genome.fa.s8.2.7.7.80.10.50.1000.111.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  111  of  190  ( 22705 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)
33754546--33754621	23	3.3	23	90	3	118	25	19	25	30	1.98
33758381--33758438	17	3.4	17	87	0	80	17	39	18	24	1.92
33759107--33759418	38	8.3	38	85	3	389	33	29	19	16	1.95
33760763--33760835	25	2.9	25	76	11	78	26	27	16	30	1.97
33761402--33761431	15	2.0	15	100	0	60	40	6	0	53	1.27
33762324--33762354	9	3.4	9	90	0	53	25	12	22	38	1.90
33762408--33762444	9	4.1	9	85	0	56	48	13	8	29	1.71
33763306--33763331	5	5.2	5	100	0	52	23	19	19	38	1.93
33770613--33770657	23	2.0	23	95	0	81	22	8	22	46	1.79
33776676--33777062	38	10.2	38	84	1	456	35	31	18	14	1.92
33776685--33777062	152	2.5	152	89	2	564	35	30	19	14	1.92
33778671--33778773	10	10.9	9	68	16	57	61	0	0	37	1.03
33778670--33778749	11	7.9	11	74	19	68	58	0	1	40	1.06
33778671--33778781	28	4.0	28	86	11	133	62	0	0	36	1.02
33778718--33778830	8	13.5	8	71	18	79	66	0	0	33	0.92
33778746--33778830	41	2.1	40	91	6	136	68	0	0	31	0.90
33778718--33778840	32	3.6	33	82	8	133	65	0	1	33	1.03
33784059--33784104	19	2.3	21	85	10	62	28	6	2	63	1.31
33786606--33786690	20	4.2	20	68	21	61	43	4	3	48	1.41
33787923--33787979	25	2.3	25	84	6	71	26	28	19	26	1.99
33787923--33787991	25	2.8	25	80	4	68	26	26	21	26	2.00
33793972--33794064	39	2.3	40	81	5	118	37	19	20	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33794035--33794148	41	2.8	41	89	0	165	22	21	25	30	1.99
33794287--33794451	79	2.1	79	82	6	192	25	1	31	41	1.66
33794325--33794472	79	1.9	81	85	2	210	25	2	32	39	1.67
33799059--33799142	43	2.0	43	85	4	116	36	4	10	47	1.59
33799226--33799293	34	2.0	34	85	8	93	38	0	2	58	1.13
33799231--33799270	13	2.9	14	81	7	55	40	0	0	60	0.97
33799226--33799297	35	2.1	35	84	10	94	37	0	2	59	1.12
33802371--33802398	5	5.6	5	100	0	56	0	0	39	60	0.97
33802580--33802702	43	3.0	39	75	18	142	39	4	2	54	1.33
33803661--33803784	52	2.4	52	80	10	128	38	17	20	22	1.93
33803799--33804841	55	18.8	55	76	9	859	36	19	22	21	1.95
33803940--33804819	390	2.3	387	84	5	1106	37	18	21	22	1.95
33806545--33806623	5	14.6	5	77	12	50	59	0	20	20	1.38
33806578--33806629	16	3.2	16	83	5	61	71	0	11	17	1.15
33807254--33807316	33	1.9	33	83	0	81	23	46	14	15	1.83
33807329--33807426	48	2.0	48	100	0	196	35	24	12	27	1.91
33809427--33809469	17	2.4	19	81	14	56	27	4	0	67	1.10
33809688--33809874	86	2.1	90	80	7	215	55	11	2	31	1.49
33809980--33810083	49	2.1	49	98	0	199	38	25	13	22	1.91
33810420--33810735	53	5.9	53	74	13	227	22	22	19	35	1.96
33810800--33810948	53	2.9	52	81	5	158	22	24	18	33	1.97
33819173--33819203	3	10.3	3	92	0	53	29	0	3	67	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33827620--33827662	23	1.9	22	90	4	68	58	6	4	30	1.45
33845280--33845326	22	2.1	22	88	0	67	38	6	8	46	1.60
33848313--33848357	16	3.1	15	84	12	58	55	8	0	35	1.31
33848756--33849116	180	2.0	181	95	2	656	32	30	6	31	1.83
33865747--33865797	23	2.2	23	89	0	75	41	19	9	29	1.84
33869475--33869592	59	2.0	61	88	3	177	50	3	3	42	1.35
33869886--33869929	13	3.4	13	90	0	70	40	15	0	43	1.47
33869886--33869934	13	3.8	13	88	0	62	40	14	0	44	1.45
33872168--33872220	23	2.3	23	93	0	97	20	20	26	32	1.98
33873546--33873575	15	2.0	15	93	0	51	73	10	6	10	1.25
33876071--33876100	15	2.0	15	100	0	60	20	33	20	26	1.97
33876380--33876487	53	2.0	53	96	0	198	43	11	13	31	1.80
33884752--33884872	51	2.4	51	88	2	181	29	26	1	42	1.65
33885976--33886007	7	4.6	7	96	0	55	25	0	12	62	1.30
33886659--33886698	18	2.2	18	95	0	71	22	30	5	42	1.75
33887132--33887458	25	13.6	25	70	19	180	41	0	13	44	1.47
33887105--33887312	71	2.9	71	95	1	373	39	0	13	46	1.43
33887199--33887433	96	2.4	96	94	1	409	42	0	12	44	1.46
33887460--33887980	23	22.7	23	93	0	871	44	21	7	26	1.79
33892525--33892553	13	2.2	13	100	0	58	20	10	20	48	1.79
33910349--33910378	14	2.2	14	94	5	53	23	13	6	56	1.60
33917365--33917395	9	3.4	9	90	0	53	38	22	12	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33918206--33918265	21	2.9	21	70	2	59	46	0	0	53	1.00
33924741--33924803	29	2.2	29	94	2	110	47	0	0	52	1.00
33924920--33925017	50	2.0	50	88	6	146	35	26	4	33	1.76
33924999--33925070	16	4.5	16	77	6	83	30	25	5	38	1.78
33927460--33927523	24	2.7	24	87	0	83	48	10	4	35	1.59
33936529--33936575	23	2.0	23	91	0	76	40	2	23	34	1.67
33939468--33939508	18	2.3	19	79	12	50	43	21	7	26	1.79
33939513--33939561	13	3.8	13	81	10	57	22	2	10	65	1.34
33947210--33947257	23	2.1	23	100	0	96	41	29	16	12	1.85
33970723--33970760	18	2.2	17	86	13	51	36	0	2	60	1.11
33970903--33970944	2	21.0	2	100	0	84	50	0	0	50	1.00
33979140--33979170	14	2.2	14	94	0	53	41	38	6	12	1.69
33979439--33979466	13	2.2	13	100	0	56	28	28	0	42	1.56
33981362--33981434	3	24.3	3	72	5	58	28	6	4	60	1.41
33981712--33981746	2	17.5	2	100	0	70	48	0	0	51	1.00
33981860--33981894	2	17.5	2	100	0	70	48	0	0	51	1.00
33983859--33983933	37	2.0	37	100	0	150	42	0	2	54	1.14
33983875--33983930	13	4.5	13	71	8	53	41	0	3	55	1.17
33997382--33997423	2	21.0	2	100	0	84	50	0	0	50	1.00
33998233--33998295	26	2.4	27	97	2	119	41	11	0	47	1.39
33998524--33998614	37	2.5	37	98	0	173	49	0	12	38	1.40
33998524--33998614	18	4.9	19	78	5	114	49	0	12	38	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33999174--33999252	27	2.9	27	94	0	140	13	31	22	31	1.93
33999314--33999378	28	2.4	28	94	2	114	47	0	10	41	1.38
34006234--34006302	26	2.7	27	84	6	81	15	24	18	40	1.90
34006352--34006398	24	2.0	24	86	0	67	21	27	14	36	1.93
34010529--34010594	4	15.0	4	87	12	62	77	0	1	21	0.85
34010530--34010595	5	14.6	5	89	7	74	78	0	1	19	0.82
34010530--34010595	28	2.5	27	85	11	84	78	0	1	19	0.82
34010701--34010731	7	4.6	7	92	8	55	70	0	0	29	0.87
34010692--34010731	13	3.1	13	86	10	55	67	2	0	30	1.04
34012413--34013164	94	8.0	94	83	3	870	28	20	19	31	1.97
34012869--34013101	44	5.0	43	71	17	155	27	20	20	31	1.98
34013096--34013234	71	2.0	71	92	0	233	25	19	19	35	1.95
34013196--34013301	44	2.4	43	80	9	117	25	22	20	31	1.98
34015488--34015535	25	1.9	25	86	0	69	29	18	29	22	1.98
34015547--34015616	25	2.8	25	76	4	70	40	17	24	18	1.91
34015556--34015634	25	3.2	25	81	3	70	40	15	25	18	1.90
34018183--34018249	9	7.4	9	88	6	91	41	23	8	25	1.83
34018183--34018249	27	2.5	27	90	0	107	41	23	8	25	1.83
34018548--34018599	18	2.7	19	82	5	52	21	19	17	42	1.89
34026294--34026446	22	7.0	22	90	0	225	26	26	14	32	1.94
34028276--34028317	21	2.0	21	85	0	57	35	2	21	40	1.66
34031517--34031700	25	7.4	25	69	18	107	17	23	20	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34031554--34031633	24	3.2	24	69	19	74	15	21	21	42	1.88
34031567--34031648	26	3.2	26	68	25	84	15	21	21	40	1.91
34031543--34031650	50	2.2	50	98	0	207	14	22	20	42	1.88
34031748--34031809	25	2.4	25	78	7	72	22	25	19	32	1.97
34035578--34035629	29	1.9	26	81	14	61	11	13	5	69	1.35
34036810--34036843	12	2.8	13	86	13	54	50	0	0	50	1.00
34036817--34036881	22	2.9	22	78	14	71	49	0	4	46	1.22
34036813--34036856	12	3.9	12	80	19	51	50	0	2	47	1.13
34039109--34039174	29	2.3	29	81	0	78	22	16	19	40	1.91
34042179--34042205	10	2.7	10	100	0	54	51	0	7	40	1.30

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