genome.fa.s6.2.7.7.80.10.50.1000.152.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  152  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)
44923375--44923584	68	3.1	68	97	1	388	40	4	9	45	1.57
44923527--44923554	9	3.1	9	100	0	56	32	0	10	57	1.33
44939260--44939290	6	5.0	6	96	4	53	19	32	16	32	1.94
44941237--44941274	18	2.1	18	90	0	58	18	15	13	52	1.74
44953604--44953648	21	2.1	21	84	8	56	31	4	4	60	1.37
44957724--44957757	13	2.8	12	86	8	50	41	0	2	55	1.15
44961376--44961424	19	2.5	20	83	6	73	67	2	0	30	1.02
44962552--44962609	2	29.0	2	100	0	116	50	0	0	50	1.00
44967965--44968042	33	2.4	33	81	12	97	25	26	17	29	1.98
44967983--44968179	105	1.9	101	84	4	259	28	23	14	32	1.94
44984292--44984375	38	2.2	38	97	0	159	25	35	5	33	1.80
44984752--44984788	18	2.1	18	94	0	65	48	18	0	32	1.49
44994244--44994273	13	2.3	13	94	0	51	33	3	13	50	1.58
44994376--44994610	50	4.7	50	87	0	326	25	22	31	21	1.98
44994826--44994864	19	2.1	19	100	0	78	53	5	20	20	1.64
44996844--44996881	19	2.0	19	89	0	58	50	0	2	47	1.15
44997334--44997376	18	2.4	18	88	0	59	41	44	2	11	1.53
44997490--44997532	9	4.8	9	88	0	59	25	6	20	46	1.76
45012200--45012227	2	14.0	2	100	0	56	50	0	0	50	1.00
45013493--45013570	31	2.5	31	77	20	92	37	3	0	58	1.16
45013604--45013656	21	2.4	23	84	9	67	45	1	1	50	1.23
45015433--45015498	33	2.1	32	83	11	82	50	0	3	46	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45020817--45020936	61	2.0	61	93	3	206	30	15	12	40	1.85
45040365--45040401	17	2.2	17	90	0	56	37	5	0	56	1.22
45041691--45041755	31	2.1	32	85	2	87	24	30	18	26	1.98
45042099--45042160	31	2.0	31	93	6	108	32	9	12	45	1.75
45043102--45043273	76	2.3	76	97	2	328	32	19	19	28	1.96
45045613--45045680	34	2.0	34	100	0	136	35	2	17	44	1.64
45052585--45052618	17	2.0	17	88	0	50	38	5	8	47	1.59
45064651--45064677	2	13.5	2	100	0	54	48	0	0	51	1.00
45064916--45064969	28	2.0	26	82	10	65	9	16	1	72	1.19
45065360--45065436	29	2.5	31	79	4	86	45	11	15	27	1.81
45070016--45070056	18	2.3	18	87	8	57	43	0	0	56	0.99
45073854--45073930	14	5.2	14	71	21	59	67	7	2	22	1.29
45081367--45081402	18	2.1	18	89	5	56	25	0	8	66	1.19
45081360--45081422	27	2.2	28	76	15	67	25	1	9	63	1.34
45082540--45082579	21	2.0	21	90	9	66	62	2	0	35	1.09
45083277--45083376	51	2.0	51	93	0	173	41	11	33	15	1.82
45083787--45083846	29	2.1	29	93	0	102	41	8	11	38	1.72
45088482--45088545	27	2.4	27	82	12	78	18	6	10	64	1.46
45089024--45089058	17	2.0	18	88	5	54	34	0	0	65	0.93
45096669--45096727	29	2.0	29	100	0	118	33	6	20	38	1.79
45098447--45098496	21	2.3	23	89	6	77	68	14	2	16	1.31
45098943--45098988	23	2.1	22	84	8	58	28	8	0	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45099948--45099979	17	1.9	17	93	6	57	71	0	3	25	1.00
45102387--45102422	2	18.0	2	100	0	72	50	0	0	50	1.00
45109962--45110059	47	2.1	47	96	0	178	37	12	15	34	1.85
45111844--45112490	323	2.0	324	96	0	1181	40	14	9	36	1.78
45112720--45112773	19	2.7	19	75	8	54	59	3	0	37	1.15
45115971--45116026	10	5.6	10	74	16	53	32	5	1	60	1.29
45115971--45116028	20	2.9	21	84	7	84	32	5	1	60	1.29
45116024--45116090	23	2.9	23	67	8	64	47	2	4	44	1.38
45118185--45118209	12	2.1	12	100	0	50	40	0	0	60	0.97
45126912--45126947	2	18.5	2	94	5	65	47	0	0	52	1.00
45132355--45132389	3	11.7	3	100	0	70	65	0	34	0	0.93
45134019--45134044	2	13.0	2	100	0	52	0	50	0	50	1.00
45137813--45137841	12	2.3	13	94	5	51	41	0	0	58	0.98
45144788--45144859	21	3.5	20	79	7	63	20	23	16	38	1.92
45147684--45147710	2	13.5	2	100	0	54	0	48	0	51	1.00
45158093--45158183	34	2.7	33	83	10	112	42	0	14	42	1.45
45158252--45158642	126	3.2	124	81	6	465	38	17	16	27	1.91
45161724--45161785	25	2.4	25	76	10	63	53	3	0	43	1.17
45161727--45161917	93	2.1	91	89	3	287	57	4	2	36	1.30
45163999--45164038	11	3.6	11	86	6	55	52	0	25	22	1.47
45169775--45169931	49	3.2	49	98	0	296	42	1	10	45	1.49
45171682--45171726	20	2.3	20	76	3	56	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45178675--45178739	9	6.9	9	75	15	60	60	3	3	33	1.28
45179872--45179998	38	3.3	38	82	4	157	33	13	18	34	1.89
45182337--45182401	4	17.0	4	78	9	64	46	1	3	49	1.27
45182337--45182401	6	11.3	6	75	9	64	46	1	3	49	1.27
45183256--45183485	41	5.6	41	92	0	370	28	21	28	22	1.99
45184876--45184937	32	1.9	32	96	0	115	24	19	19	37	1.94
45190283--45190335	13	4.1	13	76	9	63	35	24	7	32	1.84
45191857--45191900	23	1.9	23	100	0	88	34	25	9	31	1.87
45210959--45210990	16	2.1	16	94	5	57	59	0	3	37	1.13
45211225--45211259	18	1.9	18	88	11	54	68	2	0	28	1.04
45213475--45213514	2	20.0	2	100	0	80	50	0	0	50	1.00
45217420--45217454	16	2.2	17	90	10	56	20	11	2	65	1.37
45235554--45235600	15	3.2	15	81	3	60	53	2	0	44	1.12
45250757--45250891	40	3.4	40	72	7	132	28	16	23	31	1.96
45251526--45251550	13	1.9	13	100	0	50	24	0	20	56	1.43
45255671--45256583	153	6.0	152	86	4	1193	31	9	7	52	1.60
45255671--45256579	305	3.0	302	87	3	1243	31	8	7	52	1.59
45269511--45269546	11	3.5	11	88	11	58	52	0	0	47	1.00
45271644--45271675	16	2.1	16	94	5	57	59	0	0	40	0.97
45271636--45271688	24	2.1	26	86	10	74	56	0	0	43	0.99
45271646--45271703	24	2.4	22	78	16	53	55	0	1	43	1.10
45271647--45271705	28	2.1	27	81	12	66	54	0	1	44	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45271831--45271870	19	2.0	22	85	14	59	42	0	2	55	1.13
45271915--45271962	22	2.2	22	82	14	55	70	8	20	0	1.12
45271903--45271990	29	3.1	29	76	13	78	71	6	21	0	1.09
45272875--45272958	21	4.0	21	78	4	80	16	20	26	36	1.93
45280855--45280899	19	2.4	18	82	7	54	40	2	6	51	1.41
45280866--45280912	20	2.4	20	92	3	78	36	0	6	57	1.24
45281406--45281478	2	36.5	2	100	0	146	49	0	0	50	1.00
45284513--45284543	14	2.2	14	100	0	62	64	0	0	35	0.94
45287463--45287506	22	2.0	23	86	4	63	36	11	0	52	1.38
45294192--45294216	5	5.0	5	100	0	50	0	0	20	80	0.72
45295827--45295903	39	2.0	38	89	2	118	35	1	6	57	1.33
45303439--45303665	112	2.0	112	100	0	454	51	15	13	20	1.76
45339963--45340000	20	1.9	20	84	10	51	57	5	5	31	1.43
45340032--45340102	37	1.9	37	91	0	115	45	4	9	40	1.57
45340192--45340261	3	23.3	3	94	0	122	67	0	1	31	1.00
45340295--45340348	23	2.4	22	75	3	54	64	7	3	24	1.35
45341234--45341267	2	17.0	2	100	0	68	50	0	0	50	1.00
45342165--45342200	17	2.1	17	100	0	72	44	19	11	25	1.83
45343585--45343634	25	2.0	25	88	0	73	24	18	16	42	1.89
45346062--45346110	25	1.9	26	84	12	66	63	2	8	26	1.34
45346425--45346484	30	2.0	30	93	0	102	28	18	13	40	1.88
45351820--45351885	11	6.4	11	75	24	72	56	0	3	40	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45351830--45351912	17	4.7	17	73	24	73	56	0	1	42	1.07
45351820--45351901	39	2.1	38	95	2	146	58	0	2	39	1.11
45351873--45351913	15	2.7	16	77	11	50	60	0	0	39	0.96
45358456--45358480	13	1.9	13	100	0	50	56	16	12	16	1.68
45362186--45362261	23	3.3	23	74	17	68	44	0	2	52	1.14
45364944--45364996	2	26.5	2	100	0	106	49	0	0	50	1.00
45373789--45373833	23	2.0	22	86	4	63	51	35	2	11	1.50
45378360--45378394	17	2.1	17	100	0	70	51	0	0	48	1.00
45379043--45379083	18	2.3	19	83	8	50	41	0	2	56	1.13
45379073--45379132	19	3.0	21	83	11	65	35	1	3	60	1.23

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