genome.fa.s7.2.7.7.80.10.50.1000.179.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  179  of  204  ( 24458 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)
52954176--52954222	14	3.4	14	90	0	76	21	4	27	46	1.69
52954310--52954350	20	2.0	21	86	13	59	53	0	0	46	1.00
52969288--52969328	18	2.3	18	91	0	64	31	2	4	60	1.30
52973395--52973434	19	2.1	19	95	0	71	30	0	7	62	1.23
52974604--52974683	39	2.1	39	100	0	160	33	10	5	51	1.57
52976589--52976689	50	2.0	50	86	3	141	36	12	18	31	1.89
52983326--52983359	14	2.5	14	95	4	61	14	0	35	50	1.44
52983488--52983535	23	2.0	24	84	4	62	66	6	6	20	1.36
52985221--52985250	15	1.9	16	93	6	53	83	0	6	10	0.81
52986281--52986463	38	4.8	38	85	0	213	15	18	28	37	1.91
52986707--52986783	39	2.0	39	92	0	127	35	10	14	40	1.80
52988998--52989059	32	1.9	32	96	0	115	41	17	6	33	1.75
52994699--52994891	72	2.6	73	82	4	230	59	3	7	30	1.40
52994829--52994943	52	2.2	51	86	9	153	60	0	6	32	1.27
52994880--52995096	69	3.2	69	78	13	258	62	1	8	27	1.34
52994877--52995081	63	3.2	64	76	13	231	61	1	8	28	1.34
52998761--52998813	16	3.2	16	73	5	61	41	0	22	35	1.54
53001563--53001743	53	3.7	52	73	19	190	49	7	2	40	1.45
53001609--53001682	33	2.2	34	87	4	105	51	9	1	37	1.43
53001577--53001760	93	2.0	93	95	0	332	49	6	3	40	1.47
53001609--53001752	16	7.8	19	63	28	62	50	7	2	39	1.43
53001807--53001863	16	3.6	16	92	0	96	45	5	3	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53001837--53001898	22	2.7	23	90	5	90	48	1	1	48	1.21
53003348--53003384	4	9.0	4	88	5	56	70	0	2	27	1.01
53003283--53003429	70	2.1	73	87	3	210	61	2	6	30	1.32
53003374--53003481	52	2.1	52	91	3	173	60	0	6	32	1.29
53003454--53003497	22	2.0	22	82	8	54	70	0	9	20	1.14
53003299--53003545	116	2.1	121	84	7	328	60	1	7	29	1.34
53003415--53003635	69	3.3	67	84	5	297	62	1	7	27	1.32
53005013--53005201	51	3.9	49	73	13	131	28	19	15	36	1.92
53005072--53005321	45	5.5	45	74	7	198	30	21	14	34	1.93
53005021--53005336	95	3.4	95	81	6	358	30	19	14	35	1.92
53005064--53005366	89	3.3	88	85	4	354	29	20	14	34	1.93
53005157--53005365	45	4.7	45	75	10	169	29	20	14	34	1.93
53005941--53005999	24	2.4	24	83	11	75	18	5	8	67	1.35
53005956--53006009	24	2.2	24	83	0	63	20	5	7	66	1.37
53005963--53006016	20	2.9	19	76	13	60	18	5	9	66	1.39
53006091--53006128	15	2.5	16	83	12	53	15	10	2	71	1.25
53006179--53006219	15	2.7	15	84	0	55	26	7	4	60	1.43
53009121--53009163	24	1.9	23	86	13	63	13	4	6	74	1.19
53009988--53010029	18	2.3	19	84	12	61	54	0	0	45	0.99
53013631--53013662	2	16.0	2	93	0	55	46	0	3	50	1.17
53013861--53014401	227	2.4	228	89	2	831	24	23	26	25	2.00
53013861--53014401	114	4.8	114	89	0	834	24	23	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53030836--53030877	16	2.7	15	82	13	50	26	19	21	33	1.97
53031961--53032006	16	2.9	16	80	0	56	36	6	0	56	1.25
53034824--53034894	34	2.1	34	100	0	142	42	33	2	21	1.67
53041630--53041701	31	2.3	31	85	0	99	48	12	6	31	1.67
53045021--53045061	14	2.9	14	80	20	50	82	2	0	14	0.76
53048874--53048926	21	2.5	21	90	0	79	30	37	9	22	1.86
53052054--53052102	18	2.7	18	80	20	66	73	0	24	2	0.94
53052059--53052095	20	1.9	19	89	10	58	72	0	24	2	0.97
53052108--53052145	20	1.9	20	84	10	51	31	5	5	57	1.43
53053744--53053804	3	19.3	3	74	15	52	59	3	1	36	1.24
53053761--53053790	16	1.9	15	93	6	51	63	3	0	33	1.11
53055187--53055351	43	4.0	42	72	10	151	31	22	20	26	1.98
53055167--53055358	84	2.3	83	88	0	276	30	22	20	25	1.98
53055250--53055539	129	2.3	128	88	1	429	28	21	20	29	1.98
53061460--53061587	16	8.3	16	66	25	55	34	23	2	39	1.68
53071183--53071238	3	17.7	3	75	17	51	60	3	1	33	1.24
53082156--53082208	21	2.5	21	90	0	79	30	35	9	24	1.87
53083913--53083937	7	3.6	7	100	0	50	0	40	16	44	1.47
53085727--53085780	16	3.4	16	68	27	51	20	33	22	24	1.97
53087187--53087241	17	3.4	17	83	14	64	45	0	0	54	0.99
53089746--53089865	58	2.1	58	88	3	179	40	7	15	35	1.76
53092852--53092891	17	2.4	17	84	16	57	45	2	0	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53094097--53094136	21	1.9	21	84	0	53	37	0	0	62	0.95
53105117--53105214	49	2.0	49	97	0	187	27	23	14	34	1.93
53105547--53105597	21	2.4	21	77	6	59	60	0	3	35	1.15
53107690--53107763	15	4.9	15	71	17	64	60	2	0	36	1.11
53107686--53107763	30	2.6	31	78	10	81	61	2	0	35	1.10
53107925--53107984	17	3.8	17	73	24	60	0	18	0	81	0.69
53107924--53107977	17	3.3	16	82	10	65	0	20	0	79	0.73
53107929--53107986	12	5.1	11	84	14	73	0	18	0	81	0.70
53108256--53108288	9	3.8	9	88	8	50	9	3	0	87	0.63
53108256--53108288	17	1.9	17	93	0	57	9	3	0	87	0.63
53108389--53108437	18	2.7	18	80	0	53	0	40	0	59	0.98
53108389--53108439	10	5.3	10	77	15	54	0	39	0	60	0.97
53108666--53108822	59	2.6	59	83	10	187	41	1	21	35	1.62
53108666--53108806	30	4.8	28	74	14	124	40	0	23	35	1.60
53108669--53108822	30	5.2	29	70	17	102	42	1	21	35	1.61
53108994--53109466	77	6.1	76	84	7	528	34	19	17	27	1.95
53108994--53109468	156	3.1	154	83	8	531	34	19	17	27	1.95
53112244--53112311	34	2.0	34	97	0	127	22	23	25	29	1.99
53115288--53115442	39	3.8	39	85	5	168	38	18	21	21	1.94
53115281--53115425	45	3.3	44	80	12	174	40	17	20	22	1.92
53119185--53119217	9	3.7	9	84	15	50	9	12	6	72	1.26
53119174--53119231	18	3.2	18	90	4	82	12	12	6	68	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53119755--53119782	7	4.0	7	100	0	56	85	0	0	14	0.59
53131289--53132012	50	14.5	50	73	1	520	30	19	21	28	1.98
53131303--53132012	100	7.1	100	87	1	976	30	19	21	28	1.98
53131993--53132087	44	2.1	45	79	11	106	32	18	23	25	1.97
53132018--53132225	44	4.8	44	77	8	194	32	21	20	25	1.98
53132019--53132224	84	2.4	85	79	8	211	32	21	20	25	1.97
53132021--53132308	128	2.2	128	90	0	441	31	20	19	28	1.97
53132237--53132348	41	2.8	40	83	4	125	26	20	19	33	1.97
53132021--53132348	128	2.6	128	84	4	396	31	21	19	28	1.97
53133204--53133233	16	1.9	15	93	6	51	60	3	23	13	1.48
53133825--53133881	3	18.7	3	82	10	71	29	3	3	63	1.28
53140510--53140564	29	1.9	28	82	10	67	70	3	3	21	1.18
53140562--53140602	2	20.5	2	89	0	64	46	0	4	48	1.23
53142296--53142327	3	10.7	3	100	0	64	31	0	0	68	0.90
53146550--53146654	46	2.3	46	91	4	176	72	8	4	14	1.25
53146550--53146674	23	5.4	23	81	9	112	72	9	4	13	1.27
53146550--53146654	23	4.6	23	82	8	142	72	8	4	14	1.25
53148952--53149538	88	6.6	88	79	1	609	30	20	23	25	1.98
53148909--53149462	177	3.1	177	86	1	770	29	20	23	25	1.99
53148962--53149545	265	2.2	265	81	1	641	29	20	23	26	1.99
53149727--53150441	50	14.4	49	72	4	482	30	19	22	27	1.98
53149733--53150441	100	7.1	100	88	0	974	30	19	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53150448--53150636	44	4.4	44	72	7	154	31	23	19	25	1.98
53150453--53150701	128	1.9	128	90	0	390	31	22	20	26	1.98
53152222--53152295	3	24.7	3	77	15	73	25	2	2	68	1.16
53152222--53152292	22	3.5	21	85	10	87	25	2	2	69	1.16
53159348--53159390	11	3.7	11	82	11	50	18	4	2	74	1.10
53161083--53161118	14	2.6	14	86	0	54	8	36	0	55	1.30
53163217--53163260	8	5.5	8	100	0	88	36	13	11	38	1.81
53163261--53163550	128	2.3	128	90	1	438	32	22	20	25	1.97
53166022--53166072	12	4.4	12	76	18	63	39	13	0	47	1.43
53174031--53174072	21	2.0	20	86	13	59	66	2	9	21	1.32

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