genome.fa.s12.2.7.7.80.10.50.1000.107.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  107  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)
33911052--33911102	21	2.4	21	86	0	66	33	39	19	7	1.81
33914313--33914563	126	2.0	126	88	1	369	27	17	15	39	1.90
33914612--33914699	28	3.0	29	75	5	79	43	17	0	39	1.49
33914659--33914726	34	2.0	34	88	2	102	44	14	0	41	1.45
33914735--33914787	22	2.4	22	83	0	70	37	16	1	43	1.60
33914844--33914896	22	2.4	22	80	0	70	39	16	1	41	1.60
33914953--33915005	22	2.4	22	80	0	70	39	16	1	41	1.60
33915063--33915330	22	12.4	22	70	12	106	44	17	0	38	1.49
33915093--33915161	34	2.0	34	83	5	86	44	15	0	39	1.47
33914650--33915590	109	8.7	108	93	1	1396	42	18	1	37	1.61
33915201--33915269	34	2.0	34	83	5	86	44	15	0	39	1.47
33915311--33915375	34	1.9	34	90	3	105	41	16	1	40	1.58
33915385--33915455	22	3.1	23	86	10	92	40	18	1	39	1.59
33915417--33915483	34	2.0	33	85	2	89	41	17	1	38	1.59
33915492--33915544	22	2.4	22	83	0	70	37	15	0	47	1.45
33915557--33915619	24	2.8	22	81	9	81	44	15	1	38	1.57
33915698--33915777	35	2.3	36	80	6	92	43	26	2	27	1.67
33921839--33921893	21	2.7	21	78	13	69	38	3	5	52	1.42
33932278--33932369	40	2.3	40	83	9	116	31	15	25	28	1.95
33932705--33932736	15	2.1	15	94	0	55	34	18	9	37	1.83
33933986--33934074	40	2.2	40	85	0	115	32	13	22	31	1.93
33936806--33936912	35	3.4	35	62	26	92	38	3	4	53	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33936809--33936926	59	2.0	59	100	0	236	40	3	6	49	1.46
33938987--33940126	46	25.0	46	95	1	1974	37	15	24	22	1.93
33940387--33940433	25	2.0	25	83	8	62	53	4	14	27	1.60
33944902--33944931	11	2.6	12	89	10	53	46	0	53	0	1.00
33950081--33950470	150	2.6	150	95	0	683	40	6	33	18	1.78
33950430--33950491	30	2.1	30	81	0	70	48	1	38	11	1.49
33950484--33950600	36	3.2	36	88	0	171	31	9	30	28	1.88
33958246--33958287	18	2.4	17	84	7	57	45	2	14	38	1.58
33958358--33958386	6	4.8	6	100	0	58	68	17	13	0	1.20
33960449--33960597	43	3.4	43	81	5	158	31	26	16	25	1.97
33960483--33960597	44	2.7	43	84	8	144	33	26	17	23	1.96
33964092--33964149	30	1.9	30	85	0	80	43	3	22	31	1.70
33964361--33964392	13	2.5	13	94	0	55	31	0	12	56	1.37
33964487--33964728	50	4.7	50	86	4	297	26	24	29	19	1.99
33964487--33964736	100	2.4	103	88	6	364	26	24	29	20	1.99
33982281--33982322	22	1.9	22	95	0	75	30	11	30	26	1.92
33987463--33987515	18	2.9	18	82	0	61	37	13	11	37	1.80
33987653--33987761	48	2.3	48	91	3	175	37	28	16	17	1.91
33988037--33988067	3	10.3	3	100	0	62	67	0	0	32	0.91
33988264--33988302	16	2.5	15	84	8	51	0	30	7	61	1.24
33992291--33992354	13	4.8	14	78	5	53	45	1	18	34	1.59
33992278--33992350	27	2.7	27	76	6	67	41	1	20	36	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33992268--33992356	40	2.2	40	88	6	135	43	1	20	34	1.59
33998442--33998471	3	10.0	3	100	0	60	33	0	0	66	0.92
33999894--33999971	24	3.2	24	66	20	61	26	3	29	39	1.74
33999877--33999976	50	2.0	50	98	0	191	26	5	30	39	1.77
34001018--34001198	40	4.6	40	89	2	267	24	23	25	25	2.00
34009163--34009421	40	6.6	40	89	3	391	23	23	26	26	2.00
34009163--34009421	79	3.3	79	93	2	414	23	23	26	26	2.00
34009163--34009419	119	2.2	118	91	2	408	23	23	26	26	2.00
34011797--34011842	19	2.5	18	78	3	56	56	2	0	41	1.11
34012705--34012730	13	2.0	13	100	0	52	30	23	23	23	1.99
34014994--34015025	9	3.6	9	100	0	64	12	0	9	78	0.97
34015076--34015127	23	2.3	23	90	6	79	34	13	9	42	1.77
34019457--34019488	9	3.6	9	100	0	64	12	0	9	78	0.97
34019539--34019590	23	2.3	23	90	6	79	34	13	9	42	1.77
34021993--34022057	29	2.2	29	83	5	78	56	0	3	40	1.15
34022217--34022266	17	2.9	18	74	11	52	34	0	0	66	0.92
34022223--34022306	24	3.8	23	75	15	70	32	1	1	65	1.08
34022248--34022306	20	2.8	22	75	19	79	27	1	1	69	1.07
34022812--34022975	54	3.0	54	100	0	328	43	10	5	39	1.63
34024881--34025065	49	3.7	49	78	2	208	28	25	17	28	1.98
34024886--34025065	100	1.8	100	92	0	306	28	25	18	27	1.98
34030082--34030160	40	1.9	41	84	5	106	22	41	20	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34038134--34038983	28	30.4	28	99	0	1684	28	10	25	35	1.89
34051488--34051560	38	1.9	38	83	5	94	28	28	23	19	1.98
34051728--34051795	17	3.9	18	83	9	70	35	22	1	41	1.63
34051718--34051799	34	2.4	33	78	13	96	34	20	1	43	1.60
34051747--34051795	11	4.4	11	78	14	55	38	22	0	38	1.54
34052890--34052927	17	2.2	18	81	13	53	0	15	5	78	0.91
34052896--34052932	17	2.2	17	90	0	56	2	16	2	78	0.98
34052955--34053002	3	16.0	3	87	8	71	62	2	0	35	1.07
34053127--34053168	15	2.9	15	82	10	52	47	0	0	52	1.00
34056227--34056295	16	4.2	16	96	3	129	24	0	37	37	1.56
34056227--34056295	33	2.1	32	97	2	129	24	0	37	37	1.56
34056511--34056565	15	3.4	16	80	16	53	50	1	0	47	1.11
34056531--34056565	18	2.0	17	88	5	52	54	0	0	45	0.99
34056418--34056734	157	2.0	157	96	0	589	44	3	5	47	1.41
34056668--34056709	15	2.7	16	82	14	52	52	2	0	45	1.13
34056677--34056718	15	2.9	15	82	10	52	52	0	0	47	1.00
34056808--34056842	18	2.0	17	88	5	52	54	0	0	45	0.99
34059856--34059894	21	1.9	20	89	5	60	46	20	0	33	1.51
34067335--34067373	21	1.9	20	84	5	51	43	20	0	35	1.52
34079935--34080022	42	2.1	42	83	8	108	18	29	30	21	1.97
34081805--34081875	4	17.8	4	72	16	51	2	18	2	76	1.04
34081802--34081875	26	3.0	24	76	18	80	2	18	2	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34082044--34082078	3	11.7	3	100	0	70	65	0	0	34	0.93
34088391--34088424	17	2.0	17	88	0	50	32	14	2	50	1.58
34088418--34088491	37	2.0	37	82	10	89	24	10	4	60	1.47
34090838--34091296	47	9.6	47	89	3	675	33	8	29	28	1.87
34090838--34091296	96	4.8	95	91	2	656	33	8	29	28	1.87
34090838--34091296	143	3.2	143	93	2	760	33	8	29	28	1.87
34091674--34091875	101	2.0	101	98	0	386	31	12	20	35	1.90
34092811--34093722	40	22.8	40	97	0	1691	22	20	29	27	1.98
34095512--34095697	93	2.0	92	96	1	345	35	17	16	30	1.92
34097135--34097545	47	8.7	47	97	0	750	32	8	30	29	1.86
34097664--34097742	37	2.1	37	90	0	122	24	18	31	25	1.98
34105934--34105963	6	5.0	6	95	0	51	33	3	50	13	1.58
34110392--34110436	22	2.0	22	95	4	81	35	8	11	44	1.71
34113081--34113126	17	2.8	18	84	15	64	28	41	30	0	1.56
34116377--34116552	47	3.8	47	80	5	178	20	19	27	32	1.97
34121962--34122005	22	2.0	22	95	0	79	29	13	29	27	1.94
34125660--34125749	44	2.0	46	86	4	130	37	24	5	32	1.79
34125731--34125785	16	3.4	16	85	5	76	29	25	7	38	1.83
34131740--34131779	16	2.4	17	83	8	55	2	22	0	75	0.93
34147392--34147431	18	2.2	18	86	8	55	20	10	0	70	1.16
34149102--34149161	20	2.9	21	71	16	61	61	0	0	38	0.96
34154641--34154667	2	13.5	2	100	0	54	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34155558--34155582	7	3.6	7	100	0	50	76	0	12	12	1.04
34155558--34155589	14	2.3	15	89	10	50	75	0	12	12	1.06
34163085--34163122	20	1.9	20	100	0	76	28	34	10	26	1.90
34163636--34163694	27	2.2	27	93	0	100	28	25	22	23	1.99
34166263--34166306	23	1.9	23	90	0	70	36	18	27	18	1.94
34171677--34171720	19	2.3	19	84	7	63	29	2	18	50	1.59
34171737--34171825	42	2.1	42	91	0	142	29	6	13	50	1.67
34174142--34174229	41	2.2	41	85	6	117	47	9	28	14	1.75
34175672--34175719	19	2.6	19	86	3	71	35	2	14	47	1.56
34177261--34177322	30	2.0	30	90	9	99	46	6	3	43	1.45

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