genome.fa.s16.2.7.7.80.10.50.1000.34.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  34  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)
9173747--9173805	26	2.2	26	85	11	84	32	1	3	62	1.21
9174037--9174093	23	2.7	22	81	13	75	73	5	8	12	1.23
9178852--9178945	21	4.5	21	89	5	129	39	15	27	17	1.90
9178913--9178956	11	4.1	11	77	16	56	40	18	27	13	1.88
9186455--9186516	31	2.0	31	90	6	99	37	16	6	40	1.74
9197463--9197499	6	5.8	6	90	9	56	45	16	16	21	1.84
9197474--9197628	45	3.4	45	89	0	247	41	21	18	19	1.91
9197483--9197655	45	4.2	39	81	10	143	38	21	19	19	1.93
9197832--9197917	40	2.2	40	83	6	104	40	19	5	33	1.76
9204519--9204555	6	5.8	6	90	9	56	45	16	16	21	1.84
9204530--9204683	45	3.5	44	85	3	220	41	20	18	20	1.90
9204539--9204710	45	4.2	39	79	11	123	38	20	19	20	1.93
9204887--9204972	40	2.2	40	83	6	104	40	19	5	33	1.76
9208664--9208701	19	1.9	19	89	5	58	52	2	5	39	1.38
9210740--9210904	50	3.3	50	74	1	152	24	18	21	35	1.96
9210740--9210941	100	2.0	100	83	1	253	24	17	22	35	1.95
9210987--9211518	132	4.0	132	93	0	884	25	23	19	31	1.98
9211190--9211506	44	7.2	44	64	8	133	26	23	19	30	1.98
9223829--9223866	19	1.9	19	89	5	58	52	2	5	39	1.38
9224006--9224042	12	3.2	12	84	7	58	56	0	10	32	1.34
9227314--9227353	17	2.4	17	91	0	62	12	27	37	22	1.90
9228825--9228886	29	2.1	30	96	3	117	22	3	17	56	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9230070--9230109	18	2.2	18	86	0	53	17	25	2	55	1.55
9232194--9232235	22	1.9	22	85	9	59	42	14	11	30	1.81
9232312--9232375	5	12.8	5	76	0	65	39	21	3	35	1.70
9240106--9240130	11	2.3	11	100	0	50	28	0	8	64	1.22
9241877--9241915	3	13.0	3	100	0	78	66	0	0	33	0.92
9243519--9243577	19	3.1	19	90	4	91	50	8	1	38	1.43
9243565--9243591	14	1.9	14	100	0	54	51	11	0	37	1.37
9245189--9245223	18	1.9	18	88	0	52	31	2	11	54	1.51
9246686--9246743	18	3.2	18	92	0	89	34	25	12	27	1.91
9246686--9246755	9	7.8	9	70	0	50	35	25	10	28	1.88
9246686--9246758	27	2.7	27	82	0	83	34	26	10	28	1.90
9250900--9250939	18	2.2	19	86	4	55	60	25	0	15	1.35
9254707--9254744	16	2.2	18	81	13	53	31	5	0	63	1.17
9264329--9264429	31	3.4	31	69	21	99	24	19	7	47	1.76
9264329--9264498	91	1.9	88	83	6	216	23	17	11	47	1.80
9264401--9264513	60	1.9	60	83	7	149	23	15	13	48	1.79
9267162--9267188	12	2.2	12	100	0	54	22	22	14	40	1.90
9285232--9285598	44	8.2	44	70	14	241	32	18	21	27	1.97
9285232--9285643	142	3.0	140	89	5	621	33	17	21	27	1.96
9285393--9285664	129	2.1	129	93	0	472	31	19	19	29	1.97
9289967--9290017	25	2.0	25	92	0	84	45	3	1	49	1.32
9290577--9290616	19	2.1	19	85	0	53	30	2	7	60	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9291776--9291807	15	2.1	15	94	0	55	68	9	6	15	1.36
9298182--9298246	16	4.1	16	93	0	112	38	7	35	18	1.80
9310371--9310445	27	2.8	28	75	4	82	24	32	22	21	1.98
9315820--9315895	27	2.8	28	78	6	75	46	0	2	51	1.15
9315843--9315886	18	2.5	17	82	10	52	47	0	2	50	1.13
9315855--9315896	18	2.3	18	91	4	66	47	0	0	52	1.00
9318251--9318294	20	2.3	19	84	11	54	27	0	4	68	1.09
9319703--9319867	91	1.8	90	82	11	212	29	23	12	34	1.91
9319702--9319906	90	2.3	89	80	8	211	31	23	12	32	1.92
9322113--9322231	44	2.7	43	79	13	136	24	20	26	29	1.99
9322110--9322239	43	3.0	43	77	12	158	23	20	26	30	1.98
9326103--9326143	3	13.7	3	100	0	82	68	31	0	0	0.90
9328891--9328929	14	2.7	15	88	8	62	28	10	0	61	1.28
9333398--9333620	43	5.2	43	87	2	299	22	30	18	28	1.97
9346373--9346439	32	2.1	32	97	0	125	55	5	1	37	1.34
9348379--9348458	30	2.7	30	82	0	106	17	26	40	16	1.90
9350306--9350366	24	2.6	24	81	2	61	19	31	27	21	1.97
9351294--9351341	20	2.4	20	85	0	60	43	16	27	12	1.84
9359259--9359612	84	4.2	84	81	2	426	31	31	16	21	1.95
9360295--9360336	6	6.7	6	80	20	50	80	2	4	11	0.95
9363703--9363748	17	2.6	18	80	13	51	45	4	0	50	1.21
9372844--9372882	17	2.3	17	86	8	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9373202--9373314	34	3.3	34	84	0	136	28	17	11	42	1.84
9374626--9374671	24	1.9	24	90	0	74	19	13	21	45	1.84
9377741--9377922	45	4.0	45	76	4	161	30	19	13	36	1.90
9378280--9378642	67	5.4	67	80	3	300	35	15	22	26	1.94
9383257--9383560	67	4.6	67	85	3	389	36	15	22	25	1.93
9402086--9402141	27	2.2	25	81	12	60	62	0	14	23	1.31
9402762--9402791	5	6.0	5	100	0	60	80	0	0	20	0.72
9402983--9403028	21	2.2	20	85	11	58	34	8	0	56	1.30
9404133--9404172	20	2.0	20	100	0	80	35	10	25	30	1.88
9406126--9406176	23	2.3	21	78	18	50	11	23	1	62	1.39
9406170--9406204	17	2.0	18	88	5	54	17	20	2	60	1.49
9416691--9416790	39	2.6	38	85	4	130	39	5	8	48	1.55
9430320--9430374	21	2.6	21	91	0	83	14	20	16	49	1.80
9435176--9435221	22	2.0	24	84	12	62	43	2	2	52	1.25
9435252--9435403	76	2.0	76	97	0	286	50	5	3	40	1.43
9436400--9436480	24	3.6	22	73	15	76	43	1	2	53	1.22
9436411--9436462	27	2.0	26	85	11	70	42	1	1	53	1.23
9436438--9436481	18	2.5	18	89	10	65	40	0	2	56	1.11
9444870--9444914	22	2.0	22	83	8	56	51	0	0	48	1.00
9445163--9445187	13	1.9	13	100	0	50	36	16	16	32	1.90
9446928--9446965	11	3.4	11	96	3	67	39	2	0	57	1.12
9446918--9446975	22	2.7	21	79	10	73	36	1	0	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9446928--9446982	11	4.7	11	76	12	56	40	1	0	58	1.09
9447865--9448026	59	2.7	60	80	6	159	39	10	5	44	1.62
9448526--9448594	29	2.4	27	81	9	75	43	4	8	43	1.55
9448526--9448594	28	2.5	28	83	4	77	43	4	8	43	1.55
9452868--9453111	46	5.6	45	82	10	294	34	14	22	28	1.94
9452904--9452976	36	2.0	36	94	0	128	36	13	20	28	1.91
9452868--9453111	82	2.8	85	82	11	302	34	14	22	28	1.94
9457547--9457706	41	3.9	41	90	1	241	23	18	25	32	1.97
9459782--9459827	23	2.0	23	95	0	83	39	15	13	32	1.85
9460144--9460272	68	1.9	68	85	9	181	38	9	9	42	1.69
9460399--9460541	70	2.1	69	80	9	157	44	9	11	34	1.73
9464831--9465057	110	2.1	110	94	3	404	29	15	15	39	1.89
9467476--9467548	36	2.0	36	86	0	101	28	16	23	31	1.96
9470417--9470456	14	2.9	14	88	0	62	32	5	17	45	1.70
9470440--9470479	20	2.0	20	90	0	62	27	10	12	50	1.72
9470425--9470491	34	1.9	35	93	3	118	31	7	13	47	1.70
9470419--9470495	14	5.0	15	72	20	61	32	7	15	44	1.75
9483699--9483770	27	2.6	28	89	8	103	38	9	1	50	1.44
9483771--9483803	17	2.0	17	88	5	50	84	3	3	9	0.82
9483835--9483919	27	3.1	27	98	0	161	30	27	31	10	1.90
9484742--9484770	14	2.1	14	100	0	58	37	6	0	55	1.27
9487148--9487185	18	2.1	18	90	0	58	15	44	5	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9487151--9487192	18	2.3	18	83	0	57	21	47	2	28	1.63
9488077--9488149	24	3.0	24	88	4	103	12	45	4	38	1.61
9493295--9493334	14	2.9	14	84	0	53	42	17	7	32	1.77
9493365--9493399	3	11.7	3	100	0	70	65	0	0	34	0.93
9493706--9493780	27	2.8	27	91	0	114	16	30	28	25	1.96
9493812--9493848	19	2.0	19	89	5	58	8	2	2	86	0.76
9493850--9493912	27	2.4	27	89	10	96	52	1	6	39	1.37
9493850--9493904	26	2.1	25	93	6	92	56	0	5	38	1.23
9495142--9495224	29	2.8	30	76	12	82	33	0	12	54	1.38
9496038--9496073	16	2.2	16	90	0	54	50	5	5	38	1.49

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