genome.fa.s17.2.7.7.80.10.50.1000.5.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  5  of  173  ( 20651 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)
1377872--1377922	5	10.2	5	80	16	61	41	0	0	58	0.98
1377872--1377927	18	3.2	18	76	5	69	41	0	0	58	0.98
1378148--1378179	16	1.9	17	93	6	57	75	0	25	0	0.81
1379150--1379290	39	3.6	38	93	1	219	19	22	21	36	1.95
1382066--1382141	25	3.3	23	74	15	61	71	3	22	2	1.16
1382759--1382848	41	2.3	37	81	11	101	26	15	24	33	1.95
1383785--1383886	51	2.0	51	100	0	204	27	23	21	27	1.99
1384866--1384917	19	2.6	20	73	14	54	42	15	0	42	1.47
1391207--1391284	41	1.9	41	92	2	131	29	21	15	33	1.94
1395543--1395572	6	4.8	6	95	4	51	0	46	16	36	1.47
1395543--1395577	12	2.7	13	86	13	54	0	45	17	37	1.48
1398768--1398811	18	2.5	18	81	3	54	45	4	15	34	1.67
1408369--1408624	127	2.0	128	92	2	426	40	12	10	36	1.77
1409167--1409206	14	2.9	14	88	0	53	37	30	7	25	1.83
1413406--1413442	18	2.1	18	89	0	56	27	29	8	35	1.85
1420027--1420077	23	2.3	22	75	18	52	68	1	3	25	1.17
1420780--1420804	11	2.3	11	100	0	50	44	0	0	56	0.99
1420847--1420885	19	2.1	19	85	4	53	41	0	2	56	1.13
1420816--1420887	28	2.5	28	73	10	74	41	0	2	55	1.14
1424348--1424390	22	2.0	22	85	0	59	13	18	25	41	1.88
1424479--1424689	43	4.9	43	86	5	266	29	32	16	20	1.95
1424467--1424646	43	4.2	43	90	3	283	27	33	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424546--1424699	42	3.6	42	85	5	114	33	31	15	20	1.94
1431791--1431859	3	23.7	3	85	5	97	60	0	4	34	1.16
1432294--1432318	9	2.8	9	100	0	50	92	0	0	8	0.40
1433561--1433612	26	2.0	26	84	0	68	51	3	1	42	1.31
1433822--1433901	18	4.3	18	72	20	67	25	1	2	71	1.06
1433860--1433909	24	2.1	24	84	0	64	22	2	6	70	1.20
1438019--1438057	19	2.0	20	95	5	71	43	0	10	46	1.37
1441490--1441522	17	2.0	17	88	5	50	48	24	0	27	1.51
1441990--1442026	18	2.0	20	89	10	60	37	2	2	56	1.28
1441991--1442033	18	2.4	18	76	0	50	30	2	2	65	1.18
1442478--1442514	20	1.9	20	88	5	58	43	0	10	45	1.39
1443983--1444069	44	2.0	44	97	2	167	27	21	16	34	1.95
1444807--1444840	15	2.4	14	85	9	50	52	0	2	44	1.16
1444919--1444982	27	2.4	27	94	0	119	28	23	32	15	1.95
1445196--1445221	12	2.2	12	100	0	52	38	0	15	46	1.46
1445290--1445565	22	13.0	21	75	16	232	30	1	13	55	1.45
1445261--1445448	61	3.1	60	72	17	188	30	1	12	55	1.44
1445288--1445640	19	18.2	19	68	24	170	30	0	13	54	1.46
1445434--1445645	49	4.5	49	79	13	250	30	0	14	54	1.47
1445412--1445592	90	2.0	91	93	3	310	30	1	13	54	1.46
1445555--1445618	8	7.4	8	77	16	65	35	0	17	46	1.48
1445414--1445640	22	9.8	24	79	16	157	30	0	14	53	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445633--1445754	60	2.0	60	85	3	165	30	0	14	54	1.47
1445788--1445869	38	2.2	38	93	0	137	53	4	2	39	1.35
1446228--1446272	22	2.1	21	91	4	72	0	33	2	64	1.06
1446338--1446417	26	3.0	26	77	3	88	22	33	25	18	1.97
1448678--1448718	7	5.9	7	88	0	55	36	58	0	4	1.20
1448671--1448722	14	3.7	14	84	0	68	36	53	0	9	1.34
1448678--1448731	28	1.9	28	88	0	81	37	53	0	9	1.33
1449367--1449455	40	2.2	40	82	5	101	20	23	22	33	1.97
1449402--1449477	40	1.9	40	83	5	100	22	19	21	36	1.95
1457806--1457848	21	2.0	21	82	8	52	34	2	6	55	1.39
1457920--1457961	21	2.0	21	85	0	57	33	0	4	61	1.17
1457879--1457981	48	2.2	45	81	10	134	39	0	1	57	1.16
1457866--1457981	47	2.5	46	77	4	133	39	0	2	56	1.19
1458150--1458203	16	3.4	16	87	5	74	29	27	3	38	1.74
1459527--1459606	30	2.6	32	77	13	89	36	15	12	36	1.85
1462889--1462965	14	5.0	15	71	20	52	42	14	9	33	1.77
1462905--1462944	20	2.0	20	90	0	62	50	12	10	27	1.72
1462893--1462959	34	1.9	35	90	3	109	46	13	8	31	1.74
1463356--1463394	20	2.0	20	94	0	69	61	0	5	33	1.18
1469234--1469376	9	15.6	9	65	20	57	32	4	2	60	1.30
1469284--1469324	16	2.5	16	88	4	55	31	0	0	68	0.90
1469298--1469352	19	2.8	20	81	8	60	27	1	3	67	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1469310--1469376	19	3.4	18	83	8	62	29	4	2	62	1.29
1471552--1471621	35	2.0	35	83	5	88	58	1	7	32	1.34
1471836--1471884	15	3.1	16	82	8	55	59	0	6	34	1.22
1477054--1477091	14	2.8	14	84	4	51	23	2	5	68	1.23
1479907--1479946	18	2.2	18	90	0	62	45	0	2	52	1.14
1486498--1487074	287	2.0	287	100	0	1154	27	20	19	32	1.97
1494387--1494421	7	5.1	7	86	6	54	0	11	0	88	0.51
1494386--1494418	13	2.5	13	90	0	57	0	9	0	90	0.44
1499949--1500024	23	3.3	23	78	10	100	34	3	15	46	1.65
1499938--1500032	47	2.0	47	100	0	190	33	4	14	47	1.64
1501591--1501648	30	2.0	30	83	10	75	37	8	8	44	1.66
1503123--1503175	22	2.4	22	80	0	61	64	15	7	13	1.49
1504831--1504907	29	2.6	29	83	4	91	49	14	12	23	1.78
1507557--1507585	12	2.3	13	94	5	51	55	3	0	41	1.17
1512971--1512995	13	1.9	13	100	0	50	24	16	12	48	1.79
1513619--1513679	30	2.0	31	90	3	97	19	44	0	36	1.51
1514490--1514521	5	6.4	5	92	0	55	21	15	18	43	1.87
1522308--1522371	20	3.3	19	86	4	74	60	0	6	32	1.21
1522319--1522384	10	6.7	10	82	8	73	59	0	6	34	1.22
1522305--1522384	19	4.2	20	78	9	69	58	0	6	35	1.23
1522415--1522449	18	2.0	18	88	5	54	65	0	2	31	1.07
1522607--1522660	10	5.6	10	84	6	58	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522607--1522639	11	3.1	11	91	4	50	30	0	0	69	0.88
1522606--1522678	19	3.7	20	74	7	69	35	0	1	63	1.04
1522607--1522649	21	2.0	21	86	0	59	34	0	0	65	0.93
1522606--1522678	29	2.5	30	81	2	94	35	0	1	63	1.04
1522636--1522681	20	2.3	20	85	3	58	34	0	2	63	1.07
1522827--1523024	90	2.2	91	85	6	258	36	9	18	35	1.83
1522840--1523059	90	2.5	87	81	10	234	35	9	17	38	1.82
1526813--1526912	49	2.0	49	96	0	182	47	9	18	26	1.78
1530143--1530176	6	5.7	6	100	0	68	17	0	0	82	0.67
1530347--1530412	32	2.2	30	84	12	84	69	7	0	22	1.13
1533108--1533172	20	3.2	20	82	4	67	50	1	3	44	1.26
1533447--1533501	28	1.9	29	85	3	76	65	1	1	30	1.13
1533595--1533653	17	3.5	17	73	11	59	18	3	3	74	1.10
1535368--1535416	25	2.0	25	83	0	62	34	26	20	18	1.95
1535383--1535447	24	2.7	24	74	11	60	32	23	27	16	1.96
1539093--1539148	26	2.1	28	83	6	71	58	5	7	28	1.46
1548426--1548465	19	2.1	19	85	0	53	75	0	2	22	0.93
1548462--1548554	48	1.9	49	82	10	120	51	8	6	33	1.58
1550152--1550181	2	15.0	2	100	0	60	0	50	0	50	1.00
1552345--1552369	7	3.6	7	100	0	50	36	0	16	48	1.46
1563978--1564010	18	1.9	18	88	11	52	33	0	12	54	1.37
1568926--1568988	31	2.0	31	100	0	126	28	0	19	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574763--1574795	16	2.2	16	89	10	52	48	9	0	42	1.35
1577331--1577380	26	1.9	26	88	8	75	38	2	0	60	1.09
1577322--1577372	14	3.7	13	75	14	57	37	1	0	60	1.08
1579398--1579438	20	2.0	21	90	4	66	31	0	4	63	1.15
1580208--1580246	19	2.1	19	95	0	69	61	0	2	35	1.10
1585695--1585722	2	14.0	2	100	0	56	0	50	0	50	1.00
1594497--1594531	14	2.5	14	85	0	52	2	40	0	57	1.14
1594495--1594531	16	2.3	16	90	0	56	2	40	0	56	1.13
1600357--1600391	16	2.2	16	89	0	52	11	0	22	65	1.24
1605892--1606165	137	2.0	137	89	1	415	37	19	14	27	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