genome.fa.s4.2.7.7.80.10.50.1000.39.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  39  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)
10305776--10305834	10	5.6	10	73	11	55	20	5	1	72	1.12
10305776--10305834	21	2.7	23	79	12	70	20	5	1	72	1.12
10307371--10307417	19	2.5	17	81	18	58	38	14	4	42	1.66
10311343--10311491	60	2.5	59	81	9	160	26	26	19	28	1.99
10312142--10312171	8	3.8	8	90	0	51	3	23	20	53	1.60
10314060--10314092	15	2.2	15	94	0	57	57	0	0	42	0.98
10314175--10314218	19	2.4	18	85	7	54	40	9	0	50	1.34
10323055--10323338	40	7.1	40	87	4	405	26	26	22	25	2.00
10353202--10353540	44	7.6	44	73	6	236	29	19	25	25	1.98
10353235--10353532	44	6.7	45	75	9	252	29	20	24	26	1.99
10353236--10353532	89	3.3	85	74	10	265	29	20	24	25	1.99
10353187--10353531	133	2.6	133	90	0	519	30	19	23	26	1.98
10353517--10353546	14	2.1	14	93	0	51	26	13	40	20	1.89
10365404--10365615	40	5.3	39	80	5	237	26	28	20	23	1.99
10365404--10365615	80	2.7	80	89	0	318	26	28	20	23	1.99
10373465--10373676	40	5.3	39	81	5	246	26	28	21	23	1.99
10373465--10373676	80	2.7	80	90	0	327	26	28	21	23	1.99
10377728--10377780	3	17.7	3	100	0	106	0	33	0	66	0.92
10377835--10377876	21	2.0	21	95	0	75	23	28	21	26	1.99
10377906--10377978	31	2.4	31	81	6	87	20	9	21	47	1.78
10383430--10383471	21	2.0	21	85	0	57	50	14	11	23	1.76
10397270--10397315	20	2.3	20	82	10	51	78	4	10	6	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10397903--10397963	27	2.3	26	80	2	68	65	1	1	31	1.12
10400937--10401045	26	4.2	26	91	2	175	35	22	7	33	1.82
10406312--10406364	26	2.0	26	82	7	63	24	15	20	39	1.91
10407850--10407958	26	4.2	26	93	0	191	35	23	7	33	1.83
10409147--10409228	28	2.9	28	87	0	101	40	13	17	29	1.87
10416227--10416300	27	2.7	27	79	8	71	62	1	2	33	1.18
10417548--10417601	28	1.9	28	92	0	90	44	9	14	31	1.77
10421639--10421665	12	2.2	12	100	0	54	22	0	7	70	1.12
10421651--10421739	9	10.0	9	68	12	51	39	0	3	57	1.15
10421711--10421747	10	3.5	11	82	17	51	40	0	0	59	0.97
10421668--10421756	20	4.3	20	79	12	92	38	1	3	57	1.23
10425235--10425277	5	8.6	5	100	0	86	18	0	18	62	1.32
10425832--10425903	15	5.0	14	74	12	65	29	8	0	62	1.24
10425790--10425903	29	4.0	28	68	14	79	27	7	2	62	1.36
10425860--10425920	29	2.1	29	84	9	79	31	9	0	59	1.30
10434224--10434271	24	2.0	24	83	0	60	56	2	0	41	1.11
10436710--10436755	23	2.0	23	100	0	92	39	17	13	30	1.87
10439398--10439450	23	2.3	23	86	0	70	50	32	5	11	1.61
10440776--10440833	28	2.1	28	86	0	80	18	12	8	60	1.57
10440927--10440981	3	19.0	3	79	7	60	27	1	5	65	1.25
10443492--10443584	47	2.0	47	80	0	105	41	9	4	44	1.57
10443515--10443587	38	2.0	38	81	10	89	42	6	4	46	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10445862--10445979	3	38.7	3	73	9	87	56	2	8	32	1.43
10448812--10448837	12	2.2	12	100	0	52	65	0	7	26	1.20
10451784--10451839	24	2.3	24	73	11	60	44	1	0	53	1.11
10457572--10457671	5	20.2	5	95	2	184	41	0	20	39	1.52
10459067--10459106	18	2.2	19	86	4	55	70	0	27	2	1.01
10465492--10465544	15	3.8	13	75	18	52	30	3	0	66	1.10
10465487--10465557	30	2.4	29	76	6	88	29	2	0	67	1.05
10465491--10465551	14	4.3	14	76	10	52	29	3	0	67	1.07
10465489--10465814	150	2.2	147	93	1	544	27	5	7	59	1.46
10465676--10465930	118	2.2	116	90	3	397	27	5	8	58	1.50
10465793--10466639	146	5.9	144	90	4	1318	27	5	7	58	1.48
10465525--10466072	267	2.1	261	89	5	820	27	5	8	59	1.49
10466039--10466073	13	2.7	13	81	0	52	22	0	5	71	1.07
10466327--10466361	13	2.7	13	81	0	52	22	0	5	71	1.07
10465793--10466639	288	2.9	288	94	2	1440	27	5	7	58	1.48
10466638--10466668	14	2.1	15	94	5	55	45	3	0	51	1.17
10465808--10466669	142	6.0	144	82	13	826	28	5	7	58	1.48
10467126--10467162	6	6.2	6	93	0	65	0	18	0	81	0.70
10467123--10467160	18	2.1	18	100	0	76	0	21	0	78	0.74
10467192--10467231	3	13.7	3	94	5	73	0	35	0	65	0.93
10467329--10467373	22	2.0	22	86	0	63	13	24	42	20	1.87
10468928--10468973	21	2.2	20	85	11	65	60	2	2	34	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10476513--10476538	7	3.7	7	100	0	52	15	0	0	84	0.62
10479217--10479265	25	1.9	26	83	4	64	32	0	4	63	1.13
10480410--10480457	24	2.0	24	83	0	60	27	33	0	39	1.57
10481326--10481366	20	2.0	20	95	0	73	39	19	2	39	1.65
10484135--10484181	25	1.9	24	82	4	58	31	2	0	65	1.04
10484531--10484583	20	2.7	20	79	2	63	66	0	0	33	0.92
10485039--10485072	12	2.8	12	86	13	52	58	0	0	41	0.98
10486632--10486664	17	1.9	17	100	0	66	57	0	0	42	0.98
10488160--10488245	30	2.9	30	69	10	77	47	5	2	44	1.39
10488791--10488849	22	2.6	22	82	12	59	59	3	1	35	1.24
10490399--10490505	29	3.7	29	83	0	142	46	26	7	19	1.76
10491284--10491387	54	1.9	54	92	0	172	30	26	9	32	1.89
10499313--10499346	15	2.3	15	89	0	50	23	8	8	58	1.56
10501605--10501662	29	1.9	31	86	6	84	20	29	27	22	1.99
10506740--10506780	21	2.0	21	86	9	59	78	2	14	4	1.03
10519705--10519744	15	2.6	16	81	18	50	30	0	2	67	1.04
10529127--10529265	43	3.3	43	67	11	133	18	31	23	26	1.97
10529104--10529286	84	2.2	84	94	0	330	19	32	20	27	1.97
10529954--10530002	24	2.0	24	92	0	80	14	10	34	40	1.79
10532773--10532818	21	2.2	21	88	0	65	21	34	26	17	1.95
10532783--10532852	21	3.3	21	85	0	86	20	31	22	25	1.98
10535035--10535191	81	1.9	81	85	2	217	33	20	22	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10535036--10535195	41	3.9	41	86	4	198	33	20	23	23	1.97
10535446--10535496	15	3.5	15	75	2	50	23	1	27	47	1.63
10536073--10536131	7	8.3	7	78	14	59	81	3	0	15	0.82
10536073--10536114	13	3.2	13	80	9	50	78	4	0	16	0.91
10536097--10536152	8	7.1	8	89	4	60	75	3	0	21	0.96
10536076--10536149	16	5.1	14	78	12	69	74	5	0	20	1.01
10536223--10536260	18	2.2	16	90	9	58	73	0	2	23	0.95
10540726--10540805	39	2.1	38	81	6	90	31	5	3	60	1.36
10545099--10545163	32	2.0	32	100	0	130	30	6	24	38	1.80
10549916--10549940	6	4.2	6	100	0	50	0	64	0	36	0.94
10552803--10552839	19	1.9	19	100	0	74	48	5	10	35	1.61
10557337--10557481	60	2.4	60	90	0	218	36	13	24	25	1.92
10557683--10557934	76	3.3	75	81	6	285	31	11	17	38	1.87
10561087--10561136	16	3.6	16	65	34	51	28	22	8	42	1.81
10561082--10561134	25	2.1	25	100	0	106	28	20	7	43	1.79
10563926--10564054	66	1.9	67	83	7	165	43	12	13	31	1.81
10564217--10564248	16	2.0	16	93	0	55	31	0	3	65	1.08
10567134--10567160	3	9.0	3	100	0	54	33	0	0	66	0.92
10576810--10576849	20	2.0	20	85	5	53	42	5	5	47	1.47
10584821--10584858	14	2.8	14	81	18	53	57	0	0	42	0.98
10584827--10584861	15	2.4	14	85	4	52	60	0	0	40	0.97
10595750--10596166	142	3.0	142	87	2	610	40	9	5	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10596237--10596268	16	2.0	16	93	0	55	53	6	0	40	1.26
10598522--10598587	28	2.4	28	84	0	87	24	16	33	25	1.96
10598903--10599374	27	17.6	27	83	5	523	38	20	10	30	1.86
10599328--10599419	27	3.4	27	78	3	78	36	21	16	25	1.94
10608095--10608196	28	3.6	28	77	0	105	24	31	16	27	1.96
10621009--10621079	34	2.1	34	84	5	90	23	25	25	25	2.00
10628540--10628749	40	5.3	40	91	0	296	25	28	21	24	1.99
10628543--10628802	80	3.3	80	85	2	247	24	28	21	25	1.99
10628538--10628802	120	2.2	118	79	4	289	25	28	21	24	1.99
10646490--10646628	49	2.8	49	83	3	181	26	30	17	24	1.97

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