genome.fa.s9.2.7.7.80.10.50.1000.161.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  161  of  259  ( 31025 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)
52607882--52608061	98	1.8	97	85	3	254	26	18	30	24	1.98
52612214--52612238	5	5.0	5	100	0	50	60	0	0	40	0.97
52616075--52616108	16	2.1	16	88	0	50	8	32	2	55	1.45
52626293--52626331	18	2.2	18	85	0	51	23	2	12	61	1.43
52628059--52628321	40	6.6	40	88	3	316	26	27	20	24	1.99
52628253--52628330	40	1.9	41	82	10	97	26	28	21	23	1.99
52634992--52635201	40	5.3	40	92	0	314	26	28	20	24	1.99
52634995--52635254	80	3.3	80	86	2	265	26	28	20	24	1.99
52634990--52635254	120	2.2	118	81	4	307	27	27	20	24	1.99
52635186--52635263	40	1.9	41	84	5	104	28	28	20	23	1.99
52637055--52637113	24	2.4	25	76	18	61	11	5	8	74	1.20
52644493--52644559	33	2.0	33	100	0	134	40	2	2	53	1.31
52644608--52644666	28	2.1	28	100	0	118	47	6	6	38	1.57
52644898--52644924	3	9.0	3	100	0	54	33	0	0	66	0.92
52645559--52645601	17	2.5	17	81	7	52	30	6	0	62	1.21
52646942--52646972	5	6.2	5	100	0	62	19	0	0	80	0.71
52649763--52649842	22	3.7	22	80	6	83	17	8	10	63	1.49
52649764--52649843	11	7.4	11	67	2	54	17	7	10	65	1.46
52650490--52650551	26	2.4	26	76	17	67	16	9	3	70	1.26
52652729--52652892	6	27.5	6	69	15	72	61	3	6	28	1.37
52652729--52652890	15	10.7	15	66	16	66	61	3	6	28	1.37
52652729--52652892	9	18.3	9	66	15	72	61	3	6	28	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52652973--52653251	149	1.9	145	80	11	329	58	5	5	30	1.42
52653371--52653426	22	2.6	21	85	5	67	53	1	5	39	1.34
52654231--52654279	24	2.0	24	84	0	62	57	18	2	22	1.51
52656589--52656645	28	2.0	28	100	0	114	28	19	14	38	1.90
52664297--52664563	91	2.9	91	86	3	358	47	11	8	32	1.71
52665637--52665768	67	2.0	67	86	2	187	28	19	14	37	1.91
52672219--52672269	25	2.0	25	88	0	75	37	15	5	41	1.72
52677454--52677478	2	12.5	2	100	0	50	48	0	0	52	1.00
52682090--52682299	31	6.8	31	90	0	296	27	17	26	28	1.98
52682317--52682434	47	2.5	46	84	2	146	27	15	26	30	1.96
52684159--52684213	21	2.6	21	82	0	56	50	20	14	14	1.77
52691418--52691461	24	1.9	22	86	9	61	29	0	0	70	0.88
52691816--52691847	13	2.5	13	100	0	64	40	15	6	37	1.73
52692186--52692257	19	3.6	19	73	15	65	36	5	2	55	1.38
52693372--52693420	16	3.1	16	75	18	50	34	0	0	65	0.93
52693371--52693422	15	3.4	15	75	19	54	36	0	0	63	0.95
52696340--52696405	16	4.4	16	70	24	63	57	1	19	21	1.49
52696335--52696420	43	2.0	43	93	0	145	54	1	19	24	1.51
52704807--52705126	176	1.8	176	85	8	456	27	23	17	31	1.97
52704721--52705126	175	2.3	179	80	10	483	27	23	16	31	1.96
52705000--52705274	147	1.9	147	86	4	394	27	24	17	30	1.97
52705132--52706027	175	5.1	175	79	7	836	27	23	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52705131--52705853	352	2.1	351	83	6	885	26	23	18	31	1.97
52705131--52706023	352	2.5	351	79	8	866	27	23	18	30	1.98
52706235--52706360	64	2.0	63	90	1	198	36	13	18	31	1.89
52707469--52707498	9	3.3	9	100	0	60	10	0	10	80	0.92
52708037--52708094	23	2.5	23	76	15	57	3	17	3	75	1.07
52714278--52714507	47	4.9	47	92	1	336	35	10	28	26	1.88
52714354--52714425	22	3.1	22	64	24	58	33	13	29	23	1.93
52714397--52714472	22	3.3	22	66	28	59	34	11	28	25	1.91
52714489--52714625	46	3.0	46	89	0	202	33	8	30	27	1.87
52716114--52716348	40	5.9	40	92	0	389	22	21	28	26	1.99
52716512--52716564	25	2.1	25	82	6	63	35	13	30	20	1.91
52720316--52720513	25	8.3	25	68	21	147	35	10	26	27	1.89
52720345--52720463	22	5.1	22	65	25	66	33	12	28	25	1.92
52720269--52720488	47	4.7	47	95	0	377	35	10	27	26	1.88
52720362--52720578	119	1.8	119	89	2	346	35	10	27	26	1.89
52720409--52720542	72	1.9	72	96	0	250	35	10	27	26	1.89
52720481--52720578	47	2.1	47	81	7	110	35	9	28	26	1.87
52720552--52720688	46	3.0	46	89	0	211	35	8	30	26	1.85
52721885--52721967	37	2.3	34	81	10	85	63	6	3	26	1.34
52725975--52726111	46	3.0	46	91	0	220	25	31	8	34	1.86
52726129--52726203	22	3.3	22	66	29	57	24	29	12	34	1.91
52726085--52726463	47	8.1	47	94	0	589	25	29	11	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52726244--52726368	23	5.2	25	62	30	76	28	29	11	31	1.91
52729269--52729412	39	3.7	39	92	0	243	27	28	23	20	1.99
52732687--52732753	34	2.0	34	100	0	134	23	26	19	29	1.98
52737277--52737459	39	4.7	39	93	0	321	28	28	22	19	1.98
52746591--52746643	24	2.2	24	82	0	61	35	16	15	32	1.90
52750135--52750216	42	2.0	42	92	2	139	32	17	7	42	1.76
52750175--52750243	31	2.2	32	86	2	95	28	15	8	46	1.76
52751668--52751709	21	2.0	22	85	4	59	33	16	9	40	1.81
52754871--52754911	21	1.9	22	85	5	57	24	7	29	39	1.82
52754871--52754942	21	3.4	21	74	12	51	26	9	30	33	1.89
52754919--52754975	21	2.7	22	76	13	57	31	8	28	31	1.87
52759380--52759423	20	2.2	21	84	8	56	36	0	4	59	1.18
52769866--52769938	37	2.0	37	83	5	94	30	13	16	39	1.87
52772789--52772851	30	2.1	30	93	0	108	58	15	1	23	1.46
52774786--52774834	24	2.0	25	88	8	73	36	0	16	46	1.47
52774798--52774838	14	3.1	14	82	6	50	41	0	17	41	1.49
52776004--52776071	21	3.2	21	77	4	75	36	13	19	30	1.90
52778657--52778713	28	2.0	28	96	0	105	29	10	28	31	1.90
52781019--52781157	69	2.0	69	95	0	251	30	18	17	32	1.95
52794136--52794188	25	2.1	25	89	0	79	26	30	11	32	1.91
52799040--52799097	30	1.9	31	85	3	82	39	0	37	22	1.54
52800322--52800355	17	2.0	17	94	0	59	41	20	5	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52810462--52810526	23	3.0	22	80	13	73	43	3	0	53	1.16
52812063--52812101	20	2.0	20	89	0	60	33	5	10	51	1.58
52816164--52816206	13	3.5	13	75	18	56	37	0	13	48	1.43
52816157--52816208	23	2.3	23	96	3	97	40	0	11	48	1.40
52817161--52817185	6	4.2	6	100	0	50	16	0	0	84	0.63
52819457--52819505	24	2.0	24	96	0	89	24	20	22	32	1.98
52822873--52822927	13	4.5	13	77	13	62	40	0	9	50	1.34
52824911--52824995	30	2.8	30	82	3	82	17	21	36	24	1.94
52827517--52827601	30	2.8	30	83	0	98	18	18	38	23	1.93
52829677--52829701	11	2.3	11	100	0	50	92	8	0	0	0.40
52829936--52829975	20	2.0	21	85	14	57	0	10	5	85	0.75
52830548--52830581	7	4.7	7	92	3	50	29	0	2	67	1.05
52830664--52830713	19	2.6	19	81	9	57	26	6	0	68	1.13
52830741--52830792	26	2.0	27	85	11	72	21	3	5	69	1.26
52830749--52830826	28	2.7	29	78	15	81	17	5	3	73	1.18
52834500--52834539	19	2.0	20	90	4	64	35	0	12	52	1.39
52835865--52835920	28	2.0	29	82	3	69	46	23	16	14	1.83
52842705--52842867	44	3.7	44	79	1	157	33	14	20	31	1.93
52842813--52842918	51	2.1	51	82	3	124	35	16	17	29	1.93
52842861--52842949	44	2.0	44	86	0	124	33	19	19	28	1.96
52842931--52843034	42	2.5	42	88	3	156	37	14	16	31	1.89
52843055--52843161	44	2.4	43	77	13	101	27	22	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52844831--52844889	12	5.0	11	75	18	57	15	5	1	77	1.01
52844811--52844874	14	4.4	14	76	4	56	18	4	3	73	1.14
52846721--52846827	43	2.5	43	79	0	106	29	15	26	28	1.96
52849403--52849520	40	2.9	41	78	6	134	29	20	21	28	1.98
52849402--52849534	40	3.3	39	76	7	124	32	19	19	28	1.96
52849840--52850040	14	14.4	14	68	11	81	21	1	31	44	1.64
52849908--52849944	15	2.6	14	86	4	56	18	0	35	45	1.50
52849997--52850039	21	2.0	21	81	0	50	20	0	23	55	1.43
52850877--52850940	28	2.3	28	100	0	128	26	12	12	48	1.76
52850957--52851106	72	2.1	73	82	3	178	9	34	5	50	1.57

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