genome.fa.s127.2.7.7.80.10.50.1000.8.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  8  of  26  ( 3103 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)
1403459--1403504	11	4.1	11	84	15	58	39	2	0	58	1.10
1403459--1403516	29	2.0	30	86	10	84	43	1	0	55	1.10
1403897--1403960	19	3.7	18	72	14	62	46	0	1	51	1.10
1404132--1404164	2	16.5	2	100	0	66	51	0	48	0	1.00
1404231--1404280	3	15.3	3	95	4	64	70	0	0	30	0.88
1404787--1404837	18	3.1	16	86	13	68	50	1	0	47	1.12
1405194--1405263	31	2.2	32	82	10	90	54	0	0	45	0.99
1405239--1405281	22	2.0	22	90	9	70	60	0	0	39	0.97
1406646--1406672	2	13.5	2	100	0	54	51	0	0	48	1.00
1409470--1409538	12	5.9	12	78	9	63	65	0	0	34	0.93
1410049--1410105	17	3.1	19	80	14	57	61	3	0	35	1.13
1415262--1415297	15	2.2	17	90	9	58	61	2	0	36	1.11
1415667--1415716	15	3.3	15	73	18	50	50	4	0	46	1.20
1415787--1415842	26	2.2	25	84	6	76	48	0	0	51	1.00
1415797--1415879	26	3.1	26	82	8	96	43	2	1	53	1.21
1415803--1415877	13	5.7	13	69	9	62	45	2	1	50	1.24
1415893--1415924	15	2.1	15	94	0	55	56	3	0	40	1.15
1416200--1416264	23	2.8	24	76	2	69	49	1	1	47	1.20
1416818--1416888	16	4.1	19	67	18	57	45	0	0	54	0.99
1416815--1416857	20	2.0	22	86	8	63	39	0	0	60	0.97
1424822--1424975	54	2.8	55	96	2	283	37	19	14	29	1.91
1427589--1427628	15	2.8	14	82	17	55	35	0	2	62	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428866--1428944	40	2.0	39	85	2	104	43	11	6	39	1.66
1429355--1429405	17	2.9	17	75	16	50	56	1	0	41	1.10
1430472--1430512	16	2.5	17	76	11	50	41	0	0	58	0.98
1430561--1430592	2	16.0	2	100	0	64	50	0	0	50	1.00
1431210--1431238	11	2.6	11	100	0	58	65	0	0	34	0.93
1431223--1431283	29	2.1	30	84	9	81	65	0	1	32	1.02
1431197--1431271	24	3.3	23	75	15	75	69	0	0	30	0.89
1431216--1431289	29	2.5	28	79	12	78	64	0	2	32	1.07
1434255--1434279	3	8.3	3	100	0	50	68	0	0	32	0.90
1434525--1434565	19	2.2	18	86	8	55	60	0	2	36	1.10
1434620--1434667	24	1.9	26	87	8	73	45	0	2	52	1.12
1434669--1434738	26	2.6	27	82	10	74	45	0	2	51	1.16
1435093--1435133	22	2.0	22	90	9	68	46	0	0	53	1.00
1437942--1437988	23	2.0	23	83	0	58	46	0	0	53	1.00
1444656--1444692	2	19.5	2	83	10	51	51	0	0	48	1.00
1446640--1446673	2	17.0	2	100	0	68	50	0	0	50	1.00
1452674--1452723	17	2.9	17	80	13	57	64	2	0	34	1.05
1452685--1452748	13	4.6	13	70	25	51	62	3	0	34	1.11
1452680--1452726	14	3.1	17	77	22	59	63	4	0	31	1.13
1453444--1453495	26	2.0	26	92	0	86	30	28	19	21	1.97
1454409--1454448	21	1.9	21	90	10	64	60	0	0	40	0.97
1461731--1461757	9	3.0	9	100	0	54	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1462282--1462324	17	2.4	18	81	11	54	48	0	0	51	1.00
1463158--1463206	20	2.4	22	77	19	61	57	0	0	42	0.99
1463159--1463202	18	2.3	20	84	7	56	56	0	0	43	0.99
1463826--1463901	31	2.6	27	79	16	98	42	0	1	56	1.07
1463868--1463939	22	2.9	24	74	16	67	45	0	0	54	0.99
1463872--1463912	20	2.0	20	85	9	55	51	0	0	48	1.00
1463856--1463958	23	4.3	23	69	21	68	42	0	0	55	1.13
1463921--1463965	23	2.0	22	83	8	56	40	2	0	57	1.11
1464163--1464204	14	3.1	14	89	3	59	64	0	0	35	0.94
1469143--1469197	16	3.6	16	72	20	55	34	0	0	65	0.93
1477238--1477263	1	26.0	1	100	0	52	0	0	0	100	0.00
1478162--1478221	30	2.0	30	100	0	120	83	6	10	0	0.81
1481512--1481551	2	20.0	2	94	0	71	47	2	0	50	1.14
1484364--1484403	20	2.0	20	90	0	62	40	2	0	57	1.12
1484832--1484883	22	2.6	19	77	16	59	51	0	0	48	1.00
1484825--1484892	23	2.8	23	78	13	66	55	0	0	44	0.99
1484827--1484886	20	3.0	20	79	11	68	53	0	0	46	1.00
1485124--1485189	33	2.0	32	85	11	89	42	0	1	56	1.08
1485444--1485468	2	12.5	2	100	0	50	52	0	0	48	1.00
1485574--1485623	15	3.3	15	75	10	57	36	0	0	64	0.94
1496064--1496106	22	2.0	21	91	8	70	53	0	0	46	1.00
1496089--1496137	17	2.7	18	84	9	64	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496110--1496140	13	2.4	13	100	0	62	51	0	0	48	1.00
1502538--1502576	2	19.5	2	89	0	60	2	2	43	51	1.29
1509408--1509446	3	13.0	3	100	0	78	33	0	0	66	0.92
1510193--1510271	39	2.0	39	100	0	158	43	5	12	39	1.65
1510491--1510528	19	2.1	19	90	5	60	26	10	13	50	1.73
1513937--1513968	2	16.0	2	100	0	64	50	0	0	50	1.00
1513968--1513994	2	13.5	2	100	0	54	51	0	48	0	1.00
1514105--1514147	2	21.5	2	90	0	68	46	2	0	51	1.13
1514112--1514157	10	4.6	10	91	0	56	41	0	0	58	0.98
1516856--1516901	2	23.0	2	100	0	92	50	0	0	50	1.00
1519507--1519565	31	1.9	31	92	0	100	35	5	16	42	1.71
1529282--1529334	5	10.8	5	82	11	56	39	0	0	60	0.97
1529279--1529321	21	2.0	21	86	0	59	39	0	0	60	0.97
1529408--1529461	21	2.6	21	79	2	65	53	1	1	42	1.22
1529440--1529497	26	2.1	28	81	12	68	46	0	1	51	1.11
1529441--1529507	28	2.4	26	70	9	62	47	0	1	50	1.10
1532818--1532897	40	2.0	40	100	0	160	37	10	12	40	1.77
1533529--1533555	2	13.5	2	100	0	54	48	0	0	51	1.00
1537786--1537840	25	2.2	25	83	6	67	50	0	0	49	1.00
1538673--1538768	27	3.7	27	81	4	99	43	22	9	23	1.82
1543229--1543292	27	2.3	27	81	5	74	54	12	4	28	1.57
1552784--1552853	27	2.6	25	80	12	77	60	4	1	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1552785--1552860	29	2.8	29	77	18	74	60	3	1	34	1.23
1553421--1553521	12	8.8	11	72	15	64	64	0	0	35	0.94
1553430--1553515	27	3.2	29	78	18	91	63	0	0	36	0.94
1553451--1553516	11	5.9	11	74	10	53	59	0	0	40	0.98
1553730--1553778	20	2.6	19	84	15	66	40	0	0	59	0.98
1553736--1553783	23	2.3	23	86	13	68	37	0	0	62	0.95
1557432--1557503	34	2.1	34	94	0	126	41	11	8	38	1.71
1557917--1557948	2	16.0	2	100	0	64	50	0	0	50	1.00
1562008--1562064	27	2.1	28	86	3	80	56	1	0	42	1.10
1567043--1567117	24	2.9	24	86	9	87	28	0	1	70	0.95
1567900--1567945	15	3.2	15	72	9	51	30	0	4	65	1.12
1567929--1567983	23	2.4	23	77	17	60	32	1	10	54	1.46
1569509--1569549	22	2.0	20	85	9	55	43	0	2	53	1.13
1576148--1576173	2	13.0	2	100	0	52	50	0	0	50	1.00
1576467--1576506	21	2.0	20	85	5	53	60	0	0	40	0.97
1576469--1576539	32	2.2	32	82	5	79	47	0	0	52	1.00
1576488--1576638	32	4.9	33	68	20	103	37	0	1	60	1.08
1576517--1576631	20	5.9	19	72	23	80	36	0	2	60	1.10
1576524--1576631	40	2.7	39	77	8	103	35	0	2	62	1.10
1576491--1576656	90	1.9	89	87	1	242	34	0	1	63	1.10
1576517--1576637	10	12.3	10	65	23	53	35	0	2	61	1.09
1577051--1577090	21	1.9	21	85	10	55	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577314--1577388	37	2.0	37	82	5	89	41	0	0	58	0.98
1584660--1584700	19	2.2	19	86	8	57	68	0	0	31	0.90
1585337--1585364	3	9.3	3	100	0	56	67	0	0	32	0.91
1588108--1588136	3	9.7	3	100	0	58	68	0	0	31	0.89
1588421--1588459	21	2.0	21	90	10	64	48	0	2	48	1.15
1590378--1590450	36	2.0	36	84	5	94	50	1	1	46	1.18
1591819--1591859	21	2.0	20	85	4	55	51	0	0	48	1.00
1592554--1592586	16	2.0	17	88	5	50	27	0	3	69	1.03
1592849--1592935	30	2.8	32	72	13	83	51	0	0	48	1.00
1593490--1593547	31	1.9	31	86	10	84	58	0	0	41	0.98

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