genome.fa.s1.2.7.7.80.10.50.1000.109.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   

This is table  109  of  316  ( 37835 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)
34326588--34326633	21	2.1	22	84	11	60	65	4	0	30	1.12
34329727--34329773	24	2.0	24	82	0	58	68	4	2	25	1.19
34349008--34349174	46	3.6	45	81	10	169	22	26	20	29	1.99
34357336--34357589	46	5.4	47	78	7	207	23	29	18	28	1.98
34357324--34357589	47	5.7	47	77	9	208	23	28	19	28	1.98
34357323--34357548	93	2.4	94	78	8	228	23	29	19	28	1.98
34359528--34359702	95	1.9	94	86	6	255	22	29	19	28	1.98
34361555--34361609	27	2.0	28	96	3	103	29	5	14	50	1.65
34362142--34362242	40	2.5	40	79	4	114	41	18	5	33	1.75
34362158--34362403	20	12.4	18	67	20	93	40	17	6	35	1.74
34362296--34362403	40	2.7	40	81	7	114	40	17	6	35	1.75
34362553--34362705	20	7.7	20	73	15	79	38	16	4	40	1.69
34362553--34362675	39	3.1	41	80	13	134	38	16	4	40	1.70
34362679--34362747	20	3.5	20	78	9	70	37	18	7	36	1.79
34362833--34362903	29	2.4	29	95	0	124	40	11	8	39	1.71
34363350--34363438	20	4.5	20	78	1	81	41	12	2	43	1.54
34365523--34365560	15	2.4	16	86	8	51	31	0	0	68	0.90
34365800--34365910	26	4.2	25	76	16	84	45	0	3	50	1.25
34365800--34365853	25	2.2	24	90	6	81	42	0	1	55	1.10
34365804--34365848	12	3.6	12	80	11	54	46	0	2	51	1.13
34370750--34370816	31	2.2	31	83	0	80	56	17	5	19	1.61
34371064--34371139	21	3.6	21	84	7	109	1	51	18	28	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34371553--34371581	14	2.1	14	93	6	51	58	6	0	34	1.25
34374000--34374104	39	2.7	39	95	0	183	30	20	24	23	1.99
34374347--34374376	2	15.0	2	92	0	51	3	0	46	50	1.18
34380186--34380421	9	26.7	9	79	5	212	36	2	14	47	1.56
34380186--34380401	44	4.4	51	75	16	217	37	2	13	47	1.56
34380222--34380419	44	4.3	44	85	11	288	36	2	13	47	1.57
34380186--34380421	53	4.5	53	83	5	255	36	2	14	47	1.56
34380531--34380615	14	5.9	15	75	8	95	54	0	1	44	1.07
34380543--34380615	29	2.6	29	93	2	121	52	0	1	46	1.09
34380788--34380834	24	2.0	24	91	0	76	44	8	19	27	1.79
34380882--34381079	64	3.1	64	94	0	342	45	2	12	39	1.55
34381835--34381931	40	2.4	40	94	0	176	59	14	12	13	1.61
34382241--34382283	21	2.0	21	82	8	52	58	9	0	32	1.30
34385289--34385322	13	2.5	13	85	4	50	44	23	0	32	1.54
34385436--34385478	19	2.3	19	100	0	86	48	23	0	27	1.51
34386199--34386333	40	3.3	41	86	8	179	26	22	20	31	1.98
34391917--34392025	51	2.1	51	86	3	157	29	33	18	19	1.95
34395982--34396014	2	17.0	2	87	6	50	45	0	3	51	1.16
34399620--34399664	7	6.4	7	100	0	90	28	28	42	0	1.56
34404227--34404323	49	2.0	49	91	0	158	42	10	19	27	1.84
34409350--34409374	12	2.1	12	100	0	50	16	16	20	48	1.82
34409352--34409461	45	2.4	45	84	3	150	18	15	20	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34409442--34409472	6	5.2	6	100	0	62	16	16	16	51	1.77
34409648--34409850	18	11.3	18	78	6	162	36	12	13	37	1.83
34409902--34409936	18	1.9	18	94	0	61	34	8	20	37	1.83
34409904--34409949	18	2.6	18	86	3	58	34	8	17	39	1.80
34411334--34411465	57	2.3	57	81	5	160	27	12	6	53	1.64
34411368--34411495	57	2.2	57	81	2	141	34	12	5	47	1.64
34414186--34414273	43	2.0	43	97	0	167	19	18	18	44	1.87
34416879--34416936	27	2.1	27	84	12	75	22	12	13	51	1.74
34417812--34417906	47	2.0	47	91	0	154	50	13	6	29	1.66
34419105--34419168	21	3.3	19	79	10	67	65	4	1	28	1.21
34419124--34419166	21	2.1	20	91	4	68	72	4	0	23	1.04
34424419--34424564	27	5.6	25	78	13	127	29	28	15	27	1.96
34424419--34424564	51	2.8	54	81	10	167	29	28	15	27	1.96
34424419--34424563	78	1.9	77	87	7	213	29	28	15	26	1.96
34432468--34432618	27	5.6	27	80	4	160	29	27	15	27	1.96
34436563--34436600	18	2.1	19	90	5	60	7	23	0	68	1.16
34437253--34437287	18	1.9	18	88	11	54	68	5	8	17	1.35
34449705--34449851	22	6.6	22	68	13	70	5	5	29	59	1.42
34449772--34449844	33	2.2	33	85	0	92	4	4	31	60	1.34
34449815--34449873	11	5.4	11	83	0	64	10	8	22	59	1.56
34449788--34449859	33	2.2	33	84	0	90	6	6	29	56	1.52
34449804--34449873	22	3.2	22	83	0	77	8	7	22	61	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34450902--34450934	12	3.0	11	91	8	50	27	0	6	66	1.15
34458677--34458994	124	2.6	124	81	2	361	25	17	25	31	1.97
34459632--34459673	22	1.9	22	100	0	84	50	9	14	26	1.73
34459693--34459737	16	2.8	16	82	3	54	42	0	0	57	0.98
34459875--34459921	3	15.7	3	100	0	94	65	0	0	34	0.93
34473744--34473801	3	19.3	3	100	0	116	67	0	0	32	0.91
34476050--34476085	17	2.1	18	89	5	56	69	0	11	19	1.18
34482643--34482710	25	2.7	25	84	13	95	20	25	23	30	1.98
34483914--34484073	44	3.7	42	87	5	223	29	15	25	30	1.95
34483914--34484073	85	1.9	86	85	6	227	29	15	25	30	1.95
34491731--34491818	43	2.0	43	88	0	131	17	20	34	28	1.95
34494365--34494445	40	2.0	40	82	0	99	29	2	11	56	1.47
34494487--34494587	34	3.0	33	84	8	123	18	10	9	60	1.57
34498141--34498183	23	1.9	23	86	13	63	44	6	11	37	1.68
34499167--34499200	6	5.7	6	89	0	50	41	17	5	35	1.74
34503425--34503565	52	2.7	52	84	6	187	40	19	25	14	1.90
34504685--34505384	178	3.9	178	92	0	1121	30	19	24	26	1.98
34504969--34505052	43	1.9	45	83	13	113	34	10	28	26	1.90
34516094--34516485	199	2.0	193	84	4	507	33	17	14	34	1.90
34516801--34517220	211	2.0	211	95	0	759	25	20	13	40	1.89
34517428--34517517	27	3.3	27	84	0	126	17	23	14	44	1.86
34517632--34517703	27	2.7	27	91	0	99	30	29	12	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34520073--34520760	134	5.2	133	81	5	710	32	16	12	38	1.87
34520743--34520774	16	2.0	16	100	0	64	31	12	18	37	1.88
34522272--34522309	13	2.9	13	100	0	76	23	15	21	39	1.92
34523350--34523460	42	2.6	42	81	2	134	29	15	24	30	1.95
34524888--34524925	18	2.1	19	85	14	53	34	7	15	42	1.76
34538943--34539312	130	2.9	129	82	5	417	30	16	18	35	1.92
34550986--34551277	44	6.6	44	90	1	433	30	15	29	24	1.95
34554097--34554463	130	2.8	131	81	5	397	30	16	17	35	1.92
34554244--34554499	130	2.0	132	81	6	306	30	17	16	35	1.92
34562100--34562125	8	3.2	8	100	0	52	53	23	0	23	1.46
34562866--34562949	9	8.7	9	73	12	69	58	2	3	35	1.28
34573150--34573186	19	1.9	19	94	0	65	13	24	10	51	1.73
34572964--34573384	216	1.9	216	94	0	743	31	22	16	29	1.96
34579046--34579080	16	2.2	16	89	0	52	68	2	0	28	1.04
34585495--34585554	27	2.3	26	80	5	66	13	23	21	41	1.88
34585670--34585733	33	1.9	33	87	0	92	28	23	23	25	2.00
34589429--34589489	18	3.2	18	69	22	52	59	14	1	24	1.45
34600641--34600715	40	1.9	40	91	2	125	25	8	2	64	1.34
34606181--34606220	20	1.9	22	85	10	57	60	0	2	37	1.11
34606595--34606702	55	2.0	54	92	7	186	38	0	4	56	1.20
34607585--34607614	10	3.0	10	95	0	51	16	0	43	40	1.48
34610749--34610774	13	2.0	13	100	0	52	15	15	15	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34612602--34612638	18	2.0	19	85	15	51	32	16	2	48	1.60
34616006--34616166	84	1.9	84	97	0	304	40	6	32	19	1.78
34619829--34619890	31	2.0	31	100	0	124	58	6	3	32	1.40
34623767--34623878	35	3.2	35	87	6	174	61	2	27	8	1.38
34623769--34623875	33	3.2	33	90	2	151	61	2	27	8	1.39
34627947--34628116	46	3.7	46	95	0	295	30	28	20	20	1.98
34633505--34633674	46	3.7	46	96	0	304	30	28	20	20	1.98
34635724--34635822	50	1.9	53	89	6	159	29	32	22	16	1.95
34638392--34638418	14	1.9	14	100	0	54	81	0	0	18	0.69
34638495--34638548	28	1.9	28	92	0	90	51	3	20	24	1.63

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   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316