genome.fa.s6.2.7.7.80.10.50.1000.50.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  50  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)
14087503--14087623	64	1.9	64	89	3	190	34	30	19	15	1.93
14094087--14094143	26	2.2	25	84	12	71	45	21	19	14	1.85
14094174--14094260	26	3.4	26	78	7	88	39	19	21	19	1.93
14097759--14097926	76	2.2	76	92	1	275	35	17	23	23	1.96
14097876--14098204	35	9.5	35	70	10	194	31	23	24	20	1.98
14097876--14098203	69	4.8	69	85	1	408	31	23	24	21	1.98
14098245--14098282	20	1.9	20	88	0	58	42	21	0	36	1.53
14101232--14103507	751	3.0	759	86	4	3239	25	13	21	38	1.90
14105928--14105999	27	2.8	26	82	4	92	27	23	25	23	2.00
14107039--14107087	23	2.2	23	82	10	57	10	4	18	67	1.36
14110659--14110696	18	2.2	18	85	4	51	13	26	44	15	1.83
14112639--14112799	61	2.7	60	82	14	197	42	0	3	52	1.23
14116090--14116138	24	2.0	24	100	0	98	38	20	20	20	1.93
14119657--14119723	33	2.0	33	94	0	116	23	23	5	46	1.74
14128816--14128868	27	2.0	27	88	0	79	35	11	5	47	1.63
14137649--14137687	17	2.2	18	90	4	62	25	51	5	17	1.66
14141533--14141568	9	4.1	9	89	7	56	41	13	0	44	1.44
14141533--14141568	17	2.1	17	89	5	54	41	13	0	44	1.44
14142313--14142514	43	4.7	43	80	2	219	24	15	22	37	1.93
14142307--14142514	84	2.4	85	84	1	274	24	15	22	37	1.93
14144760--14144816	2	28.5	2	96	0	105	1	0	47	50	1.11
14147779--14147823	18	2.5	18	88	0	63	46	15	4	33	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14148843--14148906	25	2.6	25	73	9	58	28	9	7	54	1.60
14152321--14152385	13	5.1	13	83	3	87	30	6	26	36	1.81
14153826--14153902	13	5.9	13	89	0	109	24	10	23	41	1.85
14156833--14156890	14	4.5	13	77	16	57	25	1	0	72	0.94
14156833--14156890	27	2.2	25	84	6	71	25	1	0	72	0.94
14159774--14159809	4	9.0	4	100	0	72	0	25	0	75	0.81
14161564--14161621	22	2.6	22	81	7	64	41	17	5	36	1.72
14162227--14162849	44	14.5	45	75	11	166	28	25	18	27	1.98
14162149--14162516	179	2.1	177	87	5	537	27	23	18	30	1.98
14162420--14162849	88	5.1	86	79	13	409	29	24	19	26	1.98
14162445--14162766	122	2.7	114	81	13	371	28	26	19	25	1.99
14162441--14162848	166	2.5	166	92	0	656	28	25	19	25	1.98
14162567--14162807	122	2.0	122	94	0	419	28	26	20	24	1.99
14168913--14168957	22	2.0	22	86	4	63	37	17	6	37	1.76
14169459--14169509	23	2.2	23	89	0	75	29	9	21	39	1.85
14171378--14171420	21	2.0	21	100	0	86	60	16	4	18	1.52
14171593--14171655	17	3.5	17	69	12	54	34	3	12	49	1.57
14171590--14171664	37	2.0	37	94	0	114	36	4	14	45	1.64
14174778--14174807	15	1.9	16	93	6	53	50	6	0	43	1.28
14176259--14176358	49	2.0	49	92	0	164	48	11	9	32	1.70
14178391--14178483	45	2.1	45	93	4	161	31	2	13	52	1.53
14178466--14178502	19	1.9	19	100	0	74	35	0	10	54	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14178421--14178547	64	2.0	64	95	3	229	31	2	12	53	1.51
14178360--14178592	109	2.2	106	90	6	364	30	2	13	53	1.53
14178510--14178584	26	3.2	26	60	25	65	24	5	16	54	1.62
14178485--14178701	45	5.0	44	85	10	295	30	3	12	52	1.55
14178620--14178677	19	3.1	18	95	5	98	32	1	10	55	1.44
14178746--14178845	48	2.1	47	87	3	139	47	6	5	42	1.50
14178937--14178972	17	2.1	17	89	0	54	63	11	5	19	1.46
14179231--14179269	10	3.9	10	86	0	60	56	17	12	12	1.67
14179248--14179338	25	3.6	25	79	5	110	57	13	9	19	1.64
14180941--14180981	12	3.5	12	75	18	50	58	21	12	7	1.58
14183150--14183182	7	4.7	7	100	0	66	27	0	15	57	1.38
14185987--14186403	126	3.3	125	91	2	683	28	20	17	34	1.95
14186446--14186743	96	3.1	96	88	3	429	40	18	3	37	1.66
14186794--14186827	6	5.5	6	86	6	50	38	44	0	17	1.49
14187797--14187835	17	2.2	17	86	4	51	33	0	5	61	1.18
14189242--14189293	27	2.0	25	81	7	59	50	19	5	25	1.69
14190894--14190937	22	2.0	22	82	8	54	27	4	63	4	1.33
14192653--14192692	21	1.9	21	84	0	53	47	0	0	52	1.00
14193366--14193432	29	2.3	30	82	10	77	50	10	2	35	1.52
14194861--14194887	13	2.1	13	100	0	54	22	22	18	37	1.95
14195882--14195916	15	2.2	16	90	5	54	82	2	0	14	0.77
14196414--14196504	19	4.9	18	72	23	73	67	4	3	25	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14196460--14196523	14	3.8	17	77	22	64	73	3	0	23	0.97
14196460--14196511	19	2.8	19	77	13	63	69	3	0	26	1.06
14196497--14196526	7	4.3	7	100	0	60	83	0	0	16	0.65
14196691--14196733	21	2.0	21	86	0	59	37	0	2	60	1.10
14200682--14200713	15	2.1	15	100	0	64	31	6	18	43	1.75
14200825--14200849	5	5.0	5	100	0	50	20	0	0	80	0.72
14202410--14202651	50	4.9	50	82	2	274	21	28	21	28	1.98
14205939--14205979	21	1.9	22	90	5	66	43	0	0	56	0.99
14209656--14209834	38	4.6	38	69	18	134	43	1	3	50	1.30
14209587--14210118	120	4.4	120	94	0	902	43	1	3	51	1.28
14209703--14209738	18	2.1	17	90	10	56	36	2	0	61	1.11
14210062--14210096	18	2.0	17	88	5	52	45	0	0	54	0.99
14210244--14210348	44	2.5	40	73	15	104	32	28	4	34	1.78
14210242--14210351	45	2.6	44	78	8	122	32	28	5	33	1.80
14210330--14210386	16	3.6	16	95	0	96	29	36	0	33	1.58
14210332--14210399	16	4.2	16	94	0	91	32	35	0	32	1.58
14212876--14212952	37	2.1	37	80	11	86	37	9	1	51	1.42
14213030--14213097	27	2.5	27	75	17	68	36	7	1	54	1.37
14213251--14213304	3	18.0	3	100	0	108	33	0	0	66	0.92
14216658--14216690	14	2.3	15	89	5	50	30	15	30	24	1.95
14216770--14216808	11	3.5	11	83	16	53	82	2	15	0	0.79
14216769--14216808	17	2.3	18	91	4	64	82	2	15	0	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14218184--14218369	92	2.0	92	87	2	266	27	23	23	25	2.00
14218550--14218606	29	2.0	29	82	6	71	38	12	14	35	1.83
14219422--14219455	14	2.4	14	90	5	50	76	0	5	17	0.98
14219502--14219555	22	2.4	22	84	6	63	42	5	12	38	1.67
14220937--14222085	132	8.7	132	90	2	1636	28	24	18	28	1.98
14220961--14221548	44	13.4	44	65	17	150	29	23	18	29	1.97
14220960--14222086	523	2.1	524	90	1	1729	28	23	18	28	1.98
14221705--14222017	44	7.1	43	65	11	150	29	24	19	27	1.98
14221857--14222050	44	4.4	43	67	12	117	26	24	18	30	1.98
14223437--14223473	14	2.6	15	83	12	51	10	18	0	70	1.16
14226360--14226401	19	2.2	19	83	8	50	40	9	21	28	1.84
14226432--14226457	13	2.0	13	100	0	52	46	15	7	30	1.74
14227440--14227497	29	2.0	29	83	6	73	39	12	13	34	1.82
14228398--14228451	22	2.4	22	84	6	63	42	5	12	38	1.67
14228477--14228515	3	13.0	3	100	0	78	66	0	0	33	0.92
14229558--14229792	50	4.9	50	72	10	200	30	20	22	26	1.98
14229567--14229752	92	2.0	92	93	0	318	28	22	23	25	1.99
14229745--14230128	168	2.3	168	89	1	583	29	18	24	27	1.98
14230087--14230369	50	5.7	50	72	1	208	30	20	22	27	1.98
14230092--14230409	100	3.2	99	88	2	476	30	20	21	27	1.98
14230145--14230404	50	5.2	50	70	1	180	30	20	21	28	1.98
14230081--14230456	200	1.9	200	85	3	524	31	20	20	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14230092--14230478	100	3.9	99	82	7	401	31	20	20	28	1.97
14231249--14231306	19	2.7	22	84	10	68	36	8	17	37	1.80
14231509--14231553	23	2.0	23	81	0	54	22	0	15	62	1.33
14232244--14232297	3	18.0	3	100	0	108	33	0	0	66	0.92
14239700--14239738	7	5.6	7	88	11	62	71	0	15	12	1.14
14239700--14239746	21	2.2	21	88	7	69	70	0	14	14	1.18
14239700--14239746	14	3.4	14	80	16	53	70	0	14	14	1.18
14241022--14242129	44	25.0	44	80	6	1019	31	13	23	31	1.93
14241022--14242129	133	8.3	133	80	5	1154	31	13	23	31	1.93
14241095--14242122	309	3.3	309	82	5	1081	31	13	23	31	1.93

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