genome.fa.s16.2.7.7.80.10.50.1000.5.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  5  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)
1384616--1384896	125	2.3	124	89	4	424	32	22	16	29	1.95
1384921--1384970	14	3.4	14	77	5	55	44	36	4	16	1.66
1386754--1386812	9	6.4	9	79	11	66	40	25	10	23	1.86
1387083--1387208	39	3.2	38	83	8	146	37	2	0	60	1.10
1387115--1387212	17	5.6	17	67	19	58	39	1	0	59	1.04
1387087--1387191	11	10.2	11	67	24	52	39	2	0	58	1.13
1387142--1387219	21	3.9	21	69	25	69	39	1	0	58	1.06
1393877--1393913	18	2.1	18	100	0	74	62	10	0	27	1.28
1398048--1398211	85	1.9	84	91	1	265	31	7	35	25	1.85
1398452--1398501	22	2.2	24	82	7	59	34	0	8	58	1.28
1398459--1398503	22	2.0	22	91	8	72	31	0	4	64	1.13
1404100--1404126	14	1.9	14	100	0	54	44	0	0	55	0.99
1404464--1404497	15	2.3	15	89	0	50	26	64	5	2	1.30
1410537--1410630	46	2.1	46	90	4	147	58	5	3	32	1.36
1418652--1418721	29	2.4	29	90	0	104	15	24	37	22	1.93
1429730--1429936	109	1.9	109	94	2	371	32	8	21	37	1.84
1432538--1432616	31	2.5	31	79	4	88	24	7	16	51	1.70
1433775--1433803	14	2.0	15	93	6	51	27	3	0	68	1.05
1440306--1440362	30	1.9	29	89	3	87	47	10	5	36	1.61
1440807--1440833	2	13.5	2	100	0	54	51	0	0	48	1.00
1445949--1445992	9	5.1	9	83	5	56	75	2	2	20	1.03
1445949--1445992	16	2.6	17	79	13	54	75	2	2	20	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446599--1446628	7	4.3	7	100	0	60	46	0	0	53	1.00
1451369--1451399	3	10.3	3	92	0	53	35	61	0	3	1.12
1456946--1457382	214	2.0	214	99	0	865	41	10	8	40	1.69
1460737--1460806	26	2.6	27	86	2	97	37	24	25	12	1.91
1462863--1462919	30	1.9	30	89	3	89	40	3	24	31	1.72
1463131--1463162	13	2.5	13	94	0	55	31	0	12	56	1.37
1463265--1463497	50	4.5	50	84	5	272	26	24	29	20	1.99
1463265--1463505	100	2.3	104	86	7	323	25	23	29	21	1.99
1464494--1464524	14	2.2	14	94	0	53	48	12	0	38	1.42
1466235--1466281	5	10.2	5	90	4	57	0	21	0	78	0.75
1466237--1466278	8	4.9	9	88	11	54	0	19	0	80	0.70
1467251--1467288	6	6.5	6	81	6	51	78	5	0	15	0.91
1467251--1467288	18	2.2	17	90	4	58	78	5	0	15	0.91
1471484--1471554	36	2.0	36	88	0	106	42	21	7	29	1.79
1471781--1471889	43	2.5	43	79	5	112	32	25	16	25	1.96
1476156--1476186	14	2.2	14	94	0	53	48	12	0	38	1.42
1483728--1483797	26	2.6	27	86	2	97	37	22	27	12	1.91
1497720--1497851	66	2.0	66	86	5	185	46	6	12	34	1.67
1503570--1503620	18	2.7	19	77	17	54	72	3	0	23	1.01
1504512--1504636	11	11.9	11	66	28	60	40	1	0	58	1.08
1504522--1504582	15	4.2	15	71	23	58	34	3	0	62	1.12
1504502--1504630	43	3.2	40	92	6	206	37	1	0	61	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504594--1504643	13	4.3	13	76	23	58	44	0	0	56	0.99
1504489--1504632	39	3.6	39	80	11	173	38	1	0	59	1.06
1504601--1504650	22	2.3	22	85	0	73	40	0	4	56	1.18
1506608--1506648	21	2.0	21	81	18	50	21	26	19	31	1.97
1514004--1514049	24	1.9	24	86	0	65	45	0	2	52	1.13
1516466--1516506	21	2.0	21	81	18	50	21	26	19	31	1.97
1533759--1533784	2	13.0	2	100	0	52	50	0	50	0	1.00
1534191--1534286	48	2.0	48	97	0	183	38	4	11	45	1.60
1535235--1535326	34	2.7	34	94	0	166	41	1	16	41	1.55
1535570--1535677	49	2.2	49	93	1	180	25	14	12	47	1.79
1535737--1535826	27	3.3	27	80	6	110	23	25	30	21	1.99
1540628--1540668	20	2.0	20	90	0	64	29	17	43	9	1.80
1540994--1541331	127	2.7	125	87	2	484	37	17	15	28	1.91
1544583--1544642	21	2.9	21	82	5	77	15	16	40	28	1.89
1544892--1544934	18	2.4	18	88	0	59	44	9	25	20	1.81
1546455--1546505	24	2.1	24	85	7	68	66	0	0	33	0.92
1556087--1556124	3	12.7	3	88	0	58	28	2	2	65	1.19
1581935--1582032	23	4.3	23	90	2	162	31	26	21	20	1.98
1581942--1582030	45	2.0	45	95	0	160	31	26	22	19	1.97
1583422--1583466	23	2.0	23	86	0	63	35	0	11	53	1.37
1583458--1583492	6	5.8	6	86	0	52	28	2	0	68	1.04
1585464--1585496	17	1.9	17	100	0	66	48	0	9	42	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586237--1586302	34	1.9	34	87	0	96	43	28	1	25	1.63
1586267--1586312	20	2.2	21	88	3	67	39	32	4	23	1.75
1590177--1590260	33	2.8	28	78	18	89	44	13	7	35	1.71
1590936--1590970	17	2.1	17	100	0	70	28	5	20	45	1.73
1592489--1592628	59	2.4	58	85	5	192	25	20	12	41	1.87
1592674--1592790	59	2.0	60	81	8	141	42	17	16	23	1.88
1594389--1594424	18	1.9	19	88	5	56	38	2	5	52	1.39
1594370--1594431	27	2.3	27	78	13	65	40	1	6	51	1.37
1595181--1595231	24	2.2	23	82	3	57	50	7	3	37	1.50
1604851--1604879	2	15.0	2	92	7	51	48	0	0	51	1.00
1605092--1605154	29	2.2	29	81	16	69	42	0	11	46	1.39
1608797--1608863	34	1.9	35	84	3	91	47	8	7	35	1.63
1612005--1612060	29	1.9	29	89	7	87	37	5	10	46	1.62
1613121--1613160	20	2.0	20	85	0	53	50	10	10	30	1.69
1613313--1613355	19	2.3	18	84	7	59	48	9	2	39	1.48
1621500--1621587	41	2.2	41	97	2	169	59	17	4	19	1.54
1626593--1626617	6	4.2	6	100	0	50	36	0	0	64	0.94
1633744--1633779	18	2.0	18	88	0	54	33	5	30	30	1.81
1635237--1635305	29	2.3	31	82	9	81	46	7	4	42	1.51
1635574--1635613	20	2.0	20	90	0	62	30	10	10	50	1.69
1635703--1635754	18	2.7	20	74	17	56	36	3	0	59	1.16
1636970--1637011	18	2.4	18	88	4	59	45	0	7	47	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636970--1637011	12	3.6	12	83	3	50	45	0	7	47	1.30
1640171--1640220	25	2.0	25	100	0	100	24	28	8	40	1.83
1640128--1640266	71	2.0	68	91	4	224	26	24	13	35	1.93
1640196--1640396	46	4.6	46	80	17	257	28	20	13	36	1.92
1640288--1640360	36	2.0	36	92	5	121	27	19	15	38	1.91
1640242--1640396	82	1.9	82	93	2	267	28	20	13	37	1.91
1642856--1642929	31	2.4	31	90	0	112	31	17	24	27	1.97
1646631--1646659	3	9.7	3	100	0	58	34	0	0	65	0.93
1671694--1671738	18	2.6	17	77	19	56	33	2	2	62	1.20
1673485--1673537	21	2.5	21	87	0	79	30	33	9	26	1.88
1675703--1675737	14	2.5	14	90	9	54	48	14	8	28	1.73
1691082--1691267	73	2.5	73	99	0	363	27	6	24	40	1.80
1695483--1695520	3	12.7	3	100	0	76	31	0	0	68	0.90
1696973--1697150	27	6.6	27	84	3	205	29	28	15	26	1.96
1696994--1697149	82	1.9	81	88	3	233	29	28	15	26	1.96
1704329--1704353	13	1.9	13	100	0	50	32	8	0	60	1.26
1707932--1707979	21	2.1	23	85	11	64	35	0	2	62	1.07
1708055--1708131	13	6.6	12	70	29	60	41	0	1	57	1.07
1708059--1708123	22	3.1	20	82	8	76	41	0	1	56	1.08
1708048--1708123	21	3.5	21	83	7	98	40	0	1	57	1.07
1708186--1708295	12	9.6	12	69	16	63	52	2	0	44	1.15
1708164--1708294	11	11.1	12	70	19	71	53	3	0	42	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708174--1708295	34	3.6	34	76	14	126	54	3	0	42	1.17
1708407--1708446	16	2.6	15	85	14	55	65	2	0	32	1.06
1708424--1708469	24	1.9	25	86	8	69	58	0	0	41	0.98
1713810--1714735	132	7.0	132	95	0	1654	29	25	16	28	1.97
1719681--1720212	266	2.0	266	98	0	1028	22	25	18	33	1.97
1734554--1734917	94	4.0	94	88	8	563	31	18	17	31	1.95
1734725--1734902	82	2.2	82	97	0	338	32	19	17	30	1.95
1738773--1739956	44	27.0	44	76	8	1010	30	26	16	26	1.96
1739078--1739956	132	6.7	132	96	1	1583	30	26	16	26	1.96
1739078--1739956	392	2.2	395	95	2	1583	30	26	16	26	1.96

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