genome.fa.s20.2.7.7.80.10.50.1000.127.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  127  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)
42192027--42192096	27	2.4	31	79	18	103	37	0	21	41	1.53
42192039--42192099	27	2.3	27	100	0	122	34	0	21	44	1.53
42205498--42205522	12	2.1	12	100	0	50	16	0	0	84	0.63
42205628--42205885	45	5.8	45	75	6	188	21	24	15	39	1.91
42212102--42212222	46	2.6	46	88	5	163	29	22	27	20	1.98
42217638--42217798	86	1.9	87	89	1	252	31	9	28	31	1.88
42222751--42222930	50	3.7	48	76	9	161	27	19	27	25	1.99
42237025--42237119	28	3.4	27	73	15	77	21	0	29	49	1.50
42237080--42237132	14	3.8	14	80	7	54	16	0	30	52	1.44
42237088--42237127	21	1.9	21	85	10	55	20	0	30	50	1.49
42237985--42238029	22	2.0	22	86	0	63	42	37	0	20	1.52
42239705--42239751	23	2.1	23	84	4	60	21	12	10	55	1.67
42240373--42240410	10	3.9	10	79	6	51	42	2	0	55	1.14
42240630--42240665	18	2.0	18	100	0	72	50	5	16	27	1.68
42240631--42240672	18	2.3	18	91	0	66	52	7	11	28	1.64
42240817--42240922	9	11.8	9	75	12	67	45	16	0	37	1.48
42246335--42246384	21	2.4	21	89	0	73	34	14	48	4	1.62
42246736--42246979	43	5.7	44	74	7	182	28	16	23	31	1.96
42246710--42246973	86	3.1	85	81	6	277	29	15	23	31	1.95
42246764--42246973	85	2.5	85	81	7	230	30	16	22	30	1.96
42249126--42249150	8	3.1	8	100	0	50	76	0	0	24	0.80
42249130--42249201	31	2.4	30	73	22	71	61	2	0	36	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42249396--42249439	24	1.9	22	86	9	61	29	22	0	47	1.51
42252703--42252737	13	2.8	12	87	12	52	42	0	2	54	1.15
42252928--42252953	11	2.4	11	100	0	52	26	0	15	57	1.38
42252992--42253023	6	5.7	6	85	14	50	31	0	15	53	1.43
42252993--42253073	11	7.0	11	79	10	81	34	2	8	54	1.45
42253043--42253076	13	2.6	13	90	0	50	38	2	2	55	1.30
42253008--42253220	48	4.6	47	72	18	153	33	7	4	54	1.48
42253009--42253084	24	3.2	23	81	7	89	36	2	5	55	1.37
42253055--42253121	13	5.3	13	72	16	52	34	0	4	61	1.16
42252997--42253073	24	3.2	24	83	10	95	35	2	7	54	1.43
42253171--42253214	23	1.9	23	85	0	61	29	9	4	56	1.50
42256699--42256743	22	2.0	22	91	0	72	28	17	4	48	1.66
42264112--42264166	27	2.0	27	96	0	101	34	10	32	21	1.89
42265205--42266195	75	12.8	75	92	5	1540	27	16	22	32	1.96
42266105--42266134	14	2.1	14	93	0	51	16	10	6	66	1.41
42265946--42266262	170	1.8	174	85	7	457	26	15	20	37	1.92
42266383--42266431	21	2.3	21	85	0	71	36	12	24	26	1.91
42271785--42271846	30	2.1	30	93	0	106	59	11	3	25	1.46
42272420--42272511	48	1.9	47	80	10	107	50	2	0	47	1.13
42274674--42274714	21	2.0	20	86	9	57	29	2	4	63	1.28
42275262--42275322	29	2.1	29	87	6	88	47	6	3	42	1.45
42275399--42275428	5	6.0	5	92	0	51	20	56	0	23	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42275395--42275428	10	3.3	10	91	4	50	20	55	0	23	1.43
42275394--42275424	15	2.0	16	93	6	55	19	51	0	29	1.47
42289807--42289848	21	2.0	21	95	0	75	42	16	9	30	1.80
42291619--42291727	25	4.4	25	72	6	87	32	21	25	21	1.98
42291690--42291761	25	2.9	25	82	0	90	34	20	27	16	1.95
42291688--42291768	25	3.2	25	72	11	76	35	19	25	18	1.95
42291946--42291993	21	2.2	21	96	3	87	52	16	0	31	1.45
42295002--42295181	9	18.6	10	68	16	85	58	0	2	38	1.13
42295002--42295158	19	8.0	20	72	12	76	59	0	3	37	1.14
42295001--42295070	29	2.5	27	86	11	104	62	0	1	35	1.04
42295408--42295513	10	10.4	10	68	11	63	32	4	2	60	1.32
42295408--42295536	21	6.3	20	71	15	95	34	4	2	58	1.32
42295418--42295493	40	1.9	40	84	10	102	31	3	2	61	1.28
42295518--42295551	17	2.1	17	89	10	54	38	2	0	58	1.13
42297397--42297437	21	2.0	21	90	0	64	19	21	14	43	1.87
42297402--42297458	21	2.8	21	81	5	64	21	15	15	47	1.82
42299035--42299081	25	2.0	25	83	8	62	27	14	4	53	1.60
42299352--42299607	46	5.7	46	83	8	305	22	23	14	39	1.90
42299473--42299597	38	3.1	39	84	12	162	25	24	15	35	1.94
42299432--42299596	84	2.0	84	95	0	294	24	24	15	35	1.94
42303752--42303887	49	2.8	47	83	3	173	23	27	22	26	1.99
42303755--42303931	48	3.7	49	77	8	166	22	27	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42308151--42308194	22	2.0	22	100	0	88	22	40	4	31	1.74
42310371--42310488	28	4.2	28	92	0	191	18	42	21	17	1.89
42311545--42311762	49	4.6	48	76	11	200	25	28	20	26	1.99
42314690--42314749	25	2.4	25	94	0	102	18	11	18	51	1.75
42316988--42317068	19	4.3	19	78	4	92	29	8	22	39	1.84
42323458--42323524	24	2.9	22	86	6	80	23	26	17	31	1.97
42323610--42323648	19	2.1	19	90	0	60	30	7	23	38	1.83
42326807--42327070	47	5.6	47	88	5	397	28	30	8	32	1.86
42326807--42327070	96	2.8	94	93	2	433	28	30	8	32	1.86
42329836--42329935	38	2.6	38	86	9	141	22	20	26	32	1.98
42329846--42329973	38	3.3	38	83	2	130	21	18	25	34	1.96
42330880--42330928	18	2.5	20	77	12	57	30	10	16	42	1.81
42333714--42334191	48	9.9	48	78	3	451	26	26	17	29	1.98
42333716--42334191	96	4.9	96	87	1	668	26	26	17	28	1.98
42337928--42338008	40	2.0	40	95	0	144	28	27	17	27	1.97
42340742--42340820	34	2.3	33	81	10	97	29	22	24	24	1.99
42344543--42344826	48	5.9	48	80	2	284	26	28	17	28	1.97
42344543--42344826	96	2.9	96	90	1	451	26	28	17	28	1.97
42344545--42344826	144	1.9	146	82	5	358	26	27	17	28	1.98
42345683--42345822	39	3.6	39	91	0	208	40	22	24	13	1.90
42345700--42345822	19	6.3	20	70	13	78	41	21	23	13	1.89
42354893--42354927	13	2.7	13	100	0	70	34	0	14	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42357788--42358053	93	2.9	93	94	0	469	27	28	21	22	1.99
42357835--42358003	47	3.6	46	77	7	198	28	26	21	23	1.99
42357781--42358049	46	5.8	46	76	11	271	28	27	21	22	1.99
42364870--42364954	28	3.0	27	75	13	75	27	30	15	27	1.96
42364885--42364955	28	2.5	28	82	8	83	26	32	15	25	1.95
42365030--42365063	18	1.9	18	88	5	52	20	38	23	17	1.93
42365183--42365227	16	2.8	16	79	0	54	11	17	17	53	1.72
42375492--42375566	6	12.3	6	75	13	73	53	16	13	17	1.73
42375684--42375763	26	3.0	26	89	3	106	37	22	23	16	1.93
42376498--42377401	27	33.0	27	76	8	474	27	17	19	35	1.94
42376502--42377401	81	11.0	82	74	13	576	27	17	19	36	1.94
42376498--42377401	54	17.0	54	76	10	576	27	17	19	35	1.94
42377393--42377658	27	9.9	27	83	3	185	33	10	19	37	1.85
42377094--42378026	54	17.5	54	77	9	521	27	16	18	36	1.93
42377393--42377658	81	3.3	80	82	2	280	33	10	19	37	1.85
42377447--42377679	27	8.6	27	88	2	290	31	10	19	38	1.85
42377702--42378028	27	12.1	27	84	2	379	25	19	18	37	1.94
42378031--42378261	27	8.6	27	79	5	164	32	9	19	39	1.83
42378063--42378314	54	4.7	54	82	5	219	30	9	20	39	1.84
42378119--42378324	54	3.8	54	84	3	220	31	8	20	39	1.82
42378109--42378314	27	7.6	27	79	3	191	30	8	20	40	1.82
42380122--42380250	46	2.8	46	88	3	170	20	20	26	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42383906--42383973	29	2.3	29	85	5	93	27	30	13	27	1.94
42384080--42384147	29	2.3	29	85	5	93	27	30	13	27	1.94
42384249--42384327	29	2.7	29	82	2	104	29	31	15	24	1.95
42383795--42384296	174	2.9	174	99	0	977	30	25	14	29	1.95
42387576--42387696	49	2.5	50	83	2	147	27	22	28	22	1.99
42390425--42390497	33	2.2	33	87	4	103	20	30	31	17	1.96
42390794--42390863	26	2.7	26	82	8	81	21	0	0	78	0.75
42390796--42390862	23	3.1	21	78	19	68	19	0	0	80	0.71
42390796--42390894	43	2.3	43	81	10	112	21	3	0	75	0.93
42390802--42390862	7	8.3	7	79	16	70	19	0	0	80	0.72

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