genome.fa.s20.2.7.7.80.10.50.1000.159.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  159  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)
52910310--52910484	46	3.8	45	77	10	192	21	21	29	28	1.98
52910306--52910477	93	1.8	93	92	0	290	20	21	30	27	1.98
52911798--52911841	22	2.0	22	95	0	79	38	22	22	15	1.92
52913379--52913419	7	5.9	7	100	0	82	85	0	0	14	0.60
52917391--52917562	40	4.3	40	88	2	222	25	27	21	25	1.99
52917393--52917615	40	5.6	39	83	5	216	25	27	21	25	1.99
52917391--52917615	80	2.8	79	80	7	240	25	27	21	25	1.99
52917547--52917624	40	1.9	41	82	10	97	26	28	20	24	1.99
52921653--52921720	28	2.4	28	90	0	100	27	13	30	27	1.94
52921668--52921744	28	2.8	28	83	0	82	27	19	29	23	1.98
52921678--52921754	28	2.8	28	81	0	91	28	18	29	23	1.97
52928709--52928735	13	2.1	13	100	0	54	22	22	14	40	1.90
52934331--52934459	39	3.3	38	84	5	177	21	27	20	31	1.98
52936224--52936271	23	2.1	23	100	0	96	45	14	8	31	1.74
52945337--52945370	18	1.9	18	88	5	52	41	11	17	29	1.85
52951293--52951341	23	2.1	23	85	7	64	12	10	28	48	1.73
52953432--52953602	93	1.8	93	92	0	288	22	22	28	27	1.99
52953436--52953607	46	3.7	46	77	13	190	22	22	27	27	1.99
52959343--52959375	16	2.1	16	100	0	66	36	0	30	33	1.58
52963042--52963120	37	2.1	37	90	0	122	25	31	18	24	1.98
52963584--52963641	24	2.5	23	81	16	66	32	5	0	62	1.18
52967891--52968156	40	6.7	40	87	1	372	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52974821--52975038	40	5.5	40	89	3	273	25	28	22	22	1.99
52976740--52976789	25	2.0	25	96	0	91	30	20	26	24	1.98
52976692--52976848	73	2.1	73	90	3	244	29	17	26	25	1.98
52991357--52991416	29	2.1	29	100	0	120	33	16	0	50	1.46
53001646--53001674	14	2.0	15	93	6	51	48	0	10	41	1.37
53003322--53003374	20	2.7	19	80	11	63	69	3	9	16	1.30
53004801--53004841	22	1.9	21	90	5	64	0	12	14	73	1.11
53004800--53004848	21	2.3	22	82	3	64	0	12	12	75	1.05
53004800--53004847	22	2.3	20	80	13	53	0	12	12	75	1.06
53005831--53005903	28	2.6	29	89	4	89	17	16	24	41	1.90
53008457--53008487	16	1.9	16	93	0	53	22	6	3	67	1.28
53008516--53008560	22	2.0	22	86	8	63	0	13	17	68	1.20
53022405--53022465	30	2.0	30	83	0	77	31	22	8	37	1.84
53023988--53024162	35	5.0	35	100	0	350	14	34	5	45	1.68
53027014--53027056	17	2.6	17	81	3	52	41	20	4	32	1.73
53054610--53054741	39	3.4	39	87	0	183	29	3	22	43	1.71
53054720--53054757	16	2.4	16	86	8	51	39	2	18	39	1.65
53057189--53057399	42	5.0	42	82	0	260	24	22	21	30	1.99
53059600--53059647	23	2.1	23	96	0	87	29	18	10	41	1.84
53060232--53060272	17	2.4	17	87	4	55	43	2	2	51	1.28
53061203--53061253	25	2.0	25	96	0	93	47	5	7	39	1.57
53066107--53066221	56	2.1	56	100	0	230	21	6	26	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53068293--53068350	3	19.3	3	100	0	116	32	0	0	67	0.91
53071096--53072023	464	2.0	465	91	1	1497	26	25	13	35	1.92
53077615--53077710	51	1.9	50	81	10	115	53	4	2	40	1.32
53077661--53077728	19	3.7	19	75	13	63	55	5	2	35	1.39
53077665--53077838	10	18.7	9	70	14	88	59	6	1	32	1.32
53077693--53077810	29	4.2	28	72	15	93	59	6	0	33	1.24
53077763--53077810	19	2.4	20	82	6	62	56	8	0	35	1.30
53081288--53082101	406	2.0	406	99	0	1601	40	17	12	30	1.86
53082523--53082702	40	4.5	40	91	2	274	22	28	25	22	1.99
53086848--53086925	40	2.0	40	86	0	111	17	15	29	37	1.91
53094019--53094094	40	1.9	40	83	0	98	15	15	32	35	1.90
53095815--53095975	10	16.6	9	69	18	76	28	3	5	62	1.33
53095815--53095975	19	8.3	19	69	13	87	28	3	5	62	1.33
53095818--53095956	49	2.8	49	79	9	140	28	3	5	62	1.35
53096046--53096168	10	12.1	10	70	14	74	29	2	5	62	1.31
53096046--53096191	9	15.0	9	68	18	53	29	2	5	63	1.28
53096051--53096175	19	6.2	20	75	12	78	28	2	4	64	1.26
53096499--53096563	9	7.3	9	76	13	64	35	0	1	63	1.04
53100123--53100164	18	2.3	18	87	0	66	16	28	11	42	1.84
53100471--53100510	18	2.2	18	86	8	55	20	27	7	45	1.78
53100236--53100568	165	2.0	165	95	0	594	22	21	17	38	1.93
53100934--53100989	18	3.1	18	84	0	67	23	26	5	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53100960--53101008	18	2.7	18	84	6	55	26	22	6	44	1.76
53101207--53102031	192	4.2	192	79	4	810	24	24	13	37	1.92
53101607--53102198	210	2.8	211	84	3	739	22	23	15	39	1.92
53103062--53103097	18	2.0	18	88	0	54	27	19	11	41	1.85
53103483--53103521	19	2.1	19	100	0	78	20	0	5	74	1.01
53103791--53106496	896	3.0	899	90	1	4325	26	17	15	41	1.88
53107060--53107525	198	2.4	197	87	2	666	26	27	15	30	1.96
53107793--53107827	18	1.9	18	88	0	52	34	34	8	22	1.85
53107671--53108041	198	1.9	198	91	0	616	26	28	14	30	1.95
53122149--53122214	33	2.0	33	100	0	132	51	6	12	30	1.63
53132070--53132154	38	2.3	38	83	2	109	22	21	15	41	1.90
53132248--53132309	20	3.1	20	69	0	61	20	22	20	35	1.96
53133673--53133755	27	3.1	26	84	3	103	28	27	15	27	1.96
53133866--53133964	50	2.0	51	85	2	137	26	21	18	34	1.96
53136298--53136985	344	2.0	344	97	0	1286	33	23	13	29	1.92
53136963--53137133	93	1.8	93	94	0	306	27	29	21	21	1.98
53136955--53137130	46	3.8	46	81	10	214	28	29	21	21	1.98
53140377--53140476	49	2.0	49	94	0	173	25	22	28	25	1.99
53146422--53146449	11	2.5	11	100	0	56	0	17	25	57	1.41
53153438--53154799	344	4.0	344	98	0	2591	33	13	17	35	1.88
53154903--53154988	37	2.3	37	93	0	145	29	5	22	43	1.76
53155273--53155389	20	5.8	20	62	11	51	24	17	18	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53156612--53156697	37	2.3	37	93	0	145	29	5	22	43	1.76
53156982--53157098	20	5.8	20	62	11	51	24	17	18	39	1.92
53160668--53160709	21	2.0	21	100	0	84	52	14	14	19	1.75
53162772--53162903	47	2.8	47	97	0	255	30	27	8	34	1.86
53162873--53162927	16	3.4	16	72	22	60	34	27	0	38	1.57
53162870--53162936	33	2.0	33	97	0	125	34	26	0	38	1.57
53162823--53162983	80	2.0	80	97	0	304	31	26	5	36	1.80
53162903--53163233	47	7.0	47	93	2	565	29	28	8	33	1.86
53162776--53163173	127	3.0	127	91	6	582	30	27	7	34	1.84
53167024--53167062	20	2.0	20	94	0	69	53	2	0	43	1.14
53167025--53167074	25	2.0	26	81	18	61	54	4	0	42	1.19
53167013--53167110	37	2.9	35	76	21	100	54	4	1	40	1.26
53177054--53177186	23	5.8	23	79	7	114	26	20	19	33	1.96
53177054--53177188	46	3.0	44	81	8	139	25	20	19	34	1.96
53177120--53177211	24	3.9	24	84	7	100	28	21	18	31	1.97
53182284--53182316	12	2.8	12	95	0	57	0	33	39	27	1.57
53183009--53183055	20	2.3	20	85	7	60	36	23	0	40	1.55
53183225--53183386	43	3.8	42	75	12	134	33	25	15	24	1.95
53190333--53190369	13	2.8	13	87	0	56	13	32	32	21	1.92
53195471--53195510	20	2.0	20	95	0	71	37	20	12	30	1.89
53200115--53200230	43	2.7	42	76	11	128	34	25	16	24	1.95
53204198--53204265	29	2.3	29	85	5	93	27	30	13	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53204087--53204414	174	1.9	174	97	0	620	30	24	14	29	1.95
53204367--53204445	29	2.7	30	82	13	110	29	30	15	25	1.96
53216184--53216254	34	2.1	34	83	0	88	25	5	14	54	1.61
53216724--53216756	17	1.9	17	88	11	50	30	3	15	51	1.58
53225706--53225745	14	2.7	14	88	7	53	67	0	0	32	0.91
53228905--53228978	39	1.9	38	94	2	130	28	32	9	29	1.88
53231918--53231949	13	2.5	13	100	0	64	18	43	25	12	1.85
53235655--53235703	19	2.5	20	80	12	57	32	20	0	46	1.51
53237047--53237364	46	6.7	48	71	12	178	28	20	29	22	1.98
53241017--53242006	40	24.8	40	99	0	1926	25	20	29	24	1.99

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