genome.fa.s2.2.7.7.80.10.50.1000.18.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  18  of  206  ( 24623 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)
5526409--5526449	21	2.0	21	95	0	73	56	4	29	9	1.53
5527134--5527175	15	2.7	16	82	14	52	52	2	0	45	1.13
5527143--5527184	15	2.9	15	82	10	52	52	0	0	47	1.00
5529047--5529073	11	2.5	11	100	0	54	51	18	7	22	1.70
5536054--5536102	24	2.0	24	100	0	98	42	12	12	32	1.79
5539600--5539733	70	1.9	71	89	3	207	32	17	9	39	1.83
5541519--5541543	6	4.2	6	100	0	50	0	16	32	52	1.44
5549609--5549849	129	1.9	129	82	3	306	24	26	18	31	1.98
5549604--5549873	129	2.1	129	80	4	303	24	27	18	30	1.98
5549597--5549874	43	6.5	43	76	6	249	23	26	18	30	1.98
5551909--5551990	25	3.4	25	78	9	73	31	1	23	43	1.61
5551909--5552106	9	23.1	9	65	23	81	33	2	20	43	1.63
5552010--5552073	25	2.5	25	79	2	74	39	0	18	42	1.51
5552029--5552094	16	3.8	16	69	18	51	33	0	18	48	1.48
5552035--5552106	37	1.9	37	97	0	135	33	0	18	48	1.48
5552179--5552364	30	6.1	30	72	12	162	43	2	11	43	1.54
5552365--5552476	20	5.8	20	80	10	142	39	4	5	50	1.45
5552333--5552465	57	2.3	57	98	0	257	41	3	6	48	1.45
5552160--5552442	94	3.0	92	80	9	311	41	3	9	45	1.53
5552831--5552864	15	2.3	15	100	0	68	47	5	5	41	1.52
5554983--5555024	19	2.2	19	86	0	57	23	2	45	28	1.66
5555954--5556009	21	2.6	22	77	8	62	44	32	1	21	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5555938--5556007	14	5.1	14	74	8	54	42	31	2	22	1.68
5556536--5556980	114	3.9	112	73	4	390	24	21	24	29	1.99
5556591--5557061	228	2.1	228	91	0	753	24	19	25	30	1.98
5556704--5557061	114	3.1	112	70	13	316	24	19	25	31	1.98
5558746--5558770	1	25.0	1	100	0	50	100	0	0	0	0.00
5559094--5559170	13	5.9	13	72	11	68	29	6	25	37	1.81
5563921--5564004	36	2.3	37	78	10	93	15	13	28	42	1.84
5566757--5566813	20	2.8	20	80	17	73	31	14	12	42	1.82
5568739--5568787	24	2.0	24	92	0	80	26	18	22	32	1.97
5570541--5570566	11	2.4	11	100	0	52	57	7	7	26	1.54
5584318--5584432	40	2.8	41	74	8	110	35	16	25	22	1.95
5584417--5584867	114	4.0	114	88	0	609	32	20	19	28	1.96
5585261--5585451	14	13.4	14	70	15	81	17	1	32	49	1.54
5585264--5585338	21	3.6	21	77	8	73	20	1	29	49	1.57
5585341--5585390	21	2.3	22	81	18	61	8	0	42	50	1.32
5585408--5585451	7	6.3	7	82	10	54	18	0	31	50	1.47
5585394--5585447	21	2.5	22	82	11	67	20	1	27	50	1.59
5585293--5585514	102	2.2	101	86	7	315	16	0	33	50	1.49
5586678--5586747	27	2.6	27	80	17	99	25	17	10	47	1.78
5590572--5590600	14	2.1	14	93	6	51	34	0	10	55	1.34
5591271--5591513	43	5.6	43	78	3	195	33	20	20	25	1.97
5591281--5591513	87	2.7	86	82	4	247	34	20	20	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5591370--5591537	43	3.9	43	78	4	135	31	22	20	25	1.98
5591524--5591602	35	2.3	35	88	0	122	26	18	20	34	1.96
5603782--5603847	22	3.0	22	90	0	105	33	15	27	24	1.95
5619824--5619889	27	2.4	27	82	0	87	33	16	18	31	1.93
5624149--5624190	22	1.9	22	85	9	59	61	7	2	28	1.35
5628807--5628848	13	3.2	13	80	16	50	21	0	4	73	1.01
5629201--5629239	17	2.3	17	86	0	51	84	5	0	10	0.76
5631780--5631924	72	2.0	72	90	0	227	32	14	19	33	1.92
5633769--5633832	32	2.0	32	100	0	128	31	12	6	50	1.65
5639940--5640126	51	3.7	48	79	7	212	27	27	19	25	1.99
5641158--5641467	27	11.5	27	82	5	324	39	15	17	27	1.90
5641591--5641676	27	3.1	27	83	5	102	22	25	22	30	1.99
5641671--5641720	26	1.9	26	87	0	73	20	22	22	36	1.96
5641820--5641876	28	2.0	28	86	0	78	22	24	22	29	1.99
5642679--5642711	11	3.1	11	91	4	50	24	3	0	72	0.98
5645745--5645826	22	3.7	22	86	0	119	28	15	26	29	1.96
5648624--5649655	27	38.4	27	84	1	1187	41	21	18	18	1.91
5655286--5655320	12	2.9	12	91	0	52	22	2	45	28	1.67
5661788--5661906	27	4.4	27	83	2	150	31	18	25	24	1.97
5661927--5661997	23	3.0	23	87	2	88	16	7	28	47	1.73
5661932--5662009	24	3.3	23	83	5	93	19	7	25	47	1.76
5662173--5662290	32	3.7	32	72	3	112	21	19	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5662196--5662315	64	1.9	64	83	0	159	20	22	21	35	1.96
5662332--5662395	22	2.9	21	74	4	65	18	20	15	45	1.86
5662390--5662442	26	2.0	26	81	0	61	20	24	18	35	1.95
5668241--5668295	26	2.1	26	100	0	110	25	29	20	25	1.99
5668491--5668569	27	3.0	26	80	12	72	22	20	21	35	1.96
5668525--5668775	27	9.2	27	88	6	364	18	17	23	39	1.92
5668522--5668760	83	2.9	82	89	6	360	18	17	24	38	1.92
5668525--5668775	137	1.8	135	89	5	398	18	17	23	39	1.92
5669356--5669402	24	1.9	24	86	4	67	25	36	0	38	1.56
5671431--5671490	28	2.1	29	84	3	77	31	21	23	23	1.98
5671877--5672110	27	8.7	27	82	5	260	22	16	15	45	1.85
5683544--5683723	27	6.7	27	88	5	247	21	15	19	44	1.86
5689331--5689429	28	3.5	28	92	0	162	33	23	20	23	1.97
5689781--5689869	27	3.3	27	75	10	83	24	15	24	34	1.95
5689793--5689908	27	4.3	27	87	0	160	23	17	21	37	1.93
5698908--5699043	69	2.0	69	95	0	245	22	23	11	41	1.87
5701055--5701127	27	2.7	27	83	8	78	20	15	19	45	1.86
5705356--5705554	27	7.3	27	86	3	231	20	16	23	40	1.91
5705356--5705554	81	2.4	82	85	2	267	20	16	23	40	1.91
5708795--5708973	27	6.7	27	81	4	202	20	15	20	44	1.87
5708794--5708950	81	1.9	81	88	2	235	19	15	21	43	1.87
5709927--5709985	26	2.4	24	77	8	57	47	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5712436--5712704	43	6.3	43	79	1	245	28	25	19	26	1.99
5712436--5712704	86	3.1	86	80	2	274	28	25	19	26	1.99
5712436--5712704	129	2.1	128	83	3	335	28	25	19	26	1.99
5712729--5712772	22	1.9	24	86	9	65	40	2	2	54	1.25
5714844--5714950	40	2.7	40	86	5	146	28	17	23	30	1.97
5714847--5714950	39	2.7	38	85	5	136	28	18	22	30	1.97
5715664--5715714	14	3.6	14	80	17	61	29	45	1	23	1.64
5715630--5715714	14	6.2	13	74	15	57	31	44	2	21	1.65
5715707--5715786	21	3.8	21	72	11	56	38	37	1	22	1.62
5716127--5716366	41	5.9	41	82	3	270	32	27	17	22	1.96
5723657--5723715	26	2.4	24	77	8	57	47	1	0	50	1.11
5731322--5731380	26	2.4	24	77	8	57	47	1	0	50	1.11
5737412--5737450	18	2.2	18	86	4	53	30	12	17	38	1.88
5742224--5742264	18	2.3	18	87	4	57	34	12	17	36	1.87
5744070--5744128	26	2.4	24	77	8	57	47	1	0	50	1.11
5751816--5751876	26	2.3	26	80	5	70	47	0	0	52	1.00
5751832--5751887	26	2.2	25	78	12	60	46	3	0	50	1.19
5758493--5758546	27	2.0	27	82	7	65	64	0	1	33	1.04
5758622--5758663	22	2.0	21	86	9	59	66	7	4	21	1.35
5758664--5758702	20	2.0	20	94	0	69	58	5	2	33	1.33
5760399--5760521	45	2.7	45	87	2	167	24	24	21	29	1.99
5760662--5760842	99	1.8	99	87	2	274	26	22	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5761063--5761235	88	2.0	88	86	2	240	26	28	19	26	1.98
5773781--5773822	23	1.9	22	85	9	59	64	7	7	21	1.43
5774284--5774547	140	1.9	141	92	3	444	33	24	15	26	1.95
5782724--5782775	7	7.4	7	77	16	54	38	1	46	13	1.54
5782724--5782775	16	3.7	14	82	12	54	38	1	46	13	1.54
5793488--5793522	16	2.1	17	89	5	54	37	0	51	11	1.38
5796160--5796194	17	2.0	18	94	5	63	17	28	40	14	1.88
5802299--5802350	17	3.2	16	81	10	52	26	0	0	73	0.84
5803359--5803417	26	2.4	23	75	10	55	45	3	0	50	1.18
5806577--5806712	50	2.7	51	86	1	166	25	16	27	30	1.97

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206