genome.fa.s23.2.7.7.80.10.50.1000.158.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  158  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)
52088011--52088048	16	2.4	16	82	8	51	42	5	28	23	1.76
52088025--52088120	45	2.2	44	90	5	149	30	4	29	36	1.76
52088253--52088474	120	1.8	121	96	0	410	49	4	1	44	1.31
52088677--52088719	16	3.0	14	81	15	52	62	6	0	30	1.21
52088687--52088719	16	2.1	16	94	5	59	66	6	0	27	1.15
52090153--52090188	12	3.0	12	91	0	54	47	0	52	0	1.00
52092048--52092087	19	2.1	19	85	0	53	42	12	10	35	1.76
52093725--52093807	35	2.4	34	82	7	105	45	0	4	49	1.23
52093725--52093809	24	3.7	23	71	18	61	45	0	4	49	1.23
52094843--52094941	45	2.2	45	87	3	137	22	18	19	40	1.91
52094924--52094964	6	6.7	6	88	5	64	17	17	17	48	1.81
52096367--52096481	29	4.0	29	75	5	99	25	28	15	30	1.96
52096369--52096481	58	2.0	57	82	1	136	24	28	15	30	1.96
52096554--52096590	19	2.0	18	89	5	56	18	40	16	24	1.90
52096563--52096599	19	1.9	19	88	0	56	16	37	18	27	1.92
52096701--52096754	16	3.4	16	73	0	54	11	20	18	50	1.77
52099854--52100068	119	1.8	117	82	6	263	49	11	9	29	1.70
52104551--52104619	28	2.4	28	90	7	102	31	4	2	60	1.31
52109237--52109523	43	6.7	43	76	10	266	24	17	25	32	1.97
52109238--52109523	129	2.2	129	99	0	563	24	17	25	32	1.97
52115114--52115309	43	4.6	43	87	3	279	29	30	16	23	1.96
52115112--52115309	85	2.3	86	86	2	283	29	30	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52116755--52116785	15	2.0	16	93	6	55	38	6	3	51	1.44
52119142--52119408	43	6.2	43	86	3	340	33	22	20	23	1.97
52119142--52119408	85	3.1	86	86	2	358	33	22	20	23	1.97
52125294--52125445	39	4.1	38	89	6	197	30	0	21	46	1.56
52125279--52125445	57	2.9	56	79	9	185	30	0	22	46	1.56
52125294--52125445	9	16.2	9	78	8	151	30	0	21	46	1.56
52125279--52125434	48	3.2	48	80	3	179	30	0	23	45	1.57
52126004--52126053	23	2.2	23	100	0	100	34	16	16	34	1.90
52128575--52128626	19	2.7	20	87	6	79	30	3	38	26	1.74
52129709--52129745	15	2.5	15	91	4	58	27	2	24	45	1.66
52129708--52129796	37	2.4	36	74	5	88	30	1	22	46	1.59
52129916--52129973	29	2.0	29	96	0	107	22	6	36	34	1.81
52130893--52131301	27	15.1	27	96	1	714	34	22	22	20	1.97
52135587--52135693	40	2.7	40	88	2	162	23	23	28	25	2.00
52139619--52139730	27	4.2	26	85	7	143	37	23	24	15	1.93
52139619--52139730	54	2.1	54	88	3	163	37	23	24	15	1.93
52142194--52142349	41	3.8	41	87	1	215	19	21	21	37	1.95
52143829--52143868	19	2.2	17	86	8	53	22	5	0	72	1.04
52143975--52144016	22	1.9	22	90	0	66	28	0	0	71	0.86
52143968--52144023	16	3.7	15	76	11	60	32	0	0	67	0.91
52143995--52144049	29	2.0	30	82	13	73	32	0	3	63	1.12
52143968--52144049	7	9.9	8	76	19	62	32	0	2	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52144796--52144842	21	2.2	21	84	3	58	38	44	2	14	1.58
52144715--52144820	56	1.9	56	80	0	122	38	36	1	22	1.65
52144795--52144860	14	4.7	14	76	0	51	39	40	1	18	1.60
52145061--52145133	38	1.9	38	88	0	110	43	34	5	16	1.71
52145106--52145153	14	3.4	13	83	16	60	41	39	2	16	1.60
52145181--52145214	15	2.3	15	90	5	52	47	32	0	20	1.51
52145526--52145603	40	1.9	41	82	12	99	32	17	24	25	1.97
52145702--52145824	40	3.1	40	83	5	135	31	17	20	30	1.96
52145904--52145987	40	2.1	40	84	4	107	26	20	19	34	1.96
52148316--52148523	55	3.8	54	78	6	224	34	17	24	23	1.96
52148323--52148523	108	1.8	110	86	4	291	33	17	24	23	1.96
52148639--52148686	23	2.0	24	88	4	71	47	10	20	20	1.79
52148762--52148792	16	1.9	16	93	0	53	41	0	22	35	1.54
52157870--52157912	13	3.2	13	78	15	52	25	6	48	18	1.73
52159089--52159136	25	1.9	25	86	0	69	31	22	16	29	1.96
52159267--52159361	25	3.8	25	90	0	145	28	26	21	24	1.99
52159266--52159388	25	5.0	23	83	6	102	29	25	21	24	1.99
52159583--52159661	31	2.5	31	91	0	122	30	21	27	20	1.98
52162670--52162748	40	2.0	40	85	5	106	34	22	17	25	1.96
52162679--52162756	40	2.0	40	84	5	104	35	20	17	25	1.95
52166049--52166269	40	5.6	40	90	2	320	25	22	25	27	2.00
52179894--52180121	40	5.7	40	95	0	393	30	20	27	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52189289--52189374	45	1.9	45	85	4	120	27	13	20	37	1.91
52193827--52193865	19	2.0	20	90	5	62	61	0	20	17	1.34
52195040--52195092	28	2.0	27	85	14	74	60	1	9	28	1.38
52196085--52196123	16	2.4	16	87	8	53	76	0	2	20	0.90
52196765--52196980	49	4.5	49	77	6	160	28	19	27	24	1.99
52198908--52198954	22	2.1	22	92	0	76	19	31	21	27	1.97
52200027--52200087	28	2.2	29	80	14	74	49	8	8	34	1.62
52200080--52200122	21	2.0	21	86	8	61	25	4	11	58	1.52
52202022--52202069	22	2.1	23	84	3	62	31	0	14	54	1.41
52204044--52204164	42	2.9	40	81	7	125	28	12	26	33	1.92
52205001--52205080	42	2.0	42	82	9	103	17	18	36	27	1.94
52211032--52211077	21	2.2	21	100	0	92	30	21	21	26	1.99
52211032--52211088	21	2.7	21	91	2	69	29	24	19	26	1.98
52213663--52213774	43	2.6	42	82	8	129	30	16	24	29	1.96
52216246--52217081	52	16.1	52	99	0	1645	34	5	23	36	1.79
52217912--52217999	43	2.0	43	97	0	167	28	11	22	37	1.89
52224088--52225065	40	24.5	40	89	0	1476	22	22	27	27	1.99
52224088--52225065	80	12.2	80	97	0	1773	22	22	27	27	1.99
52233912--52234028	59	2.0	59	96	0	216	27	14	31	26	1.95
52238400--52238696	40	7.5	40	86	2	377	23	23	27	26	2.00
52240145--52240252	26	4.2	26	91	0	180	32	6	24	37	1.81
52250183--52250217	13	2.6	13	95	4	61	31	0	17	51	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52255820--52255861	21	2.2	18	87	12	57	35	9	2	52	1.47
52258957--52259046	42	2.1	43	83	6	112	24	14	26	34	1.94
52264874--52265010	6	22.3	6	70	15	93	48	13	17	19	1.80
52264919--52265010	31	3.0	31	82	4	116	47	14	18	19	1.82
52264876--52264988	43	2.6	43	88	0	163	47	14	18	19	1.82
52265129--52265188	27	2.3	26	82	2	66	36	20	21	21	1.95
52265227--52265286	27	2.3	26	82	2	66	36	20	21	21	1.95
52265113--52265372	98	2.7	98	97	1	486	32	20	26	20	1.97
52265254--52265393	67	2.0	67	83	8	174	30	21	27	20	1.98
52265632--52265863	27	8.6	27	84	0	275	24	20	18	36	1.95
52265628--52265860	81	2.9	81	87	0	304	25	21	18	35	1.95
52265895--52266188	27	10.9	26	81	6	148	32	8	19	39	1.82
52265895--52266179	81	3.5	81	83	1	250	32	8	19	38	1.83
52265955--52266188	27	8.7	27	84	0	252	32	7	19	40	1.80
52265899--52266188	54	5.4	54	83	1	287	31	8	20	39	1.82
52265956--52266188	81	2.9	81	88	0	331	32	7	19	40	1.80
52268165--52268272	6	17.7	6	71	14	78	46	13	20	19	1.84
52268174--52268272	37	2.7	37	90	0	144	46	13	21	19	1.83
52268414--52268473	27	2.3	26	82	2	66	36	20	21	21	1.95
52268512--52268571	27	2.3	26	82	2	66	36	20	21	21	1.95
52268396--52268659	98	2.7	98	97	1	494	33	21	25	19	1.97
52268906--52269155	27	9.3	27	83	3	288	24	22	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52268910--52269149	81	3.0	81	87	0	329	24	22	18	34	1.96
52269176--52269507	81	4.1	81	84	1	371	30	9	21	39	1.85
52269195--52269507	27	11.6	27	84	2	335	29	9	21	39	1.85
52270827--52270879	26	2.0	26	96	0	97	43	9	7	39	1.65
52272765--52272809	20	2.2	20	88	0	63	48	2	13	35	1.54
52275074--52275251	27	6.6	27	84	3	205	29	28	15	26	1.96
52275095--52275250	82	1.9	81	88	3	233	29	28	15	26	1.96
52280031--52280113	43	1.9	43	85	4	114	26	16	24	32	1.96
52290038--52290093	24	2.3	24	90	0	85	23	16	42	17	1.88
52297310--52297349	13	3.1	13	100	0	80	15	37	32	15	1.88

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