genome.fa.s20.2.7.7.80.10.50.1000.115.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  115  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)
38167571--38167723	41	3.7	41	89	0	216	34	26	19	19	1.96
38168797--38168821	13	1.9	13	100	0	50	40	28	0	32	1.57
38184463--38184640	27	6.6	27	82	6	180	29	27	15	27	1.96
38184484--38184638	82	1.9	81	88	4	231	29	27	15	27	1.96
38184463--38184652	82	2.3	83	76	15	214	30	26	14	27	1.95
38189546--38189575	15	1.9	16	93	6	53	43	0	40	16	1.48
38192447--38192487	21	2.0	21	95	4	75	19	4	24	51	1.66
38194093--38194200	49	2.2	49	81	3	128	30	14	27	26	1.95
38200898--38201060	78	2.1	78	88	3	242	36	9	16	38	1.81
38201358--38201519	81	2.0	81	93	0	279	29	11	24	33	1.91
38209873--38210027	42	3.7	41	83	3	184	30	16	25	27	1.96
38209873--38210027	85	1.8	84	83	4	204	30	16	25	27	1.96
38209872--38210046	85	2.1	83	78	6	181	29	15	26	29	1.96
38210321--38210350	14	2.1	14	100	0	60	36	13	13	36	1.84
38210377--38210551	88	2.0	88	85	0	233	29	18	21	30	1.97
38210862--38211010	74	2.0	74	94	0	262	28	14	30	26	1.95
38213170--38213196	13	2.1	13	100	0	54	29	37	11	22	1.89
38217366--38217393	12	2.3	12	100	0	56	28	0	25	46	1.53
38217555--38217709	42	3.7	41	81	3	175	30	14	23	30	1.95
38217554--38217709	85	1.8	84	84	4	215	30	14	23	30	1.95
38220371--38220490	56	2.1	56	98	0	231	45	9	23	22	1.81
38224468--38224610	40	3.6	40	87	3	164	25	23	27	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38224468--38224616	80	1.9	80	84	2	201	24	22	28	24	1.99
38224468--38224637	80	2.1	80	81	5	193	24	21	27	26	1.99
38227717--38227850	67	2.0	67	85	0	178	20	17	26	35	1.95
38232223--38233172	40	23.8	40	98	0	1776	27	20	27	24	1.99
38236971--38236995	12	2.1	12	100	0	50	56	20	8	16	1.65
38245042--38245066	12	2.1	12	100	0	50	56	20	8	16	1.65
38245358--38245382	12	2.1	12	100	0	50	56	20	8	16	1.65
38244906--38245537	316	2.0	316	97	0	1194	32	20	13	33	1.91
38245692--38245824	67	2.0	67	89	4	205	33	17	13	36	1.89
38251878--38251944	33	2.0	33	94	0	116	40	32	7	19	1.79
38264880--38264918	13	2.9	13	84	3	51	28	2	10	58	1.44
38266355--38266519	40	4.2	40	86	2	226	24	22	27	26	2.00
38266355--38266519	80	2.1	79	90	1	258	24	22	27	26	2.00
38269562--38269659	50	2.0	49	95	0	169	28	20	9	40	1.83
38271816--38271933	46	2.6	45	91	2	191	22	29	11	36	1.90
38271954--38272029	22	3.3	22	66	28	59	25	28	11	34	1.91
38271911--38272477	47	12.1	47	90	0	821	26	27	10	35	1.90
38275984--38276009	13	2.0	13	100	0	52	30	0	7	61	1.24
38277826--38277991	53	3.1	53	87	6	212	26	15	27	30	1.96
38280076--38280441	40	9.2	40	96	0	662	22	22	25	28	1.99
38282889--38282914	6	4.3	6	100	0	52	0	15	0	84	0.62
38284927--38285112	41	4.6	41	87	3	243	25	24	25	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38284929--38285082	81	1.9	82	89	4	240	24	24	25	25	2.00
38285876--38286124	122	2.0	122	98	0	480	43	8	19	28	1.80
38286201--38287003	402	2.0	402	95	0	1428	33	15	20	29	1.94
38290765--38290888	46	2.6	48	91	3	189	29	17	28	25	1.98
38290762--38290923	46	3.4	46	80	10	157	29	19	27	23	1.98
38290859--38290988	49	2.7	49	76	0	125	30	21	26	22	1.99
38291477--38291567	45	2.0	45	100	0	182	42	10	8	37	1.71
38291536--38291568	13	2.6	13	90	4	50	48	12	0	39	1.40
38294468--38294501	12	2.7	13	86	9	52	82	2	0	14	0.79
38302641--38302726	43	2.0	43	95	0	154	19	17	31	31	1.95
38308002--38308097	28	3.4	28	79	0	102	29	28	12	30	1.93
38308086--38308217	40	3.3	40	79	1	129	33	24	18	24	1.97
38314706--38314757	20	2.6	20	93	0	86	17	36	32	13	1.89
38321731--38322737	495	2.0	492	92	1	1687	34	14	18	32	1.90
38323267--38323383	48	2.5	47	85	1	162	31	15	21	31	1.94
38324876--38324943	34	2.0	34	94	0	118	23	16	19	41	1.90
38326704--38326744	15	2.7	15	88	0	64	17	17	14	51	1.77
38328534--38328625	42	2.2	42	90	0	139	40	18	10	30	1.85
38328770--38328889	25	4.8	25	89	1	170	24	20	26	28	1.99
38329705--38329777	27	2.7	27	89	4	103	24	27	19	28	1.98
38329726--38329781	27	2.1	27	100	0	112	17	30	21	30	1.96
38329819--38330150	27	12.3	27	75	8	203	30	9	21	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38329925--38330135	79	2.6	79	82	4	235	29	8	21	40	1.83
38329821--38330204	54	7.1	54	74	8	199	32	8	20	38	1.84
38330128--38330285	27	5.9	27	90	0	208	40	8	22	28	1.84
38330118--38330298	81	2.2	81	83	0	245	37	8	22	32	1.84
38330101--38330285	54	3.4	54	87	0	235	38	8	22	30	1.84
38333050--38333188	48	2.9	48	88	1	199	30	13	23	32	1.93
38335799--38335836	18	2.1	18	100	0	76	63	5	10	21	1.46
38338474--38338516	20	2.2	20	83	8	52	46	2	16	34	1.60
38338576--38338620	20	2.2	20	88	0	63	46	2	13	37	1.55
38346361--38346424	28	2.3	28	86	0	83	39	23	21	15	1.92
38347630--38347678	20	2.6	18	75	15	53	65	0	28	6	1.16
38348797--38349429	27	23.2	27	87	2	890	29	21	8	40	1.82
38348984--38349048	33	2.0	33	96	0	121	35	16	9	38	1.81
38349300--38349615	27	11.7	27	85	2	143	35	20	9	35	1.85
38348769--38349548	81	9.6	81	81	5	271	31	20	8	39	1.83
38349408--38349615	54	3.9	54	81	0	218	37	19	10	32	1.85
38349422--38349590	81	2.1	81	85	2	223	39	18	10	31	1.84
38349422--38349623	81	2.5	80	82	5	194	39	17	10	32	1.84
38349553--38349625	27	2.7	26	83	6	92	39	13	10	35	1.80
38349619--38349832	27	8.0	27	88	0	286	35	19	20	24	1.96
38350038--38350107	25	2.8	25	84	4	88	28	24	18	28	1.98
38351462--38351539	38	2.1	38	100	0	156	20	20	37	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38351763--38353019	27	46.2	27	96	1	2208	29	24	7	38	1.83
38353007--38353182	27	6.9	27	76	12	138	41	21	6	30	1.79
38352781--38353223	54	8.4	53	81	7	159	35	21	7	36	1.81
38353106--38353237	27	4.9	27	82	3	124	38	19	9	32	1.83
38353227--38353630	27	15.0	27	88	0	594	35	17	20	25	1.95
38353836--38353930	25	3.8	25	92	0	154	26	27	21	25	1.99
38353836--38353966	25	5.2	24	82	8	120	29	23	21	25	1.99
38356271--38356315	20	2.2	20	84	0	54	46	2	13	37	1.55
38359222--38359389	92	1.8	92	88	2	257	22	19	27	29	1.98
38359620--38359657	19	2.0	20	85	15	53	36	0	23	39	1.55
38366893--38367133	81	3.0	82	80	3	299	40	19	17	22	1.91
38366885--38367135	27	9.3	27	82	5	240	40	19	17	22	1.91
38371840--38371932	48	1.9	48	84	0	123	35	20	13	30	1.92
38375973--38376011	20	2.0	20	89	0	60	17	12	28	41	1.87
38380045--38380083	16	2.4	16	82	0	51	48	2	0	48	1.15
38383114--38383159	18	2.5	18	85	3	56	26	0	2	71	0.97
38383114--38383159	19	2.5	19	86	10	60	26	0	2	71	0.97
38393700--38393759	24	2.4	25	91	5	104	36	20	20	23	1.95
38399824--38400224	93	4.3	93	98	0	766	29	27	19	23	1.98
38399870--38400227	47	7.7	47	74	15	359	29	27	18	23	1.98
38399819--38400177	46	7.7	46	73	15	319	30	27	19	23	1.98
38400648--38400706	30	2.0	30	86	0	82	25	27	8	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38402211--38402265	17	3.2	17	75	14	58	58	12	5	23	1.55
38404575--38404655	31	2.6	31	84	5	103	59	23	0	17	1.38
38406626--38406695	27	2.6	27	95	2	113	31	28	12	27	1.93
38406626--38406723	28	3.5	28	90	2	135	31	28	13	26	1.94
38414710--38414777	29	2.3	29	85	5	93	27	30	13	27	1.94
38414599--38415100	174	2.9	174	97	0	950	31	24	13	29	1.94
38414884--38414951	29	2.3	29	82	5	84	27	29	13	29	1.94
38418743--38418778	18	1.9	19	88	5	56	63	8	11	16	1.49
38420412--38420462	25	2.0	25	100	0	102	39	7	11	41	1.71
38427104--38427128	13	1.9	13	100	0	50	36	40	24	0	1.55

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