genome.fa.s6.2.7.7.80.10.50.1000.43.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  43  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)
11882065--11882121	20	2.8	21	86	5	82	38	1	10	49	1.48
11888410--11888572	29	5.6	29	72	10	136	39	9	27	22	1.86
11888492--11888582	29	3.1	30	84	4	123	37	14	26	21	1.92
11888346--11888593	29	8.5	29	71	7	119	39	12	25	23	1.89
11892911--11893444	51	10.5	50	78	5	429	28	26	15	29	1.96
11892911--11893444	102	5.3	102	91	2	781	28	26	15	29	1.96
11900901--11901331	51	8.5	53	77	9	418	29	26	14	29	1.95
11900901--11901331	102	4.2	102	90	2	575	29	26	14	29	1.95
11924514--11924555	6	6.8	6	91	2	66	16	28	0	54	1.42
11929202--11929249	24	2.0	25	87	4	71	37	0	8	54	1.31
11929767--11929832	20	3.4	18	75	17	60	59	3	3	34	1.28
11930061--11930105	21	2.2	20	84	11	56	46	8	13	31	1.74
11930455--11930506	3	17.3	3	100	0	104	32	0	0	67	0.91
11931807--11932338	267	2.0	269	93	1	908	34	18	14	32	1.91
11935309--11935346	20	1.9	19	89	5	58	60	7	7	23	1.51
11943244--11943293	26	1.9	26	88	8	75	30	16	12	42	1.84
11943551--11943620	27	2.6	27	81	0	95	25	27	15	31	1.96
11958632--11958694	30	2.1	30	91	5	101	25	3	12	58	1.49
11965858--11965903	22	2.0	23	83	4	58	45	13	2	39	1.55
11968172--11968219	25	1.9	25	95	0	87	14	35	12	37	1.84
11973520--11973586	27	2.5	27	82	0	71	19	26	16	37	1.93
11977178--11977391	50	4.2	51	80	10	179	27	20	29	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11977219--11977396	50	3.6	50	87	5	227	26	22	30	20	1.98
11978353--11978417	25	2.4	27	70	12	62	21	20	13	44	1.86
12004211--12004338	43	3.0	43	84	0	175	25	16	25	32	1.96
12014700--12014727	14	2.0	14	100	0	56	35	7	0	57	1.26
12015180--12015218	19	2.1	18	86	13	53	23	30	0	46	1.53
12018098--12018328	76	3.0	76	96	0	435	41	14	17	25	1.88
12022236--12022458	44	5.2	41	72	13	141	27	20	21	30	1.98
12022221--12022650	128	3.4	127	79	3	432	27	19	21	31	1.97
12022236--12022428	44	4.6	41	71	11	149	28	19	22	30	1.98
12022221--12022558	129	2.6	127	83	3	401	27	19	21	31	1.97
12024883--12024923	19	2.1	20	82	13	50	65	2	9	21	1.34
12026692--12027789	556	2.0	555	83	2	1414	32	19	16	30	1.95
12032469--12032557	44	2.0	44	97	0	169	31	24	10	33	1.89
12032479--12032548	22	3.2	22	62	22	56	30	21	10	38	1.86
12035862--12036146	27	10.6	27	75	4	225	40	18	17	24	1.91
12035833--12036152	54	5.9	53	70	6	212	40	18	17	23	1.91
12035833--12036152	81	4.0	80	82	5	358	40	18	17	23	1.91
12036183--12036293	24	4.6	24	78	8	100	23	8	23	45	1.79
12036412--12036462	26	2.0	26	84	0	66	15	19	29	35	1.93
12036465--12036643	32	5.7	32	76	3	139	21	19	20	37	1.94
12036462--12036605	64	2.2	64	81	4	175	20	19	21	38	1.93
12036627--12036678	22	2.4	22	83	0	68	17	15	21	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12038284--12038344	27	2.3	27	79	0	68	29	34	19	16	1.94
12049491--12049535	22	2.0	22	95	0	81	42	17	31	8	1.80
12054278--12054494	108	2.0	108	100	0	434	38	14	14	31	1.87
12057548--12057579	17	1.9	16	93	6	55	31	3	3	62	1.26
12057567--12057592	11	2.4	11	100	0	52	19	0	0	80	0.71
12059883--12059915	17	1.9	17	93	0	57	12	15	18	54	1.71
12062322--12062376	8	7.0	8	75	10	51	41	1	3	52	1.29
12064200--12064264	27	2.4	25	78	14	67	26	21	10	41	1.86
12064327--12064408	26	3.1	26	68	3	83	26	24	10	37	1.89
12064345--12064436	27	3.4	27	74	3	96	22	22	10	43	1.84
12064313--12064435	53	2.3	52	87	2	174	26	22	10	39	1.87
12066140--12066172	16	2.1	16	94	0	57	66	6	21	6	1.35
12067122--12067269	40	3.8	40	82	5	178	20	25	19	35	1.96
12069517--12069660	53	2.7	53	88	6	195	24	22	12	40	1.88
12069555--12069641	26	3.3	26	69	6	77	25	22	10	41	1.85
12069792--12069917	27	4.7	27	85	1	146	30	19	13	35	1.91
12084470--12084591	23	5.3	23	84	0	163	28	27	22	22	1.99
12084477--12084591	46	2.5	46	94	0	194	29	26	21	21	1.99
12084678--12084714	8	4.6	8	96	0	65	35	29	13	21	1.92
12084792--12084830	18	2.2	17	86	13	53	46	20	0	33	1.51
12088749--12088788	16	2.4	16	95	4	71	17	25	0	57	1.40
12089850--12089925	23	3.3	22	81	7	98	31	25	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12097529--12097601	21	3.3	21	68	17	67	38	1	19	41	1.60
12097516--12097602	45	1.9	45	100	0	174	35	1	20	42	1.60
12100492--12100545	24	2.2	26	83	12	69	31	3	5	59	1.38
12103926--12104051	62	2.0	62	90	0	198	23	38	0	38	1.55
12107872--12107914	14	3.1	14	81	18	54	18	2	2	76	1.00
12110830--12110977	41	3.6	41	89	0	224	22	26	20	30	1.98
12112100--12112125	11	2.4	11	100	0	52	57	0	7	34	1.27
12115155--12115252	49	2.0	49	97	0	187	16	26	9	47	1.76
12116756--12116859	50	2.1	50	100	0	208	40	14	3	41	1.64
12117274--12117409	41	3.3	41	82	0	137	25	24	16	33	1.96
12121420--12121460	10	3.9	10	84	9	55	46	0	0	53	1.00
12135890--12135931	15	2.7	15	85	3	57	14	30	11	42	1.81
12136739--12136779	19	2.2	19	86	0	55	48	12	4	34	1.62
12141978--12142021	23	1.9	23	81	9	54	40	0	13	45	1.44
12142264--12142334	27	2.8	24	82	6	70	19	23	25	30	1.98
12148849--12148953	41	2.6	41	90	0	156	34	17	28	20	1.95
12151532--12151563	15	2.3	15	89	10	50	18	28	28	25	1.98
12157032--12157087	6	9.0	6	86	7	76	33	1	0	64	1.04
12164686--12164778	46	2.0	46	97	0	177	29	20	21	29	1.98
12184637--12184710	25	3.0	25	76	11	80	29	17	20	32	1.95
12186083--12186124	15	2.7	15	85	3	57	14	30	11	42	1.81
12186265--12186305	20	2.0	22	90	9	68	60	7	7	24	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12189978--12190002	7	3.6	7	100	0	50	40	0	16	44	1.47
12192258--12192301	23	1.9	23	81	9	54	40	0	13	45	1.44
12195702--12195730	15	1.9	15	100	0	58	27	0	20	51	1.47
12201197--12201227	15	2.1	15	100	0	62	35	19	0	45	1.51
12203471--12203497	11	2.5	11	100	0	54	22	7	18	51	1.70
12205333--12205374	15	2.7	16	82	14	52	45	0	2	52	1.13
12205323--12205365	15	3.0	15	83	10	54	48	0	0	51	1.00
12205477--12205511	18	2.0	17	88	5	52	45	0	0	54	0.99
12205324--12205624	157	1.9	157	97	0	566	47	5	2	44	1.41
12205757--12205797	16	2.6	16	96	0	73	36	36	0	26	1.57
12208802--12208892	41	2.2	41	92	0	137	35	15	30	18	1.92
12208816--12208910	41	2.3	41	88	0	136	34	16	28	20	1.94
12217365--12217404	20	2.0	21	90	5	64	37	0	2	60	1.11
12217446--12217481	18	2.0	18	94	0	63	16	8	11	63	1.49
12251786--12251839	5	10.8	5	78	13	58	1	18	1	77	0.95
12255304--12255341	17	2.2	17	100	0	76	18	0	47	34	1.49
12255750--12255780	9	3.4	9	90	0	53	25	12	22	38	1.90
12255833--12255869	9	4.1	9	89	0	56	45	10	10	32	1.74
12256303--12256350	21	2.3	20	82	13	53	66	14	0	18	1.25
12257878--12258042	82	2.0	82	85	2	224	33	9	21	35	1.85
12259888--12259914	13	2.1	13	100	0	54	14	0	37	48	1.45
12264181--12264231	25	2.0	25	100	0	102	23	19	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12264662--12264722	21	2.9	21	82	7	79	36	39	6	18	1.76
12266329--12266374	17	2.9	16	78	15	51	34	0	17	47	1.48
12267298--12267383	34	2.5	34	94	0	145	20	11	32	34	1.89
12268730--12268806	9	8.6	9	97	0	91	62	33	2	1	1.17
12268738--12268810	3	24.3	3	97	0	137	65	32	1	0	1.01
12269885--12269926	3	14.0	3	100	0	84	33	0	0	66	0.92
12270669--12270701	16	2.1	16	100	0	66	24	0	18	57	1.40
12271721--12271822	30	3.4	30	79	15	81	64	0	2	32	1.08
12271738--12271819	40	2.0	42	92	4	141	63	0	2	34	1.08
12271767--12271823	27	2.0	27	83	12	71	64	0	1	33	1.04

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