genome.fa.s17.2.7.7.80.10.50.1000.171.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  171  of  185  ( 22116 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)
52151978--52152452	44	10.9	43	71	11	285	29	21	21	27	1.99
52151976--52152447	90	5.4	84	72	11	303	29	21	21	27	1.99
52152020--52152267	134	1.9	133	82	4	320	28	22	22	26	1.99
52151982--52152318	87	3.9	87	75	10	280	29	20	21	27	1.98
52154308--52154340	17	1.9	17	88	11	50	39	3	0	57	1.14
52161175--52161276	30	3.4	28	78	10	114	44	0	19	35	1.58
52161141--52161276	60	2.3	60	82	8	154	42	2	20	34	1.64
52164982--52165034	18	2.9	18	82	0	70	13	22	20	43	1.86
52169666--52169704	16	2.4	16	82	0	51	35	15	17	30	1.91
52182330--52182462	66	2.0	66	100	0	266	27	21	16	35	1.94
52185689--52185733	23	2.0	23	82	8	56	33	0	4	62	1.15
52187106--52187160	11	5.4	11	74	22	57	60	1	0	38	1.08
52187092--52187135	21	2.1	21	87	8	63	54	2	0	43	1.12
52187309--52187350	20	2.1	20	86	8	59	61	2	7	28	1.35
52189173--52189224	25	2.1	24	82	10	61	76	3	9	9	1.12
52204908--52204981	29	2.5	29	82	8	87	25	13	12	48	1.77
52211204--52211244	21	2.0	21	90	0	64	19	29	21	29	1.98
52214183--52214225	16	2.8	15	79	6	50	62	2	11	23	1.40
52228544--52228581	18	2.2	18	85	4	51	60	7	5	26	1.46
52231602--52231641	20	2.0	20	100	0	80	25	20	10	45	1.81
52240164--52240205	15	2.7	16	82	14	52	45	0	2	52	1.13
52240155--52240196	15	2.9	15	82	10	52	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52240350--52240440	45	2.0	44	85	2	119	35	28	5	30	1.80
52240419--52240465	16	2.9	16	87	0	58	34	31	0	34	1.58
52240647--52240717	31	2.5	28	78	15	74	54	5	8	30	1.53
52244389--52244454	31	2.2	30	86	5	89	48	1	3	46	1.26
52245311--52245339	7	4.1	7	100	0	58	27	31	0	41	1.56
52257298--52257446	24	6.1	24	71	5	102	17	25	22	34	1.96
52257324--52257451	49	2.7	49	81	7	129	19	23	20	36	1.95
52257417--52257470	25	2.2	25	82	0	63	27	25	14	31	1.95
52262668--52262722	28	2.0	28	96	0	101	45	14	5	34	1.68
52273935--52273967	6	5.5	6	100	0	66	84	0	0	15	0.61
52285565--52285724	25	6.6	25	80	9	174	38	16	23	22	1.93
52290275--52290317	22	2.0	22	90	0	68	27	30	9	32	1.88
52291937--52292029	45	2.1	45	93	0	159	26	7	10	54	1.61
52295708--52295758	20	2.5	20	78	12	59	54	0	1	43	1.11
52300399--52300436	18	2.1	18	100	0	76	34	10	10	44	1.73
52302622--52302695	20	3.7	20	82	8	80	59	5	0	35	1.20
52307952--52308064	61	1.9	59	83	8	149	49	5	2	42	1.39
52327270--52327298	5	5.8	5	100	0	58	0	17	0	82	0.66
52329655--52329736	42	2.0	42	97	0	155	45	23	17	14	1.85
52331313--52331348	18	2.0	17	89	10	54	55	0	0	44	0.99
52334213--52334240	6	4.7	6	100	0	56	67	0	0	32	0.91
52340419--52340462	23	1.9	23	85	0	61	25	4	15	54	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52343060--52343087	13	2.2	13	100	0	56	53	17	7	21	1.67
52350840--52350874	17	1.9	19	88	11	56	60	11	8	20	1.57
52353377--52353432	27	2.0	28	89	3	87	28	0	0	71	0.86
52359475--52359601	65	2.0	65	90	6	204	38	13	10	37	1.79
52365050--52365111	22	2.8	20	73	22	54	35	1	1	61	1.16
52367874--52368135	99	2.6	99	83	2	258	20	15	26	37	1.92
52367971--52368192	33	6.8	32	76	7	151	20	17	28	33	1.95
52368039--52368202	66	2.5	66	81	2	204	19	15	29	35	1.93
52367971--52368192	99	2.2	99	80	3	241	20	17	28	33	1.95
52368438--52368482	22	2.1	21	91	4	72	11	17	28	42	1.84
52368552--52368756	42	4.8	43	83	5	238	28	32	17	22	1.96
52368754--52368783	16	1.9	16	93	6	53	50	3	0	46	1.18
52369029--52369119	43	2.1	43	87	2	130	43	9	10	35	1.73
52372920--52373230	42	7.4	42	83	5	353	30	20	21	27	1.98
52372920--52373230	125	2.4	125	86	5	412	30	20	21	27	1.98
52372939--52373231	83	3.5	82	84	9	337	31	20	21	26	1.98
52373645--52373684	12	3.3	12	92	0	53	2	37	17	42	1.63
52373669--52373737	21	3.3	21	81	0	84	1	42	21	34	1.62
52375622--52375662	18	2.3	18	91	8	66	58	0	0	41	0.98
52375627--52375825	43	5.0	43	67	23	168	55	2	7	35	1.39
52375640--52375807	34	4.7	35	71	20	118	54	2	7	35	1.41
52375627--52375825	77	2.6	77	98	1	382	55	2	7	35	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52375812--52375837	12	2.2	12	100	0	52	53	0	15	30	1.42
52377328--52377405	34	2.3	34	95	0	138	43	14	12	29	1.82
52377379--52377418	21	1.9	21	94	0	71	37	10	15	37	1.80
52377951--52378692	261	2.8	261	92	1	1209	33	21	18	26	1.96
52378530--52378769	115	2.1	116	91	1	385	31	19	19	29	1.97
52379229--52379296	21	3.3	20	74	13	59	48	32	1	17	1.56
52379244--52379295	7	7.6	7	85	6	54	50	28	1	19	1.58
52379632--52379673	9	5.2	8	88	11	52	35	47	0	16	1.47
52379622--52379672	7	6.9	7	85	10	50	31	49	1	17	1.58
52380132--52380350	113	1.9	114	81	6	266	28	25	22	23	1.99
52379944--52380310	188	2.0	187	79	9	408	30	27	21	20	1.98
52380246--52380456	72	2.9	71	75	12	169	29	23	21	25	1.99
52380612--52380687	40	1.9	40	86	0	107	19	22	19	38	1.94
52381432--52381483	7	7.4	7	80	0	50	30	44	1	23	1.64
52382172--52382274	50	2.1	50	92	0	170	28	27	25	19	1.99
52382223--52382383	41	4.0	41	91	1	270	27	29	24	18	1.98
52382223--52382383	81	2.0	82	93	1	279	27	29	24	18	1.98
52382439--52382570	40	3.3	40	75	6	133	23	23	20	32	1.98
52382559--52382584	12	2.2	12	100	0	52	46	30	15	7	1.74
52385812--52385851	15	2.4	18	88	12	59	25	10	27	37	1.88
52385802--52386372	33	17.3	33	71	4	317	24	15	24	35	1.94
52385807--52386155	99	3.5	99	86	1	448	24	16	24	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52385813--52386215	99	4.1	97	83	3	410	24	16	24	34	1.95
52385980--52386322	166	2.1	165	86	1	436	24	15	23	36	1.94
52385980--52386373	166	2.4	166	82	3	409	24	16	23	36	1.94
52386145--52386363	100	2.2	100	85	0	287	22	16	23	37	1.93
52386419--52386530	33	3.4	33	76	3	109	22	18	23	35	1.96
52387618--52387959	170	2.0	168	93	2	587	42	6	6	44	1.56
52388136--52388218	19	4.4	19	86	8	80	37	13	12	37	1.82
52388146--52388220	19	3.8	19	89	6	114	37	12	13	37	1.82
52388447--52388491	23	2.0	23	81	0	54	22	0	13	64	1.28
52388923--52389001	27	2.8	27	75	14	79	32	6	2	58	1.37
52388949--52388992	23	2.0	22	90	4	70	34	6	2	56	1.38
52395797--52396243	45	9.9	45	81	2	477	31	16	21	30	1.95
52395797--52396243	135	3.3	135	83	3	535	31	16	21	30	1.95
52396346--52396456	44	2.5	44	79	5	118	30	21	23	24	1.99
52397010--52397066	22	2.7	21	83	2	60	38	3	17	40	1.67
52398994--52399038	12	3.7	12	82	5	54	33	4	11	51	1.58
52400333--52400362	13	2.4	12	94	5	51	63	0	0	36	0.95
52402037--52402134	44	2.2	44	81	1	124	29	23	13	33	1.93
52402259--52403021	50	15.3	50	69	4	444	25	23	19	31	1.98
52402259--52403016	100	7.6	100	92	0	1133	25	23	20	31	1.98
52411080--52411119	20	2.0	20	100	0	80	30	15	25	30	1.95
52414929--52414953	13	1.9	13	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52414977--52415046	26	2.7	26	75	14	63	52	1	14	31	1.50
52416734--52416761	4	7.0	4	100	0	56	50	25	0	25	1.50
52416932--52416975	23	2.0	22	90	4	70	34	6	2	56	1.38
52417147--52417178	3	10.7	3	100	0	64	31	0	0	68	0.90
52417177--52417220	3	14.7	3	100	0	88	0	0	31	68	0.90
52418256--52418312	26	2.2	25	78	9	60	33	12	17	36	1.87
52418267--52418319	26	2.0	26	88	0	79	30	15	18	35	1.92
52418867--52418957	44	2.1	44	97	0	173	40	10	21	26	1.87
52423784--52423816	18	1.9	18	88	11	52	45	9	6	39	1.61
52424287--52424397	33	3.4	33	79	0	105	19	13	25	41	1.88

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