genome.fa.s20.2.7.7.80.10.50.1000.168.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  168  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)
55746295--55746354	22	2.7	22	73	19	61	26	0	6	66	1.16
55759448--55759486	19	2.1	18	85	4	51	51	7	15	25	1.70
55764787--55764864	40	2.0	40	100	0	156	38	15	10	35	1.81
55771957--55772534	289	2.0	288	97	0	1093	17	23	12	47	1.80
55773592--55773690	27	3.7	27	78	8	112	38	20	11	30	1.87
55774091--55774195	27	3.9	26	70	15	79	23	21	18	36	1.95
55775242--55775447	37	5.6	37	86	2	265	19	12	28	38	1.89
55780129--55780242	41	2.8	41	90	1	174	24	28	21	25	1.99
55786086--55786199	41	2.8	41	90	1	174	24	28	21	25	1.99
55787979--55788218	120	2.0	120	97	0	453	23	18	15	42	1.89
55798042--55798118	22	3.4	22	67	19	68	36	25	2	35	1.70
55798029--55798123	46	2.1	46	100	0	190	41	23	2	33	1.66
55804886--55804986	30	3.5	29	93	6	170	37	12	0	49	1.41
55804989--55805016	11	2.5	11	100	0	56	92	7	0	0	0.37
55805564--55805624	19	3.3	18	76	4	59	42	8	0	49	1.32
55805572--55805624	18	2.9	18	75	11	54	41	9	0	49	1.35
55806112--55806176	25	2.5	27	72	22	66	60	3	0	36	1.13
55806991--55807025	18	2.0	18	88	5	54	11	8	14	65	1.46
55810989--55811034	3	16.0	3	77	8	51	30	0	4	65	1.12
55811393--55811466	29	2.5	28	86	6	94	63	2	1	32	1.17
55811410--55811496	41	2.2	40	80	2	102	67	0	2	29	1.03
55816225--55816283	4	14.8	4	89	0	64	49	32	3	15	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55825270--55825462	98	2.0	98	93	0	332	27	10	24	36	1.88
55825693--55826422	365	2.0	365	100	0	1460	30	16	16	36	1.91
55830600--55830649	25	2.0	25	96	0	91	60	2	36	2	1.20
55836054--55836175	45	2.7	45	80	13	153	27	20	26	26	1.99
55835893--55836175	44	6.5	44	73	13	162	27	19	25	26	1.99
55835879--55836409	217	2.5	212	82	7	608	27	21	23	27	1.99
55836236--55836389	40	3.7	41	77	7	168	25	22	24	27	2.00
55836187--55836392	84	2.5	84	91	1	315	27	21	23	28	1.99
55835931--55836412	44	11.2	43	70	14	230	26	22	23	27	1.99
55836187--55836418	84	2.8	84	84	4	238	27	23	22	27	1.99
55838505--55838697	98	2.0	98	93	0	332	28	10	24	36	1.89
55848512--55848697	46	4.0	46	89	2	266	30	25	10	33	1.89
55849912--55849948	17	2.2	17	90	0	56	51	18	2	27	1.60
55854887--55855072	46	4.0	46	90	0	291	30	26	8	34	1.85
55856226--55856262	17	2.2	17	90	0	56	51	24	2	21	1.61
55858198--55858234	17	2.2	17	90	0	56	51	24	2	21	1.61
55862810--55862903	45	2.1	45	91	0	152	30	23	19	26	1.98
55862907--55863091	101	1.8	101	87	5	275	31	27	15	25	1.96
55863136--55863270	50	2.7	50	83	3	173	30	28	17	22	1.97
55862933--55863284	176	2.0	176	98	0	677	29	28	14	27	1.95
55867600--55867689	34	2.7	33	74	14	87	33	1	1	64	1.08
55868681--55868770	34	2.7	33	74	14	87	33	1	1	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55871657--55872294	319	2.0	319	98	0	1240	28	16	23	31	1.96
55874204--55874258	21	2.6	22	71	5	60	61	3	1	32	1.24
55875795--55875828	16	2.1	17	88	5	52	52	8	0	38	1.33
55879207--55879254	16	2.9	17	78	12	55	29	6	0	64	1.18
55879238--55879278	19	2.2	18	86	4	55	36	0	0	63	0.95
55887559--55887691	66	2.0	65	85	5	178	42	19	26	11	1.85
55888930--55888975	23	2.0	24	86	4	67	36	0	2	60	1.09
55895722--55897435	855	2.0	855	100	0	3428	29	15	17	37	1.91
55899550--55899584	18	2.0	17	88	5	52	45	0	0	54	0.99
55899694--55899728	18	2.0	17	88	5	52	45	0	0	54	0.99
55899890--55899984	45	2.1	45	88	1	138	32	27	5	34	1.79
55899963--55899995	16	2.1	16	94	0	57	30	36	0	33	1.58
55899976--55900018	21	2.0	21	95	0	77	34	37	0	27	1.57
55900274--55900351	31	2.6	30	78	15	90	67	6	2	23	1.26
55906586--55906645	31	1.9	31	93	0	102	26	20	40	13	1.89
55909965--55910066	25	4.4	22	83	13	84	40	21	21	16	1.91
55910005--55910066	25	2.5	25	97	0	115	41	22	19	16	1.89
55909965--55910055	44	2.0	44	81	10	103	39	21	20	17	1.92
55911020--55911073	8	6.5	8	83	12	56	50	1	0	48	1.11
55913009--55913034	7	3.7	7	100	0	52	57	0	42	0	0.98
55913901--55913981	25	3.2	25	84	3	101	17	23	18	40	1.91
55914914--55914944	16	1.9	16	93	0	53	61	12	3	22	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55915209--55915291	32	2.6	32	86	1	114	2	36	0	61	1.09
55919949--55919983	14	2.6	13	91	8	61	68	0	0	31	0.90
55921376--55921433	31	1.9	31	89	3	91	51	13	18	15	1.76
55922673--55922713	21	2.0	21	95	0	73	70	2	24	2	1.11
55938470--55938505	17	2.2	17	95	5	65	41	0	5	52	1.24
55938895--55938934	18	2.2	19	86	8	57	75	5	5	15	1.15
55941983--55942052	37	1.9	36	85	8	97	41	1	2	54	1.24
55943102--55943170	21	3.3	21	83	0	84	42	23	10	24	1.85
55945050--55945122	36	2.0	37	97	2	139	24	19	26	30	1.98
55949225--55949268	20	2.2	20	100	0	88	43	25	4	27	1.74
55949310--55949361	28	1.9	27	88	7	79	34	19	3	42	1.69
55949314--55949375	27	2.2	28	82	2	72	33	22	3	40	1.70
55950567--55950626	30	2.0	31	83	9	79	63	0	3	33	1.11
55950567--55950627	29	2.0	31	84	12	83	63	0	3	32	1.10
55951250--55951295	23	2.0	23	100	0	92	30	21	13	34	1.91
55953587--55953641	21	2.6	20	80	11	56	63	10	12	12	1.52
55958862--55958930	28	2.4	29	82	2	86	69	0	24	5	1.10
55966236--55966278	20	2.2	20	82	0	50	65	27	4	2	1.25
55966497--55966550	24	2.3	23	81	6	63	38	16	7	37	1.77
55973458--55973491	17	2.0	17	100	0	68	29	5	35	29	1.81
55973484--55973640	43	3.7	43	81	3	151	28	14	26	30	1.95
55978661--55978688	8	3.5	8	100	0	56	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55979881--55980045	43	3.9	42	76	4	152	27	16	26	29	1.97
55985416--55985488	37	2.0	36	86	7	103	42	1	2	53	1.23
55986005--55986098	45	2.0	47	87	4	138	52	1	3	43	1.24
55988371--55988482	38	2.9	38	73	5	109	30	10	21	37	1.87
55993087--55993248	85	1.9	86	87	3	238	30	23	20	25	1.98
55993198--55993523	165	2.0	165	91	0	526	28	18	19	33	1.95
55994977--55995019	22	2.0	22	86	9	61	39	4	20	34	1.74
56014413--56014577	86	1.9	84	88	2	249	26	14	23	35	1.94
56015030--56015075	23	2.0	23	83	8	58	39	19	4	36	1.72
56016280--56016336	28	2.0	28	96	0	105	21	21	19	38	1.93
56038196--56038235	17	2.4	17	91	0	62	35	2	2	60	1.24
56038193--56038234	14	2.7	16	82	10	52	35	2	2	59	1.23
56040271--56040379	54	2.0	54	92	0	182	39	21	10	29	1.86
56043293--56043333	21	2.0	20	90	4	64	19	7	31	41	1.79
56043846--56043899	18	2.9	19	83	10	67	29	1	1	66	1.12
56043848--56043905	19	3.0	20	82	12	68	32	1	1	63	1.14
56043907--56043962	19	3.1	17	74	23	51	37	3	8	50	1.51
56048707--56048750	3	14.7	3	95	0	70	34	4	0	61	1.16
56049682--56049823	61	2.3	62	78	6	155	43	10	4	41	1.58
56054578--56054708	65	2.0	65	90	0	208	38	9	12	38	1.77
56062985--56063036	27	1.9	27	92	0	86	17	26	28	26	1.97
56063015--56063488	33	13.8	33	68	22	221	20	19	26	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56062990--56063373	102	3.8	102	90	0	597	20	19	26	33	1.96
56063188--56063240	27	2.0	27	96	0	97	20	24	28	26	1.99
56063188--56063450	135	2.0	130	88	5	384	20	19	27	32	1.97
56065978--56066022	16	2.7	17	79	6	56	48	0	13	37	1.42
56072522--56072561	4	10.0	4	100	0	80	25	0	25	50	1.50
56073459--56073506	18	2.6	19	75	15	55	22	0	10	66	1.22
56076741--56076785	7	6.4	7	100	0	90	42	15	28	13	1.85
56085158--56085237	40	2.0	40	95	0	142	47	21	2	28	1.64
56090213--56090421	42	5.0	42	87	2	244	35	23	17	22	1.95
56098853--56099000	42	3.5	42	85	1	181	36	21	17	24	1.95

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