genome.fa.s23.2.7.7.80.10.50.1000.122.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  122  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)
40822892--40822995	26	4.0	26	92	0	172	34	24	8	32	1.86
40829537--40829692	26	6.0	26	93	0	267	35	23	7	33	1.84
40829537--40829692	52	3.0	52	98	0	294	35	23	7	33	1.84
40844334--40844404	35	2.0	35	97	0	133	38	19	21	21	1.94
40855225--40855275	25	2.0	26	81	11	61	56	7	7	27	1.55
40857356--40857406	21	2.4	21	80	6	59	29	9	3	56	1.49
40867010--40867038	12	2.5	12	94	5	51	41	0	0	58	0.98
40870057--40870109	26	2.0	26	82	7	63	7	32	7	52	1.58
40877798--40877906	42	2.6	42	86	7	150	30	23	19	26	1.98
40877798--40877971	43	4.0	41	77	11	161	31	24	17	25	1.97
40885818--40885874	30	1.9	30	88	0	87	21	24	24	29	1.99
40890024--40890109	28	3.1	28	81	0	100	36	11	22	30	1.89
40891442--40891502	2	30.5	2	86	0	86	54	0	0	45	1.00
40891709--40891854	43	3.4	42	81	7	159	30	21	15	32	1.94
40891735--40891855	43	2.8	45	86	5	160	31	24	14	29	1.94
40892339--40892404	28	2.3	28	79	7	71	31	19	1	46	1.59
40892481--40892525	20	2.1	21	84	8	56	53	15	4	26	1.61
40899148--40899326	43	4.2	43	71	16	122	31	25	13	29	1.94
40902400--40902454	22	2.5	22	94	2	94	14	27	16	41	1.87
40905343--40905830	51	9.9	50	91	6	784	32	8	29	30	1.86
40905343--40905885	98	5.5	97	92	5	762	32	8	29	29	1.86
40905343--40905885	149	3.7	146	91	5	843	32	8	29	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40906004--40906082	37	2.1	37	90	0	122	24	18	31	25	1.98
40914263--40914342	28	2.9	29	78	14	87	35	8	25	31	1.86
40914480--40914543	27	2.4	27	81	0	65	35	14	26	23	1.93
40916501--40916556	26	2.2	25	93	6	96	37	14	7	41	1.73
40916826--40916941	46	2.4	47	80	12	123	34	17	23	25	1.96
40916873--40916941	26	2.7	26	80	4	79	33	18	23	24	1.97
40923452--40923487	18	2.0	18	88	0	54	30	22	8	38	1.83
40942890--40942915	13	2.0	13	100	0	52	7	46	30	15	1.74
40950252--40950338	21	4.0	23	80	10	92	37	25	21	14	1.92
40950715--40950766	15	3.5	15	89	0	86	51	13	0	34	1.41
40956482--40956543	21	2.8	22	75	7	72	40	24	20	14	1.90
40956563--40956670	54	2.0	54	98	0	207	26	33	13	25	1.94
40956972--40957029	15	3.8	15	88	2	89	51	12	0	36	1.39
40959578--40959831	3	87.3	3	68	17	85	28	6	2	62	1.33
40959591--40959643	28	1.9	27	92	3	88	30	3	0	66	1.10
40959578--40959660	25	3.2	24	75	18	69	30	2	3	63	1.24
40959578--40959651	28	2.7	27	74	17	80	29	2	2	64	1.21
40959617--40959660	19	2.3	19	84	7	54	31	0	4	63	1.14
40960812--40960837	9	2.9	9	100	0	52	34	7	0	57	1.27
40961228--40961335	26	4.2	26	93	0	189	32	7	24	36	1.83
40965132--40965245	28	3.9	27	72	19	79	25	27	21	26	1.99
40965109--40965253	61	2.3	60	85	8	177	26	26	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40965274--40965319	20	2.3	20	85	3	67	28	26	17	28	1.98
40966659--40966714	27	2.1	27	93	0	94	44	19	16	19	1.87
40968427--40968538	12	9.3	12	66	24	51	33	4	3	58	1.36
40968482--40968540	18	3.2	18	80	17	68	30	3	1	64	1.20
40975234--40975260	14	1.9	14	100	0	54	29	14	18	37	1.91
40975320--40975344	13	1.9	13	100	0	50	24	8	0	68	1.16
40976177--40976253	24	3.4	22	74	20	61	37	1	2	58	1.20
40976720--40976744	12	2.1	12	100	0	50	64	0	8	28	1.22
40977383--40977424	18	2.2	19	87	8	59	66	11	2	19	1.34
40981431--40981463	10	3.3	10	87	12	50	69	0	0	30	0.88
40981417--40981486	30	2.3	29	79	16	72	61	1	2	34	1.20
40981668--40981724	15	3.7	15	75	15	55	66	0	12	21	1.23
40982646--40982670	13	1.9	13	100	0	50	24	24	32	20	1.98
40983786--40984039	125	2.0	125	100	0	508	35	13	10	40	1.79
41010902--41010968	35	1.9	35	87	6	100	19	23	22	34	1.97
41019912--41019975	3	21.3	3	88	6	94	67	3	0	29	1.06
41022380--41022437	28	2.0	28	83	9	73	50	3	0	46	1.18
41025612--41025672	29	2.4	24	79	17	61	60	0	1	37	1.07
41027349--41027387	20	1.9	21	89	5	62	43	5	20	30	1.73
41038420--41038469	15	3.5	15	82	15	61	42	12	24	22	1.87
41041667--41041737	30	2.4	30	83	4	90	60	9	7	22	1.52
41041673--41041745	30	2.4	31	80	15	89	61	6	8	23	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41041667--41041750	30	2.9	30	80	7	75	59	9	8	22	1.55
41042122--41042146	8	3.1	8	100	0	50	52	0	0	48	1.00
41042333--41042378	21	2.2	21	84	7	58	58	2	6	32	1.36
41047022--41047309	71	4.1	71	89	0	416	32	21	22	23	1.98
41047058--41047308	36	7.1	36	67	8	138	33	21	21	23	1.97
41047176--41047331	35	4.4	34	71	13	100	36	21	19	23	1.95
41047242--41047513	76	3.7	75	75	7	227	38	23	16	21	1.93
41048746--41048774	3	9.7	3	100	0	58	31	0	0	68	0.89
41052285--41052366	26	3.2	26	92	0	137	36	24	6	32	1.80
41053708--41053911	84	2.4	84	100	0	408	32	11	5	50	1.62
41055462--41055499	16	2.2	18	86	9	53	68	2	0	28	1.03
41059210--41059245	18	2.0	18	94	0	63	22	22	13	41	1.89
41059291--41059324	16	2.1	16	94	0	59	47	11	11	29	1.76
41061009--41061086	40	2.0	40	86	0	111	19	14	33	33	1.91
41065392--41065473	31	2.6	31	84	3	85	28	21	19	30	1.98
41070099--41070162	31	2.1	31	85	5	85	35	12	6	45	1.67
41071418--41071487	34	2.2	30	85	14	88	35	0	0	64	0.94
41071497--41071525	14	2.0	15	93	6	51	44	0	0	55	0.99
41072326--41072370	19	2.3	19	88	3	63	40	2	2	55	1.24
41076660--41076726	14	4.7	14	88	3	89	37	8	17	35	1.82
41089857--41090241	44	8.9	44	73	12	287	30	20	23	25	1.99
41089857--41090247	87	4.5	87	75	9	291	30	20	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41090512--41091560	527	2.0	527	98	0	2046	25	17	12	44	1.84
41091805--41091837	14	2.4	14	100	0	66	27	0	0	72	0.85
41091795--41091839	23	2.0	23	86	8	65	26	2	0	71	0.98
41092001--41092026	4	6.5	4	100	0	52	23	0	0	76	0.78
41094961--41094994	18	1.9	17	88	5	50	44	0	20	35	1.52
41097550--41097582	2	16.5	2	100	0	66	51	0	48	0	1.00
41102830--41102870	21	2.0	21	90	0	64	19	24	21	34	1.97
41106608--41106661	15	3.3	15	74	18	54	44	0	1	53	1.11
41106694--41106730	16	2.3	16	86	13	58	40	0	0	59	0.97
41106746--41106797	14	3.6	14	75	10	52	50	0	1	48	1.12
41108310--41108338	8	3.6	8	100	0	58	37	13	10	37	1.79
41108454--41108660	43	4.9	40	77	9	155	33	26	19	20	1.97
41108500--41108660	85	1.9	85	83	8	193	32	27	19	20	1.97
41108499--41108938	43	10.2	43	76	7	277	30	27	21	21	1.98
41108755--41108938	87	2.1	86	80	4	208	32	29	19	19	1.96
41109270--41109328	21	2.8	21	92	0	91	0	49	22	28	1.50
41112977--41113141	83	2.0	83	97	0	312	44	19	8	27	1.80
41114144--41114193	7	7.0	7	79	2	55	44	34	0	22	1.53
41114147--41114193	14	3.3	15	82	11	62	44	31	0	23	1.54
41114144--41114193	21	2.3	21	86	3	64	44	34	0	22	1.53
41114798--41114823	7	3.7	7	100	0	52	57	26	0	15	1.38
41114842--41114923	35	2.3	35	83	4	94	47	24	2	25	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41114977--41115112	41	3.3	41	89	2	184	25	25	20	28	1.99
41115060--41115159	52	1.9	52	89	0	155	23	21	22	34	1.97
41116348--41116550	89	2.3	89	82	6	243	37	20	6	34	1.80
41116841--41117007	9	18.0	9	67	19	51	31	3	2	62	1.27
41116906--41116985	19	4.3	19	67	19	60	35	2	2	60	1.24
41116841--41116967	36	3.4	39	77	10	113	33	3	2	61	1.24
41116887--41116991	27	3.8	27	79	8	106	33	2	2	60	1.26
41116972--41117008	17	2.1	18	90	5	58	21	5	2	70	1.20
41116885--41117002	55	2.1	54	82	10	141	32	3	3	61	1.29
41117023--41117241	90	2.4	89	79	10	257	35	7	20	36	1.82

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