genome.fa.s4.2.7.7.80.10.50.1000.110.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  110  of  255  ( 30512 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)
34866782--34866812	16	1.9	16	93	0	53	45	22	19	12	1.84
34867036--34867137	29	3.6	29	77	6	109	27	15	29	27	1.96
34874123--34874174	27	2.0	26	88	3	77	15	23	23	38	1.92
34874213--34874272	27	2.3	27	85	2	77	21	23	20	35	1.96
34878593--34878672	15	5.4	15	72	12	67	57	12	17	12	1.65
34878604--34878681	15	5.2	15	70	11	61	55	14	16	14	1.70
34881681--34881766	46	1.9	45	85	4	120	31	29	18	20	1.97
34883966--34884169	53	3.8	53	74	5	158	37	16	22	23	1.93
34885365--34885419	25	2.3	25	90	6	87	41	14	10	32	1.81
34885417--34885460	22	2.0	22	100	0	88	31	13	22	31	1.93
34895159--34895190	15	2.1	15	100	0	64	40	12	25	21	1.88
34896012--34896068	23	2.7	21	84	10	73	57	17	1	22	1.49
34896013--34896070	9	5.7	10	78	13	57	56	18	1	22	1.50
34898247--34898300	26	2.0	28	85	10	76	5	22	3	68	1.26
34898245--34898324	36	2.2	37	78	14	87	6	20	2	71	1.20
34901337--34901411	20	3.8	20	96	0	141	34	12	20	33	1.89
34901325--34901411	9	8.6	11	73	16	82	34	12	19	33	1.90
34909417--34909469	9	5.4	10	78	17	58	35	11	18	33	1.87
34909423--34909469	20	2.3	20	89	7	69	36	12	19	31	1.89
34909519--34909591	26	2.8	26	93	0	128	27	26	21	24	2.00
34916770--34916815	24	1.9	24	82	8	58	10	23	15	50	1.75
34925175--34925218	19	2.3	19	84	7	54	13	25	38	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34928274--34928493	37	6.0	37	94	1	372	24	21	16	37	1.93
34928457--34928823	52	7.2	52	84	7	452	28	22	14	34	1.93
34928457--34928815	98	3.6	98	89	2	502	28	22	13	34	1.93
34928464--34928829	150	2.5	144	92	5	579	28	22	14	34	1.93
34931955--34932158	49	4.0	50	84	10	241	32	29	13	24	1.93
34932039--34932157	58	2.0	59	95	1	213	32	30	13	23	1.93
34932048--34932138	27	3.2	28	65	17	69	27	30	16	25	1.97
34933410--34933629	37	6.0	37	94	1	363	25	21	15	37	1.93
34933593--34933809	52	4.2	52	82	10	277	27	22	14	35	1.93
34933643--34933815	46	3.7	45	82	11	213	28	21	14	35	1.93
34933592--34933815	98	2.3	98	90	1	351	28	22	14	34	1.93
34940324--34940368	18	2.5	18	85	0	54	46	0	2	51	1.13
34941266--34941378	40	2.8	42	82	8	153	19	28	15	36	1.93
34943431--34943518	45	2.0	45	88	0	131	27	12	22	37	1.90
34946670--34946739	27	2.8	24	83	12	104	32	28	18	20	1.96
34948057--34948081	13	1.9	13	100	0	50	52	16	0	32	1.44
34952927--34953041	58	2.0	58	100	0	230	27	27	22	21	1.99
34954083--34954200	43	2.8	42	78	6	121	32	23	19	24	1.98
34954102--34954195	42	2.2	43	84	1	118	31	22	19	26	1.97
34960304--34960389	34	2.5	34	82	0	118	20	20	24	33	1.97
34963111--34963137	12	2.2	12	100	0	54	51	7	0	40	1.30
34963622--34963799	27	6.6	27	83	3	205	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34963623--34963778	82	1.9	81	88	3	233	26	15	28	29	1.96
34963619--34963799	82	2.2	81	83	2	229	27	15	27	29	1.96
34972392--34972597	40	5.2	40	87	1	281	24	21	27	26	1.99
34991720--34991767	25	1.9	25	86	0	69	31	22	16	29	1.96
34991818--34991855	20	2.0	19	90	10	60	31	10	21	36	1.87
34991897--34991992	25	3.8	25	91	2	147	26	25	22	26	2.00
34991897--34991992	51	1.9	50	89	2	147	26	25	22	26	2.00
34992212--34992295	31	2.7	31	96	1	152	32	17	26	23	1.97
34993651--34994028	27	14.0	27	80	6	300	39	18	8	33	1.81
34993645--34994028	54	7.1	55	76	10	337	38	19	8	33	1.83
34993645--34994025	81	4.7	79	79	7	363	38	19	8	33	1.83
34993980--34994038	27	2.2	27	84	0	73	45	16	8	28	1.77
34995953--34996152	52	3.8	52	72	11	147	19	24	17	38	1.93
34999480--34999583	42	2.4	43	80	3	120	28	17	20	33	1.95
34999440--34999601	43	3.8	43	74	6	123	24	19	24	32	1.97
35008479--35008509	14	2.2	14	100	0	62	35	0	6	58	1.24
35012759--35012797	20	2.0	20	84	0	51	61	5	0	33	1.18
35015689--35015772	27	3.1	27	88	6	125	36	23	22	16	1.94
35015879--35015951	27	2.7	27	81	10	71	31	10	21	35	1.88
35021488--35021759	47	5.8	46	76	8	167	34	17	23	23	1.95
35021490--35021750	95	2.8	92	75	9	231	35	17	23	22	1.95
35021490--35021819	142	2.3	140	78	7	333	35	16	24	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35030810--35030866	30	1.9	30	85	0	78	33	14	26	26	1.94
35031204--35031419	46	4.7	45	78	12	167	27	18	30	23	1.97
35031206--35031428	93	2.4	91	80	11	242	27	18	30	23	1.97
35032435--35032459	13	1.9	13	100	0	50	24	28	48	0	1.52
35040209--35040294	43	2.0	43	88	0	127	29	30	19	20	1.97
35050509--35050775	48	5.6	47	85	4	198	26	26	16	29	1.97
35050556--35050784	48	4.8	48	88	0	296	27	27	17	27	1.98
35056062--35056115	25	2.2	26	86	6	76	33	3	3	59	1.33
35056266--35056297	14	2.4	14	90	10	50	21	9	28	40	1.84
35056267--35056494	50	4.5	51	76	11	206	26	15	25	32	1.95
35056263--35056494	101	2.3	99	82	7	283	26	16	24	32	1.96
35059110--35059139	15	2.0	15	100	0	60	26	13	33	26	1.93
35065832--35065876	18	2.5	18	85	0	63	37	13	8	40	1.76
35065832--35065873	9	4.7	9	87	0	57	35	14	9	40	1.78
35066056--35066187	23	5.8	22	72	16	76	39	18	20	21	1.93
35066055--35066165	46	2.4	45	86	8	154	39	18	20	20	1.92
35066055--35066187	46	2.9	43	81	7	140	39	18	21	21	1.93
35070178--35070241	33	2.0	32	84	3	83	35	25	17	21	1.95
35071951--35072450	47	10.6	47	91	2	777	29	28	8	33	1.86
35071951--35072450	143	3.5	141	91	2	777	29	28	8	33	1.86
35071951--35072450	190	2.6	189	95	1	887	29	28	8	33	1.86
35075060--35075138	27	3.0	25	84	13	106	32	21	24	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35075307--35075363	26	2.2	26	90	6	89	26	19	15	38	1.92
35075358--35075476	27	4.4	27	82	4	132	35	10	15	38	1.82
35075345--35075476	54	2.4	54	82	2	158	33	10	18	37	1.85
35075689--35075724	17	2.1	18	89	5	56	19	41	25	13	1.88
35079692--35079775	33	2.5	33	82	0	96	33	28	16	21	1.95
35079928--35080045	27	4.5	27	71	18	81	37	19	21	22	1.95
35080185--35080271	26	3.1	29	83	9	117	22	14	19	42	1.88
35080267--35080438	27	6.4	27	80	6	179	34	9	16	39	1.82
35080252--35080438	81	2.3	81	86	1	250	33	9	18	39	1.83
35082223--35082273	26	1.9	27	88	4	77	27	13	19	39	1.90
35082224--35082280	26	2.2	26	83	3	69	26	17	19	36	1.94
35084542--35084585	19	2.4	18	85	7	54	40	9	0	50	1.34
35087785--35087845	30	2.0	30	90	0	95	39	6	24	29	1.80
35088660--35088849	51	3.8	50	88	2	267	25	20	26	27	1.99
35088660--35088849	100	1.9	102	89	4	296	25	20	26	27	1.99
35093813--35093839	13	2.1	13	100	0	54	51	0	7	40	1.30
35094925--35095182	39	6.6	39	91	0	408	30	18	26	24	1.98
35102876--35103121	39	6.3	39	91	0	393	30	19	25	23	1.98
35102909--35103151	117	2.1	117	87	0	342	30	20	26	23	1.98
35105670--35105726	30	1.9	30	88	0	87	42	7	24	26	1.80
35106395--35106544	67	2.3	64	80	8	160	29	16	28	26	1.96
35106543--35106782	51	4.8	50	89	3	313	26	19	25	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35108675--35108724	26	1.9	26	83	0	64	28	14	18	40	1.89
35108675--35108731	26	2.2	26	80	3	60	28	17	17	36	1.93
35110950--35110993	19	2.4	18	85	7	54	40	9	0	50	1.34
35113633--35114015	48	8.0	48	86	2	441	29	27	15	26	1.96
35120279--35120318	21	1.9	21	84	0	53	37	5	22	35	1.76
35124160--35124219	27	2.3	26	85	2	75	35	20	23	21	1.96
35132407--35132591	79	2.3	81	84	7	236	24	22	27	25	2.00
35132408--35132591	40	4.6	40	83	9	216	24	22	27	25	2.00
35132460--35132614	79	2.0	79	84	7	208	25	21	27	25	1.99
35145726--35145770	20	2.2	20	88	0	63	48	2	13	35	1.54

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