26	2.1	27	82	3	67	29	3	0	67	1.08
46785341--46785406	29	2.2	30	86	5	98	36	6	24	33	1.80
46787487--46787579	45	2.1	45	91	0	150	37	2	13	46	1.56
46787748--46787901	42	3.7	42	83	0	182	19	22	16	41	1.90
46787819--46787894	21	3.6	21	77	8	66	21	27	11	39	1.88
46802192--46802234	21	2.0	22	86	8	63	37	39	4	18	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46802897--46802922	5	5.2	5	100	0	52	0	19	0	80	0.71
46806515--46806539	6	4.2	6	100	0	50	84	0	0	16	0.63
46806502--46806581	41	1.9	42	89	2	126	67	0	1	31	0.99
46809791--46809851	21	2.9	21	67	0	59	16	14	19	49	1.80
46809837--46809898	21	3.0	21	78	0	79	14	27	17	40	1.89
46809780--46809902	42	2.9	42	80	4	149	15	21	18	44	1.86
46811093--46811135	23	2.0	20	82	13	50	30	4	18	46	1.69
46811550--46811694	71	2.0	71	86	2	202	33	21	20	25	1.97
46823735--46823785	22	2.3	22	100	0	102	27	33	0	39	1.57
46823831--46823894	31	2.1	31	93	0	110	34	0	0	65	0.93

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