genome.fa.s16.2.7.7.80.10.50.1000.109.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  109  of  175  ( 20966 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)
34614555--34614580	12	2.2	12	100	0	52	57	7	11	23	1.59
34616258--34616863	298	2.0	302	88	5	893	44	16	14	24	1.84
34616780--34616829	6	8.2	6	95	2	64	82	2	10	6	0.92
34625205--34625445	50	4.7	50	79	3	196	26	21	27	23	1.99
34626915--34628221	498	2.6	498	93	0	2195	35	17	12	35	1.87
34637186--34637366	50	3.6	50	89	0	263	20	30	22	25	1.98
34639057--34639103	23	2.0	23	95	0	85	61	19	4	14	1.49
34651488--34651516	9	3.2	9	100	0	58	48	31	0	20	1.50
34655746--34655924	85	2.1	85	97	0	340	37	8	27	26	1.85
34657193--34657646	47	9.6	47	91	2	626	33	9	29	28	1.88
34657193--34657646	96	4.8	94	89	3	626	33	9	29	28	1.88
34660074--34660148	38	2.0	38	84	5	98	29	18	28	24	1.98
34660208--34660478	40	6.8	40	89	0	373	24	21	28	26	1.99
34661732--34661909	84	2.1	85	97	1	340	37	8	27	26	1.85
34663173--34663626	47	9.6	47	92	2	653	34	9	28	27	1.87
34663173--34663626	96	4.8	94	88	4	653	34	9	28	27	1.87
34663477--34663598	22	5.3	22	62	21	61	33	11	29	25	1.91
34666378--34666646	41	6.8	41	73	14	174	20	18	25	35	1.95
34666451--34666620	41	4.1	41	82	5	182	21	18	24	36	1.95
34666451--34666646	82	2.4	81	77	9	207	20	17	25	36	1.95
34667028--34667068	21	2.0	20	85	4	55	19	0	41	39	1.52
34667339--34667411	29	2.5	28	74	12	67	28	0	32	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34670855--34670944	43	2.1	42	85	6	119	35	8	10	45	1.69
34671209--34671559	43	8.2	42	81	7	352	25	18	29	27	1.98
34676415--34676444	15	2.0	15	93	0	51	36	13	23	26	1.92
34676430--34676553	42	3.0	42	79	10	137	36	25	17	20	1.95
34676430--34676593	41	4.0	41	79	5	168	33	25	17	23	1.96
34681592--34681644	28	1.9	27	85	11	72	11	11	1	75	1.13
34690506--34690983	39	12.3	39	86	4	669	31	3	18	46	1.65
34694054--34694102	20	2.5	20	80	3	64	65	4	0	30	1.11
34695733--34695782	16	3.1	16	85	0	55	10	8	2	80	0.99
34697106--34697173	13	5.2	13	73	19	54	73	1	2	22	1.05
34697103--34697179	17	4.8	17	71	24	69	74	1	2	22	1.02
34697095--34697168	21	3.1	25	75	18	86	71	0	4	24	1.03
34697110--34697179	21	3.3	22	76	15	76	74	1	2	21	1.03
34700355--34700395	20	2.0	20	95	0	73	26	12	14	46	1.80
34704875--34704944	27	2.6	27	93	4	115	41	11	0	47	1.40
34704936--34704977	22	1.9	22	85	0	57	69	9	2	19	1.28
34705067--34705227	4	38.2	4	76	17	125	68	0	31	0	0.90
34705060--34705228	34	5.1	34	77	16	169	66	0	33	0	0.92
34705133--34705223	35	2.6	36	83	8	109	68	0	31	0	0.90
34705624--34705698	28	2.7	28	93	4	125	41	12	1	45	1.49
34705816--34705974	4	37.2	4	74	19	103	67	0	32	0	0.91
34705817--34705984	18	8.9	19	75	19	131	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34705816--34706024	22	9.5	22	69	23	95	66	0	33	0	0.92
34705816--34706024	40	5.3	39	72	17	137	66	0	33	0	0.92
34705829--34706024	79	2.5	79	79	13	210	65	0	34	0	0.93
34705897--34706005	39	2.8	37	80	14	123	66	0	33	0	0.92
34705854--34706018	49	3.5	45	74	16	131	65	0	34	0	0.93
34705897--34706019	35	3.2	36	71	21	97	65	0	34	0	0.93
34709451--34709486	16	2.2	16	100	0	72	19	30	25	25	1.98
34711426--34711456	12	2.6	12	94	0	53	61	19	0	19	1.35
34711462--34711514	26	2.0	26	85	7	72	47	7	1	43	1.42
34711698--34711723	3	8.7	3	100	0	52	69	30	0	0	0.89
34711796--34711834	20	2.0	21	85	10	55	66	10	0	23	1.22
34711954--34712029	27	2.8	28	82	7	86	18	28	26	26	1.98
34712071--34712145	28	2.7	28	95	4	134	45	0	12	42	1.41
34712813--34712859	3	15.7	3	90	0	76	34	2	2	61	1.20
34713379--34713439	29	2.0	31	84	6	81	39	13	8	39	1.74
34721021--34721132	53	2.1	54	86	5	156	53	8	1	35	1.43
34722987--34723130	74	1.9	74	88	0	216	34	15	20	29	1.94
34723425--34723475	12	3.9	13	76	16	52	68	0	9	21	1.18
34723426--34723507	27	3.1	26	75	14	69	70	0	6	23	1.09
34723471--34723509	8	4.9	8	100	0	78	76	0	0	23	0.78
34723738--34723797	21	2.8	22	85	10	79	53	1	1	43	1.20
34723784--34723844	11	5.9	11	71	21	60	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34724026--34724105	37	2.2	35	80	14	92	52	6	8	32	1.57
34724284--34724334	26	2.0	26	84	7	68	49	0	7	43	1.32
34724293--34724368	41	1.9	38	84	7	98	56	0	7	35	1.28
34726949--34727029	2	40.5	2	92	0	135	0	1	46	51	1.08
34730365--34730398	17	2.0	17	100	0	68	35	11	17	35	1.87
34734533--34734603	17	4.1	18	80	10	85	42	0	0	57	0.98
34734533--34734607	5	15.6	5	74	22	72	42	0	0	57	0.98
34734533--34734611	23	3.3	25	78	16	80	44	0	0	55	0.99
34755561--34755633	31	2.4	30	77	8	78	39	9	1	49	1.44
34761883--34761946	33	1.9	33	93	6	112	23	26	1	48	1.60
34761884--34761944	22	2.8	22	80	14	72	22	27	1	47	1.61
34761884--34761946	11	5.7	12	75	17	57	23	26	1	47	1.61
34763802--34763844	18	2.4	18	88	0	59	18	27	9	44	1.80
34764085--34764142	21	2.8	21	79	12	57	29	46	17	6	1.74
34764265--34764382	49	2.4	49	98	0	227	45	2	9	42	1.49
34765338--34765750	125	3.3	125	92	0	655	30	20	16	32	1.95
34767252--34767293	21	1.9	23	85	9	61	23	7	11	57	1.59
34767813--34767875	21	3.2	21	77	18	64	39	1	0	58	1.07
34776139--34776165	13	2.1	13	100	0	54	29	0	22	48	1.51
34776772--34776938	43	3.9	43	79	7	169	24	14	26	33	1.95
34778324--34778438	51	2.3	51	96	0	212	28	25	13	32	1.94
34782929--34782957	14	2.0	15	93	6	51	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34782935--34782980	14	3.3	14	87	0	56	65	0	34	0	0.93
34782996--34783045	21	2.4	21	82	0	64	72	0	28	0	0.86
34782946--34783050	10	10.9	10	70	18	62	67	0	32	0	0.91
34782955--34783080	10	13.8	9	66	22	50	68	0	31	0	0.90
34783326--34783801	159	3.1	153	76	13	513	51	7	10	30	1.65
34783728--34783908	95	1.9	95	83	12	235	50	7	13	28	1.69
34786471--34786595	39	3.1	37	78	15	133	49	11	4	34	1.60
34786456--34786585	42	3.1	43	73	21	107	50	11	3	33	1.57
34786749--34786786	10	3.7	10	89	3	58	0	28	0	71	0.87
34789692--34789750	27	2.2	27	87	6	84	38	13	22	25	1.90
34793897--34793986	46	2.0	46	95	4	164	24	22	20	33	1.97
34817413--34817458	3	15.0	3	86	4	65	34	4	0	60	1.16
34822051--34822107	22	2.5	23	77	13	64	64	12	8	14	1.48
34824205--34825440	129	9.6	129	91	1	1932	32	19	23	24	1.98
34827249--34827282	3	11.0	3	87	6	50	35	2	0	61	1.11
34828982--34829093	6	19.7	6	80	15	87	71	13	3	11	1.27
34829022--34829087	31	2.1	33	85	5	91	69	13	4	12	1.33
34831216--34831350	44	3.1	44	84	4	166	32	21	22	22	1.98
34831304--34833069	128	13.8	128	89	1	2615	31	19	23	25	1.98
34833060--34833181	44	2.8	44	80	5	131	29	16	22	31	1.95
34838039--34838079	18	2.3	19	83	8	50	31	19	19	29	1.96
34843698--34843783	37	2.3	37	93	0	145	29	6	19	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34844102--34844184	20	4.2	20	68	0	67	22	26	19	31	1.98
34844027--34844152	40	3.2	40	68	0	108	22	19	19	38	1.93
34844027--34844178	80	1.9	80	84	0	205	21	21	19	36	1.95
34848302--34848352	23	2.2	23	85	0	66	29	27	17	25	1.98
34848502--34848589	26	3.3	26	80	12	99	30	12	20	36	1.90
34848546--34848600	26	2.1	26	83	6	67	36	10	21	30	1.88
34848611--34848674	27	2.4	26	84	5	74	35	17	25	21	1.95
34852134--34852178	22	2.0	22	83	8	56	37	2	6	53	1.40
34852826--34852897	37	1.9	37	91	0	117	19	15	30	34	1.93
34852831--34852918	37	2.4	37	86	1	115	18	14	30	36	1.91

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