genome.fa.s23.2.7.7.80.10.50.1000.114.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  114  of  167  ( 19959 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)
38191868--38191899	5	6.6	5	92	7	57	18	0	0	81	0.70
38191868--38191898	9	3.3	9	91	8	53	19	0	0	80	0.71
38195536--38197735	816	2.7	816	94	0	3676	30	13	19	36	1.90
38204313--38204414	50	2.0	50	98	0	195	25	11	22	40	1.88
38205445--38205476	16	2.0	16	93	0	55	37	9	6	46	1.61
38206469--38206529	6	10.0	6	76	13	54	4	14	3	77	1.07
38206499--38206529	16	1.9	16	93	0	53	3	12	3	80	0.95
38214243--38214380	62	2.2	63	81	10	149	26	19	22	31	1.98
38216582--38216614	17	1.9	17	93	0	57	36	9	6	48	1.60
38218383--38218425	20	2.2	20	87	8	61	4	41	0	53	1.21
38218837--38218892	21	2.7	21	88	0	85	26	8	35	28	1.87
38222231--38222283	21	2.5	20	82	8	61	35	5	1	56	1.34
38222295--38222379	9	8.9	9	73	15	64	35	2	1	61	1.17
38223771--38223817	18	2.9	16	77	20	53	51	0	2	46	1.13
38225120--38225175	20	2.7	21	83	8	69	23	32	23	21	1.98
38227522--38227626	4	24.5	4	70	22	63	2	23	4	68	1.22
38227522--38227626	9	12.2	8	71	22	63	2	23	4	68	1.22
38227575--38227623	16	3.1	16	87	0	71	4	16	6	73	1.19
38227742--38227774	17	2.0	16	94	5	57	30	3	0	66	1.06
38232683--38232719	19	2.0	19	89	5	58	54	0	0	45	1.00
38233079--38233141	32	2.0	32	83	0	81	31	6	17	44	1.74
38233163--38233213	20	2.5	20	83	3	57	43	0	1	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38245983--38246050	32	2.2	31	81	7	75	61	2	5	29	1.34
38246920--38247061	24	5.7	25	71	10	96	19	24	19	35	1.95
38249869--38249939	25	2.8	25	93	0	115	26	26	22	23	2.00
38252788--38252814	13	2.1	13	100	0	54	55	7	7	29	1.55
38252976--38253002	14	1.9	14	100	0	54	29	22	7	40	1.81
38253155--38253223	31	2.2	32	92	2	113	49	5	17	27	1.69
38253510--38253537	6	4.7	6	100	0	56	67	0	0	32	0.91
38253967--38254003	6	6.2	6	90	9	58	70	0	0	29	0.88
38265957--38266019	5	11.6	5	80	12	63	77	3	0	19	0.90
38265958--38266011	6	9.5	6	80	13	53	79	1	0	18	0.82
38265958--38266024	22	3.0	22	91	4	98	77	2	1	17	0.97
38266032--38266346	3	105.3	3	72	7	212	62	1	8	27	1.33
38267907--38268251	45	7.7	43	72	11	171	29	22	18	30	1.97
38267943--38268288	181	1.9	182	84	5	459	28	23	16	30	1.97
38267924--38268251	88	3.7	86	69	16	236	29	21	18	29	1.97
38270503--38270575	38	1.9	38	100	0	146	31	21	12	34	1.91
38274128--38274254	42	3.0	42	81	6	152	30	25	12	30	1.93
38274213--38274332	47	2.6	47	82	4	136	31	26	13	28	1.94
38274362--38274471	31	3.6	30	88	4	157	25	27	18	29	1.98
38274447--38275473	50	20.5	50	93	0	1757	26	21	15	36	1.93
38274462--38275473	100	10.1	100	99	0	1961	26	21	15	37	1.93
38278992--38279033	21	1.9	22	85	9	59	61	4	14	19	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38279050--38279183	6	22.0	6	76	14	89	73	2	0	23	0.96
38279057--38279145	28	3.4	28	76	17	118	75	3	0	21	0.95
38279063--38279142	22	3.4	22	71	18	79	75	3	0	21	0.96
38279056--38279169	50	2.3	51	95	3	212	74	3	0	21	0.97
38279057--38279161	28	4.0	28	71	22	93	74	3	0	21	0.98
38279159--38279384	3	74.7	3	71	4	141	59	1	9	29	1.38
38280386--38280456	25	2.7	26	78	10	74	14	1	35	49	1.52
38282627--38282669	22	2.0	22	81	9	52	27	9	4	58	1.49
38285928--38285979	16	3.2	16	75	17	54	30	0	7	61	1.24
38285904--38285958	22	2.5	20	77	13	56	30	0	5	63	1.17
38286157--38286196	19	2.2	18	86	4	53	30	5	0	65	1.14
38286162--38286206	15	3.3	14	82	14	58	28	4	0	66	1.11
38288240--38288286	19	2.5	19	86	6	60	23	21	12	42	1.87
38292356--38292781	88	4.8	88	84	2	518	32	21	23	22	1.98
38293017--38293053	19	1.9	19	88	0	56	37	35	5	21	1.77
38293930--38294286	43	8.3	43	88	2	540	32	20	26	21	1.97
38293929--38294286	85	4.2	85	94	1	610	32	20	25	20	1.97
38294340--38294405	30	2.2	30	83	8	80	56	19	6	18	1.62
38294640--38294680	21	2.0	21	95	0	73	0	53	19	26	1.45
38295092--38295120	14	2.1	14	93	6	51	58	6	0	34	1.25
38295287--38295325	17	2.4	17	86	4	53	48	0	10	41	1.37
38297501--38297799	149	2.0	149	98	0	571	28	17	15	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38298336--38298364	15	1.9	15	100	0	58	48	20	6	24	1.74
38298821--38298850	14	2.2	13	94	5	51	36	13	0	50	1.42
38300540--38300569	16	1.9	16	93	6	53	43	26	10	20	1.83
38302548--38302583	17	2.2	17	95	5	65	72	5	0	22	1.05
38302696--38302744	16	2.9	16	79	11	53	46	6	8	38	1.58
38302901--38303037	73	1.9	72	84	1	184	40	32	2	24	1.68
38303541--38303594	14	3.8	14	73	11	56	24	3	24	48	1.67
38304005--38304103	40	2.4	42	83	6	123	24	22	20	33	1.97
38304005--38304119	40	2.8	39	79	10	115	23	24	21	30	1.99
38304166--38304275	41	2.7	40	75	10	107	28	23	20	27	1.99
38304072--38304427	154	2.3	154	85	2	491	27	25	19	27	1.99
38304324--38304430	40	2.7	40	76	15	121	28	24	18	28	1.98
38305043--38305094	23	2.5	20	81	12	59	30	0	5	63	1.18
38305064--38305115	16	3.2	16	75	17	54	30	0	7	61	1.24
38306890--38306925	17	2.1	17	89	0	54	55	0	5	38	1.23
38306900--38306944	22	2.0	22	86	0	63	53	2	2	42	1.25
38307109--38307150	22	1.9	22	85	0	57	42	2	0	54	1.13
38308516--38308551	16	2.3	16	90	4	56	19	22	0	58	1.40
38315474--38315529	25	2.4	22	77	14	58	60	5	3	30	1.36
38317492--38317954	155	3.0	155	100	0	926	32	14	18	34	1.91
38320333--38320382	25	1.9	25	84	8	64	38	6	0	56	1.24
38324418--38324735	48	6.6	48	75	5	248	29	19	27	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38324418--38324737	96	3.3	95	78	3	293	29	19	28	23	1.98
38324416--38324737	144	2.2	144	83	3	398	29	19	27	23	1.98
38330437--38330496	30	2.0	30	100	0	120	46	13	23	16	1.82
38332084--38332308	48	4.7	48	72	2	191	31	19	25	23	1.98
38332123--38332401	48	5.8	48	72	7	163	29	18	27	24	1.98
38332081--38332396	144	2.2	143	80	3	330	30	19	26	23	1.98
38339735--38339834	45	2.2	45	94	0	173	24	24	14	38	1.92
38340614--38340662	21	2.3	21	89	0	80	34	32	24	8	1.85
38341813--38342128	47	6.6	48	74	13	226	23	30	18	28	1.97
38341905--38342128	94	2.3	95	85	6	292	22	31	19	27	1.98
38349416--38349476	19	3.0	22	62	26	53	55	16	0	27	1.41
38349413--38349496	38	2.1	40	89	6	127	54	16	0	28	1.42
38350948--38350977	15	1.9	16	93	6	53	3	16	0	80	0.85
38351137--38351174	19	2.0	19	100	0	76	42	10	21	26	1.85
38356052--38356093	18	2.4	18	80	4	50	59	7	0	33	1.25
38362716--38362762	24	2.0	24	88	12	71	72	14	10	2	1.21
38362923--38362952	2	15.0	2	92	0	51	53	0	46	0	1.00
38362913--38362951	16	2.3	16	91	8	60	53	2	41	2	1.28
38362913--38362952	18	2.2	18	90	0	62	52	2	42	2	1.28
38365200--38365250	26	2.0	26	84	0	66	31	1	0	66	1.03
38366112--38366170	30	2.0	29	86	3	73	44	6	3	45	1.47
38376411--38376452	19	2.4	19	80	11	54	59	2	0	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38376759--38376792	3	11.3	3	93	0	59	67	2	0	29	1.05
38376846--38376891	17	2.8	17	77	9	51	63	0	4	32	1.14
38377087--38377119	16	2.1	16	88	5	50	66	0	0	33	0.92
38378980--38379196	73	3.0	74	82	5	262	33	21	15	29	1.94
38379155--38380185	85	12.6	85	90	5	1281	35	21	15	27	1.94
38379720--38380389	75	8.9	75	82	6	700	33	19	15	30	1.93
38380061--38380401	72	4.7	72	82	5	373	34	18	15	31	1.92
38399279--38399386	55	2.0	55	96	0	198	40	18	9	31	1.82
38403899--38403934	16	2.2	17	90	5	56	58	0	0	41	0.98
38403872--38403940	20	3.6	19	74	18	63	53	0	0	46	1.00

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