genome.fa.s5.2.7.7.80.10.50.1000.4.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  4  of  103  ( 12320 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)
1517463--1517494	2	16.0	2	93	0	55	46	0	3	50	1.17
1517782--1517819	19	2.0	19	94	0	67	34	0	0	65	0.93
1517782--1517816	9	3.8	9	88	7	52	34	0	0	65	0.93
1517784--1517819	10	3.7	10	88	7	56	30	0	0	69	0.89
1518511--1518593	41	2.0	41	88	4	123	40	22	2	33	1.67
1533405--1533434	2	15.0	2	92	0	51	0	50	3	46	1.18
1535242--1535289	15	3.2	15	78	0	51	70	4	0	25	1.04
1540042--1540071	2	15.0	2	100	0	60	0	50	0	50	1.00
1540257--1540286	2	15.0	2	100	0	60	0	50	0	50	1.00
1542285--1542330	2	24.5	2	87	12	71	50	0	0	50	1.00
1555121--1555158	19	2.0	19	85	10	51	36	15	5	42	1.70
1555220--1555315	29	3.3	28	76	15	97	53	1	2	43	1.19
1569160--1569221	31	2.0	31	87	0	88	33	20	20	24	1.97
1569463--1569491	2	14.5	2	100	0	58	0	51	0	48	1.00
1599429--1599507	40	2.0	40	92	5	133	17	22	24	35	1.95
1601239--1601384	74	2.0	74	95	2	258	28	19	15	36	1.92
1601811--1601861	23	2.2	24	82	10	61	23	5	5	64	1.38
1602171--1602249	40	2.0	40	94	0	140	17	22	25	34	1.96
1610169--1610206	20	1.9	20	89	10	60	63	0	0	36	0.95
1610168--1610212	20	2.2	20	80	7	56	64	2	0	33	1.06
1613338--1613416	22	3.3	26	76	20	91	51	0	0	48	1.00
1613338--1613379	15	3.0	15	76	20	54	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1613358--1613399	15	2.8	15	85	7	50	50	0	0	50	1.00
1613940--1613994	26	2.1	26	90	6	85	41	1	0	56	1.10
1613941--1614004	15	4.6	14	74	18	62	43	1	0	54	1.09
1613945--1614019	41	1.9	41	86	8	111	41	1	0	57	1.07
1613983--1614047	26	2.6	25	79	13	71	33	0	1	64	1.03
1614194--1614272	22	3.7	21	77	14	72	44	1	1	53	1.16
1614214--1614245	16	2.0	16	100	0	64	43	0	0	56	0.99
1614214--1614287	20	3.7	19	78	12	69	44	0	0	55	0.99
1614230--1614289	27	2.3	26	88	8	88	46	0	0	53	1.00
1629033--1629270	116	2.1	116	99	0	467	40	22	13	23	1.89
1636728--1636774	21	2.2	21	92	0	76	38	34	12	14	1.85
1637952--1638064	36	3.1	36	84	0	163	27	30	11	30	1.92
1638763--1638812	22	2.5	20	78	21	59	26	0	0	74	0.83
1647195--1647233	20	1.9	21	89	5	62	64	7	0	28	1.21
1647371--1647415	23	2.0	22	86	4	63	53	0	0	46	1.00
1648424--1648463	13	3.1	13	81	0	53	0	17	2	80	0.83
1654359--1654386	3	9.3	3	100	0	56	64	0	0	35	0.94
1655162--1655206	12	3.8	12	78	0	54	42	22	0	35	1.54
1655163--1655212	24	2.1	24	88	0	73	46	18	0	36	1.49
1655404--1655436	17	1.9	17	93	0	57	81	0	15	3	0.80
1660520--1660598	26	3.0	27	66	15	74	30	7	15	46	1.73
1660520--1660624	53	2.0	53	92	0	174	28	10	16	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667908--1667949	21	2.1	19	86	8	57	50	4	0	45	1.23
1668369--1668396	13	2.2	13	100	0	56	71	7	0	21	1.09
1672518--1672794	122	2.3	122	97	1	522	37	14	9	38	1.78
1683813--1683855	21	2.1	20	82	4	50	46	13	11	27	1.78
1697322--1697368	2	23.5	2	82	0	58	0	44	6	48	1.28
1711134--1711187	2	27.5	2	83	10	67	1	50	1	44	1.23
1730878--1731001	55	2.3	55	77	5	133	45	7	3	43	1.47
1730900--1731009	27	4.0	27	76	6	105	46	9	4	40	1.56
1732340--1732411	30	2.4	29	86	2	81	55	6	5	31	1.50
1732349--1732449	30	3.4	29	78	9	98	52	6	6	33	1.55
1734584--1734625	18	2.3	18	100	0	84	38	9	14	38	1.78
1741366--1741400	16	2.1	17	89	5	54	22	0	2	74	0.95
1750325--1750360	12	3.0	12	83	0	54	0	13	0	86	0.58
1750784--1751071	157	1.8	156	83	5	384	41	9	11	37	1.74
1768273--1768319	23	1.9	23	87	12	67	76	2	19	2	0.99
1773373--1773630	128	2.0	127	91	3	401	34	18	10	37	1.84
1778671--1778778	51	2.1	51	96	0	207	12	43	12	29	1.81
1778842--1778867	2	13.0	2	100	0	52	0	50	0	50	1.00
1778961--1778999	2	19.5	2	94	0	69	2	0	48	48	1.15
1779749--1779779	15	2.1	15	100	0	62	25	6	25	41	1.79
1782946--1783055	54	2.0	54	94	0	193	20	17	13	49	1.80
1783446--1783534	27	3.2	27	63	20	65	7	20	25	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783395--1783576	57	3.2	57	93	0	319	9	22	23	45	1.81
1783416--1783564	30	5.2	30	61	18	91	10	24	22	43	1.83
1785986--1786427	93	4.7	93	77	6	361	20	23	13	42	1.87
1786081--1786491	93	4.4	93	75	10	300	18	24	12	44	1.84
1788829--1788870	12	3.4	13	81	18	54	28	4	9	57	1.51
1789871--1789912	2	21.0	2	90	0	66	0	2	47	50	1.14
1790507--1791217	249	2.9	246	88	3	1036	32	20	14	32	1.92
1791260--1791286	2	13.5	2	100	0	54	51	48	0	0	1.00
1791050--1791645	269	2.2	265	82	3	732	29	23	14	32	1.94
1791672--1791831	57	2.8	57	77	5	144	16	18	18	46	1.85
1791737--1791849	57	2.0	57	89	0	172	12	17	22	47	1.81
1792223--1792840	277	2.2	275	78	8	610	36	11	15	36	1.84
1794703--1795147	93	4.8	93	78	6	418	17	24	15	42	1.88
1794709--1795147	189	2.3	185	80	7	456	17	24	15	42	1.88
1798508--1798649	76	1.9	76	85	4	198	30	14	15	39	1.88
1798780--1798849	33	2.1	33	100	0	140	30	7	20	42	1.78
1811045--1811087	23	1.9	23	85	4	61	44	0	6	48	1.29
1816483--1816547	32	2.0	33	87	6	96	35	20	6	38	1.77
1821829--1821937	55	2.0	55	88	0	164	41	14	11	33	1.81
1825587--1825659	39	1.9	37	83	10	94	36	2	2	57	1.27
1825625--1825654	13	2.2	14	94	5	53	40	0	0	60	0.97
1828354--1828383	3	9.7	3	92	7	51	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838050--1838083	16	2.1	16	100	0	68	17	5	5	70	1.28
1838242--1838275	18	1.9	18	88	5	52	41	5	0	52	1.25
1838380--1838424	15	2.8	16	83	13	56	17	4	2	75	1.07
1838515--1838539	13	1.9	13	100	0	50	24	4	0	72	1.02
1838515--1838557	14	2.9	14	82	6	50	27	2	2	67	1.15
1838528--1838573	17	2.6	17	81	15	58	30	0	4	65	1.12
1838528--1838573	18	2.6	18	83	12	60	30	0	4	65	1.12
1838344--1838614	133	2.0	135	92	4	458	36	7	9	47	1.63
1841240--1841268	13	2.1	14	93	6	51	82	0	13	3	0.79
1851747--1851786	20	2.0	20	85	0	53	32	0	0	67	0.91
1851778--1851826	7	6.2	8	80	19	50	53	0	0	46	1.00
1851778--1851905	24	5.6	23	72	18	90	48	1	0	49	1.16
1851785--1851829	8	5.5	8	80	15	56	53	0	0	46	1.00
1851819--1851905	41	2.1	41	81	8	97	45	2	1	50	1.21
1851850--1851993	15	10.2	14	65	21	52	45	1	1	51	1.18
1851777--1851871	49	2.0	48	81	6	111	48	2	1	48	1.20
1851842--1851884	15	2.9	15	86	3	61	44	2	0	53	1.13
1851836--1851927	41	2.2	41	81	9	116	44	1	2	52	1.20
1851928--1851987	26	2.3	27	80	11	72	48	1	0	50	1.11
1851955--1852022	20	3.1	22	74	19	63	52	0	1	45	1.09
1851959--1852073	15	7.9	15	71	13	71	51	0	1	46	1.17
1852100--1852132	8	4.4	8	96	3	52	0	6	0	93	0.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852468--1852510	2	21.5	2	100	0	86	51	0	0	48	1.00
1854131--1854157	7	3.9	7	100	0	54	14	14	14	55	1.70
1857963--1857995	2	17.5	2	87	12	52	48	0	51	0	1.00
1858048--1858087	2	20.5	2	94	5	73	50	0	50	0	1.00
1862915--1862945	15	2.1	15	93	0	53	32	25	22	19	1.97
1877116--1877149	3	11.3	3	93	0	59	0	2	67	29	1.05
1882732--1882763	16	2.1	16	94	5	57	34	0	0	65	0.93
1882759--1882827	34	2.1	32	83	5	84	50	1	1	44	1.19
1882782--1882832	23	2.2	22	80	16	59	49	0	1	47	1.13
1882683--1883028	127	2.8	124	83	10	411	40	2	2	54	1.27

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