genome.fa.s9.2.7.7.80.10.50.1000.166.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  166  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)
53985057--53985106	22	2.3	22	79	6	57	70	8	12	10	1.35
53992031--53992070	14	2.7	15	84	7	55	82	0	0	17	0.67
53992031--53992073	19	2.3	19	88	11	63	81	0	0	18	0.69
53992031--53992070	10	4.1	9	90	9	53	82	0	0	17	0.67
53992611--53992870	143	1.8	143	80	6	321	31	11	11	45	1.76
53993442--53993494	28	2.0	27	85	14	74	33	0	0	66	0.92
53994316--53994385	27	2.6	27	86	0	95	22	28	28	20	1.98
53997767--53998035	146	1.8	147	83	3	362	36	20	21	21	1.96
54002172--54002213	17	2.5	17	80	0	57	57	2	4	35	1.33
54012816--54012840	13	1.9	13	100	0	50	52	0	0	48	1.00
54013211--54013282	14	4.9	14	74	15	65	54	1	4	40	1.28
54027983--54028482	64	7.8	64	76	8	424	48	10	16	25	1.77
54028044--54028485	136	3.4	131	76	11	344	48	10	15	25	1.77
54030085--54030357	91	3.0	91	83	1	305	33	26	15	24	1.95
54033235--54033282	24	2.0	25	87	4	71	41	8	10	39	1.69
54034739--54034798	18	3.3	18	77	9	68	40	13	16	30	1.87
54042986--54043077	25	3.8	25	74	18	95	32	22	3	41	1.70
54042970--54043077	50	2.2	50	96	0	198	34	22	2	40	1.68
54056611--54057196	293	2.0	293	98	0	1127	32	13	20	33	1.92
54058244--54058285	18	2.5	17	81	11	50	73	4	0	21	1.01
54058665--54058719	21	2.7	20	76	20	60	65	3	1	29	1.20
54058658--54058730	33	2.2	32	88	9	103	65	4	1	28	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54058664--54058719	12	5.0	11	76	10	51	64	3	1	30	1.21
54058743--54058809	30	2.3	28	80	10	71	62	1	4	31	1.24
54058762--54058812	27	2.0	27	88	7	79	64	1	0	33	1.05
54058772--54058815	9	4.9	9	80	0	52	63	2	0	34	1.07
54058755--54058820	29	2.2	30	84	7	82	63	1	1	33	1.13
54063153--54063260	26	4.2	26	91	0	180	35	24	8	32	1.85
54064422--54064459	19	2.0	19	94	0	67	47	13	10	28	1.76
54069106--54069164	8	7.4	8	82	0	64	49	10	1	38	1.47
54069108--54069166	6	10.2	6	78	7	59	49	11	1	37	1.50
54071038--54071067	2	15.0	2	100	0	60	0	50	0	50	1.00
54073346--54073381	10	3.6	10	88	0	54	69	0	0	30	0.89
54077543--54077567	12	2.1	12	100	0	50	16	44	24	16	1.86
54078492--54079098	87	7.0	88	70	15	402	27	21	18	32	1.97
54078503--54079098	262	2.3	262	94	0	1014	26	21	18	33	1.97
54081676--54081705	4	7.2	4	92	7	51	70	3	0	26	1.03
54082966--54083010	18	2.5	19	78	10	58	37	6	0	55	1.26
54083026--54083064	13	3.1	13	88	3	62	30	0	0	69	0.89
54083028--54083093	13	5.5	12	75	13	57	33	1	0	65	1.02
54083026--54083107	43	1.9	43	82	9	105	32	2	0	64	1.07
54083389--54083459	35	2.0	35	97	0	133	14	23	33	28	1.94
54084877--54084918	22	1.9	22	85	0	57	33	2	2	61	1.21
54094986--54095024	12	2.9	14	81	14	55	56	0	7	35	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54095066--54095129	18	3.5	20	76	19	59	62	1	1	34	1.14
54099926--54099955	13	2.3	13	100	0	60	53	23	6	16	1.66
54114195--54114240	23	2.0	23	100	0	92	30	17	13	39	1.87
54116049--54116080	12	2.4	14	90	10	50	25	0	0	75	0.81
54117332--54117362	16	1.9	16	93	0	53	51	0	9	38	1.35
54123317--54123382	9	7.3	9	79	6	71	43	16	10	28	1.81
54123317--54123382	27	2.4	27	84	0	87	43	16	10	28	1.81
54123654--54123706	18	2.9	18	82	0	70	28	15	18	37	1.91
54131212--54131455	33	7.3	33	69	10	136	29	24	15	30	1.96
54131210--54131463	101	2.5	101	85	4	359	28	25	15	30	1.96
54132606--54132640	15	2.4	15	85	4	54	60	0	2	37	1.12
54136258--54136297	19	2.1	19	85	0	53	35	2	7	55	1.42
54144191--54144268	29	2.7	29	83	0	102	32	24	19	24	1.98
54149023--54149098	26	2.9	26	84	7	109	32	14	9	43	1.77
54149241--54149265	12	2.1	12	100	0	50	16	24	0	60	1.36
54152583--54152649	31	2.1	33	86	5	93	55	7	14	22	1.65
54153222--54153261	12	3.3	12	93	6	64	32	0	0	67	0.91
54154838--54154865	6	4.7	6	100	0	56	64	0	17	17	1.30
54176926--54176977	21	2.4	21	78	12	61	59	0	3	36	1.16
54176926--54176980	22	2.5	21	83	13	67	58	0	3	38	1.16
54181885--54181919	17	2.0	18	88	5	54	11	5	14	68	1.37
54185532--54185558	12	2.2	12	100	0	54	37	25	0	37	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54189758--54189816	23	2.6	21	77	15	64	27	22	15	35	1.94
54196557--54196775	25	8.7	24	69	11	86	22	26	20	30	1.98
54196531--54196626	50	1.9	50	82	4	122	16	28	20	34	1.95
54196665--54196740	27	2.8	27	93	0	125	27	30	17	25	1.97
54198793--54198838	23	2.0	23	84	12	60	45	10	6	36	1.65
54198800--54198844	23	2.0	23	82	8	56	40	13	8	37	1.76
54207036--54207131	49	1.9	50	83	6	124	19	29	17	33	1.95
54207061--54207213	74	2.1	74	84	9	197	20	27	18	33	1.96
54207169--54207251	25	3.4	24	81	1	76	22	27	20	28	1.99
54207110--54207248	74	1.9	74	79	8	158	22	26	20	30	1.98
54207194--54207263	25	2.8	25	84	0	77	21	25	20	32	1.97
54208507--54208560	20	2.7	19	83	11	63	25	29	0	44	1.54
54208514--54208563	20	2.5	20	90	0	73	26	26	0	48	1.52
54215087--54215125	7	5.6	7	100	0	78	74	0	12	12	1.08
54221900--54221961	31	2.0	31	100	0	124	22	9	25	41	1.84
54223097--54223137	21	1.9	22	85	5	57	31	24	4	39	1.76
54225230--54226381	383	3.0	382	98	0	2196	37	6	20	35	1.77
54226795--54226872	33	2.4	33	79	12	88	29	17	28	24	1.98
54232958--54233005	25	1.9	25	91	0	78	35	25	14	25	1.94
54233053--54233108	11	5.5	11	71	16	57	35	12	19	32	1.89
54233042--54233108	20	3.3	20	93	0	116	34	11	20	32	1.90
54233159--54233276	23	5.1	23	88	4	175	30	18	19	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54233491--54233554	31	2.1	31	93	0	110	37	15	23	23	1.93
54240175--54240222	25	1.9	25	91	0	78	35	25	14	25	1.94
54240270--54240325	11	5.5	11	71	16	57	35	12	19	32	1.89
54240259--54240325	20	3.3	20	93	0	116	34	11	20	32	1.90
54240376--54240470	23	4.1	22	90	8	145	28	17	22	31	1.97
54240685--54240748	31	2.1	31	93	0	110	37	15	23	23	1.93
54243311--54243359	21	2.1	24	85	14	68	48	14	4	32	1.62
54247939--54248012	37	2.0	37	100	0	148	43	16	21	18	1.88
54250249--54250327	38	2.1	37	90	6	124	22	24	18	34	1.97
54254772--54254905	46	3.0	45	83	4	162	35	13	23	27	1.93
54256728--54256886	79	2.0	79	85	0	210	47	9	11	30	1.72
54260697--54260804	52	2.1	52	92	1	191	25	13	14	46	1.82
54262014--54262051	20	1.9	20	84	10	51	26	5	7	60	1.46
54262536--54262608	36	2.0	36	86	5	103	30	1	34	34	1.67
54270595--54270619	7	3.6	7	100	0	50	12	0	60	28	1.32
54270595--54270628	14	2.4	14	90	0	50	14	2	55	26	1.53
54276807--54276845	15	2.6	15	79	0	51	56	5	0	38	1.22
54278946--54279051	54	1.9	55	83	5	135	37	17	15	29	1.91
54279042--54279066	13	1.9	13	100	0	50	64	0	12	24	1.27
54279000--54279196	87	2.3	86	84	4	236	34	22	18	24	1.96
54279139--54279447	73	4.3	70	83	5	307	33	23	16	26	1.95
54284233--54284272	21	1.9	21	94	0	71	42	20	20	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54284297--54284376	7	11.1	7	79	10	81	0	20	2	77	0.88
54284300--54284390	14	7.2	12	71	18	69	0	20	2	76	0.88
54284297--54284384	44	2.0	43	82	12	108	0	20	2	77	0.88
54284581--54284637	25	2.3	25	77	19	66	5	10	7	77	1.12
54284657--54284700	18	2.4	18	80	0	61	9	27	45	18	1.79
54284745--54284825	6	13.3	6	87	6	74	0	25	0	74	0.83
54284755--54284829	3	26.0	3	83	5	93	0	28	0	72	0.86
54284846--54284889	18	2.5	18	82	10	56	0	43	34	22	1.54
54284907--54284964	20	3.0	20	82	14	68	0	37	0	62	0.96
54285207--54285308	30	3.4	30	83	2	125	43	3	23	29	1.72

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