genome.fa.s12.2.7.7.80.10.50.1000.34.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   

This is table  34  of  276  ( 33102 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)
10680287--10680344	29	1.9	31	83	13	77	44	0	20	34	1.52
10697252--10697374	18	6.8	17	72	16	81	64	3	1	30	1.19
10697302--10697380	10	8.3	10	74	14	60	62	1	1	35	1.12
10697315--10697380	30	2.2	29	84	10	80	59	1	1	37	1.16
10697927--10698011	40	2.1	40	100	0	170	44	14	4	36	1.66
10700440--10700482	19	2.3	19	81	14	54	55	2	2	39	1.25
10702129--10702188	30	2.0	30	83	3	77	30	6	20	43	1.77
10705373--10705544	43	4.0	43	75	6	141	33	24	18	23	1.96
10705373--10705517	43	3.4	44	77	6	145	32	25	18	23	1.97
10708873--10709127	68	3.8	69	78	7	263	25	23	14	36	1.93
10709053--10709303	122	2.1	122	85	3	335	26	23	17	32	1.97
10710963--10711064	49	2.1	50	88	1	152	48	12	9	29	1.73
10716886--10716944	30	2.0	30	89	0	91	32	10	25	32	1.89
10717334--10717485	46	3.3	46	76	14	143	26	19	29	23	1.98
10718370--10718422	19	2.8	19	94	0	97	15	32	33	18	1.92
10719884--10720139	55	4.8	53	80	8	222	21	24	17	36	1.95
10719931--10720131	108	1.8	110	88	4	309	22	24	17	34	1.96
10724090--10724268	39	4.6	39	98	0	340	22	24	30	22	1.99
10726583--10726704	46	2.6	46	84	10	151	26	31	15	27	1.96
10729157--10729399	55	4.6	54	81	9	243	21	24	17	36	1.95
10731079--10731133	28	2.0	28	92	0	92	23	16	38	21	1.93
10733085--10733152	31	2.2	30	84	2	91	52	1	7	38	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10735500--10735604	39	2.6	39	86	5	122	24	22	27	24	2.00
10735460--10735604	40	3.7	40	81	12	165	24	23	27	24	2.00
10735461--10735623	40	4.1	39	79	10	100	25	23	28	23	2.00
10735460--10735610	79	1.9	80	82	6	191	25	23	27	23	2.00
10745549--10745653	40	2.6	41	80	8	126	23	23	27	24	2.00
10749142--10749171	2	15.0	2	100	0	60	50	0	0	50	1.00
10750129--10750183	27	2.0	27	96	0	101	32	12	18	36	1.88
10750466--10750490	13	1.9	13	100	0	50	76	16	0	8	1.02
10756346--10756377	15	2.1	16	88	11	50	53	21	0	25	1.46
10765280--10765398	1	119.0	1	100	0	238	100	0	0	0	0.00
10767559--10767753	98	2.0	96	91	5	313	46	16	7	28	1.75
10768841--10768899	28	2.1	28	84	6	75	55	0	3	40	1.16
10777359--10777494	55	2.5	55	77	0	146	11	24	33	30	1.91
10781124--10781273	75	2.0	75	98	0	291	37	15	16	31	1.89
10784222--10784344	46	2.7	45	81	7	133	21	30	21	26	1.98
10786045--10786099	27	2.0	27	100	0	110	36	32	7	23	1.82
10791972--10792141	46	3.7	46	77	12	134	22	28	19	28	1.98
10792472--10792508	13	2.8	13	100	0	74	24	37	5	32	1.78
10795984--10796111	50	2.6	50	83	0	148	39	14	14	32	1.86
10800169--10800565	211	1.8	216	88	4	615	56	19	5	18	1.60
10801860--10801906	22	2.1	22	92	0	76	21	21	21	36	1.96
10802969--10803035	30	2.2	30	100	0	134	55	5	5	32	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10804425--10804516	41	2.3	41	80	1	105	32	21	23	21	1.98
10804442--10804534	41	2.3	41	94	0	159	32	24	22	20	1.98
10804524--10804736	41	5.2	41	91	0	320	23	21	29	24	1.99
10804893--10805046	7	21.4	7	69	15	57	20	0	33	45	1.56
10804893--10805040	14	10.4	14	70	14	79	21	0	32	45	1.57
10804927--10805000	22	3.4	21	71	12	60	24	1	27	47	1.60
10808406--10808576	93	1.8	93	96	0	315	28	29	21	21	1.98
10808401--10808573	46	3.7	46	80	13	219	28	28	21	21	1.98
10808996--10809055	30	2.0	30	90	0	93	30	25	8	36	1.85
10815998--10816168	93	1.8	93	96	0	315	28	29	21	21	1.98
10815993--10816165	46	3.7	46	80	13	219	28	28	21	21	1.98
10816588--10816647	30	2.0	30	90	0	93	30	25	8	36	1.85
10818672--10818703	3	10.7	3	100	0	64	34	0	0	65	0.93
10820475--10820521	24	2.0	24	95	0	85	25	4	19	51	1.65
10820749--10820838	43	2.1	43	91	0	144	26	17	31	24	1.97
10822052--10822185	67	2.0	67	100	0	268	35	19	17	26	1.94
10822675--10822734	30	2.0	30	83	6	77	30	26	6	36	1.82
10823547--10823586	21	1.9	21	84	0	53	47	5	5	42	1.47
10824059--10824108	8	5.8	8	82	13	55	32	2	0	66	1.03
10824052--10824108	18	3.2	17	76	11	60	33	1	0	64	1.04
10824032--10824108	37	2.1	36	85	7	102	31	3	1	63	1.20
10824031--10824188	10	16.6	10	70	16	77	32	3	1	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10823991--10824176	19	9.8	19	67	12	87	30	4	2	62	1.28
10824097--10824188	38	2.4	39	83	3	114	32	2	2	63	1.19
10824031--10824188	19	8.3	19	70	17	98	32	3	1	62	1.22
10824283--10824329	22	2.1	22	84	0	58	34	2	12	51	1.52
10826891--10826929	21	1.9	20	89	5	60	46	2	10	41	1.51
10834192--10834265	33	2.2	34	83	9	89	21	39	0	39	1.54
10834681--10834718	19	2.0	19	94	0	67	28	5	28	36	1.79
10837299--10837357	29	2.0	29	100	0	118	16	16	23	42	1.89
10843026--10843194	85	2.0	85	95	0	302	23	39	19	18	1.93
10848514--10848542	13	2.1	14	93	6	51	82	0	0	17	0.66
10849876--10850032	43	3.7	43	75	12	144	24	15	26	33	1.95
10859461--10859683	39	5.7	40	85	8	266	25	22	27	24	2.00
10859461--10859683	79	2.8	81	84	9	282	25	22	27	24	2.00
10859461--10859716	79	3.3	79	81	10	217	26	21	27	24	1.99
10862020--10862087	34	2.0	34	97	0	127	51	17	10	20	1.74
10863501--10863573	34	2.2	32	81	11	85	15	5	5	73	1.19
10863755--10863814	30	2.0	30	96	0	111	21	20	15	43	1.88
10864191--10864220	15	2.0	15	93	0	51	23	26	20	30	1.98
10865446--10865531	30	2.9	30	75	0	91	18	31	29	20	1.97
10870479--10870535	6	9.3	6	75	17	55	49	15	15	19	1.80
10870678--10870742	27	2.4	27	82	5	78	35	24	21	18	1.96
10870866--10870917	27	1.9	27	84	7	70	36	17	23	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10871127--10871188	32	1.9	32	96	0	115	30	30	17	20	1.96
10871339--10872263	27	34.3	27	83	4	1055	23	21	20	34	1.96
10871695--10871797	37	2.8	37	93	0	188	19	22	19	38	1.93
10872303--10872588	27	10.6	26	80	7	198	30	9	20	39	1.84
10872308--10872579	81	3.4	81	82	3	235	30	9	20	39	1.84
10872355--10872588	27	8.7	27	83	3	292	30	8	20	39	1.83
10873800--10873852	24	2.2	24	96	0	97	47	18	16	16	1.83
10881162--10881214	18	3.1	17	78	7	54	28	1	22	47	1.62
10881175--10881214	18	2.3	18	86	4	55	27	2	25	45	1.66
10897254--10897282	8	3.6	8	100	0	58	27	0	37	34	1.57
10899830--10900021	70	2.8	70	83	4	246	26	11	17	43	1.84
10907819--10908780	40	24.0	40	97	1	1664	22	19	27	30	1.98
10915050--10915250	100	2.0	100	99	0	393	29	5	23	40	1.78
10915344--10916305	40	24.0	40	96	1	1689	22	18	27	30	1.98
10927386--10927443	28	2.1	28	100	0	116	32	29	24	13	1.94
10936938--10936985	17	2.9	17	81	3	53	43	12	25	18	1.85
10937415--10937486	18	3.7	20	71	14	60	22	26	5	45	1.74
10939318--10939387	24	2.9	24	83	14	90	34	17	25	22	1.96
10940233--10940257	13	1.9	13	100	0	50	32	0	20	48	1.50
10941393--10941491	42	2.3	43	80	1	128	28	15	22	34	1.94
10941353--10941501	43	3.5	42	73	9	124	25	16	26	32	1.96
10947786--10947810	13	1.9	13	100	0	50	32	0	20	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10952467--10952504	17	2.1	19	90	9	62	0	23	0	76	0.79
10974377--10974477	42	2.4	43	80	5	107	26	18	22	31	1.97
10974509--10974799	71	4.1	71	100	0	582	30	18	20	29	1.97
10977810--10977834	13	1.9	13	100	0	50	40	32	8	20	1.81
10979139--10979254	58	2.0	57	91	1	187	27	25	10	37	1.88
10979952--10980128	89	2.0	89	95	0	318	45	15	16	22	1.85
10993049--10993175	58	2.2	57	82	9	161	36	16	19	27	1.93
10997220--10997340	48	2.5	48	78	0	116	33	26	16	23	1.95
11000747--11000780	17	1.9	17	88	5	50	14	38	32	14	1.87
11004923--11005022	50	2.0	50	100	0	200	46	20	10	24	1.81

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276