genome.fa.s10.2.7.7.80.10.50.1000.162.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  162  of  172  ( 20562 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)
53042147--53042198	22	2.4	21	87	6	68	26	3	3	65	1.27
53054596--53054955	75	5.0	75	87	5	465	31	17	18	31	1.94
53054830--53054955	64	2.0	64	93	0	216	26	18	22	32	1.97
53056629--53056953	3	107.3	3	67	12	89	30	8	3	57	1.44
53057140--53057267	3	43.0	3	68	14	52	29	8	0	60	1.31
53066768--53066825	29	2.0	29	100	0	116	13	6	41	37	1.72
53078971--53079020	25	2.0	25	100	0	100	24	4	32	40	1.73
53079185--53079230	24	1.9	24	90	0	74	19	17	19	43	1.88
53080703--53080768	31	2.2	31	86	2	89	51	4	0	43	1.22
53082808--53082850	21	2.0	22	81	4	52	34	11	0	53	1.37
53082808--53082853	22	2.1	22	84	8	58	34	10	0	54	1.36
53082911--53082953	23	1.9	23	90	4	70	60	0	6	32	1.23
53118176--53118389	106	2.0	106	88	0	320	36	14	22	25	1.93
53121673--53121706	15	2.2	16	94	5	61	29	0	0	70	0.87
53124226--53124291	32	2.1	32	100	0	132	30	24	12	33	1.91
53131205--53131287	43	2.0	42	95	2	148	22	22	8	45	1.79
53131570--53131601	15	2.1	15	100	0	64	28	18	0	53	1.45
53136387--53136421	15	2.3	15	100	0	70	17	20	11	51	1.75
53137452--53137492	21	2.0	21	90	0	64	24	7	41	26	1.81
53144819--53144855	16	2.2	18	85	9	51	5	10	2	81	0.96
53157346--53157451	52	2.0	52	100	0	212	33	16	15	33	1.90
53161508--53161566	25	2.5	23	81	8	64	44	6	11	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53171342--53171407	28	2.4	27	80	10	71	48	1	4	45	1.32
53176697--53176722	3	8.7	3	100	0	52	69	0	0	30	0.89
53177782--53177838	30	1.9	29	89	3	87	28	0	1	70	0.98
53177806--53177830	8	3.1	8	100	0	50	12	0	0	88	0.53
53180587--53180682	40	2.4	41	82	6	117	25	31	17	26	1.97
53182948--53182980	17	2.0	17	94	5	59	36	15	0	48	1.45
53183278--53183440	46	3.5	46	86	0	209	20	25	12	42	1.86
53190564--53190715	78	1.9	78	89	0	232	31	19	15	32	1.94
53190686--53190817	40	3.3	40	84	0	165	35	21	12	30	1.91
53197641--53197793	77	2.0	78	90	3	247	33	11	6	49	1.64
53206267--53206301	13	2.6	13	90	4	52	25	20	0	54	1.45
53207943--53207992	17	2.8	17	84	6	64	42	6	18	34	1.74
53208049--53208085	8	4.8	8	90	3	58	64	2	0	32	1.07
53208043--53208075	13	2.5	13	86	13	50	60	0	0	39	0.97
53208143--53208171	11	2.5	12	94	5	51	72	0	27	0	0.85
53209495--53210443	46	20.6	46	98	0	1792	23	23	13	39	1.90
53214596--53214645	25	2.0	25	84	0	64	40	12	6	42	1.67
53219071--53219150	34	2.3	35	77	12	85	35	2	1	61	1.18
53224590--53224639	26	2.0	25	84	4	64	38	0	4	58	1.17
53246126--53246350	113	2.0	113	99	0	441	22	20	14	42	1.88
53252184--53252293	39	3.1	36	77	12	109	30	28	20	21	1.98
53255430--53255469	19	2.1	19	86	9	55	65	7	0	27	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53255539--53255608	18	3.9	17	77	18	63	61	1	4	32	1.24
53255678--53255742	24	2.6	25	80	7	69	50	3	7	38	1.47
53255995--53256055	22	2.7	23	77	12	63	59	4	1	34	1.29
53256036--53256066	16	1.9	16	93	0	53	67	0	0	32	0.91
53255995--53256107	23	5.2	21	69	20	63	58	5	1	34	1.31
53256173--53256244	19	3.4	21	75	11	67	58	5	0	36	1.22
53256184--53256224	17	2.4	18	88	8	59	60	4	0	34	1.18
53256261--53256670	149	2.8	146	84	10	510	58	5	5	31	1.42
53256502--53256540	20	2.0	20	85	10	53	61	2	2	33	1.23
53256661--53256708	18	2.8	16	76	17	51	56	0	6	37	1.25
53258518--53258627	26	4.2	26	95	0	166	33	5	23	37	1.78
53259871--53259923	26	2.0	26	85	7	72	37	22	15	24	1.92
53260002--53260055	22	2.5	22	100	0	108	14	20	38	25	1.91
53262776--53262805	15	2.0	15	93	0	51	30	0	3	66	1.07
53274044--53274133	36	2.4	38	80	14	107	55	0	3	41	1.16
53274046--53274116	18	4.0	17	73	8	61	53	0	2	43	1.15
53274670--53274701	15	2.1	15	100	0	64	62	0	0	37	0.95
53276913--53276945	14	2.3	15	89	5	50	15	3	12	69	1.30
53276913--53276953	15	2.9	14	85	7	55	17	4	12	65	1.42
53293430--53293685	132	1.9	131	86	6	358	35	17	17	28	1.93
53307608--53307672	31	2.1	31	82	5	78	32	6	9	52	1.58
53322323--53322374	27	1.9	27	84	0	68	42	0	1	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53327656--53327803	28	5.4	27	71	22	87	61	2	5	30	1.32
53327645--53327801	55	2.8	53	73	16	142	62	2	4	30	1.28
53327757--53327823	19	3.4	19	71	18	57	67	0	4	28	1.10
53329147--53329206	30	2.0	30	93	0	102	40	31	5	23	1.76
53332241--53332276	18	2.0	18	88	0	54	63	2	0	33	1.08
53333648--53333681	16	2.1	16	89	10	52	32	0	2	64	1.08
53342866--53343220	175	2.0	174	93	2	615	21	17	20	40	1.92
53351702--53351734	17	1.9	17	88	11	50	24	0	6	69	1.10
53354792--53354832	22	1.9	21	85	5	55	51	0	4	43	1.23
53357471--53357508	19	2.1	19	90	5	60	39	0	7	52	1.31
53360551--53360639	22	4.0	22	80	14	101	39	17	22	20	1.92
53360550--53360615	21	3.1	21	87	8	98	40	16	24	18	1.90
53360600--53360648	25	2.0	25	95	0	89	40	18	16	24	1.90
53360980--53361035	28	2.0	28	96	0	103	42	12	0	44	1.42
53362943--53362986	20	2.1	21	83	4	54	61	6	2	29	1.34
53363165--53363203	20	2.0	19	95	5	69	58	5	0	35	1.20
53364363--53364413	18	2.8	18	81	0	75	3	0	41	54	1.19
53364484--53364525	18	2.4	17	84	11	50	11	0	40	47	1.40
53366657--53366739	8	9.8	8	72	16	51	60	0	4	34	1.18
53366666--53366729	27	2.4	25	78	12	65	62	0	3	34	1.11
53366670--53366766	36	2.7	36	79	3	106	62	0	5	31	1.17
53366717--53366813	48	2.1	47	82	5	117	60	2	7	29	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53366858--53366901	21	2.2	20	87	4	61	25	4	0	70	1.06
53367035--53367094	18	3.3	18	76	17	61	38	1	0	60	1.07
53367042--53367093	19	2.8	19	75	21	56	40	1	0	57	1.10
53383005--53383054	18	2.8	18	72	24	52	30	0	2	68	1.01
53395352--53395392	18	2.3	18	100	0	82	53	9	9	26	1.65
53396175--53396304	3	40.3	3	74	15	93	62	1	7	28	1.32
53396328--53396363	18	2.0	18	88	0	54	66	5	11	16	1.40
53400743--53401056	46	6.8	46	92	1	450	21	23	14	40	1.90
53409339--53409367	8	3.6	8	100	0	58	10	0	0	89	0.48
53410143--53410179	18	2.1	18	90	10	58	35	10	0	54	1.36
53411186--53411235	25	2.0	25	100	0	100	40	8	0	52	1.31
53422833--53422857	3	8.3	3	100	0	50	0	0	68	32	0.90
53424876--53424947	30	2.4	31	79	11	78	59	2	1	36	1.20
53431822--53431885	29	2.2	29	85	0	92	59	6	6	28	1.46
53432070--53432095	7	3.7	7	100	0	52	57	0	0	42	0.98
53432275--53432317	20	2.2	19	88	12	61	58	2	0	39	1.11
53439639--53439669	12	2.6	12	94	0	53	74	0	25	0	0.82
53440014--53440054	18	2.3	18	87	8	57	48	0	21	29	1.50
53440542--53440579	20	1.9	20	84	10	51	47	0	10	42	1.38
53441610--53441660	25	2.0	25	96	0	93	29	19	15	35	1.93
53448537--53448572	18	2.0	18	94	0	63	16	0	58	25	1.38
53448555--53448617	29	2.2	29	91	5	101	17	1	49	31	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53448855--53449157	85	3.6	85	87	3	450	20	26	24	28	1.99
53448854--53449351	85	5.8	86	79	7	319	21	23	23	31	1.98
53450512--53450570	29	2.0	29	90	6	93	18	1	47	32	1.59
53450819--53451197	170	2.2	171	89	2	575	19	26	24	29	1.98
53450808--53451368	87	6.5	85	85	3	585	20	24	23	31	1.98
53451411--53451497	43	2.0	44	84	4	113	20	25	20	33	1.97
53451335--53451858	132	4.0	134	81	6	613	23	22	23	30	1.99
53451671--53452124	177	2.6	178	89	3	736	23	23	24	29	1.99
53453370--53453417	24	2.0	24	83	0	60	2	22	4	70	1.15
53453404--53453459	26	2.2	25	84	9	69	0	25	0	75	0.81

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