genome.fa.s23.2.7.7.80.10.50.1000.48.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  48  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)
14911468--14911508	7	5.9	7	88	0	55	19	0	0	80	0.71
14911976--14912024	24	2.0	24	100	0	98	42	4	0	53	1.20
14911983--14912028	12	3.9	12	80	2	58	43	4	0	52	1.21
14912630--14912766	41	3.4	41	82	4	170	21	20	21	36	1.95
14912630--14912797	81	2.1	82	82	5	198	22	20	20	37	1.94
14915446--14915476	16	1.9	16	93	0	53	38	0	0	61	0.96
14916860--14916894	5	6.6	5	96	3	52	17	0	0	82	0.66
14921285--14921321	19	2.1	18	90	10	58	48	16	29	5	1.68
14923669--14923787	46	2.6	46	84	0	148	42	10	23	23	1.84
14925662--14925757	35	2.7	35	88	3	140	30	18	18	32	1.95
14925664--14925774	35	3.2	35	83	2	134	29	17	21	31	1.96
14932533--14932694	35	4.7	35	85	3	211	29	14	20	35	1.92
14932524--14932694	69	2.5	70	83	6	213	29	14	20	35	1.92
14943694--14943765	22	3.2	22	66	14	56	45	9	22	22	1.81
14943709--14943781	24	3.1	24	66	18	64	36	12	23	27	1.90
14943647--14943781	46	3.0	46	90	3	202	42	11	21	24	1.85
14954464--14954778	49	6.7	46	72	15	177	26	29	17	27	1.97
14957121--14957190	27	2.5	27	86	4	86	32	12	28	25	1.93
14960409--14960549	74	1.9	73	81	7	169	40	7	7	43	1.62
14960640--14960781	73	2.0	73	83	2	180	32	9	11	46	1.72
14967275--14967309	16	2.1	16	89	10	52	51	0	0	48	1.00
14969851--14970679	3	276.3	3	99	0	1649	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14970756--14970782	3	9.0	3	100	0	54	0	33	0	66	0.92
14972714--14972854	25	5.7	24	73	12	97	19	27	18	34	1.95
14972722--14972879	50	3.2	49	76	3	145	21	25	19	32	1.97
14979875--14980012	27	5.1	27	80	11	167	34	23	23	18	1.96
14979875--14980012	54	2.6	54	90	2	224	34	23	23	18	1.96
14980882--14980995	55	2.1	55	100	0	228	34	16	8	40	1.80
14981658--14981765	26	4.2	26	93	0	189	36	24	7	32	1.83
14981848--14981907	30	2.0	30	100	0	120	20	26	13	40	1.89
14985980--14986043	25	2.6	25	85	5	76	23	25	20	31	1.98
14986006--14986087	25	3.3	25	81	3	94	24	25	20	29	1.99
14990489--14990560	28	2.6	28	86	4	112	23	16	11	48	1.78
14992127--14992161	17	2.1	17	89	10	54	74	0	22	2	0.95
14993186--14993224	20	2.0	20	89	0	60	35	12	7	43	1.72
14995374--14995415	11	3.8	11	81	9	50	33	0	23	42	1.55
14995858--14995910	21	2.3	23	75	21	58	43	0	3	52	1.19
14998560--14998708	76	2.0	76	95	0	271	31	23	20	24	1.98
15010806--15010854	25	2.0	25	87	0	71	32	22	16	28	1.95
15011578--15011621	21	2.2	20	83	4	52	52	11	20	15	1.74
15017025--15017124	12	8.4	12	64	21	50	34	12	16	38	1.85
15017030--15017117	23	3.8	24	76	13	94	31	11	17	39	1.85
15017083--15017128	23	2.0	23	83	8	58	41	10	15	32	1.82
15018919--15018943	13	1.9	13	100	0	50	52	16	8	24	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15020890--15020932	22	2.0	22	81	9	52	13	4	11	69	1.33
15021966--15022019	26	2.1	26	100	0	108	40	7	25	25	1.82
15022501--15022532	10	3.3	10	95	4	57	43	0	0	56	0.99
15022499--15022553	9	6.1	9	73	23	53	47	0	0	52	1.00
15022453--15022553	36	2.9	36	76	8	109	48	2	0	47	1.23
15022514--15022568	26	2.1	27	86	10	78	43	0	0	56	0.99
15023073--15023114	18	2.3	18	100	0	84	26	0	35	38	1.57
15024342--15024382	12	3.5	12	86	6	57	58	0	17	24	1.38
15031004--15031048	21	2.2	21	92	7	76	22	35	24	17	1.95
15037276--15037343	35	1.9	35	93	0	118	19	11	48	20	1.80
15039197--15039383	50	3.8	50	76	9	179	21	29	17	30	1.97
15039200--15039375	96	1.8	96	85	2	246	22	29	17	30	1.96
15039709--15039771	29	2.2	29	77	13	67	33	30	11	25	1.90
15044855--15045115	40	6.5	39	84	4	292	26	26	20	26	1.99
15044855--15045115	80	3.3	80	86	4	341	26	26	20	26	1.99
15052902--15053131	40	5.8	40	96	1	417	27	27	20	24	1.99
15057160--15057400	50	4.7	50	85	5	286	23	29	21	26	1.99
15057745--15057802	30	1.9	30	82	6	73	32	24	3	39	1.72
15064904--15065126	40	5.6	39	82	6	200	26	26	21	25	1.99
15064902--15065126	80	2.8	79	80	7	231	26	27	21	25	1.99
15065058--15065135	40	1.9	41	82	10	97	26	28	20	24	1.99
15066465--15066524	30	2.0	30	93	0	102	15	21	25	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15069185--15069236	25	2.2	23	83	13	61	80	11	5	1	0.96
15069205--15069240	15	2.3	16	90	4	56	83	11	0	5	0.80
15069166--15069236	28	2.5	28	75	4	72	80	11	4	4	1.00
15069173--15069239	8	7.9	8	74	14	55	82	11	4	1	0.89
15069174--15069240	18	3.9	16	78	16	55	80	11	4	2	0.97
15070923--15071048	65	1.9	65	93	0	216	33	17	12	36	1.88
15071251--15071948	68	10.4	68	92	4	1116	26	20	21	32	1.98
15071360--15071871	260	2.0	260	99	0	1006	25	20	20	32	1.97
15071292--15072231	328	2.9	323	91	2	1466	26	20	21	31	1.98
15071909--15071989	42	1.9	42	94	0	144	20	17	24	37	1.94
15071841--15072057	110	2.0	110	92	0	362	24	19	23	33	1.97
15071951--15072231	68	4.1	68	94	0	463	25	21	22	30	1.99
15071773--15072126	178	2.0	178	92	0	582	24	20	22	32	1.98
15071705--15072195	246	2.0	247	91	0	786	25	20	21	31	1.98
15079806--15079848	22	2.0	22	95	0	77	41	13	20	23	1.88
15082118--15082232	18	6.3	18	77	4	115	41	16	6	34	1.75
15082128--15082233	36	3.0	36	87	1	133	41	16	6	35	1.74
15082258--15082307	18	2.7	19	75	6	57	50	10	8	32	1.65
15082431--15082546	53	2.2	53	85	0	160	43	21	17	18	1.88
15084303--15084327	12	2.1	12	100	0	50	16	24	20	40	1.91
15084362--15084489	53	2.4	53	86	3	186	17	18	21	42	1.89
15084616--15084795	18	9.6	18	67	11	83	33	9	15	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15095893--15095975	31	2.6	31	78	3	85	59	16	6	18	1.57
15096213--15096280	21	3.2	21	78	0	73	1	48	17	32	1.56
15096697--15096725	14	2.1	14	93	6	51	58	6	0	34	1.25
15097991--15098058	29	2.4	29	95	2	120	33	23	2	39	1.70
15101783--15102004	74	3.0	74	93	1	365	34	3	13	47	1.61
15101917--15102190	56	5.2	56	74	16	250	35	2	13	48	1.58
15101944--15102043	29	3.5	28	77	15	116	35	5	15	45	1.68
15101843--15102134	130	2.2	130	93	1	496	35	3	14	47	1.61
15101973--15102253	74	3.8	74	97	0	510	35	2	13	48	1.55
15101899--15102253	148	2.4	147	86	5	441	35	2	13	48	1.57
15102056--15102118	29	2.1	31	85	8	85	31	1	14	52	1.51
15101783--15102190	204	2.0	204	93	2	696	35	2	13	48	1.58
15102130--15102192	29	2.1	31	85	8	85	31	1	14	52	1.51
15102428--15102469	14	3.4	13	81	18	54	66	0	0	33	0.92
15102428--15102479	12	4.3	12	77	15	54	63	1	0	34	1.06
15102374--15102592	105	2.1	105	90	1	341	54	4	5	35	1.43
15106755--15107287	267	2.0	267	99	0	1057	33	11	21	32	1.90
15107240--15107352	47	2.4	47	83	0	145	31	9	31	26	1.89
15107471--15107549	37	2.1	37	86	4	106	25	20	30	24	1.98
15111791--15111840	22	2.3	23	79	10	59	34	38	2	26	1.68
15111801--15111853	22	2.4	22	78	12	63	33	35	1	28	1.68
15111787--15111879	7	12.9	7	69	6	51	39	33	1	25	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15111900--15111933	15	2.4	14	90	5	50	41	29	2	26	1.70
15111900--15111933	7	4.7	7	85	7	50	41	29	2	26	1.70
15111953--15111992	15	2.7	14	84	7	53	47	35	0	17	1.48
15111950--15112007	22	2.6	22	77	0	62	46	31	0	22	1.52
15112028--15112073	14	3.3	14	84	0	65	50	26	0	23	1.50
15112348--15112683	41	8.2	41	85	1	397	27	19	23	29	1.98
15112365--15112690	122	2.6	122	84	4	397	27	19	23	29	1.98
15112348--15112683	163	2.1	163	84	2	424	27	19	23	29	1.98
15114435--15114476	23	1.9	21	90	9	66	23	9	14	52	1.71
15122034--15122078	22	2.0	22	100	0	90	44	0	17	37	1.49

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