genome.fa.s20.2.7.7.80.10.50.1000.23.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: At_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  23  of  186  ( 22216 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)
6771747--6771865	24	5.0	24	91	0	166	30	29	28	11	1.92
6773034--6773068	6	5.8	6	100	0	70	68	14	17	0	1.21
6779740--6779798	29	2.0	29	93	0	100	40	0	35	23	1.55
6783168--6783234	30	2.2	31	84	7	84	49	19	8	22	1.76
6787405--6787527	38	3.2	38	91	0	192	21	21	26	30	1.98
6791443--6791511	31	2.3	31	80	7	79	21	7	20	50	1.72
6793919--6794581	159	4.2	159	92	2	1070	22	17	26	33	1.96
6793919--6794581	312	2.1	315	92	1	1107	22	17	26	33	1.96
6811149--6811272	61	2.0	61	100	0	248	20	26	14	38	1.91
6811869--6811995	42	3.0	42	86	6	170	29	26	14	29	1.95
6811912--6812079	88	1.9	89	82	8	214	29	26	15	28	1.96
6811954--6812079	47	2.7	46	85	2	171	30	26	15	26	1.96
6812102--6812281	31	5.8	31	92	0	279	23	28	20	27	1.99
6812257--6812385	50	2.5	51	90	5	199	25	22	16	35	1.94
6815764--6815834	13	5.5	13	77	0	70	38	23	8	29	1.85
6815756--6815834	26	3.0	26	73	0	77	35	22	7	34	1.83
6821768--6821849	37	2.2	37	91	0	128	40	15	8	35	1.78
6821892--6821967	33	2.3	33	97	0	143	43	15	5	35	1.70
6825169--6825250	37	2.2	37	91	0	128	40	15	8	35	1.78
6828309--6829051	120	6.2	120	99	0	1441	44	1	6	48	1.38
6828880--6828914	18	2.0	17	88	5	52	45	0	0	54	0.99
6829000--6829034	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6829199--6829289	45	2.0	45	85	2	121	37	28	6	27	1.82
6829270--6829338	16	4.2	16	92	3	120	36	37	1	24	1.65
6829270--6829338	33	2.1	32	94	2	120	36	37	1	24	1.65
6829669--6829706	4	9.5	4	100	0	76	26	0	0	73	0.83
6834272--6834318	17	2.8	17	76	20	53	55	4	2	38	1.31
6834623--6834670	14	3.4	14	72	11	53	43	0	22	33	1.54
6834626--6834682	28	2.0	28	93	0	96	47	0	24	28	1.52
6839192--6839268	24	3.2	24	84	0	109	25	36	18	19	1.94
6846224--6846261	11	3.5	11	78	7	51	78	5	15	0	0.91
6846767--6848014	621	2.0	622	99	0	2480	37	3	21	37	1.72
6848523--6848553	12	2.5	12	94	5	53	48	0	16	35	1.46
6848520--6848584	26	2.6	25	75	4	67	49	1	23	26	1.59
6851422--6851741	46	7.0	46	95	0	534	22	23	15	38	1.92
6852816--6853123	153	2.0	152	90	1	490	35	16	10	37	1.83
6853600--6853627	11	2.5	11	100	0	56	71	0	0	28	0.86
6853601--6853676	19	3.7	21	79	10	77	60	6	0	32	1.22
6856072--6856132	15	4.1	14	70	8	50	49	3	1	45	1.28
6858616--6858655	15	2.7	15	96	0	71	45	20	15	20	1.86
6861694--6861821	3	43.0	3	79	1	132	64	0	5	29	1.22
6861844--6861890	20	2.3	20	85	0	58	59	2	4	34	1.29
6861700--6861915	21	10.7	20	71	14	77	61	2	6	29	1.34
6861871--6861912	22	1.9	22	85	0	57	52	2	7	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6863525--6863572	17	3.1	16	80	11	55	52	0	0	47	1.00
6863979--6864021	22	2.0	22	90	9	70	67	0	11	20	1.22
6867678--6867710	16	2.0	17	88	5	50	39	24	6	30	1.79
6869946--6870011	29	2.3	29	81	0	78	50	4	1	43	1.32
6872992--6873023	15	2.1	16	94	5	57	59	0	9	31	1.29
6876023--6876066	12	3.8	12	78	6	54	25	6	0	68	1.14
6878403--6878443	22	1.9	22	85	5	57	31	4	4	58	1.40
6880716--6880744	13	2.1	14	93	6	51	58	6	0	34	1.25
6883933--6884107	85	2.0	87	86	2	246	33	5	21	40	1.77
6886754--6886803	24	2.1	24	100	0	100	20	16	14	50	1.78
6895333--6895380	22	2.1	23	88	3	71	50	6	0	43	1.27
6898942--6898989	22	2.2	21	79	20	55	58	4	25	12	1.52
6900118--6900180	22	2.8	22	79	13	67	38	1	3	57	1.24
6900138--6900175	11	3.5	11	79	13	51	36	0	5	57	1.21
6900138--6900209	37	1.9	38	88	2	110	36	4	5	54	1.43
6900522--6900565	20	2.2	20	84	8	54	36	15	4	43	1.68
6900651--6900704	19	2.9	17	84	13	63	33	5	1	59	1.31
6900745--6900778	15	2.4	14	90	5	50	32	5	0	61	1.20
6902973--6903043	35	2.0	35	81	5	81	36	23	14	25	1.92
6905069--6905463	197	2.0	197	99	0	781	36	14	16	31	1.89
6910871--6910913	16	2.5	17	81	11	52	23	9	9	58	1.58
6914814--6914846	11	3.0	11	95	0	57	87	0	12	0	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6914814--6914844	15	2.1	15	93	0	53	90	0	9	0	0.46
6914845--6914880	3	12.0	3	93	0	63	36	0	63	0	0.94
6917246--6917281	18	2.0	18	100	0	72	22	22	11	44	1.84
6927280--6927313	17	2.0	17	94	0	59	26	0	0	73	0.83
6927273--6927360	9	9.9	9	72	6	63	38	1	2	57	1.18
6927322--6927370	19	2.5	20	83	9	57	38	0	8	53	1.31
6933680--6933862	52	3.5	52	82	4	206	25	25	14	34	1.94
6933713--6933876	54	3.1	52	89	2	231	25	26	12	35	1.91
6934029--6934058	14	2.1	14	93	0	51	46	36	0	16	1.47
6937602--6937648	13	3.5	13	81	16	51	17	8	0	74	1.05
6940882--6940906	12	2.1	12	100	0	50	60	8	0	32	1.26
6945670--6945702	6	5.7	6	92	7	50	9	3	0	87	0.63
6946565--6946625	24	2.8	21	77	15	70	60	1	0	37	1.07
6949845--6949961	3	40.3	3	67	8	55	30	8	2	58	1.42
6949890--6949968	14	6.1	13	73	17	58	31	5	2	60	1.31
6949922--6949968	23	2.1	22	88	11	69	31	4	4	59	1.36
6952220--6952260	5	8.4	5	82	15	50	19	21	14	43	1.87
6954972--6955043	26	2.8	26	95	0	126	31	4	26	37	1.75
6960247--6960296	25	2.0	25	100	0	100	36	16	8	40	1.77
6965564--6965610	14	3.3	15	79	8	53	70	0	2	27	0.99
6970517--6970563	19	2.4	19	82	10	51	44	10	0	44	1.38
6971991--6972047	30	2.0	27	81	18	64	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6971996--6972069	29	2.4	29	80	14	78	36	0	4	59	1.16
6982102--6982145	18	2.3	20	81	18	58	31	15	0	52	1.44
6982640--6982840	106	1.9	106	95	0	366	29	19	19	30	1.97
6986766--6986794	14	2.1	14	100	0	58	51	6	13	27	1.66
6989283--6989426	52	2.8	52	81	9	168	26	20	24	29	1.99
6990493--6990549	20	2.8	20	79	7	71	24	33	31	10	1.89
6994960--6994998	12	3.2	12	81	0	51	38	15	17	28	1.91
6995499--6995570	35	2.1	35	94	0	126	31	22	15	30	1.94
6998283--6998307	13	1.9	13	100	0	50	8	32	28	32	1.86
7005040--7005133	40	2.4	38	78	13	93	35	38	13	12	1.83
7012340--7012462	63	2.0	63	85	3	167	32	18	21	26	1.97
7015370--7015402	16	2.1	16	94	0	57	51	6	0	42	1.26
7015469--7015523	27	2.1	25	83	6	65	49	0	5	45	1.25
7015496--7015546	17	3.0	17	83	11	68	54	0	1	43	1.11
7022125--7022311	88	2.1	88	85	0	257	33	19	21	26	1.97
7024011--7024093	20	4.2	20	66	14	64	38	1	1	59	1.13
7025155--7025198	21	2.2	21	88	8	65	0	18	2	79	0.83
7027161--7027321	46	3.5	47	81	10	165	26	18	29	25	1.98
7031298--7031323	10	2.6	10	100	0	52	11	19	46	23	1.82
7033169--7033288	56	2.1	56	98	0	231	45	9	23	22	1.81
7034416--7034598	79	2.3	81	83	7	223	24	22	27	24	2.00
7034417--7034600	40	4.6	40	82	9	207	24	22	28	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7034469--7034633	79	2.1	79	83	6	201	26	21	27	24	1.99
7042591--7042625	3	11.7	3	93	0	61	37	34	28	0	1.58
7047699--7047748	19	2.6	19	87	6	66	62	6	0	32	1.20
7048796--7048858	29	2.2	29	86	11	85	31	6	9	52	1.59
7048976--7049060	31	2.8	29	76	11	73	43	11	10	34	1.76
7049108--7049154	16	2.8	17	80	6	60	51	0	0	48	1.00
7049540--7049581	13	3.0	15	86	10	54	35	0	0	64	0.94
7049505--7049573	26	2.5	28	74	6	70	39	0	0	60	0.97
7049676--7049725	19	2.6	19	93	0	82	46	4	0	50	1.20
7051233--7051260	6	4.7	6	100	0	56	85	0	0	14	0.59

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