genome.fa.s24.2.7.7.80.10.50.1000.62.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  62  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)
20219757--20219818	21	3.0	21	90	4	90	22	9	41	25	1.84
20219784--20219842	21	2.8	21	89	0	82	22	10	38	28	1.86
20219886--20220046	21	7.7	21	80	1	128	26	15	37	20	1.92
20219907--20220051	42	3.5	42	83	3	168	26	14	39	19	1.90
20232640--20232666	11	2.5	11	100	0	54	48	0	0	51	1.00
20239151--20239242	46	2.0	46	100	0	184	28	8	21	41	1.83
20242673--20242711	20	2.0	20	89	0	60	35	2	17	43	1.63
20243790--20243877	22	4.0	22	82	2	106	20	27	19	32	1.97
20258115--20258165	24	2.1	24	88	0	75	74	11	5	7	1.21
20259288--20259359	19	3.7	19	72	3	72	37	1	0	61	1.05
20291223--20294318	773	4.0	772	91	1	4885	31	17	19	31	1.95
20297548--20297747	43	4.7	43	81	3	206	28	29	15	27	1.96
20297677--20297768	42	2.2	43	84	5	116	33	33	11	20	1.89
20301678--20301732	14	3.9	14	78	4	58	32	45	0	21	1.52
20301678--20301731	21	2.6	21	79	5	65	33	44	0	22	1.53
20301857--20301922	14	4.7	14	76	17	57	42	31	1	24	1.64
20301972--20302008	14	2.6	14	91	0	56	45	27	0	27	1.54
20315310--20315374	23	2.8	24	78	19	66	63	1	1	33	1.13
20318750--20318804	27	2.0	27	85	7	74	67	1	3	27	1.17
20319776--20319821	24	2.0	23	83	12	58	8	6	28	56	1.54
20320247--20320280	17	2.0	17	100	0	68	35	17	0	47	1.48
20321177--20321248	21	3.4	21	67	7	56	44	16	25	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20321158--20321290	42	3.2	42	78	0	113	45	15	23	15	1.84
20324697--20324735	20	1.9	21	84	5	53	33	2	2	61	1.23
20324721--20324800	9	8.6	9	71	16	56	30	1	3	65	1.18
20324706--20324800	47	2.0	47	84	8	122	29	2	4	64	1.24
20324856--20324946	18	4.7	21	77	12	65	45	2	0	52	1.13
20324878--20324946	18	3.7	18	76	7	66	49	2	0	47	1.16
20324904--20324959	18	3.2	18	82	7	53	60	3	0	35	1.14
20326251--20326277	14	1.9	14	100	0	54	29	29	0	40	1.57
20327287--20327423	63	2.2	63	86	0	193	35	30	5	28	1.81
20330139--20330334	104	1.9	104	90	2	313	33	20	10	36	1.86
20333222--20333283	18	3.5	18	68	12	56	54	1	8	35	1.39
20333986--20334024	21	2.0	20	85	10	53	51	2	5	41	1.38
20340685--20340743	26	2.2	26	82	11	66	57	1	1	38	1.19
20344220--20344263	21	2.2	20	84	8	54	34	0	6	59	1.24
20344468--20344511	21	2.0	22	87	12	65	45	0	0	54	0.99
20347224--20347254	15	2.1	15	93	0	53	12	19	9	58	1.62
20347128--20347245	61	2.0	60	94	1	200	28	18	9	43	1.81
20347163--20347307	76	1.9	76	98	0	281	26	17	11	45	1.81
20348314--20348357	22	2.0	21	91	4	70	40	13	4	40	1.65
20348626--20348665	21	1.9	21	85	10	55	42	2	0	55	1.13
20348908--20348934	13	2.1	13	100	0	54	40	22	7	29	1.81
20354228--20354270	21	2.0	21	86	8	61	44	0	16	39	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20354634--20354685	24	2.2	24	82	0	59	19	23	15	42	1.89
20354867--20354927	24	2.5	24	84	10	88	16	27	19	36	1.93
20360386--20360479	28	3.2	28	73	11	82	70	1	26	2	1.05
20360387--20360439	17	3.2	16	76	12	54	75	0	22	1	0.90
20389969--20390128	87	1.8	86	86	4	232	40	20	11	28	1.86
20390162--20390197	18	1.9	19	94	5	65	50	0	5	44	1.25
20390161--20390211	18	2.7	20	80	17	63	54	0	3	41	1.19
20390161--20390224	20	3.2	21	79	14	57	54	0	4	40	1.21
20390219--20390259	21	2.0	20	86	13	57	70	2	2	24	1.11
20390414--20390503	19	4.7	18	72	20	60	30	7	1	61	1.31
20390452--20390552	49	2.2	46	79	12	107	33	3	1	60	1.26
20396415--20396525	38	2.8	39	82	4	134	44	10	9	36	1.71
20399274--20399310	19	1.9	19	100	0	74	18	16	21	43	1.88
20400333--20400440	38	2.8	38	84	5	128	48	8	8	35	1.64
20400374--20400451	38	2.1	38	82	4	95	47	6	6	39	1.55
20402935--20403005	10	7.4	9	73	14	54	30	4	1	63	1.22
20402913--20402982	20	3.5	20	74	16	63	32	4	1	61	1.24
20402956--20403014	9	6.4	9	77	13	50	28	1	3	66	1.18
20403456--20403500	9	5.3	9	84	7	51	15	0	28	55	1.41
20411188--20411241	27	2.0	27	100	0	108	29	18	37	14	1.91
20427407--20427479	3	24.0	3	91	2	119	65	4	0	30	1.11
20427619--20427668	17	3.1	17	75	16	52	60	8	2	30	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20428062--20428198	45	3.0	45	81	14	147	53	2	5	38	1.38
20428068--20428167	23	4.4	22	76	17	82	55	1	4	40	1.26
20428089--20428198	46	2.5	44	82	12	127	54	3	3	38	1.36
20441441--20441488	23	2.1	23	88	0	69	20	8	12	58	1.60
20442213--20442585	187	2.0	187	98	0	728	27	23	13	35	1.93
20442790--20442828	12	3.6	12	74	25	50	46	12	0	41	1.42
20442790--20442839	20	2.5	20	100	0	100	44	14	0	42	1.44
20442790--20442839	10	5.0	10	72	18	50	44	14	0	42	1.44
20444027--20444052	13	2.0	13	100	0	52	15	15	15	53	1.73
20444170--20444226	25	2.3	24	75	3	60	31	17	26	24	1.97
20444216--20444270	25	2.2	24	84	12	76	32	20	32	14	1.92
20444229--20444285	25	2.3	25	87	3	80	31	21	31	15	1.94
20450827--20451615	262	3.0	262	99	0	1542	36	16	12	33	1.87
20455516--20455561	20	2.3	20	88	0	65	28	26	32	13	1.93
20458617--20458721	45	2.4	44	82	6	115	28	23	6	40	1.80
20463213--20463259	25	1.9	24	82	4	58	55	14	2	27	1.51
20478164--20478225	22	2.7	22	92	5	97	48	0	1	50	1.10
20478199--20478239	16	2.6	16	100	0	82	46	0	4	48	1.23
20487341--20487596	75	3.4	74	75	12	245	43	10	5	40	1.62
20487329--20487570	73	3.3	73	76	9	242	41	10	6	42	1.64
20488810--20488864	29	1.9	29	85	10	78	21	9	18	50	1.74
20488988--20489041	17	3.3	17	73	17	51	57	1	0	40	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20488979--20489063	25	3.1	25	71	19	71	55	1	1	42	1.15
20488983--20489024	15	2.8	15	78	10	50	50	0	0	50	1.00
20488964--20489043	32	2.4	33	83	8	101	55	1	1	42	1.16
20489099--20489164	21	3.1	22	72	10	66	46	0	3	50	1.16
20489099--20489191	43	2.1	43	84	9	118	41	0	3	54	1.16
20490275--20490363	40	2.2	39	82	7	99	19	28	30	22	1.98
20490386--20490934	249	2.2	251	92	1	904	30	17	22	28	1.97
20490386--20490948	125	4.5	125	91	0	894	30	17	22	29	1.96
20494044--20494184	22	6.6	21	73	17	96	20	0	36	42	1.58
20494039--20494159	27	4.3	28	73	21	119	19	0	38	42	1.52
20494082--20494114	15	2.2	15	89	10	50	12	0	36	51	1.39
20494119--20494184	22	3.0	22	93	0	114	22	1	33	42	1.63
20495594--20495631	20	1.9	20	84	10	51	55	7	2	34	1.43
20496617--20496682	11	5.9	11	73	22	50	43	1	30	24	1.63
20496619--20496672	22	2.5	22	77	19	60	44	1	29	24	1.64
20498327--20498376	23	2.2	23	85	7	66	72	2	0	26	0.96
20500430--20500465	18	1.9	18	94	5	63	88	2	0	8	0.59
20500430--20500467	19	2.0	19	94	0	67	86	5	0	7	0.69
20504090--20504166	31	2.5	31	79	6	86	35	11	12	40	1.80
20506493--20506529	9	4.1	9	85	0	56	40	0	5	54	1.24
20510980--20511048	23	3.0	22	85	12	86	21	27	18	31	1.97
20510990--20511071	23	3.4	23	84	15	89	23	26	20	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20517768--20517837	32	2.4	27	81	13	79	32	0	14	52	1.41
20517766--20517829	32	2.0	32	96	0	119	32	0	15	51	1.44
20518162--20518205	18	2.4	18	88	3	61	72	2	2	22	1.07
20518162--20518195	9	3.7	9	84	7	50	73	2	0	23	0.97
20518498--20518560	26	2.5	25	77	15	58	57	0	7	34	1.28
20518498--20518560	25	2.5	26	79	10	67	57	0	7	34	1.28
20518545--20518655	10	11.0	10	70	14	68	63	2	4	29	1.28
20518834--20518908	20	3.9	20	71	15	68	26	2	1	69	1.10
20532079--20532139	25	2.3	26	86	8	97	31	14	14	39	1.87
20532086--20532136	25	2.0	25	100	0	102	31	11	15	41	1.83

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