genome.fa.s4.2.7.7.80.10.50.1000.176.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  176  of  235  ( 28198 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)
59645212--59645259	21	2.4	21	83	10	57	70	4	18	6	1.25
59654675--59654726	20	2.6	20	81	6	61	26	28	13	30	1.94
59655794--59655871	21	3.4	23	74	8	70	26	2	30	39	1.70
59655830--59655896	21	3.1	21	82	4	80	29	2	32	34	1.73
59660048--59660112	28	2.4	25	71	16	58	6	16	3	73	1.16
59660090--59660136	20	2.4	20	85	3	60	8	8	2	80	0.97
59662363--59662395	13	2.5	13	100	0	66	12	6	0	81	0.85
59662658--59662735	21	3.4	23	74	8	70	26	2	30	39	1.70
59662694--59662760	21	3.1	21	82	4	80	29	2	32	34	1.73
59678256--59678371	39	3.0	39	94	0	196	26	31	20	21	1.98
59681404--59681461	31	1.9	29	86	6	80	51	3	29	15	1.60
59685442--59685487	20	2.3	20	80	0	56	30	32	13	23	1.93
59687024--59687092	14	5.1	14	71	11	54	73	1	17	7	1.12
59688112--59688217	48	2.2	47	83	12	128	60	1	23	14	1.44
59689925--59689971	20	2.3	20	85	0	67	29	36	12	21	1.91
59692695--59692872	89	2.0	89	98	0	347	31	16	16	35	1.91
59692872--59693053	92	2.0	92	98	1	357	42	3	8	44	1.53
59695007--59695092	27	3.1	27	79	14	95	36	9	16	38	1.81
59695094--59695226	27	4.9	27	76	5	135	28	9	20	41	1.84
59695089--59695193	54	1.9	54	86	3	149	29	6	20	42	1.78
59695225--59695342	27	4.4	27	88	2	157	43	6	20	29	1.77
59695225--59695342	53	2.2	54	86	1	157	43	6	20	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59695626--59695701	34	2.2	35	90	4	120	39	11	26	22	1.88
59698380--59698407	9	3.1	9	100	0	56	46	32	0	21	1.52
59700981--59701132	54	2.8	54	91	0	250	41	19	8	30	1.81
59700981--59701149	27	6.3	27	85	0	221	40	18	9	31	1.83
59703876--59703932	27	2.1	27	90	0	87	40	19	8	31	1.82
59703881--59703944	27	2.4	27	86	0	83	37	25	10	26	1.89
59703926--59703991	27	2.4	27	74	0	78	36	21	10	31	1.87
59703985--59704030	23	2.0	23	100	0	92	30	21	21	26	1.99
59703982--59704173	27	7.3	27	78	10	184	35	18	19	25	1.95
59704007--59704159	81	1.9	81	90	0	243	36	18	18	25	1.94
59704418--59704468	27	1.9	26	84	4	66	19	27	17	35	1.94
59704588--59704759	6	27.8	6	71	18	113	18	19	13	48	1.80
59704616--59704747	19	6.7	19	72	19	110	17	19	14	48	1.81
59704588--59704648	25	2.4	25	91	0	104	19	19	13	47	1.82
59704653--59704714	25	2.5	25	94	0	106	19	20	14	45	1.85
59704588--59704747	62	2.6	62	91	3	259	18	19	14	48	1.82
59704610--59704692	37	2.2	37	85	8	123	18	19	15	46	1.83
59704679--59704759	37	2.2	37	86	0	117	17	18	13	50	1.78
59707476--59707530	27	2.0	27	100	0	110	38	25	3	32	1.73
59725382--59725543	46	3.5	45	79	11	184	31	19	25	22	1.98
59728550--59728875	65	5.0	65	98	0	616	24	15	17	42	1.88
59736691--59737233	47	11.6	47	99	0	1068	29	29	8	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59740863--59741083	40	5.5	40	90	0	325	27	28	20	23	1.99
59741389--59741467	29	2.7	29	86	5	106	27	32	15	24	1.95
59741449--59741534	43	2.0	43	97	0	163	27	33	13	24	1.94
59741559--59741637	29	2.7	29	86	5	106	27	32	15	24	1.95
59741364--59741678	170	1.9	170	100	0	630	28	31	13	25	1.94
59742386--59742578	96	2.0	96	96	0	359	25	20	16	37	1.93
59742791--59743065	138	2.0	138	97	1	516	26	21	10	41	1.84
59745638--59745901	85	3.1	85	99	0	519	26	27	8	37	1.85
59750020--59750047	10	2.8	10	100	0	56	10	10	7	71	1.31
59750354--59750414	3	20.3	3	100	0	122	32	0	0	67	0.91
59750413--59750460	24	2.0	24	95	0	87	10	16	8	64	1.48
59754372--59754497	63	2.0	64	95	1	227	30	22	13	34	1.92
59754498--59754619	57	2.1	58	93	3	219	36	28	13	22	1.91
59754696--59754873	27	6.6	27	81	3	178	28	28	16	26	1.97
59754717--59754872	82	1.9	81	85	3	215	28	28	16	26	1.97
59761705--59762133	215	2.0	215	98	0	822	34	19	17	28	1.94
59764786--59764920	40	3.4	40	93	0	234	29	29	18	22	1.97
59767593--59767630	3	12.7	3	100	0	76	31	0	0	68	0.90
59779917--59780079	40	4.1	40	92	2	258	26	28	22	23	1.99
59781461--59781486	13	2.0	13	100	0	52	61	7	0	30	1.24
59782841--59782906	31	2.1	31	82	0	78	19	4	30	45	1.70
59784321--59784395	37	2.0	37	100	0	150	13	32	5	49	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59790890--59790966	17	4.7	17	72	15	72	38	2	1	57	1.21
59790938--59791052	62	1.9	59	87	5	167	42	2	2	52	1.29
59795772--59795814	20	2.1	21	86	4	61	30	20	0	48	1.50
59796046--59796960	163	5.6	163	99	0	1812	23	25	16	34	1.95
59813338--59813380	20	2.1	21	86	4	61	30	20	0	48	1.50
59813604--59813819	55	4.0	54	81	6	267	22	25	16	35	1.95
59813612--59813812	108	1.8	110	89	4	318	23	24	17	34	1.96
59813565--59813819	55	4.8	54	79	9	260	21	24	16	36	1.94
59824275--59824388	35	3.3	35	81	4	140	40	21	10	28	1.86
59831142--59831291	41	3.7	41	80	1	194	29	27	22	21	1.99
59834065--59834099	17	2.0	17	88	5	52	25	28	34	11	1.91
59834196--59834627	27	16.0	27	82	3	296	41	18	8	31	1.80
59834196--59834320	53	2.3	54	83	1	162	44	19	4	32	1.71
59835108--59835172	22	3.0	22	77	8	69	20	24	23	32	1.98
59857354--59857485	52	2.6	50	80	4	140	27	14	25	32	1.94
59857354--59857542	50	3.7	52	78	4	161	25	15	25	32	1.96
59857466--59857636	51	3.4	51	81	3	148	27	17	26	28	1.98
59868366--59868542	27	6.6	27	82	4	169	29	27	15	27	1.96
59868366--59868542	54	3.3	55	82	4	200	29	27	15	27	1.96
59868387--59868541	82	1.9	80	84	5	204	29	27	15	27	1.96
59871287--59871514	29	7.9	29	83	3	273	38	12	28	20	1.89
59874273--59874405	3	45.7	3	72	10	71	22	5	4	67	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59874315--59874399	39	2.2	37	91	6	134	24	5	3	65	1.31
59883184--59883339	40	3.9	40	94	2	262	22	22	28	26	1.99
59893819--59893868	2	25.0	2	100	0	100	0	0	50	50	1.00
59894916--59895012	49	2.0	49	97	0	185	42	14	16	26	1.87
59898101--59899012	39	23.3	39	98	0	1677	25	20	28	25	1.99
59903307--59903365	26	2.3	26	82	5	66	35	18	15	30	1.92
59905037--59905402	56	6.6	56	92	1	565	37	22	14	25	1.92
59910472--59910512	20	2.0	21	85	4	57	19	7	9	63	1.48
59912813--59912962	41	3.6	41	77	10	162	22	22	28	27	1.99
59912793--59912962	41	4.2	40	74	18	161	22	22	27	27	1.99
59916344--59916400	28	2.0	28	100	0	114	43	10	14	31	1.79
59927092--59927145	24	2.2	24	84	12	67	29	37	16	16	1.91
59937256--59937345	29	3.1	28	85	7	119	27	13	28	30	1.94
59941181--59941230	25	2.0	25	96	0	91	38	4	26	32	1.75
59944854--59944953	46	2.2	46	89	3	148	18	31	6	45	1.73
59948492--59948521	16	1.9	15	93	6	51	60	3	6	30	1.39
59948553--59948594	22	2.1	19	86	13	57	52	0	2	45	1.13
59952816--59953023	67	3.2	64	74	10	179	32	16	28	22	1.96
59953956--59954015	29	2.1	29	96	0	111	30	8	16	45	1.77
59968928--59969105	75	2.4	75	80	6	200	23	20	23	33	1.97
59981416--59981463	3	17.0	3	76	20	50	62	2	0	35	1.07
59981504--59981545	21	2.0	21	85	0	57	69	2	26	2	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59981515--59981545	16	2.0	15	93	6	53	74	0	25	0	0.82
59983419--59983741	164	2.0	164	98	0	619	29	20	22	28	1.98
59983970--59984028	29	2.0	29	100	0	118	67	0	11	20	1.21
59983973--59984044	29	2.5	29	90	0	108	69	1	9	19	1.24
59986228--59986279	27	2.0	26	81	11	61	48	0	1	50	1.12
59986414--59986491	39	2.0	40	85	7	106	41	23	2	33	1.68
59988248--59988282	17	2.1	17	94	0	61	40	5	14	40	1.69
59988541--59988580	16	2.5	16	84	11	55	52	2	0	45	1.14
59988865--59988906	20	2.1	20	100	0	84	4	14	9	71	1.28
59988872--59988915	20	2.2	20	91	0	70	6	13	11	68	1.39

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235