Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 11 of 16
Found at i:1717731 original size:19 final size:19
Alignment explanation
Indices: 1717673--1717737 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1717663 TACAAGCCAA
1717673 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
1717694 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1717707 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1717726 TGTATCGATACA
1 TGTATCGATACA
1717738 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1719057 original size:51 final size:51
Alignment explanation
Indices: 1719000--1719135 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
1718990 TTTTAATTAG
* *
1719000 ATGTATCGATGCATTGAAAAATATATTGACACATCTAGAAAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATATATCGACACATCTAGAAAAAAAGACAGA
* * * * **
1719051 ATGTATCGATACATTGAAAAATGTATCGATATATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATATATCGACACATCTAGAAAAAAAGACAGA
* * * *
1719102 ATGTATCTATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATATATCGACACAT
1719136 GATGAATGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATATATCGACACATCTAGAAAAAAAGACAGA
Found at i:1719124 original size:20 final size:20
Alignment explanation
Indices: 1719099--1719171 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
1719089 GTAAAAAGAC
*
1719099 AGAATGTATCTATACATTGA
1 AGAATGTATCGATACATTGA
1719119 AGAATGTATCGATACA-TGA
1 AGAATGTATCGATACATTGA
*
1719138 TGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
1719158 AAAATTTATCGATA
1 AGAATGTATCGATA
1719172 TATTTGGGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1725401 original size:17 final size:17
Alignment explanation
Indices: 1725356--1725424 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
1725346 GTGTTTGCTA
*
1725356 TTTATTTGTTTATATTTG
1 TTTATTTATTT-TATTTG
1725374 TTTATTTATTTTATTT-
1 TTTATTTATTTTATTTG
* *
1725390 TTTGTTTAATTTTATTTAC
1 TTTATTT-ATTTTATTT-G
1725409 TTTATTT-TCTTTATTT
1 TTTATTTAT-TTTATTT
1725425 AATGTTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 6 0.14
17 15 0.34
18 17 0.39
19 6 0.14
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.75
Consensus pattern (17 bp):
TTTATTTATTTTATTTG
Found at i:1728662 original size:19 final size:20
Alignment explanation
Indices: 1728621--1728672 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1728611 TACATCCAGA
1728621 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
1728641 TGTATCGATACATGT-T-CTT
1 TGTATCGATACAT-TATGCTT
*
1728660 TGTATCAATACAT
1 TGTATCGATACAT
1728673 ACTCAATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 15 0.50
20 14 0.47
21 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:1728747 original size:20 final size:20
Alignment explanation
Indices: 1728717--1728774 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
1728707 CTACCCTAAG
1728717 TGAAATGTATCGATACATGA
1 TGAAATGTATCGATACATGA
*
1728737 -GACATTGTATCGATACATGA
1 TGA-AATGTATCGATACATGA
1728757 TGAAATGTATCGATACAT
1 TGAAATGTATCGATACAT
1728775 TATGCCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
TGAAATGTATCGATACATGA
Found at i:1732546 original size:13 final size:13
Alignment explanation
Indices: 1732528--1732552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1732518 ATTATGCTTC
1732528 GTATCGATACATT
1 GTATCGATACATT
1732541 GTATCGATACAT
1 GTATCGATACAT
1732553 AGACAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1732628 original size:20 final size:20
Alignment explanation
Indices: 1732603--1732640 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1732593 TATCACTGTT
1732603 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
1732623 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
1732641 CGATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:1732639 original size:13 final size:13
Alignment explanation
Indices: 1732623--1732670 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1732613 CATGGTATAA
1732623 TGTATCGATACAT
1 TGTATCGATACAT
1732636 TGTATCGATACA-
1 TGTATCGATACAT
1732648 TG-AT-G--A-AT
1 TGTATCGATACAT
1732656 TGTATCGATACAT
1 TGTATCGATACAT
1732669 TG
1 TG
1732671 CTTATAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 16 0.55
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1732644 original size:33 final size:33
Alignment explanation
Indices: 1732602--1732670 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
1732592 CTATCACTGT
1732602 TTGTATCGATACATGGTAT-AA-TGTATCGATACA
1 TTGTATCGATACAT-G-ATGAATTGTATCGATACA
1732635 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
1732668 TTG
1 TTG
1732671 CTTATAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 29 0.85
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:1736298 original size:18 final size:18
Alignment explanation
Indices: 1736275--1736311 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1736265 TAGAACCATG
1736275 CTTTGTGAAAATAATTTA
1 CTTTGTGAAAATAATTTA
1736293 CTTTGTGAAAATAATTTA
1 CTTTGTGAAAATAATTTA
1736311 C
1 C
1736312 CAAGATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (18 bp):
CTTTGTGAAAATAATTTA
Found at i:1741369 original size:19 final size:20
Alignment explanation
Indices: 1741342--1741393 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
1741332 GTATTGATAT
*
1741342 ATTGCATCGATACAT-GATC-
1 ATTGTATCGATACATGGA-CA
*
1741361 ATTGTATCGATATATGGACA
1 ATTGTATCGATACATGGACA
1741381 ATTGTATCGATAC
1 ATTGTATCGATAC
1741394 GTGAAACTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:1741373 original size:32 final size:33
Alignment explanation
Indices: 1741314--1741375 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
1741304 ACCCAGATGT
* * *
1741314 ATCGATACATTATGCTTTGTATTGATATATTGC
1 ATCGATACATGATGCATTGTATCGATATATTGC
1741347 ATCGATACATGAT-CATTGTATCGATATAT
1 ATCGATACATGATGCATTGTATCGATATAT
1741376 GGACAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (33 bp):
ATCGATACATGATGCATTGTATCGATATATTGC
Found at i:1741451 original size:20 final size:20
Alignment explanation
Indices: 1741426--1741463 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1741416 TATCACTGTT
1741426 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
1741446 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
1741464 CGATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:1741462 original size:13 final size:13
Alignment explanation
Indices: 1741446--1741471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1741436 CATGGTATAA
1741446 TGTATCGATACAT
1 TGTATCGATACAT
1741459 TGTATCGATACAT
1 TGTATCGATACAT
1741472 GATGAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1741467 original size:33 final size:33
Alignment explanation
Indices: 1741425--1741493 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1741415 CTATCACTGT
*
1741425 TTGTATCGATACATGGTAT-AA-TGTATCGATACA
1 TTGTATCGATACAT-G-ATGAATTGTATCAATACA
1741458 TTGTATCGATACATGATGAATTGTATCAATACA
1 TTGTATCGATACATGATGAATTGTATCAATACA
1741491 TTG
1 TTG
1741494 CTTATAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 28 0.85
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCAATACA
Found at i:1750072 original size:13 final size:13
Alignment explanation
Indices: 1750054--1750078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1750044 CAAAGATCAG
1750054 TGTATCGATACAA
1 TGTATCGATACAA
1750067 TGTATCGATACA
1 TGTATCGATACA
1750079 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1750162 original size:33 final size:33
Alignment explanation
Indices: 1750120--1750189 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1750110 GGCAGTAGCT
1750120 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
1750153 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
1750186 TACA
1 TACA
1750190 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:1750163 original size:13 final size:13
Alignment explanation
Indices: 1750145--1750169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1750135 CAAAAAAATA
1750145 TGTATCGATACAT
1 TGTATCGATACAT
1750158 TGTATCGATACA
1 TGTATCGATACA
1750170 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1752261 original size:32 final size:30
Alignment explanation
Indices: 1752225--1752283 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1752215 CGAATCAAAT
1752225 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1752257 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1752284 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1752582 original size:13 final size:13
Alignment explanation
Indices: 1752564--1752589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1752554 ATATTTTTTG
1752564 TGTATCGATACAT
1 TGTATCGATACAT
1752577 TGTATCGATACAT
1 TGTATCGATACAT
1752590 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1752600 original size:32 final size:33
Alignment explanation
Indices: 1752543--1752607 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1752533 TACAAGCCAA
1752543 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
1752577 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
1752608 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:1752601 original size:19 final size:19
Alignment explanation
Indices: 1752543--1752607 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1752533 TACAAGCCAA
1752543 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
1752564 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1752577 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1752596 TGTATCGATACA
1 TGTATCGATACA
1752608 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1753388 original size:48 final size:48
Alignment explanation
Indices: 1753332--1753429 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
1753322 AAATCTCCCC
1753332 CTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTATTTT
1 CTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTATTTT
1753380 CTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTATTTT
1 CTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTATTTT
1753428 CT
1 CT
1753430 CTCCCCCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (48 bp):
CTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTATTTT
Found at i:1754746 original size:21 final size:20
Alignment explanation
Indices: 1754717--1754759 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1754707 GACTAGTGTG
* *
1754717 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1754738 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1754758 GG
1 GG
1754760 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1757328 original size:15 final size:15
Alignment explanation
Indices: 1757308--1757338 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1757298 ATTTCGTTTG
*
1757308 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1757323 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1757338 G
1 G
1757339 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1761103 original size:32 final size:30
Alignment explanation
Indices: 1761067--1761125 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1761057 GAAATCAAAT
1761067 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1761099 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1761126 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1761424 original size:13 final size:13
Alignment explanation
Indices: 1761406--1761431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1761396 ATATTTTTTG
1761406 TGTATCGATACAT
1 TGTATCGATACAT
1761419 TGTATCGATACAT
1 TGTATCGATACAT
1761432 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1761442 original size:32 final size:33
Alignment explanation
Indices: 1761385--1761449 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1761375 TACAAGCCAA
1761385 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
1761419 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
1761450 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:1761443 original size:19 final size:19
Alignment explanation
Indices: 1761385--1761449 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1761375 TACAAGCCAA
1761385 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
1761406 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1761419 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1761438 TGTATCGATACA
1 TGTATCGATACA
1761450 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1762431 original size:13 final size:13
Alignment explanation
Indices: 1762413--1762437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1762403 CAATATTCTT
1762413 TGTATCGATACAA
1 TGTATCGATACAA
1762426 TGTATCGATACA
1 TGTATCGATACA
1762438 TGGTTACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1763924 original size:33 final size:33
Alignment explanation
Indices: 1763876--1763942 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1763866 CGGGAGTTGA
**
1763876 TCACTTCACTTTCGTAGCACATGAATGAGCACT
1 TCACTTCACCCTCGTAGCACATGAATGAGCACT
* *
1763909 TCACTTCACCCTCGTAGCGCATGGATGAGCACT
1 TCACTTCACCCTCGTAGCACATGAATGAGCACT
1763942 T
1 T
1763943 TAGTGCACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (33 bp):
TCACTTCACCCTCGTAGCACATGAATGAGCACT
Found at i:1764278 original size:196 final size:196
Alignment explanation
Indices: 1763944--1764336 Score: 714
Period size: 196 Copynumber: 2.0 Consensus size: 196
1763934 TGAGCACTTT
* *
1763944 AGTGCACTTAACCGACAGATTGACTGGATAGATGCTCGACTCTCTAAACTCGAGCATCAATCTTT
1 AGTGCACTTAACCGACAGATTGACTGGATAGATGCTCGACTCTCCAAACTCGAGCATCAATCTTC
* * *
1764009 GTATTAGGAATAGTTGTATTTGTTTTTGCTTGTCTTTGTGACTTTTCTTGTAATTCGACTTTATG
66 GTATTAGGAACAATCGTATTTGTTTTTGCTTGTCTTTGTGACTTTTCTTGTAATTCGACTTTATG
1764074 TTTATAATATGTGATGTTTGCTTTCTTATCTGTTTTACTTGCCATATATTTTGTTGTGTATGAAA
131 TTTATAATATGTGATGTTTGCTTTCTTATCTGTTTTACTTGCCATATATTTTGTTGTGTATGAAA
1764139 A
196 A
* * *
1764140 AGTGCACTTAATCGACAGATTGACTTGATAGATGCTTGACTCTCCAAACTCGAGCATCAATCTTC
1 AGTGCACTTAACCGACAGATTGACTGGATAGATGCTCGACTCTCCAAACTCGAGCATCAATCTTC
1764205 GTATTAGGAACAATCGTATTTGTTTTTGCTTGTCTTTGTGACTTTTCTTGTAATTCGACTTTATG
66 GTATTAGGAACAATCGTATTTGTTTTTGCTTGTCTTTGTGACTTTTCTTGTAATTCGACTTTATG
1764270 TTTATAATATGTGATGTTTGCTTTCTTATCTGTTTTACTTGCCATATATTTTGTTGTGTATGAAA
131 TTTATAATATGTGATGTTTGCTTTCTTATCTGTTTTACTTGCCATATATTTTGTTGTGTATGAAA
1764335 A
196 A
1764336 A
1 A
1764337 CATTTATCTC
Statistics
Matches: 189, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
196 189 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (196 bp):
AGTGCACTTAACCGACAGATTGACTGGATAGATGCTCGACTCTCCAAACTCGAGCATCAATCTTC
GTATTAGGAACAATCGTATTTGTTTTTGCTTGTCTTTGTGACTTTTCTTGTAATTCGACTTTATG
TTTATAATATGTGATGTTTGCTTTCTTATCTGTTTTACTTGCCATATATTTTGTTGTGTATGAAA
A
Found at i:1765136 original size:33 final size:33
Alignment explanation
Indices: 1765099--1765163 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1765089 TACCACTGTT
1765099 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAGCA-ATTGTATCGATACAA
*
1765132 TGTATCGATACATGAGGAATTGTATCGATACA
1 TGTATCGATACATGAGCAATTGTATCGATACA
1765164 TTGCTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGAGCAATTGTATCGATACAA
Found at i:1765137 original size:13 final size:13
Alignment explanation
Indices: 1765119--1765143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1765109 CATGGCACAT
1765119 TGTATCGATACAA
1 TGTATCGATACAA
1765132 TGTATCGATACA
1 TGTATCGATACA
1765144 TGAGGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1766218 original size:13 final size:13
Alignment explanation
Indices: 1766177--1766223 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
1766167 AAAAAACCCA
1766177 AATGTATCGATAC
1 AATGTATCGATAC
1766190 AATGT-TC--T--
1 AATGTATCGATAC
1766198 AA-GTATCGATAC
1 AATGTATCGATAC
1766210 AATGTATCGATAC
1 AATGTATCGATAC
1766223 A
1 A
1766224 GGGTTACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
7 2 0.07
8 4 0.14
10 2 0.07
12 4 0.14
13 16 0.57
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1766353 original size:21 final size:20
Alignment explanation
Indices: 1766328--1766379 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
1766318 TAAATCTTTT
1766328 TCAAAATTCATCT-TTTTCACA
1 TCAAAA-TCATCTATTTT-ACA
*
1766349 TCAAAA-CTATCTATTTTTCA
1 TCAAAATC-ATCTATTTTACA
1766369 TCAAAATCATC
1 TCAAAATCATC
1766380 AACAAAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 1 0.04
20 15 0.56
21 11 0.41
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
TCAAAATCATCTATTTTACA
Found at i:1772122 original size:79 final size:79
Alignment explanation
Indices: 1771818--1772107 Score: 307
Period size: 79 Copynumber: 3.7 Consensus size: 79
1771808 TGGAGATAAC
* * * * *
1771818 AACGGGGCTGGAGTATCCCCGATTATGGAAAATTGGTGTTCTAGAAATAAAATCGGGGTTAGAGT
1 AACGGGGTTGAAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGT
*
1771883 ATCCCCTCAGAAAT
66 ATCCCCTCGGAAAT
* * * * * * *
1771897 AACAGGGTTAAAGTATCCCTGATTAT-AAAAATCGGTATTTTAAAAATGAAATCGGGGTTGGAGT
1 AACGGGGTTGAAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGT
*
1771961 ATCCCCTCGAAAAT
66 ATCCCCTCGGAAAT
* * * * * ** *
1771975 AACGGGGTTGGAGTATTCCCGATTGTGAAAAATCGATGATTTAGAAAT-AAGGCTGGGGTTAAAG
1 AACGGGGTTGAAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAATC-GGGGTTAGAG
*
1772039 TATCCCCTTGGAAAT
65 TATCCCCTCGGAAAT
* * *
1772054 AACGGGGTTGAAGTATCCCCTATTGTGAAAAATTGGTGTTTT-GAAAATAAAATC
1 AACGGGGTTGAAGTATCCCCGATTATGAAAAATCGGTGTTTTAG-AAATAAAATC
1772108 AAAGTTGGAG
Statistics
Matches: 169, Mismatches: 38, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
78 67 0.40
79 99 0.59
80 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
AACGGGGTTGAAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGT
ATCCCCTCGGAAAT
Found at i:1772166 original size:51 final size:51
Alignment explanation
Indices: 1772056--1772175 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 51
1772046 TTGGAAATAA
* * *
1772056 CGGGGTTGAAGTATCCCCTATTGTGAAAAATTGGTGTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAAT
*** *
1772107 CAAAGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTT-AGAAATAAAA-
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGA-AAATAAAAT
1772157 CTGGGGTTGGAGTATCCCC
1 C-GGGGTTGGAGTATCCCC
1772176 TCGGAAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
50 2 0.04
51 54 0.96
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAAT
Found at i:1774585 original size:20 final size:19
Alignment explanation
Indices: 1774560--1774633 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
1774550 AAAATGCCTG
*
1774560 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1774580 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1774600 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1774620 AATGTATCGATACA
1 AATGTATCGATACA
1774634 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1774690 original size:13 final size:13
Alignment explanation
Indices: 1774672--1774697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1774662 ACAAATATCG
1774672 ATGTATCGATACA
1 ATGTATCGATACA
1774685 ATGTATCGATACA
1 ATGTATCGATACA
1774698 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1777313 original size:17 final size:17
Alignment explanation
Indices: 1777272--1777312 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1777262 ATAGTATGTA
1777272 TTTATTTTATTTATTAC
1 TTTATTTTATTTATTAC
*
1777289 TTTATTTTATTTATT-T
1 TTTATTTTATTTATTAC
1777305 TTTATTTT
1 TTTATTTT
1777313 TTTGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTATTAC
Found at i:1779101 original size:66 final size:66
Alignment explanation
Indices: 1778963--1779093 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
1778953 TCTTTTATTT
* * * *
1778963 TAGCAACTAAATTGTTTTTTTTTCTTGCATGAATTGTCCATCAGCTGCCATTTCTTTCTTAATTG
1 TAGCAGCTTAATTGTTTTTCTTTCATGCATGAATTGTCCATCAGCTGCCATTTCTTTCTTAATTG
1779028 C
66 C
* *
1779029 TAGCAGCTTAATTGCTTTTTCTTTCATGCATGAATTG-CCATCAGTTGCCGTTTCTTTCTTAATT
1 TAGCAGCTTAATTG-TTTTTCTTTCATGCATGAATTGTCCATCAGCTGCCATTTCTTTCTTAATT
1779093 G
65 G
1779094 TTGGCAGCAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 38 0.66
67 20 0.34
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (66 bp):
TAGCAGCTTAATTGTTTTTCTTTCATGCATGAATTGTCCATCAGCTGCCATTTCTTTCTTAATTG
C
Found at i:1779283 original size:54 final size:54
Alignment explanation
Indices: 1779205--1779308 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
1779195 TTTTCATTTT
** * *
1779205 ATGCATGAATTGTTGCTGTCGTTTCTGTTTTGGTTTTCAGCAGCTGATTCTTTC
1 ATGCATGAATCATTGCTGCCGTTTCTGTTTTGGTTTTCAGCAGCCGATTCTTTC
1779259 ATGCATGAATCATTGCTGCCGTTTCTGTTTTGGTTTTCAGCAGCCGATTC
1 ATGCATGAATCATTGCTGCCGTTTCTGTTTTGGTTTTCAGCAGCCGATTC
1779309 ATCAGCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.44
Consensus pattern (54 bp):
ATGCATGAATCATTGCTGCCGTTTCTGTTTTGGTTTTCAGCAGCCGATTCTTTC
Found at i:1781147 original size:32 final size:31
Alignment explanation
Indices: 1781111--1781214 Score: 111
Period size: 32 Copynumber: 3.3 Consensus size: 31
1781101 TTAATAATTG
1781111 TCAAATTTACAAGTAATTATGTTTAATATTCA
1 TCAAATTTACAAGTAATTATGTTTAA-ATTCA
** * *
1781143 TCAAATTTATGAGTAATTTTATTTAAAATTCA
1 TCAAATTTACAAGTAATTATGTTT-AAATTCA
* * *
1781175 TTAAATCTACAAGTAATTATGTCT-AATTCA
1 TCAAATTTACAAGTAATTATGTTTAAATTCA
*
1781205 TCAAAGTTAC
1 TCAAATTTAC
1781215 GATCAATATC
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
30 13 0.23
32 42 0.74
33 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (31 bp):
TCAAATTTACAAGTAATTATGTTTAAATTCA
Found at i:1781869 original size:18 final size:19
Alignment explanation
Indices: 1781848--1781884 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1781838 TATAAATTTG
*
1781848 ATTTAATTTTAT-TTAATT
1 ATTTAATTATATGTTAATT
1781866 ATTTAATTATATGTTAATT
1 ATTTAATTATATGTTAATT
1781885 CATTCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTAATTATATGTTAATT
Found at i:1785390 original size:15 final size:15
Alignment explanation
Indices: 1785370--1785407 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
1785360 AAGGTTCCAT
1785370 ATAATTGTAAATCGC
1 ATAATTGTAAATCGC
1785385 ATAATTGT-AATCGC
1 ATAATTGTAAATCGC
1785399 ATAATTGTA
1 ATAATTGTA
1785408 TCGATGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (15 bp):
ATAATTGTAAATCGC
Found at i:1789104 original size:3 final size:3
Alignment explanation
Indices: 1789096--1789135 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1789086 GAAGTTATAA
1789096 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1789136 CTGGGCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1789592 original size:17 final size:17
Alignment explanation
Indices: 1789563--1789597 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1789553 CACAACGCAT
1789563 TTATTTAATTATTTATA
1 TTATTTAATTATTTATA
1789580 TTATATTAA-TATTTATA
1 TTAT-TTAATTATTTATA
1789597 T
1 T
1789598 AAATATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTTAATTATTTATA
Found at i:1789595 original size:12 final size:13
Alignment explanation
Indices: 1789576--1789608 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1789566 TTTAATTATT
*
1789576 TATATTATATTAA
1 TATATTATATAAA
1789589 TAT-TTATATAAA
1 TATATTATATAAA
1789601 TATATTAT
1 TATATTAT
1789609 GAACTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATATTATATAAA
Found at i:1797403 original size:13 final size:14
Alignment explanation
Indices: 1797344--1797419 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 14
1797334 TTATAAAATT
1797344 TTTAATTAAATAAAA
1 TTTAA-TAAATAAAA
*
1797359 TTATAATTAATAAAA
1 TT-TAATAAATAAAA
* *
1797374 TTTATTTAAA-AATA
1 TTTA-ATAAATAAAA
1797388 TTTAATAAAT-AAA
1 TTTAATAAATAAAA
*
1797401 TTTAA-AATTAAAA
1 TTTAATAAATAAAA
1797414 TTTAAT
1 TTTAAT
1797420 CATATAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
12 3 0.06
13 19 0.39
14 9 0.18
15 15 0.31
16 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAATAAATAAAA
Found at i:1798071 original size:10 final size:10
Alignment explanation
Indices: 1798045--1798078 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1798035 ATATAGCATA
1798045 AATAAAAAAT
1 AATAAAAAAT
*
1798055 AATTAAAACAT
1 AA-TAAAAAAT
1798066 AATAAAAAAT
1 AATAAAAAAT
1798076 AAT
1 AAT
1798079 CTGAACATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:1798110 original size:214 final size:214
Alignment explanation
Indices: 1797855--1798301 Score: 878
Period size: 214 Copynumber: 2.1 Consensus size: 214
1797845 TTTTAAATAC
1797855 AAAAAATAATAC-GAACATGCTATTAACATATAAAATTTTTGCTAAATCAAATTACTGCGCCAAA
1 AAAAAATAAT-CTGAACATGCTATTAACATATAAAATTTTTGCTAAATCAAATTACTGCGCCAAA
1797919 TTCAGTAAATATTTATGAATTGAAATAGAATATGAACATGATATAAATATGAATTTTCTCAAAAT
65 TTCAGTAAATATTTATGAATTGAAATAGAATATGAACATGATATAAATATGAATTTTCTCAAAAT
1797984 TGAATTACAATGATCATATTATATAAAAAAATGAATCAATACACGATATGAATATAGCATAAATA
130 TGAATTACAATGATCATATTATATAAAAAAATGAATCAATACACGATATGAATATAGCATAAATA
1798049 AAAAATAATTAAAACATAAT
195 AAAAATAATTAAAACATAAT
1798069 AAAAAATAATCTGAACATGCTATTAACATATAAAATTTTTGCTAAATCAAATTACTGCGCCAAAT
1 AAAAAATAATCTGAACATGCTATTAACATATAAAATTTTTGCTAAATCAAATTACTGCGCCAAAT
1798134 TCAGTAAATATTTATGAATTGAAATAGAATATGAACATGATATAAATATGAATTTTCTCAAAATT
66 TCAGTAAATATTTATGAATTGAAATAGAATATGAACATGATATAAATATGAATTTTCTCAAAATT
1798199 GAATTACAATGATCATATTATATAAAAAAATGAATCAATACACGATATGAATATAGCATAAATAA
131 GAATTACAATGATCATATTATATAAAAAAATGAATCAATACACGATATGAATATAGCATAAATAA
1798264 AAAATAATTAAAACATAAT
196 AAAATAATTAAAACATAAT
1798283 AAAAAATAATCTGAACATG
1 AAAAAATAATCTGAACATG
1798302 ATACGAATAT
Statistics
Matches: 232, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
213 1 0.00
214 231 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (214 bp):
AAAAAATAATCTGAACATGCTATTAACATATAAAATTTTTGCTAAATCAAATTACTGCGCCAAAT
TCAGTAAATATTTATGAATTGAAATAGAATATGAACATGATATAAATATGAATTTTCTCAAAATT
GAATTACAATGATCATATTATATAAAAAAATGAATCAATACACGATATGAATATAGCATAAATAA
AAAATAATTAAAACATAAT
Found at i:1798285 original size:10 final size:10
Alignment explanation
Indices: 1798259--1798292 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1798249 ATATAGCATA
1798259 AATAAAAAAT
1 AATAAAAAAT
*
1798269 AATTAAAACAT
1 AA-TAAAAAAT
1798280 AATAAAAAAT
1 AATAAAAAAT
1798290 AAT
1 AAT
1798293 CTGAACATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:1798484 original size:19 final size:19
Alignment explanation
Indices: 1798462--1798505 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1798452 ATTAATATAC
1798462 AAATA-TAAAAAATATTTAT
1 AAATATTAAAAAA-ATTTAT
*
1798481 AAATATTAAATAAATTTAT
1 AAATATTAAAAAAATTTAT
1798500 -AATATT
1 AAATATT
1798506 TTAAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATTAAAAAAATTTAT
Found at i:1798509 original size:20 final size:19
Alignment explanation
Indices: 1798462--1798513 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1798452 ATTAATATAC
*
1798462 AAATA-TAAAAAATATTTAT
1 AAATATTAAATAA-ATTTAT
1798481 AAATATTAAATAAATTTAT
1 AAATATTAAATAAATTTAT
*
1798500 AATATTTTAAATAA
1 AA-ATATTAAATAA
1798514 TAAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATTAAATAAATTTAT
Found at i:1798563 original size:127 final size:127
Alignment explanation
Indices: 1798431--1798667 Score: 281
Period size: 129 Copynumber: 1.8 Consensus size: 127
1798421 ATTAAAACAT
* ** *
1798431 AATATAAAA-AATAAATATGTCATTAATATAC-AAATATAAAA-AATATTTATAAATAT-TAAAT
1 AATATAAAATAATAAATATAT-AAAAATATACGAAA-ATAAAATAA-AATTATAAATATAT-AA-
1798492 AAATTTATAATATTTTAAATA-ATAAAAA-TATAAATA-AAAAATATAAACCCTTAAAATTTTTT
61 AAA--TATAATATTTTAAATACA-AAAAATTATAAATACAAAAATATAAACCCTTAAAATTTTTT
1798554 CTCTC
123 CTCTC
*
1798559 ATATATAAAATAATAAATATATAAAAATATACGTAAAATAAAATAAAATTATTAATATATAAAAA
1 A-ATATAAAATAATAAATATATAAAAATATACG-AAAATAAAATAAAATTATAAATATATAAAAA
*
1798624 TATAATATTTTAAATACAAAAAATTATAAATACAAACATATAAA
64 TATAATATTTTAAATACAAAAAATTATAAATACAAAAATATAAA
1798668 AAAATTTATA
Statistics
Matches: 94, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
127 21 0.22
128 10 0.11
129 29 0.31
130 28 0.30
131 6 0.06
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (127 bp):
AATATAAAATAATAAATATATAAAAATATACGAAAATAAAATAAAATTATAAATATATAAAAATA
TAATATTTTAAATACAAAAAATTATAAATACAAAAATATAAACCCTTAAAATTTTTTCTCTC
Found at i:1798644 original size:22 final size:22
Alignment explanation
Indices: 1798598--1798645 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1798588 TACGTAAAAT
*
1798598 AAAATAAAATTATTAATATATA
1 AAAATAAAATTATTAATATACA
1798620 AAAATATAATATT-TTAA-ATACA
1 AAAATA-AA-ATTATTAATATACA
1798642 AAAA
1 AAAA
1798646 ATTATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 14 0.61
23 6 0.26
24 3 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATAAAATTATTAATATACA
Found at i:1798856 original size:20 final size:20
Alignment explanation
Indices: 1798831--1798876 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1798821 TATTTTTTAT
1798831 TTTTAAAATAAAATAAAAAA
1 TTTTAAAATAAAATAAAAAA
** *
1798851 TTTTAATTTATAATAAAAAA
1 TTTTAAAATAAAATAAAAAA
1798871 TTTTAA
1 TTTTAA
1798877 TTTATGTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAAATAAAATAAAAAA
Found at i:1798877 original size:20 final size:20
Alignment explanation
Indices: 1798842--1798881 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1798832 TTTAAAATAA
1798842 AATAAAAAATTTTAATTTAT
1 AATAAAAAATTTTAATTTAT
1798862 AATAAAAAATTTTAATTTAT
1 AATAAAAAATTTTAATTTAT
1798882 GTGCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAAAAAATTTTAATTTAT
Found at i:1799004 original size:19 final size:20
Alignment explanation
Indices: 1798980--1799022 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
1798970 TTAATCTAAT
1798980 TTAAAATAATA-ATTTTTAA
1 TTAAAATAATATATTTTTAA
*
1798999 TTAAAATAATATATTTTTAT
1 TTAAAATAATATATTTTTAA
1799019 TTAA
1 TTAA
1799023 TTATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAAATAATATATTTTTAA
Found at i:1799666 original size:16 final size:16
Alignment explanation
Indices: 1799623--1799671 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
1799613 ATATATACAT
*
1799623 TTATATATTAAAATAAC
1 TTAT-TATTAAATTAAC
1799640 TATAATT-TTAAATTAAC
1 T-T-ATTATTAAATTAAC
1799657 TTATTATTAAATTAA
1 TTATTATTAAATTAA
1799672 TTTTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.11
16 10 0.36
17 11 0.39
18 2 0.07
19 2 0.07
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATTATTAAATTAAC
Found at i:1802140 original size:22 final size:22
Alignment explanation
Indices: 1802115--1802166 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
1802105 ATGAGTAAAA
**
1802115 TCATTTATGAATCGTTTAAAGC
1 TCATTTACAAATCGTTTAAAGC
*
1802137 TCATTTAACAAATTGTTTAAAGC
1 TCATTT-ACAAATCGTTTAAAGC
1802160 TCATTTA
1 TCATTTA
1802167 AACTCATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (22 bp):
TCATTTACAAATCGTTTAAAGC
Found at i:1802386 original size:24 final size:24
Alignment explanation
Indices: 1802355--1802416 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
1802345 TTTTTCATTG
1802355 TTCATGAACATGTTCGATTATATA
1 TTCATGAACATGTTCGATTATATA
* *
1802379 TTCATGAACAGGTTCGATTATATG
1 TTCATGAACATGTTCGATTATATA
*
1802403 TTCGTGAACATGTT
1 TTCATGAACATGTT
1802417 ACATGTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (24 bp):
TTCATGAACATGTTCGATTATATA
Found at i:1807752 original size:88 final size:87
Alignment explanation
Indices: 1807630--1807866 Score: 266
Period size: 87 Copynumber: 2.7 Consensus size: 87
1807620 AGTGGCGATG
** * *
1807630 GAGTTTCCCCAAAGATAAAATGATACAAAGAAAAACTTGAGTTTTTTGAAGAGCGGGGTTGGAAT
1 GAGTTTCCTTAAAGATAAAAT-ATACTAAGAAAAATTTGAGTTTTTTGAAGAGCGGGGTTGGAAT
* * *
1807695 GTC-CCTTTGGAGGAGT-GAGGATA
65 ATCTCC-TCGGAGGACTAG-GGATA
* * * *
1807718 GAGTTTCCTTAAAGATAAAACTATACTAAGAAAAATTTG-GTTTTTTAAAGAGCAGGGTTAGAGT
1 GAGTTTCCTTAAAGATAAAA-TATACTAAGAAAAATTTGAGTTTTTTGAAGAGCGGGGTTGGAAT
*
1807782 ATCTCCTCGGAGGACTAGGGATG
65 ATCTCCTCGGAGGACTAGGGATA
* * *
1807805 GAGTTTCCTTAAAGATAAAATTATATTAAGAAAAATTTGA-TTTTTTGAAAAGTGGGGTTGGA
1 GAGTTTCCTTAAAGATAAAA-TATACTAAGAAAAATTTGAGTTTTTTGAAGAGCGGGGTTGGA
1807867 GAATACCCTC
Statistics
Matches: 126, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
87 89 0.71
88 36 0.29
89 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.30
Consensus pattern (87 bp):
GAGTTTCCTTAAAGATAAAATATACTAAGAAAAATTTGAGTTTTTTGAAGAGCGGGGTTGGAATA
TCTCCTCGGAGGACTAGGGATA
Found at i:1811771 original size:11 final size:11
Alignment explanation
Indices: 1811755--1811784 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1811745 ATGTTATTTG
1811755 TTTTTATGATT
1 TTTTTATGATT
*
1811766 TTTTTATAATT
1 TTTTTATGATT
1811777 TTTTTATG
1 TTTTTATG
1811785 TAAAATAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTTTATGATT
Found at i:1811989 original size:2 final size:2
Alignment explanation
Indices: 1811978--1812026 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1811968 TTACCATTTG
1811978 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1812019 TA TA TA TA
1 TA TA TA TA
1812027 AAGAATGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1812594 original size:13 final size:13
Alignment explanation
Indices: 1812572--1812619 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
1812562 ATTATAATAC
1812572 ATAATA-TTTAT-
1 ATAATATTTTATA
1812583 ATAAATATTTTATA
1 AT-AATATTTTATA
*
1812597 ATAATATTGTATAA
1 ATAATATTTTAT-A
1812611 ATAATATTT
1 ATAATATTT
1812620 AAATATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 2 0.06
12 4 0.13
13 14 0.45
14 11 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
ATAATATTTTATA
Found at i:1812596 original size:47 final size:48
Alignment explanation
Indices: 1812545--1812660 Score: 118
Period size: 47 Copynumber: 2.4 Consensus size: 48
1812535 ATGTCAATAG
1812545 TTATATAAATATGTATAATTATAATACAT-AATATTTATATAA-A-TATT
1 TTATATAAATATGTATAA-TATAATACATAAATA-TTATATAACATTATT
**
1812592 TTATA-ATAATATTGTATAA-ATAATATTTAAATATTATATAACATTATT
1 TTATATA-AATA-TGTATAATATAATACATAAATATTATATAACATTATT
*
1812640 TGATAT-AATATAGTATAATAT
1 TTATATAAATAT-GTATAATAT
1812661 GAGGAAAGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
46 17 0.29
47 24 0.41
48 17 0.29
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (48 bp):
TTATATAAATATGTATAATATAATACATAAATATTATATAACATTATT
Found at i:1812597 original size:22 final size:22
Alignment explanation
Indices: 1812572--1812650 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
1812562 ATTATAATAC
1812572 ATAATATTTATATAAATATTTT
1 ATAATATTTATATAAATATTTT
*
1812594 ATAATAATATTGTATAAATAATATTT
1 ATAAT-AT-TTATATAAAT-AT-TTT
1812620 A-AATA-TTATATAACATTATTTGAT
1 ATAATATTTATATAA-A-TATTT--T
1812644 ATAATAT
1 ATAATAT
1812651 AGTATAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
22 14 0.31
23 5 0.11
24 13 0.29
25 9 0.20
26 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
ATAATATTTATATAAATATTTT
Found at i:1812613 original size:14 final size:13
Alignment explanation
Indices: 1812572--1812620 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
1812562 ATTATAATAC
*
1812572 ATAATATTTATAT
1 ATAATATTTATAA
1812585 A-AATATTT-TATA
1 ATAATATTTATA-A
1812597 ATAATATTGTATAA
1 ATAATATT-TATAA
1812611 ATAATATTTA
1 ATAATATTTA
1812621 AATATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 2 0.06
12 8 0.26
13 9 0.29
14 10 0.32
15 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
ATAATATTTATAA
Found at i:1818328 original size:33 final size:33
Alignment explanation
Indices: 1818269--1818337 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
1818259 CCGTTTAAAG
*
1818269 CAATGTATCGATACAATTCATCATGTATTGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
*
1818302 CAATGTATCGATACAGTGT-A-CGATGTATCGATA
1 CAATGTATCGATACAAT-TCATC-ATGTATCGATA
1818335 CAA
1 CAA
1818338 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 1 0.03
33 30 0.94
34 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCGATA
Found at i:1818391 original size:20 final size:20
Alignment explanation
Indices: 1818366--1818423 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
1818356 CTGCCAGTTT
*
1818366 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
1818386 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
*
1818405 CATGAATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
1818424 TTGATACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:1818430 original size:32 final size:32
Alignment explanation
Indices: 1818388--1818464 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
1818378 CAATTGTCCA
*
1818388 TGTATCGATACAATGAACATGAATCGATACAT
1 TGTATTGATACAATGAACATGAATCGATACAT
*
1818420 TGTATTGATACAATGAACATGAATCGATATAT
1 TGTATTGATACAATGAACATGAATCGATACAT
1818452 TGTATTGATACAA
1 TGTATTGATACAA
1818465 AGTATAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (32 bp):
TGTATTGATACAATGAACATGAATCGATACAT
Found at i:1821496 original size:13 final size:13
Alignment explanation
Indices: 1821478--1821522 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
1821468 TCATGCATGC
*
1821478 ATAAAAAATAAAG
1 ATAAAAAATAAAA
1821491 ATAAAAAATAAAA
1 ATAAAAAATAAAA
*
1821504 AT--AAAATAGAA
1 ATAAAAAATAAAA
1821515 ATAAAAAA
1 ATAAAAAA
1821523 GTCCAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.36
13 18 0.64
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:1822908 original size:93 final size:93
Alignment explanation
Indices: 1822736--1823151 Score: 327
Period size: 93 Copynumber: 4.5 Consensus size: 93
1822726 GTGGGACTCG
* * * * *
1822736 AAAGATGTCTA-GGTCAAAACCTATTAGTCAAAAGAAACAACTCAATTGAAACCAATTAGTCAAG
1 AAAGATGACTAGGGT-AAAACCTATTAGTCAAAGGAAATAACTAAAGTGAAACCAATTAGTCAAG
*
1822800 AAAATGA-CTAAGATGAAACCATCAATTGA
65 AAAATGATC-AAGATGAAACCATCAATCGA
* *
1822829 AAAGATGACTAGGGCAAAACCTATTAGT-AAGAGGAAATGACTAAAGTGAAACCAATTAGTCAAG
1 AAAGATGACTAGGGTAAAACCTATTAGTCAA-AGGAAATAACTAAAGTGAAACCAATTAGTCAAG
** * *
1822893 AAAATGATCGGGATGAAACTATTAGAT-GA
65 AAAATGATCAAGATGAAACCATCA-ATCGA
* ** ** * ** * * *
1822922 AAAAATGACTAGGGTAAAACAAATTAGTCAAAGGTTATGACTAGGGTGAAACTAATTAATAAAGA
1 AAAGATGACTAGGGTAAAACCTATTAGTCAAAGGAAATAACTAAAGTGAAACCAATTAGTCAAG-
* * ** * * *
1822987 AAAACGATCAAAACAAAATCATTAATCGT
65 AAAATGATCAAGATGAAACCATCAATCGA
* * * * * * * * *
1823016 GAAGATGACTGGGGTGAAGCCTATTAGTCAAAGAAAATAGCTAAGGCGAAACTAATTAGTCAAGA
1 AAAGATGACTAGGGTAAAACCTATTAGTCAAAGGAAATAACTAAAGTGAAACCAATTAGTCAAGA
* *** *
1823081 AAATAATTGGGATGAAACCATCGATCGA
66 AAATGATCAAGATGAAACCATCAATCGA
* * * *
1823109 AAAGATAACTAAGGTGAAACCTAATAGTCAAAGGAAATAACTA
1 AAAGATGACTAGGGTAAAACCTATTAGTCAAAGGAAATAACTA
1823152 GGTCCAAACC
Statistics
Matches: 249, Mismatches: 67, Indels: 14
0.75 0.20 0.04
Matches are distributed among these distances:
92 2 0.01
93 175 0.70
94 72 0.29
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (93 bp):
AAAGATGACTAGGGTAAAACCTATTAGTCAAAGGAAATAACTAAAGTGAAACCAATTAGTCAAGA
AAATGATCAAGATGAAACCATCAATCGA
Found at i:1826084 original size:34 final size:34
Alignment explanation
Indices: 1826037--1826105 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
1826027 CCTATCAAAA
* *
1826037 TATATCTTCCAAGCTAACTTCTTGGAAGATTCTT
1 TATATCTTCCAAGCTAACTTCTCGAAAGATTCTT
1826071 TATATC-TCTCAAGCTAACTTCTCGAAAGATTCTT
1 TATATCTTC-CAAGCTAACTTCTCGAAAGATTCTT
1826105 T
1 T
1826106 CTCTTCTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (34 bp):
TATATCTTCCAAGCTAACTTCTCGAAAGATTCTT
Found at i:1826805 original size:52 final size:52
Alignment explanation
Indices: 1826731--1826870 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 52
1826721 TTTGGAAAGA
* * * * *
1826731 AAATGTATCCATATATTTTTCATTATATCGATACATTTTAGGTTTTTGACCT
1 AAATGTATCGATACATTATTCATTATATCGATACATTCTAGGTTTTTGACCC
* *
1826783 AAATGTATCGATACATTATTCATGATATTGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATACATTATTCATTATATCGATACATTCTAGGTTTTTGACCC
* * * * *
1826835 AAATATATCGATACATTCTTTAATGTATCGATACAT
1 AAATGTATCGATACATTATTCATTATATCGATACAT
1826871 GTAGGCAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTATTCATTATATCGATACATTCTAGGTTTTTGACCC
Found at i:1829100 original size:27 final size:27
Alignment explanation
Indices: 1829031--1829093 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
1829021 ATTCAATGGA
* *
1829031 ATACTCCAGCTCC-ATTCTTTCGAGGGG
1 ATACTCCAAC-CCTATTCCTTCGAGGGG
1829058 ATACTCCAACCCTATTCCTTCGAGGGG
1 ATACTCCAACCCTATTCCTTCGAGGGG
1829085 ATACTCCAA
1 ATACTCCAA
1829094 TCTTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (27 bp):
ATACTCCAACCCTATTCCTTCGAGGGG
Found at i:1830771 original size:16 final size:16
Alignment explanation
Indices: 1830750--1830782 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1830740 TTGCCCCAAC
1830750 ATTCTTCAACCCAAAT
1 ATTCTTCAACCCAAAT
*
1830766 ATTCTTTAACCCAAAT
1 ATTCTTCAACCCAAAT
1830782 A
1 A
1830783 GCATTACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTCTTCAACCCAAAT
Found at i:1831555 original size:2 final size:2
Alignment explanation
Indices: 1831548--1831591 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1831538 GGCAAACAAG
*
1831548 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1831590 AT
1 AT
1831592 GCAATATAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1837835 original size:13 final size:13
Alignment explanation
Indices: 1837817--1837841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1837807 ACTAAAGCAA
1837817 TGTATCGATACAT
1 TGTATCGATACAT
1837830 TGTATCGATACA
1 TGTATCGATACA
1837842 ATATGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1839380 original size:21 final size:21
Alignment explanation
Indices: 1839355--1839409 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1839345 CACTTGCAAC
*
1839355 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
1839376 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
1839397 TCACTTAATTTCT
1 TCATTTATTTTCT
1839410 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:1839410 original size:21 final size:21
Alignment explanation
Indices: 1839370--1839413 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1839360 TCTTTTCTCC
* *
1839370 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
1839391 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
1839412 TC
1 TC
1839414 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:1841539 original size:13 final size:14
Alignment explanation
Indices: 1841521--1841557 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
1841511 TATTCACAAT
1841521 GTATCGATACAC-A
1 GTATCGATACACTA
1841534 GTATCGATACACTA
1 GTATCGATACACTA
1841548 -TATCGATACA
1 GTATCGATACA
1841558 TGAATATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (14 bp):
GTATCGATACACTA
Found at i:1841673 original size:26 final size:28
Alignment explanation
Indices: 1841610--1841675 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 28
1841600 GTGAACAGTT
* *
1841610 ATGAACAATGAACAGTGATGTATCGATAC
1 ATGAACAGTGAACAGTAATGTATC-ATAC
1841639 ATGAACAGTGAACAGTAATGTAT-A-AC
1 ATGAACAGTGAACAGTAATGTATCATAC
1841665 ATGAACAGTGA
1 ATGAACAGTGA
1841676 TGAATAGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 13 0.37
27 1 0.03
29 21 0.60
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (28 bp):
ATGAACAGTGAACAGTAATGTATCATAC
Found at i:1841689 original size:46 final size:44
Alignment explanation
Indices: 1841586--1841693 Score: 107
Period size: 46 Copynumber: 2.4 Consensus size: 44
1841576 TTATCGATAC
*
1841586 ATGAATAGTGATG--C-GTGAACAGTTATGAACAATGAACAGTG
1 ATGAATAGTGATGAACAGTGAACAGTAATGAACAATGAACAGTG
* * *
1841627 ATGTATCGATACATGAACAGTGAACAGTAATGTATA-ACATGAACAGTG
1 ATGAATAG-T-GATGAACAGTGAACAGTAATG-A-ACA-ATGAACAGTG
1841675 ATGAATAGTGATGAACAGT
1 ATGAATAGTGATGAACAGT
1841694 TAAAAAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
41 6 0.12
42 1 0.02
43 3 0.06
45 1 0.02
46 21 0.40
47 3 0.06
48 17 0.33
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (44 bp):
ATGAATAGTGATGAACAGTGAACAGTAATGAACAATGAACAGTG
Found at i:1841859 original size:21 final size:21
Alignment explanation
Indices: 1841819--1841859 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1841809 GTCAACTTTG
*
1841819 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
1841840 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
1841860 TTTTGCTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:1843998 original size:163 final size:163
Alignment explanation
Indices: 1843674--1844116 Score: 710
Period size: 163 Copynumber: 2.7 Consensus size: 163
1843664 TGTCTTTCTC
* * * *
1843674 AAAAATATCATTTCATACCTTAATGGAAACTTGAAAAGATACGAAAAGTTTTCAAATCTTTTATA
1 AAAAATATCATTTCGTACCTTAATGGAAGCTCGAAAAGATACGAAAAGTTTTAAAATCTTTTATA
* * *
1843739 CCCCTACGGATTCCTATAAGAATATAAAAGATT-AAAAAATGATTAATATTTACTTTAATTATGA
66 CCCCTAAGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTACTTTAATTATGA
*
1843803 AAGTGTTAATTTAATTTTATTTATTTATTTTTG
131 AAGTGTTAATTTAATTTAATTTATTTATTTTTG
* * * *
1843836 AAAAAAATAATTTCGTACCTTAATGGAAGCTCGAAAAGATATGAAAAATTTTAAAATCTTTTATA
1 AAAAATATCATTTCGTACCTTAATGGAAGCTCGAAAAGATACGAAAAGTTTTAAAATCTTTTATA
*
1843901 CCTCTAAGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTACTTTAATTATGA
66 CCCCTAAGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTACTTTAATTATGA
1843966 AAGTGTTAATTTAATTTAATTTATTTATTTTTG
131 AAGTGTTAATTTAATTTAATTTATTTATTTTTG
*
1843999 AAAAATATCATTTCGTACCTTAATGGAAGCTCGAAAAGATACGAAAAGTTTTGAAATCTTTTATA
1 AAAAATATCATTTCGTACCTTAATGGAAGCTCGAAAAGATACGAAAAGTTTTAAAATCTTTTATA
* * *
1844064 CCCCTACA-GATTTCCATAGAAATATAAAAGATTAAAAAATTGATTAATATTTA
66 CCCCTA-AGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTA
1844117 TTTTTACCAA
Statistics
Matches: 257, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
162 86 0.33
163 170 0.66
164 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (163 bp):
AAAAATATCATTTCGTACCTTAATGGAAGCTCGAAAAGATACGAAAAGTTTTAAAATCTTTTATA
CCCCTAAGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTACTTTAATTATGA
AAGTGTTAATTTAATTTAATTTATTTATTTTTG
Found at i:1844590 original size:11 final size:11
Alignment explanation
Indices: 1844574--1844598 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1844564 ATGGATCATG
1844574 AAGGCTAAATC
1 AAGGCTAAATC
1844585 AAGGCTAAATC
1 AAGGCTAAATC
1844596 AAG
1 AAG
1844599 CATGAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (11 bp):
AAGGCTAAATC
Found at i:1845677 original size:164 final size:165
Alignment explanation
Indices: 1845453--1846076 Score: 536
Period size: 166 Copynumber: 3.8 Consensus size: 165
1845443 TGAAAAATGA
* * * *
1845453 ATGAAAATGAATGAATTTTTAAAAAATGATTTAATGTGATTCAAATAATAATATTTTATGAATTT
1 ATGAAAATGAATAAATTTTT-AAAAATGATTTAATATGAATCAAATAATAATATTTTAAGAATTT
*
1845518 TAAAAATTGAAAACAAAGAAAAAT-CTCCC-AAAAAAATTACAGAGTAGAAAACTTC-GTATTTC
65 TAAAAATTAAAAACAAAGAAAAATAC-CCCGAAAAAAATTACAGAGTAGAAAACTTCTGTATTTC
1845580 GAAAAAATGAGAGTTTCAAAG-AAAAATTCAAAAATTC
129 -AAAAAATGAGAGTTTCAAAGAAAAAATTCAAAAATTC
* * * *
1845617 ATGAAGATGAATTAAATTTTT-AAAATGGATTTAATATGAATCAAATGATGATATTTTATGAATT
1 ATGAAAATGAA-TAAATTTTTAAAAAT-GATTTAATATGAATCAAATAATAATATTTTAAGAATT
** * * * * *
1845681 TTAAAAATTAAAAACTGAGAAAAATACCCTCTAAAATAATTACGGAGTAGAAAAC-ACTATATTT
64 TTAAAAATTAAAAACAAAGAAAAATACCC-CGAAAAAAATTACAGAGTAGAAAACTTCTGTATTT
* * * * *
1845745 C-AGAAATGGAGAATTTTAAAGAAAAAATTCAAATATTT
128 CAAAAAAT-GAGAGTTTCAAAGAAAAAATTCAAAAATTC
* * * * * * * * * *
1845783 ATAAAAATGAATCACTTTTTGCACACTGATTTAATATAAATTAAATAATAATATTTAAAAAATTT
1 ATGAAAATGAATAAATTTTT-AAAAATGATTTAATATGAATCAAATAATAATATTTTAAGAATTT
* * * * * *
1845848 TAAAAATTAAAAACCAAGAAAGATCCACCCGAAAAATATTACAAATTAGAAAA-TTCTGTATTTC
65 TAAAAATTAAAAACAAAGAAAAATAC-CCCGAAAAAAATTACAGAGTAGAAAACTTCTGTATTTC
* * * *
1845912 AGAAAAA-GAGAGTTTCGAGGAAAAAATTTAAAAACTC
129 A-AAAAATGAGAGTTTCAAAGAAAAAATTCAAAAATTC
* * * * ** * * * * *
1845949 AGGAAAAT-TATGAATTTTTTGTAATCTAATTTAATATGAATTAAATGATAATACTTGAAGAATT
1 ATGAAAATGAAT-AAATTTTT-AAAAATGATTTAATATGAATCAAATAATAATATTTTAAGAATT
* * *
1846013 TTAAAAATTAAAAACCAAA-AAAAAT-CCCCCAAAAAAACTTACGGAGTAGAAAAC-TCCGTATT
64 TTAAAAATTAAAAA-CAAAGAAAAATACCCCGAAAAAAA-TTACAGAGTAGAAAACTTCTGTATT
1846075 TC
127 TC
1846077 GGAAATAAGG
Statistics
Matches: 368, Mismatches: 74, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
163 5 0.01
164 81 0.22
165 53 0.14
166 217 0.59
167 8 0.02
168 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (165 bp):
ATGAAAATGAATAAATTTTTAAAAATGATTTAATATGAATCAAATAATAATATTTTAAGAATTTT
AAAAATTAAAAACAAAGAAAAATACCCCGAAAAAAATTACAGAGTAGAAAACTTCTGTATTTCAA
AAAATGAGAGTTTCAAAGAAAAAATTCAAAAATTC
Found at i:1848026 original size:59 final size:58
Alignment explanation
Indices: 1847943--1848066 Score: 167
Period size: 59 Copynumber: 2.1 Consensus size: 58
1847933 ATGAACTGTC
* * * * * *
1847943 TTAAATAATTGTCATTAATTATGCATTTAATTATTTTAAATTTGATTTCATTTAAATTT
1 TTAAATAATTATAATAAATCATGCATTTAATTATTTTAAATTTAATTTCATTTAAA-AT
* *
1848002 TTAAATAATTATAATAAATCATGCATTTAATTATTTTGAATTTAATTTTATTTAAAAT
1 TTAAATAATTATAATAAATCATGCATTTAATTATTTTAAATTTAATTTCATTTAAAAT
1848060 TTAAATA
1 TTAAATA
1848067 CTTAATATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 8 0.14
59 49 0.86
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (58 bp):
TTAAATAATTATAATAAATCATGCATTTAATTATTTTAAATTTAATTTCATTTAAAAT
Found at i:1849418 original size:13 final size:13
Alignment explanation
Indices: 1849400--1849449 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
1849390 TACATAGGAT
1849400 ATTGTATCGATAC
1 ATTGTATCGATAC
1849413 ATTGTATCGATAC
1 ATTGTATCGATAC
1849426 A-TG-AT-G--A-
1 ATTGTATCGATAC
1849433 ATTGTATCGATAC
1 ATTGTATCGATAC
1849446 ATTG
1 ATTG
1849450 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.10
13 18 0.58
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1849423 original size:33 final size:33
Alignment explanation
Indices: 1849381--1849449 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1849371 CTACTACTGT
1849381 TTGTATCGATACAT-AGGATATTGTATCGATACA
1 TTGTATCGATACATGAGGA-ATTGTATCGATACA
*
1849414 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGAGGAATTGTATCGATACA
1849447 TTG
1 TTG
1849450 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 31 0.91
34 3 0.09
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGAGGAATTGTATCGATACA
Found at i:1859527 original size:20 final size:20
Alignment explanation
Indices: 1859502--1859539 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1859492 TATACATATA
1859502 AATAAAACAAAAA-AAATGAT
1 AATAAAA-AAAAACAAATGAT
1859522 AATAAAAAAAAACAAATG
1 AATAAAAAAAAACAAATG
1859540 CAAACATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (20 bp):
AATAAAAAAAAACAAATGAT
Found at i:1859895 original size:16 final size:16
Alignment explanation
Indices: 1859874--1859928 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
1859864 TTTCATATTT
1859874 TTTTTCTTTTTTTTTC
1 TTTTTCTTTTTTTTTC
*
1859890 TTTTTCTTTCTTTCTTC
1 TTTTTCTTT-TTTTTTC
* *
1859907 TTTATCTTCTTTCTTTC
1 TTTTTCTT-TTTTTTTC
1859924 TTTTT
1 TTTTT
1859929 TACCTAACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.28
17 22 0.69
18 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:1859899 original size:20 final size:21
Alignment explanation
Indices: 1859871--1859929 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 21
1859861 CCATTTCATA
1859871 TTTTT-TTTCTTTTTTTT-TC
1 TTTTTCTTTCTTTTTTTTATC
1859890 TTTTTCTTTCTTTCTTCTTTATC
1 TTTTTCTTTCTTT-TT-TTTATC
1859913 TTCTTTCTTTCTTTTTT
1 TT-TTTCTTTCTTTTTT
1859930 ACCTAACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.14
20 7 0.20
21 2 0.06
22 4 0.11
23 6 0.17
24 11 0.31
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTCTTTCTTTTTTTTATC
Found at i:1859930 original size:20 final size:20
Alignment explanation
Indices: 1859893--1859930 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1859883 TTTTTTCTTT
1859893 TTCTTTCTTTCTTCTTTATC
1 TTCTTTCTTTCTTCTTTATC
*
1859913 TTCTTTCTTTCTTTTTTA
1 TTCTTTCTTTCTTCTTTA
1859931 CCTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTTCTTTCTTCTTTATC
Found at i:1859943 original size:24 final size:24
Alignment explanation
Indices: 1859890--1859943 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
1859880 TTTTTTTTTC
* *
1859890 TTTTTCTTTCTTTCTTCTTTATCT
1 TTTTTCTTTCTTTCTTCTCTAACT
* *
1859914 TCTTTCTTTCTTTTTTAC-CTAACT
1 TTTTTCTTTCTTTCTT-CTCTAACT
1859938 TTTTTC
1 TTTTTC
1859944 AACCCATAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTCTTTCTTTCTTCTCTAACT
Found at i:1861217 original size:32 final size:32
Alignment explanation
Indices: 1861154--1861723 Score: 998
Period size: 32 Copynumber: 17.8 Consensus size: 32
1861144 AAAATGGTGA
* * * **
1861154 TTTGAAAAGGGGTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1861186 TTTTAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1861218 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861250 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861282 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861314 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861346 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861378 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861410 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861442 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861474 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1861506 TTTGAAATGGGTTGCCACCGACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1861538 TTTGAAATGGGTTGCCACCGACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861570 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1861602 TTTGAAATGGGCTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1861634 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1861666 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1861698 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1861724 GATTTAAAAG
Statistics
Matches: 517, Mismatches: 21, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
31 13 0.03
32 504 0.97
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1861741 original size:27 final size:26
Alignment explanation
Indices: 1861706--1862085 Score: 526
Period size: 27 Copynumber: 14.0 Consensus size: 26
1861696 GCTTTGAAAT
*
1861706 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
**
1861733 GGACGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
1861760 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
1861787 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
*
1861814 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1861841 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
*
1861868 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1861895 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
1861922 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
1861949 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1861976 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1862003 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
*
1862030 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1862057 GGATGCCACGAGGTTGTGGACTTTAAAA
1 GGGTGCCACGA-GTTGTGGAC-TTAAAA
1862085 G
1 G
1862086 AAAATGCCAC
Statistics
Matches: 321, Mismatches: 22, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
26 6 0.02
27 304 0.95
28 11 0.03
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (26 bp):
GGGTGCCACGAGTTGTGGACTTAAAA
Found at i:1861774 original size:54 final size:54
Alignment explanation
Indices: 1861706--1862085 Score: 661
Period size: 54 Copynumber: 7.0 Consensus size: 54
1861696 GCTTTGAAAT
* *
1861706 GGGTGCCACAGAGTTGTGGATTTAAAAGGACGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
* * *
1861760 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1861814 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1861868 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
* * * *
1861922 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1861976 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
*
1862030 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAGGTTGTGGACTTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGAC-TTAAAA
1862085 G
1 G
1862086 AAAATGCCAC
Statistics
Matches: 308, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
54 301 0.98
55 7 0.02
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (54 bp):
GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
Found at i:1862110 original size:30 final size:31
Alignment explanation
Indices: 1862059--1862116 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
1862049 ATTTAAAAGG
*
1862059 ATGCCACGAGGTTGTGGACTTT-AAAAGAAA
1 ATGCCACGAGGTCGTGGACTTTGAAAAGAAA
*
1862089 ATGCCACTGA-GTCGTGTACTTTGAAAAG
1 ATGCCAC-GAGGTCGTGGACTTTGAAAAG
1862117 GTCACAGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (31 bp):
ATGCCACGAGGTCGTGGACTTTGAAAAGAAA
Found at i:1865514 original size:21 final size:20
Alignment explanation
Indices: 1865487--1865563 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
1865477 AAAAAATTCC
*
1865487 AAATGTATCGATACATTTGT
1 AAATGTATCGATACATTTAT
* * *
1865507 AGAATGTATTGATACATTCAC
1 A-AATGTATCGATACATTTAT
*
1865528 AAATGTATCGATACATTCTAC
1 AAATGTATCGATACATT-TAT
1865549 AAATGTATCGATACA
1 AAATGTATCGATACA
1865564 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
20 16 0.33
21 33 0.67
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATTTAT
Found at i:1865554 original size:41 final size:40
Alignment explanation
Indices: 1865482--1865563 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
1865472 AAAAAAAAAA
* * *
1865482 ATTCCAAATGTATCGATACATTTGTAGAATGTATTGATAC
1 ATTCCAAATGTATCGATACATTTCTAAAATGTATCGATAC
1865522 ATTCACAAATGTATCGATACA-TTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTTCTA-AAATGTATCGATAC
1865563 A
1 A
1865564 GGGTCCCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTTCTAAAATGTATCGATAC
Found at i:1865623 original size:19 final size:19
Alignment explanation
Indices: 1865599--1865666 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1865589 AATTCAACGA
1865599 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1865618 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
1865633 -TT-TATCGATATATAAGT
1 TTTGTATCGATACATAAGT
*
1865650 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1865667 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 2 0.05
17 2 0.05
18 2 0.05
19 25 0.61
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1865639 original size:32 final size:32
Alignment explanation
Indices: 1865603--1865663 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1865593 CAACGATTTG
*
1865603 TATCGATACATAAGTTTTGTATCGATACAATT
1 TATCGATACATAAGTATTGTATCGATACAATT
*
1865635 TATCGATATATAAGTATTGTATCGATACA
1 TATCGATACATAAGTATTGTATCGATACA
1865664 TAATTAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (32 bp):
TATCGATACATAAGTATTGTATCGATACAATT
Found at i:1865724 original size:13 final size:13
Alignment explanation
Indices: 1865706--1865731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1865696 CATTTTTCTG
1865706 TGTATCGATACAT
1 TGTATCGATACAT
1865719 TGTATCGATACAT
1 TGTATCGATACAT
1865732 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1865728 original size:33 final size:33
Alignment explanation
Indices: 1865686--1865752 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1865676 GCCAAGGAAA
***
1865686 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1865719 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1865752 T
1 T
1865753 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1868267 original size:28 final size:27
Alignment explanation
Indices: 1868200--1868272 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1868190 CTTCACAATC
* *
1868200 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1868227 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1868255 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1868273 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1868317 original size:51 final size:51
Alignment explanation
Indices: 1868257--1868425 Score: 194
Period size: 51 Copynumber: 3.3 Consensus size: 51
1868247 ATTTCTGAGG
* * * *
1868257 GGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATCGG
1 GGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATCGA
* * * * *
1868308 GGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATCGA
1 GGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATCGA
** * *
1868361 GGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGA
1 GGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATCGA
1868413 GGATACTCCAACC
1 GGATACTCCAACC
1868426 TCGTTATTTC
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 34 0.36
52 19 0.20
53 31 0.33
54 11 0.12
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATCGA
Found at i:1868444 original size:28 final size:28
Alignment explanation
Indices: 1868408--1868489 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1868398 ATTTTTCACA
*
1868408 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
1868436 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
1868464 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
1868490 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:1880884 original size:14 final size:13
Alignment explanation
Indices: 1880865--1880912 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
1880855 CCTTCTCTTC
*
1880865 AAAAAAAAAAGCAA
1 AAAAAAAAAAAC-A
1880879 AAAAAAAAAAACA
1 AAAAAAAAAAACA
*
1880892 AAAAAACAAAACA
1 AAAAAAAAAAACA
*
1880905 AAGAAAAA
1 AAAAAAAA
1880913 GAGAGAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:1880885 original size:15 final size:14
Alignment explanation
Indices: 1880865--1880912 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
1880855 CCTTCTCTTC
*
1880865 AAAAAAAAAAGCAA
1 AAAAAAAAAAACAA
1880879 AAAAAAAAAAAC-A
1 AAAAAAAAAAACAA
*
1880892 AAAAAACAAAACAA
1 AAAAAAAAAAACAA
1880906 AGAAAAA
1 A-AAAAA
1880913 GAGAGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 12 0.40
14 13 0.43
15 5 0.17
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:1881978 original size:55 final size:55
Alignment explanation
Indices: 1881894--1882671 Score: 972
Period size: 55 Copynumber: 13.9 Consensus size: 55
1881884 TCCGCTTTTT
* *
1881894 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCTACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
**
1881949 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
**
1882004 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTCC
*
1882059 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
*
1882114 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTCC
* *
1882170 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* * *
1882225 AGTCCTCAAAGAGCATGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* * **
1882280 AGTCCCCGAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTCC
* * ** *
1882335 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
*** * * *
1882390 AGTCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCTACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTCC
* * * ** *
1882451 AGTCC-CTAAAGAGCAGGACACCTTTTAAAGCCCACATAGGTTGGTGGCATTTTTC
1 AGTCCTC-AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
*** * * *
1882506 AGTCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCTACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTCC
*
1882567 AGTCC-CTAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTC-AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
1882622 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCAC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
1882672 TTTTTACTCC
Statistics
Matches: 643, Mismatches: 58, Indels: 44
0.86 0.08 0.06
Matches are distributed among these distances:
54 5 0.01
55 477 0.74
56 66 0.10
57 2 0.00
59 2 0.00
60 10 0.02
61 81 0.13
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:1882395 original size:276 final size:276
Alignment explanation
Indices: 1881894--1882694 Score: 1055
Period size: 276 Copynumber: 2.9 Consensus size: 276
1881884 TCCGCTTTTT
* *
1881894 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCTACACAAGTTGGTGGCGCCTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCTAGTCCTCAAA
* * *
1881959 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAC
66 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGAC
*
1882023 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAA
130 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAA
* *** *
1882088 GCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGA-C-ACCTCTCAAAGCCCACAC
195 GCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGAGCTA-CTCTCAAAGCCCACAC
1882151 AAGTTGGTGGCACCTTTCC
259 AAGTTGGTGGCACCTTT-C
1882170 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCTAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCTAGTCCTCAAA
* *
1882235 GAGCATGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCGAAGAGCAGGACA
66 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1882300 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAG
131 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAG
* * *
1882365 CCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCTA
196 CCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGA-GC----TACTCTCAAAGCCCA
1882430 CACAAGTTGGTGGCACCTTTC
256 CACAAGTTGGTGGCACCTTTC
* * * ** *
1882451 AGTCC-CTAAAGAGCAGGACACCTTTTAAAGCCCACATAGGTTGGTGGC-ATTTTTCAGTCCTCA
1 AGTCCTC-AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCT-AGTCCTCA
* * * *
1882514 AAGAGCAGGATGCTTTTTA-TTTTCAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCCTAAAG
64 AAGAGCAGGA--C-----ACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAG
*
1882578 AGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC
122 AGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAC
* * * * *
1882641 GCCTTTCAAAGCCCACAC-GAGTTGGTGGCACTTTTT-ACTCCTCAATGAGAAGGA
185 ACCTTTTAAAGCCCACACAG-GTTGGTGGCA-TTTTTCAGTCCTCAAAGAGCAGGA
1882695 TACACTTTAT
Statistics
Matches: 470, Mismatches: 34, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
276 221 0.47
277 3 0.01
278 1 0.00
280 4 0.01
281 61 0.13
282 30 0.06
283 2 0.00
286 1 0.00
287 136 0.29
288 11 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (276 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCTAGTCCTCAAA
GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAG
CCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGAGCTACTCTCAAAGCCCACACAA
GTTGGTGGCACCTTTC
Found at i:1883367 original size:20 final size:20
Alignment explanation
Indices: 1883320--1883396 Score: 109
Period size: 21 Copynumber: 3.8 Consensus size: 20
1883310 AAAAAATTCT
***
1883320 AAATGTATCGATACATTTGT
1 AAATGTATCGATACATTCAC
1883340 AGAATGTATCGATACATTCAC
1 A-AATGTATCGATACATTCAC
1883361 AAATGTATCGATACATTCTAC
1 AAATGTATCGATACATTC-AC
1883382 AAATGTATCGATACA
1 AAATGTATCGATACA
1883397 GGGTCCCAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 18 0.35
21 34 0.65
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATTCAC
Found at i:1883456 original size:19 final size:19
Alignment explanation
Indices: 1883432--1883499 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1883422 AATTCAACGA
1883432 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1883451 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1883466 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1883483 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1883500 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1883470 original size:32 final size:32
Alignment explanation
Indices: 1883434--1883496 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1883424 TTCAACGATT
*
1883434 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1883466 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1883497 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1883471 original size:13 final size:13
Alignment explanation
Indices: 1883453--1883477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1883443 ACATAAGTTT
1883453 TGTATCGATACAA
1 TGTATCGATACAA
1883466 TGTATCGATACA
1 TGTATCGATACA
1883478 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.