genome.fa.s24.2.7.7.80.10.50.1000.26.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   

This is table  26  of  240  ( 28759 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)
9289728--9290011	59	4.7	58	67	18	150	43	2	4	49	1.36
9289721--9290011	120	2.4	122	89	4	462	43	2	4	49	1.35
9289955--9289991	19	2.0	19	85	15	51	45	0	0	54	1.00
9290227--9290319	16	5.8	16	97	2	177	36	37	0	25	1.57
9290227--9290319	33	2.9	32	96	3	177	36	37	0	25	1.57
9298853--9298928	32	2.3	33	82	6	93	38	2	9	50	1.49
9299390--9299459	29	2.5	27	78	17	72	52	0	4	42	1.20
9306426--9306572	42	3.4	42	80	2	141	20	37	18	23	1.94
9309872--9309918	20	2.5	18	83	10	58	31	2	2	63	1.18
9309875--9309916	19	2.2	19	86	4	57	28	2	2	66	1.16
9311955--9311991	19	2.0	19	89	5	58	37	0	5	56	1.22
9311960--9312021	20	3.1	21	81	9	58	40	0	8	51	1.31
9312116--9312146	9	3.4	9	90	0	53	41	22	9	25	1.84
9315266--9315305	7	5.7	7	96	0	62	0	20	30	50	1.49
9316172--9316210	20	2.0	20	89	0	60	28	10	15	46	1.78
9319783--9319811	11	2.5	12	88	11	51	0	13	0	86	0.58
9322619--9322818	65	3.0	68	87	8	300	27	6	4	61	1.40
9322634--9322855	69	3.3	66	81	13	251	26	8	4	61	1.43
9322986--9323024	16	2.4	17	84	16	55	12	10	7	69	1.37
9323921--9324009	22	3.9	21	76	15	79	42	14	11	31	1.81
9323924--9324214	70	4.2	70	72	19	261	39	14	12	33	1.83
9323994--9324244	47	5.4	47	93	2	436	39	14	11	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9323994--9324244	91	2.7	92	93	3	423	39	14	11	34	1.83
9324496--9324532	16	2.3	16	90	9	58	51	21	0	27	1.48
9329360--9329434	31	2.4	31	82	6	80	52	10	2	34	1.50
9330434--9330467	16	2.1	17	88	5	52	0	17	5	76	0.98
9342278--9342306	7	4.1	7	100	0	58	41	31	0	27	1.56
9354232--9354276	23	1.9	24	81	4	56	44	2	11	42	1.52
9357228--9357278	3	17.3	3	75	4	50	35	1	3	58	1.28
9357403--9357429	3	9.0	3	100	0	54	33	0	0	66	0.92
9359288--9359815	266	2.0	266	98	0	1011	32	18	25	22	1.97
9359942--9360125	62	3.0	62	93	0	314	41	20	4	33	1.73
9364827--9365709	177	5.0	177	81	4	777	27	17	26	28	1.98
9364829--9365504	309	2.2	309	97	0	1266	26	17	26	28	1.98
9364829--9365636	309	2.6	309	91	1	1196	26	17	26	28	1.98
9364827--9365717	132	6.7	132	91	1	947	27	17	26	28	1.98
9365700--9365983	95	3.0	95	94	1	487	28	20	22	28	1.99
9367470--9367520	3	17.3	3	75	4	50	35	1	3	58	1.28
9367645--9367674	3	10.0	3	100	0	60	33	0	0	66	0.92
9369884--9369930	24	2.0	23	83	8	58	48	19	2	29	1.60
9373910--9373957	24	2.0	24	84	8	62	27	4	6	62	1.38
9380688--9380768	24	3.4	24	77	13	87	49	0	1	49	1.08
9380704--9380742	11	3.4	11	80	13	51	51	0	2	46	1.14
9380687--9380767	15	5.2	15	71	21	60	48	0	1	50	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9380722--9380760	14	2.5	16	88	12	55	46	0	0	53	1.00
9382086--9382127	3	14.0	3	100	0	84	33	0	0	66	0.92
9382279--9382337	27	2.3	27	83	11	72	38	0	30	30	1.57
9382482--9382577	39	2.5	39	80	6	108	20	23	28	27	1.99
9388562--9388642	24	3.4	24	77	13	87	49	0	1	49	1.08
9388578--9388616	11	3.4	11	80	13	51	51	0	2	46	1.14
9388561--9388641	15	5.2	15	71	21	60	48	0	1	50	1.08
9388596--9388634	14	2.5	16	88	12	55	46	0	0	53	1.00
9389961--9389993	3	11.0	3	100	0	66	33	0	0	66	0.92
9390145--9390203	27	2.3	27	83	11	72	38	0	30	30	1.57
9390348--9390443	39	2.5	39	80	6	108	20	23	28	27	1.99
9393880--9393918	20	2.0	20	100	0	78	43	0	5	51	1.24
9394908--9394946	18	2.2	18	86	9	53	48	2	7	41	1.45
9397091--9397262	61	2.8	60	78	13	192	54	4	0	40	1.24
9400722--9400846	66	1.9	66	80	9	148	29	17	27	25	1.98
9407155--9407310	41	3.8	41	85	5	217	22	19	20	37	1.94
9412995--9413066	26	2.8	25	77	10	83	36	4	19	40	1.71
9413013--9413156	25	5.8	24	72	19	100	38	2	16	43	1.60
9413247--9413315	16	4.8	16	76	23	89	36	4	14	44	1.65
9413414--9413500	16	5.6	16	67	30	64	36	4	16	42	1.68
9413406--9413471	25	2.6	25	95	0	114	37	3	15	43	1.62
9413559--9413644	16	5.6	16	69	28	71	36	4	16	43	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9413551--9413616	25	2.6	25	95	0	114	37	3	15	43	1.62
9413328--9413735	145	2.8	145	98	0	791	36	3	17	41	1.68
9415068--9415146	39	2.0	39	87	4	115	51	21	10	16	1.73
9416465--9416491	12	2.2	12	100	0	54	40	0	0	59	0.98
9417360--9418075	114	6.3	114	79	3	737	29	21	16	32	1.95
9417360--9418047	228	3.0	227	89	3	1008	28	21	16	33	1.95
9431903--9431970	22	3.1	21	89	6	100	30	27	0	41	1.56
9431923--9432022	52	1.9	52	85	0	137	33	30	0	37	1.58
9431977--9432025	22	2.2	21	80	16	55	36	32	0	30	1.58
9432073--9432117	20	2.3	20	84	3	56	35	0	0	64	0.94
9432060--9432116	30	1.9	30	89	10	91	36	0	1	61	1.07
9432061--9432123	29	2.1	30	85	8	85	36	0	1	61	1.05
9433646--9433790	71	2.1	68	89	3	218	31	26	17	24	1.97
9433710--9433932	104	2.2	104	92	2	369	31	31	19	17	1.95
9440787--9441010	104	2.2	104	93	1	378	31	31	19	17	1.95
9445560--9446342	114	6.9	112	77	5	687	32	16	21	29	1.95
9445653--9446342	228	3.0	226	89	3	1001	33	16	21	28	1.95
9445582--9446342	342	2.2	340	81	4	847	32	16	21	28	1.95
9447219--9447245	12	2.2	12	100	0	54	59	0	0	40	0.98
9448568--9448646	39	2.0	39	87	4	115	16	10	21	51	1.73
9449871--9449955	25	3.3	24	69	15	71	40	15	3	41	1.64
9449939--9450204	126	2.2	120	89	5	390	42	18	3	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9450135--9450221	16	5.6	16	68	28	64	42	16	4	36	1.68
9450164--9450229	25	2.6	25	95	0	114	43	15	3	37	1.62
9450044--9450491	145	3.0	145	97	1	824	41	17	4	36	1.68
9450280--9450366	16	5.6	16	68	28	64	42	16	4	36	1.68
9450309--9450374	25	2.6	25	95	0	114	43	15	3	37	1.62
9450465--9450533	16	4.8	16	76	23	89	44	14	4	36	1.65
9450481--9450541	25	2.4	25	94	0	104	44	14	3	37	1.62
9450314--9450760	167	2.7	167	91	4	691	42	16	3	37	1.66
9450627--9450712	25	3.5	24	76	6	73	44	13	1	40	1.52
9450627--9450786	50	3.2	50	75	9	146	43	16	3	37	1.64
9450648--9450786	25	5.5	25	76	9	131	43	16	2	37	1.63
9456574--9456735	42	3.9	42	86	4	229	37	20	20	21	1.94
9463095--9463244	33	4.5	33	67	6	88	30	20	15	34	1.94
9466655--9466700	20	2.2	21	80	3	58	43	0	4	52	1.21
9466616--9466787	61	2.9	59	77	12	163	41	0	4	54	1.24
9481025--9481248	104	2.2	104	93	1	378	17	19	31	31	1.95
9481167--9481318	71	2.1	72	92	1	252	23	17	29	30	1.97
9484520--9484803	43	6.6	43	75	7	202	31	25	14	27	1.95
9485454--9485538	33	2.6	33	87	7	127	32	2	36	28	1.70
9486421--9486532	54	2.0	56	86	6	158	48	3	0	47	1.25
9487186--9487225	18	2.2	19	86	13	57	40	2	2	55	1.27
9487062--9487261	95	2.0	100	87	7	295	47	4	4	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9487399--9487437	15	2.7	15	81	18	55	51	17	0	30	1.46
9487724--9487775	24	2.2	24	82	6	61	57	0	26	15	1.38
9518034--9518084	26	2.0	26	96	0	93	11	23	35	29	1.90
9517956--9518178	103	2.2	104	92	2	369	17	18	31	31	1.95
9518097--9518248	71	2.1	72	92	1	252	23	17	29	30	1.97
9525057--9525280	104	2.2	104	93	1	378	17	19	31	31	1.95
9525199--9525350	71	2.1	72	92	1	252	23	17	29	30	1.97
9528552--9528835	43	6.6	43	75	7	202	31	25	14	27	1.95
9529486--9529570	33	2.6	33	87	7	127	32	2	36	28	1.70
9530453--9530563	54	2.0	55	86	8	156	48	3	0	46	1.25

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