genome.fa.s17.2.7.7.80.10.50.1000.175.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  175  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)
53180521--53180587	27	2.5	27	82	0	80	7	29	34	28	1.85
53196993--53197022	12	2.5	12	94	0	51	30	0	40	30	1.57
53197554--53197598	22	2.0	22	95	0	81	20	4	31	44	1.71
53198510--53198534	13	1.9	13	100	0	50	16	0	0	84	0.63
53201101--53201131	4	7.8	4	92	0	53	48	0	3	48	1.17
53207395--53207484	25	3.6	26	75	14	91	32	21	24	22	1.98
53207536--53207598	27	2.3	27	88	0	99	33	15	30	20	1.94
53207537--53207605	27	2.6	27	81	4	86	34	14	30	20	1.92
53207591--53207683	25	3.7	25	78	2	89	34	20	29	16	1.94
53209273--53209329	30	1.9	30	85	0	78	38	8	22	29	1.85
53209772--53209867	23	4.2	23	93	0	165	20	20	26	32	1.98
53209772--53209867	46	2.1	46	98	0	183	20	20	26	32	1.98
53216324--53216386	29	2.2	29	94	0	108	23	12	17	46	1.83
53234264--53234302	6	6.5	6	100	0	78	15	33	15	35	1.89
53244087--53244122	17	2.1	18	89	5	56	55	0	0	44	0.99
53246010--53246057	16	3.1	15	77	17	53	39	22	4	33	1.74
53247273--53247366	37	2.4	37	82	7	107	30	26	18	24	1.97
53248260--53248342	4	19.0	4	74	18	60	1	24	2	72	1.04
53248260--53248339	33	2.4	33	85	8	108	1	25	2	71	1.06
53248281--53248336	24	2.4	24	82	11	71	1	25	3	69	1.14
53248367--53248415	26	1.9	25	87	4	71	36	4	0	59	1.17
53249196--53249261	31	2.1	31	85	0	87	31	12	13	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53251462--53251553	22	4.3	23	76	17	108	54	0	1	44	1.07
53251470--53251569	10	11.1	9	69	22	59	56	0	1	43	1.06
53251469--53251551	11	7.9	11	77	20	81	54	0	1	44	1.08
53251494--53251589	30	3.3	29	83	11	108	57	0	2	40	1.10
53251475--53251581	40	2.7	40	88	5	162	57	0	1	41	1.10
53252905--53252932	3	9.3	3	100	0	56	32	0	35	32	1.58
53256705--53256871	79	2.1	80	92	1	273	34	12	12	40	1.81
53256933--53256986	18	3.1	18	72	5	56	51	3	0	44	1.19
53256963--53257021	10	5.9	10	75	13	59	66	3	1	28	1.18
53256963--53257025	31	2.1	30	85	8	83	63	4	1	30	1.24
53260701--53260734	2	17.0	2	100	0	68	50	0	50	0	1.00
53262407--53262442	18	2.0	18	94	0	63	50	13	5	30	1.65
53274057--53274089	17	2.0	16	94	5	57	39	6	0	54	1.25
53274168--53274215	15	3.2	14	80	11	51	72	0	0	27	0.84
53279011--53279054	2	22.0	2	100	0	88	50	0	50	0	1.00
53283376--53283400	2	12.5	2	100	0	50	52	0	0	48	1.00
53286574--53286659	42	2.0	42	95	0	154	30	19	10	39	1.85
53291279--53291321	16	2.7	16	85	0	59	55	9	6	27	1.57
53295626--53295676	14	3.6	14	74	7	50	68	0	13	17	1.21
53295665--53295698	16	2.1	16	88	5	50	76	5	14	2	1.09
53300775--53300813	19	2.1	19	90	9	62	43	0	2	53	1.14
53300777--53300823	24	2.0	23	87	4	67	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53301929--53301961	17	1.9	17	100	0	66	42	9	0	48	1.35
53306452--53306481	8	3.6	8	95	4	51	63	0	0	36	0.95
53314518--53314584	31	2.0	35	83	11	88	64	1	7	26	1.29
53314521--53314611	33	2.8	32	70	26	75	62	1	8	27	1.31
53315839--53315896	23	2.6	21	86	8	71	15	6	39	37	1.74
53316418--53316690	71	3.7	74	82	8	310	32	19	16	31	1.94
53316545--53317237	160	4.6	155	79	9	620	35	19	17	27	1.94
53316766--53316950	86	2.1	88	82	5	225	38	18	17	25	1.92
53316862--53317237	72	5.2	72	88	4	528	34	20	17	27	1.95
53316700--53317220	144	3.5	146	82	9	520	34	20	17	27	1.95
53317237--53317551	72	4.5	71	80	9	355	33	23	16	27	1.96
53317237--53317551	143	2.3	139	87	6	433	33	23	16	27	1.96
53329770--53329831	26	2.3	27	78	13	67	66	0	8	25	1.19
53329734--53329843	34	3.1	35	71	20	86	63	1	9	25	1.34
53331074--53331131	23	2.6	21	86	8	71	15	6	39	37	1.74
53333591--53333649	24	2.6	23	86	7	77	55	1	6	35	1.36
53338621--53338668	24	2.0	25	83	4	62	47	10	4	37	1.57
53339452--53339524	36	2.0	36	100	0	146	30	35	2	31	1.72
53343763--53343806	19	2.3	19	96	0	79	45	2	27	25	1.65
53345411--53345435	2	12.5	2	100	0	50	48	0	0	52	1.00
53346731--53346759	12	2.4	12	100	0	58	48	0	10	41	1.37
53346951--53347006	3	18.7	3	100	0	112	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53354235--53354303	22	3.1	22	75	4	59	57	11	14	15	1.64
53355152--53355199	21	2.3	22	82	10	64	16	4	35	43	1.67
53355152--53355210	21	2.9	21	82	12	61	16	5	33	44	1.70
53355183--53355240	29	1.9	31	83	13	77	17	8	27	46	1.77
53355162--53355262	50	2.0	50	100	0	202	15	7	30	45	1.75
53355213--53355260	21	2.4	21	83	13	57	16	6	29	47	1.71
53358694--53358803	44	2.6	42	80	7	114	25	19	24	30	1.98
53358694--53358821	42	3.0	42	78	12	118	25	17	25	32	1.97
53359152--53359196	17	2.6	18	76	16	51	44	0	20	35	1.51
53370519--53370587	27	2.5	26	76	4	66	18	26	15	39	1.91
53377602--53377631	13	2.2	14	94	5	53	26	0	20	53	1.46
53387377--53387418	21	2.0	21	86	4	59	54	4	16	23	1.61
53387612--53387658	23	1.9	26	87	12	73	53	6	8	31	1.57
53388584--53388650	35	1.9	35	90	6	109	38	14	2	43	1.61
53388584--53388640	20	3.1	19	68	31	52	38	15	1	43	1.57
53392090--53392157	35	1.9	35	91	5	111	39	14	2	42	1.61
53392090--53392147	20	3.2	19	68	31	54	39	15	1	43	1.57
53394074--53394112	19	2.0	20	95	5	71	33	5	0	61	1.18
53394365--53394420	22	2.4	23	83	16	64	28	0	12	58	1.34
53396053--53396104	24	2.2	24	89	0	77	55	9	1	32	1.43
53399071--53399190	47	2.5	49	85	6	147	39	12	4	44	1.62
53401102--53401186	42	2.0	43	88	6	127	21	17	3	57	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53407338--53407375	3	13.0	3	94	5	69	68	0	0	31	0.90
53414805--53415068	45	5.9	45	92	0	411	39	15	19	26	1.91
53421211--53421474	45	5.9	45	90	1	395	39	15	19	25	1.91
53422304--53422377	25	3.0	25	75	0	76	28	21	28	21	1.99
53422305--53422527	26	8.8	26	69	12	94	33	21	25	19	1.97
53425526--53425606	22	3.4	25	71	23	77	44	2	8	44	1.48
53427816--53427866	3	17.3	3	75	4	50	35	1	3	58	1.28
53427990--53428028	3	13.0	3	100	0	78	33	0	0	66	0.92
53429271--53429306	17	2.1	18	89	5	56	55	0	5	38	1.23
53434599--53434700	41	2.5	40	84	6	132	28	23	19	28	1.98
53441353--53441407	22	2.6	21	82	2	74	69	10	7	12	1.37
53441651--53441721	38	2.0	35	83	10	90	19	9	2	67	1.32
53442909--53443127	72	3.0	72	93	0	357	22	19	36	21	1.95
53444379--53444421	18	2.5	17	76	3	50	34	0	2	62	1.08
53445961--53446003	16	2.7	15	82	10	50	41	11	13	32	1.81
53463010--53463104	9	9.9	9	69	22	52	37	1	1	60	1.11
53462986--53463116	41	3.3	39	86	8	176	40	2	0	56	1.17
53462988--53463116	11	12.9	11	68	25	74	39	2	0	57	1.17
53463036--53463116	28	2.8	29	81	12	87	40	1	1	56	1.15
53464160--53464202	22	2.0	22	86	4	61	39	0	4	55	1.20
53469889--53470044	43	3.7	42	76	11	158	24	16	27	31	1.96
53473613--53473732	59	2.1	58	95	1	213	42	9	5	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53473726--53473795	22	3.0	23	81	10	79	45	2	2	48	1.32
53485990--53486041	23	2.2	24	86	3	70	73	3	1	21	1.10
53488327--53488366	3	13.3	3	84	10	55	67	0	0	32	0.91
53488329--53488380	12	4.1	12	81	16	52	69	1	0	28	0.99
53488803--53488881	21	3.8	19	80	12	77	39	17	7	35	1.78
53488837--53488880	21	2.1	21	100	0	88	38	13	9	38	1.77
53503236--53503303	31	2.2	31	84	2	84	39	10	10	39	1.73
53503246--53503318	31	2.4	31	90	2	112	34	12	9	43	1.75
53519138--53519179	18	2.3	19	91	4	68	30	2	0	66	1.04
53519963--53520003	20	2.0	20	85	4	55	70	4	0	24	1.06

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