Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 47 of 193
Found at i:14323472 original size:85 final size:85
Alignment explanation
Indices: 14323321--14323487 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
14323311 AAACCCCCAT
* * * *
14323321 CTTCCTGATAAGATACAGAGAAGTGGGTCAAAGAAATAAAGCAGTTATCTTCCTGATGAGACACA
1 CTTCCTGATAAGATACAAAGAAGTGGATCAAAGAAATAAAGCAGTCATCTTCCTGATAAGACACA
*
14323386 GAGAAGTGGACCAAATCCGC
66 GAGAAGTAGACCAAATCCGC
* ** * * *
14323406 CTTCCTGATAAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATAAGATACA
1 CTTCCTGATAAGATACAAAGAAGTGGATCAAAGAAATAAAGCAGTCATCTTCCTGATAAGACACA
*
14323471 GAGAAGTAGACTAAATC
66 GAGAAGTAGACCAAATC
14323488 AATGAAGTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (85 bp):
CTTCCTGATAAGATACAAAGAAGTGGATCAAAGAAATAAAGCAGTCATCTTCCTGATAAGACACA
GAGAAGTAGACCAAATCCGC
Found at i:14323525 original size:209 final size:209
Alignment explanation
Indices: 14323157--14323850 Score: 978
Period size: 209 Copynumber: 3.3 Consensus size: 209
14323147 TTCAAACCCC
* * * * *
14323157 CATCTTCTTGATGAGATACAGATAAGTGGACCAAATCTGCCTTCTTGATGAGATATAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTG
* *
14323222 GATTAAATCAATGAAGCGGTCATCTTTCTGATGAGATATAGAGAAGTAGACTAAATCAATGAAGC
66 GATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGC
* *
14323287 GAAGCTCAATGTGAGTGAAAGTTCAAACCCCCATCTTCCTGATAAGATACAGAGAAGTGGGTCAA
131 GAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAA
*
14323352 AGAAATAAAGCAGT
196 AGAAATAAAGCGGT
* * * *
14323366 TATCTTCCTGATGAGACACAGAGAAGTGGACCAAATCCGCCTTCCTGATAAGATACAAAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTG
* *
14323431 GATTAAATCAATGAAGCGGTCATCTTCCTGATAAGATACAGAGAAGTAGACTAAATCAATGAAGT
66 GATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGC
* * * * *
14323496 AAAGCTTAATGTGAGTAAAACTTCAAACCCCCATCTTCCTGATGAGATATAGAGGAGTGGGTCAA
131 GAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAA
*
14323561 AGCAATAAAGCGGT
196 AGAAATAAAGCGGT
* * * * *
14323575 CATCTTTCTGATGAGATAGAGAGAATTGGACCAAATCCGTCTTCCTGATGAGATATAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTG
* * * * * * * *
14323640 GATCAAAAT-AATGAAGTGGTCATCTTCTTAATGAGATACAAAGAAGCAGACCAAGTCAATGAAG
66 GAT-TAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAG
* * *
14323704 CGAAGCTCAATGTGAGTGAAACTTTAAACTCCCATCTTCCTGATGATATACAGAGAAGTGGGTCA
130 CGAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCA
*
14323769 AA-ACAATAGAGCGGT
195 AAGA-AATAAAGCGGT
* * *
14323784 CATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTG
14323849 GA
66 GA
14323851 CCAAAAGATG
Statistics
Matches: 426, Mismatches: 57, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
209 422 0.99
210 4 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (209 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTG
GATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGC
GAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAA
AGAAATAAAGCGGT
Found at i:14323628 original size:644 final size:640
Alignment explanation
Indices: 14322399--14323638 Score: 1724
Period size: 644 Copynumber: 1.9 Consensus size: 640
14322389 ATAAAGCGGT
* ** * *
14322399 CATCTTCCTGATAAGATACAGTGAAGTGAACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTA
1 CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTA
* *
14322464 AACCAAATCAATGAAGCAAAGCTTAATGTGAGCAAAACTTCAAACCCCCGTCTTCTTGATGAGAT
66 AACCAAATCAATGAAGCAAAGCTCAATGTGAGCAAAACTTCAAACCCCCATCTTCTTGATGAGAT
*
14322529 ACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAA
131 ACAGAGAAGTGGG---AAGC-ACAAAGCGGTCA-CTTCCTGATGAGATACAGAGAAGTGGACCAA
* *
14322594 ATCTGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCAAAGCTCAATGTGAGTG
191 ATCTGCCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCAAAGCTCAATGTGAGTG
* * * *
14322659 AAACTTCAAAACCCCAACCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCA
256 AAACTTCAAAACCCCAACCTTCCTGATAAGATACAGAGAAGTGGGTCAAAGAAATAAAGAGGTCA
* * * * *
14322724 TCTTCTTGATGAGATACAGAAAAGTGGACCAAATCCGCCTTCCTGATGAGATGCAGAGAAGTGGA
321 TCTTCCTGATGAGACACAGAAAAGTGGACCAAATCCGCCTTCCTGATAAGATACAAAGAAGTGGA
* * *
14322789 TTAAATCAATGAAATGTTCATCTTCCTAATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAA
386 TTAAATCAATGAAACGGTCATCTTCCTAATAAGATACAAAGAAGTAGACCAAATCAATGAAGCAA
* *
14322854 AGCTCAATGTGAGTCAAAGTTCAAACCCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAG
451 AGCTCAATGTGAGTAAAACTTCAAACCCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAG
14322919 CAATAAAGCGATCATCTTCTTGACAAGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGA
516 CAATAAAGCGATCATCTTCTTGACAAGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGA
14322984 TAAAGAGAAGTAAACCAAATCAATGAAGCAAAGCTTAATGTGAGTGAAACTTCAAACCCC
581 TAAAGAGAAGTAAACCAAATCAATGAAGCAAAGCTTAATGTGAGTGAAACTTCAAACCCC
* *
14323044 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTA
1 CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTA
**
14323109 AACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCTTGATGAGAT
66 AACCAAATCAATGAAGCAAAGCTCAATGTGAGCAAAACTTCAAACCCCCATCTTCTTGATGAGAT
* * * * * **
14323174 ACAGATAAGT-GG-A-C-CAAATCTG-C-CTTCTTGATGAGATATAGAGAAGTGGATTAAATCAA
131 ACAGAGAAGTGGGAAGCACAAAGCGGTCACTTCCTGATGAGATACAGAGAAGTGGACCAAATC--
* * *
14323233 TGAAGCGGTCATCTTTCTGATGAGATATAGAGAAGTAGACTAAATCAATGAAGCGAAGCTCAATG
194 T------G-C--CTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCAAAGCTCAATG
* * *
14323298 TGAGTGAAAGTTC-AAACCCCCATCTTCCTGATAAGATACAGAGAAGTGGGTCAAAGAAATAAAG
250 TGAGTGAAACTTCAAAACCCCAACCTTCCTGATAAGATACAGAGAAGTGGGTCAAAGAAATAAAG
* *
14323362 CA-GTTATCTTCCTGATGAGACACAGAGAAGTGGACCAAATCCGCCTTCCTGATAAGATACAAAG
315 -AGGTCATCTTCCTGATGAGACACAGAAAAGTGGACCAAATCCGCCTTCCTGATAAGATACAAAG
* * * *
14323426 AAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATAAGATACAGAGAAGTAGACTAAATCAAT
379 AAGTGGATTAAATCAATGAAACGGTCATCTTCCTAATAAGATACAAAGAAGTAGACCAAATCAAT
* * *
14323491 GAAGTAAAGCTTAATGTGAGTAAAACTTCAAACCCCCATCTTCCTGATGAGATATAGAGGAGTGG
444 GAAGCAAAGCTCAATGTGAGTAAAACTTCAAACCCCCATCTTCCTGATGAGATATAGAGAAGTGG
* ** * * **
14323556 GTCAAAGCAATAAAGCGGTCATCTT-TCTGATGAGATAGAGAGAATTGGACCAAATCCGTCTTCC
509 GTCAAAGCAATAAAGCGATCATCTTCT-TGACAAGATACAGAGAAGTGGACCAAATCCACCTTCC
* *
14323620 TGATGAGATATAGAGAAGT
573 TAATGAGATAAAGAGAAGT
14323639 GGATCAAAAT
Statistics
Matches: 523, Mismatches: 59, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
634 30 0.06
636 2 0.00
637 5 0.01
639 1 0.00
640 1 0.00
642 1 0.00
643 2 0.00
644 292 0.56
645 189 0.36
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (640 bp):
CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTA
AACCAAATCAATGAAGCAAAGCTCAATGTGAGCAAAACTTCAAACCCCCATCTTCTTGATGAGAT
ACAGAGAAGTGGGAAGCACAAAGCGGTCACTTCCTGATGAGATACAGAGAAGTGGACCAAATCTG
CCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACT
TCAAAACCCCAACCTTCCTGATAAGATACAGAGAAGTGGGTCAAAGAAATAAAGAGGTCATCTTC
CTGATGAGACACAGAAAAGTGGACCAAATCCGCCTTCCTGATAAGATACAAAGAAGTGGATTAAA
TCAATGAAACGGTCATCTTCCTAATAAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAGCTC
AATGTGAGTAAAACTTCAAACCCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATA
AAGCGATCATCTTCTTGACAAGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAG
AGAAGTAAACCAAATCAATGAAGCAAAGCTTAATGTGAGTGAAACTTCAAACCCC
Found at i:14323692 original size:85 final size:85
Alignment explanation
Indices: 14323529--14323693 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 85
14323519 CAAACCCCCA
* * * * *
14323529 TCTTCCTGATGAGATATAGAGGAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATAG
1 TCTTCCTGATGAGATATAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTTCTAATGAGATAC
* ***
14323594 AGAGAATTGGACCAAATCCG
66 AAAGAAGCAGACCAAATCCG
* * *
14323614 TCTTCCTGATGAGATATAGAGAAGTGGATCAAAATAATGAAGTGGTCATC-TTCTTAATGAGATA
1 TCTTCCTGATGAGATATAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTTC-TAATGAGATA
14323678 CAAAGAAGCAGACCAA
65 CAAAGAAGCAGACCAA
14323694 GTCAATGAAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 3 0.04
85 64 0.96
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (85 bp):
TCTTCCTGATGAGATATAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTTCTAATGAGATAC
AAAGAAGCAGACCAAATCCG
Found at i:14324755 original size:30 final size:30
Alignment explanation
Indices: 14324720--14324779 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
14324710 AGTGTTTTTT
14324720 CTTATT-TTTAAATATATATTAATATATTTA
1 CTTATTATTT-AATATATATTAATATATTTA
*
14324750 CTTATTATTTATTATATATTAATATATTTA
1 CTTATTATTTAATATATATTAATATATTTA
14324780 TTAATTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (30 bp):
CTTATTATTTAATATATATTAATATATTTA
Found at i:14324798 original size:34 final size:30
Alignment explanation
Indices: 14324732--14324792 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
14324722 TATTTTTAAA
14324732 TATATATTAATATATTTACTTATTATTTAT
1 TATATATTAATATATTTACTTATTATTTAT
*
14324762 TATATATTAATATATTTA-TTAATTGTTTAT
1 TATATATTAATATATTTACTT-ATTATTTAT
14324792 T
1 T
14324793 TATTATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
TATATATTAATATATTTACTTATTATTTAT
Found at i:14325853 original size:30 final size:30
Alignment explanation
Indices: 14325741--14325857 Score: 132
Period size: 30 Copynumber: 3.9 Consensus size: 30
14325731 AAAAATTGCA
* *
14325741 TTTTGACCCCTAAACTTTTCTAAAATTATA-
1 TTTTGACCCCTAAACTTTCCAAAAATTA-AG
*
14325771 TTTTGACCCCTAAATTTTTCC-AAAATTAAG
1 TTTTGACCCCTAAA-CTTTCCAAAAATTAAG
*
14325801 TTTTGA-TCCTCAAACTTTCCAAAAATTAAG
1 TTTTGACCCCT-AAACTTTCCAAAAATTAAG
* *
14325831 TTTTGACCCTTAAACTTCCCAAAAATT
1 TTTTGACCCCTAAACTTTCCAAAAATT
14325858 TGAATTTAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
29 9 0.12
30 60 0.80
31 6 0.08
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTTGACCCCTAAACTTTCCAAAAATTAAG
Found at i:14325870 original size:30 final size:31
Alignment explanation
Indices: 14325832--14325914 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 31
14325822 AAAATTAAGT
14325832 TTTG-ACCCTTAAACTTCCCAAAAATTTGAA
1 TTTGAACCCTTAAACTTCCCAAAAATTTGAA
*** *
14325862 TTT-AACCCTCGTACTTCCCCAAAATTTGAA
1 TTTGAACCCTTAAACTTCCCAAAAATTTGAA
* *
14325892 TTTGATCCC-TAAACTTTCCAAAA
1 TTTGAACCCTTAAACTTCCCAAAA
14325915 TTTCATTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
30 37 0.90
31 4 0.10
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.34
Consensus pattern (31 bp):
TTTGAACCCTTAAACTTCCCAAAAATTTGAA
Found at i:14327263 original size:15 final size:15
Alignment explanation
Indices: 14327243--14327273 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14327233 TATGGAAGTT
14327243 GAGAATCAAGAAAAA
1 GAGAATCAAGAAAAA
14327258 GAGAATCAAGAAAAA
1 GAGAATCAAGAAAAA
14327273 G
1 G
14327274 GACTGTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.23, T:0.06
Consensus pattern (15 bp):
GAGAATCAAGAAAAA
Found at i:14329718 original size:18 final size:18
Alignment explanation
Indices: 14329686--14329720 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14329676 AATTCATTCT
*
14329686 CATTCTCTCCCTCTCTCA
1 CATTCTCTCACTCTCTCA
*
14329704 CATTCTCTCATTCTCTC
1 CATTCTCTCACTCTCTC
14329721 TTTAAGAGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.46, G:0.00, T:0.43
Consensus pattern (18 bp):
CATTCTCTCACTCTCTCA
Found at i:14331073 original size:22 final size:20
Alignment explanation
Indices: 14331035--14331074 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
14331025 GTTTTGACTA
*
14331035 TAAGTAGGATTAGTTAAGGC
1 TAAGTAGGATTAATTAAGGC
14331055 TAAGTAAGAGATTAATTAAG
1 TAAGT-AG-GATTAATTAAG
14331075 TTAATCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (20 bp):
TAAGTAGGATTAATTAAGGC
Found at i:14339173 original size:26 final size:26
Alignment explanation
Indices: 14339077--14339174 Score: 99
Period size: 26 Copynumber: 3.8 Consensus size: 26
14339067 TCTCATCCCA
* *
14339077 ATTTTACTCCTA-ATAAAATTATGATG
1 ATTTTAC-CCTAGGTAAAATTATGACG
*
14339103 ATTTTACCCTTGGTAAAATTATGACG
1 ATTTTACCCTAGGTAAAATTATGACG
** * *
14339129 ATTTTACCCCCGATGAAATTATGACG
1 ATTTTACCCTAGGTAAAATTATGACG
* *
14339155 ATTCTATCCTAGGTAAAATT
1 ATTTTACCCTAGGTAAAATT
14339175 TCCAAGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 3 0.05
26 55 0.95
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (26 bp):
ATTTTACCCTAGGTAAAATTATGACG
Found at i:14339771 original size:27 final size:27
Alignment explanation
Indices: 14339739--14339797 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
14339729 GACGAACTGG
* * **
14339739 GGGTTTGCCAGTTTGTTTGGTGAGCTA
1 GGGTTTGCCAATGTGTTTGGCAAGCTA
*
14339766 GGGTTTGTCAATGTGTTTGGCAAGCTA
1 GGGTTTGCCAATGTGTTTGGCAAGCTA
14339793 GGGTT
1 GGGTT
14339798 CATCAGTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.10, G:0.37, T:0.39
Consensus pattern (27 bp):
GGGTTTGCCAATGTGTTTGGCAAGCTA
Found at i:14339807 original size:27 final size:27
Alignment explanation
Indices: 14339747--14339852 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
14339737 GGGGGTTTGC
* * **
14339747 CAGTTTGTTTGGTGAGCTAGGGTTTGT
1 CAGTGTGTTTGGCGAGCTAGGGTTCAT
* *
14339774 CAATGTGTTTGGCAAGCTAGGGTTCAT
1 CAGTGTGTTTGGCGAGCTAGGGTTCAT
*
14339801 CAGTGTGTTTGGCGAGCTCA-AGTTCAT
1 CAGTGTGTTTGGCGAGCT-AGGGTTCAT
* *
14339828 CAGCGTGTTTGGCGAGCTAAGGTTC
1 CAGTGTGTTTGGCGAGCTAGGGTTC
14339853 GCCAGTTATT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 64 0.97
28 1 0.02
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (27 bp):
CAGTGTGTTTGGCGAGCTAGGGTTCAT
Found at i:14354676 original size:17 final size:18
Alignment explanation
Indices: 14354656--14354695 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14354646 TTAGTTTTAA
14354656 TGCATTTT-TATTATCAC
1 TGCATTTTATATTATCAC
* *
14354673 TGCATTTTATTTTGTCAC
1 TGCATTTTATATTATCAC
14354691 TGCAT
1 TGCAT
14354696 CATTTTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (18 bp):
TGCATTTTATATTATCAC
Found at i:14357842 original size:17 final size:17
Alignment explanation
Indices: 14357776--14357854 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 17
14357766 TGTTAGTAAG
** *
14357776 CATTGTCATCACATTCC
1 CATTGTCATTGCATTTC
* * *
14357793 CATTGTTATTACATTTT
1 CATTGTCATTGCATTTC
* * * *
14357810 AATTGTCACTGTATTTG
1 CATTGTCATTGCATTTC
14357827 CATTGTCATTGCATTTC
1 CATTGTCATTGCATTTC
14357844 CATTTGTCATT
1 CA-TTGTCATT
14357855 ATAATTTAAT
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
17 39 0.83
18 8 0.17
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:14358433 original size:5 final size:5
Alignment explanation
Indices: 14358423--14358448 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14358413 ATAAAAAAAG
14358423 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
14358449 AGATAGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:14363218 original size:23 final size:24
Alignment explanation
Indices: 14363190--14363235 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14363180 AAAAGTTTAA
14363190 TAATTACTAAATA-TAATT-TAATG
1 TAATTA-TAAATATTAATTATAATG
*
14363213 TAATTATAATTATTAATTATAAT
1 TAATTATAAATATTAATTATAAT
14363236 TATTTCGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATTATAAATATTAATTATAATG
Found at i:14363224 original size:6 final size:6
Alignment explanation
Indices: 14363189--14363238 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
14363179 TAAAAGTTTA
* *
14363189 ATAATT ACTAAAT ATAATT -TAA-T GTAATT ATAATT ATTAATT ATAATT
1 ATAATT A-TAATT ATAATT ATAATT ATAATT ATAATT A-TAATT ATAATT
14363237 AT
1 AT
14363239 TTCGTTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
4 1 0.03
5 6 0.16
6 19 0.51
7 11 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:14363231 original size:13 final size:13
Alignment explanation
Indices: 14363189--14363239 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
14363179 TAAAAGTTTA
* *
14363189 ATAATTACTAAAT
1 ATAATTATTAATT
14363202 ATAATTTAATGTAATT
1 ATAA-TT-AT-TAATT
14363218 ATAATTATTAATT
1 ATAATTATTAATT
14363231 ATAATTATT
1 ATAATTATT
14363240 TCGTTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 18 0.55
14 4 0.12
15 3 0.09
16 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
ATAATTATTAATT
Found at i:14363412 original size:122 final size:122
Alignment explanation
Indices: 14363246--14363731 Score: 733
Period size: 123 Copynumber: 4.0 Consensus size: 122
14363236 TATTTCGTTA
** * * *
14363246 AATATTAAAAATTTGATA-TTAATATCCTTTTCGAAAGGATATAATGTTTTAATAACTTTCCATA
1 AATATTAAAAACATGAAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACCTTCCATA
14363310 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAAGAAATTG
66 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAAGAAATTG
* *
14363367 AATATTAAAAACATGAAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACTTTTCATA
1 AATATTAAAAACATGAAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACCTTCCATA
* *
14363432 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGAAATTAAATAAAAGGAAATTG
66 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAAGAAATTG
* * * *
14363489 AATATTAAAAACATGGAAGTTAATATCCTTTTGAAAAGGATATAATATTTTAACAAACCTTCCAT
1 AATATTAAAAACATGAAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAA-TAACCTTCCAT
* *
14363554 ATATTTCTCTAAAAGAATATTTCCATTTTAATATGAGATATTAAAT-AAAAGAAAATTG
65 ATATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAAG-AAATTG
* *
14363612 AATATTAAAAACATGAAAGTTAATATCCTTTTGGAAAGTATATAATTTTTTAATAAACCTTCCAT
1 AATATTAAAAACATGAAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAAT-AACCTTCCAT
* * * * *
14363677 ATGTTTCTCTAAAGGAATATTTTCGTTTTAATATGAGATATTAAATAAAAGGAAA
65 ATATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAAGAAA
14363732 GATAACATAA
Statistics
Matches: 333, Mismatches: 27, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
121 15 0.05
122 153 0.46
123 161 0.48
124 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (122 bp):
AATATTAAAAACATGAAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACCTTCCATA
TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAAGAAATTG
Found at i:14363629 original size:22 final size:21
Alignment explanation
Indices: 14363591--14363637 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
14363581 TTAATATGAG
14363591 ATATTAAATAAAAGAAAATTGA
1 ATATTAAATAAAAGAAAATT-A
* *
14363613 ATATTAAA-AACATGAAAGTTA
1 ATATTAAATAA-AAGAAAATTA
14363634 ATAT
1 ATAT
14363638 CCTTTTGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (21 bp):
ATATTAAATAAAAGAAAATTA
Found at i:14375957 original size:22 final size:22
Alignment explanation
Indices: 14375929--14375971 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14375919 GTCACGTGAC
14375929 TGACGTGGTGATGATGTGGCAA
1 TGACGTGGTGATGATGTGGCAA
14375951 TGACGTGGTGATGATGTGGCA
1 TGACGTGGTGATGATGTGGCA
14375972 GTGCTGACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.42, T:0.28
Consensus pattern (22 bp):
TGACGTGGTGATGATGTGGCAA
Found at i:14378390 original size:38 final size:38
Alignment explanation
Indices: 14378342--14378452 Score: 150
Period size: 38 Copynumber: 2.9 Consensus size: 38
14378332 TTCTAATGCT
*
14378342 ATCACTCATGCAATGACAATTTTGGGCGCAATTCTAAAC
1 ATCA-TCATGCAGTGACAATTTTGGGCGCAATTCTAAAC
* * *
14378381 GTCATCATGCAGTGACAATTTTGTGCGCAATTCTAGAC
1 ATCATCATGCAGTGACAATTTTGGGCGCAATTCTAAAC
** *
14378419 ATTGTCATGCAGTGACAATTCTGGGCGCAATTCT
1 ATCATCATGCAGTGACAATTTTGGGCGCAATTCT
14378453 GAATAGACTC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
38 60 0.95
39 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (38 bp):
ATCATCATGCAGTGACAATTTTGGGCGCAATTCTAAAC
Found at i:14378465 original size:38 final size:38
Alignment explanation
Indices: 14378345--14378465 Score: 133
Period size: 38 Copynumber: 3.2 Consensus size: 38
14378335 TAATGCTATC
*
14378345 ACTCATGCAATGACAATTTTGGGCGCAATTCT-AA-ACG
1 ACTCATGCAGTGACAATTTTGGGCGCAATTCTGAATA-G
* * *
14378382 TCATCATGCAGTGACAATTTTGTGCGCAATTCTAGACATTG
1 AC-TCATGCAGTGACAATTTTGGGCGCAATTCT-GA-ATAG
*
14378423 --TCATGCAGTGACAATTCTGGGCGCAATTCTGAATAG
1 ACTCATGCAGTGACAATTTTGGGCGCAATTCTGAATAG
14378459 ACTCATG
1 ACTCATG
14378466 TAGCGACATT
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
36 3 0.04
37 3 0.04
38 61 0.87
40 1 0.01
41 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (38 bp):
ACTCATGCAGTGACAATTTTGGGCGCAATTCTGAATAG
Found at i:14378871 original size:3 final size:3
Alignment explanation
Indices: 14378865--14378900 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14378855 TAATTACATA
*
14378865 TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14378901 ATATGACTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:14379494 original size:17 final size:17
Alignment explanation
Indices: 14379461--14379522 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
14379451 CACTACATTA
*
14379461 CAATGACAAATGGAAATG
1 CAATGAC-AATGCAAATG
14379479 CAATGACAATGCAAATG
1 CAATGACAATGCAAATG
* *
14379496 CACTGACAATGCAAAAG
1 CAATGACAATGCAAATG
14379513 CAATGACAAT
1 CAATGACAAT
14379523 TAAAATGTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 33 0.82
18 7 0.17
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (17 bp):
CAATGACAATGCAAATG
Found at i:14379516 original size:34 final size:34
Alignment explanation
Indices: 14379464--14379540 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
14379454 TACATTACAA
* * *
14379464 TGACAAATGGAAATGCAATGACAATGCAAATGCAC
1 TGAC-AATGCAAAAGCAATGACAATGAAAATGCAC
* * *
14379499 TGACAATGCAAAAGCAATGACAATTAAAATGTAG
1 TGACAATGCAAAAGCAATGACAATGAAAATGCAC
14379533 TGACAATG
1 TGACAATG
14379541 GGAATGTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 32 0.89
35 4 0.11
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (34 bp):
TGACAATGCAAAAGCAATGACAATGAAAATGCAC
Found at i:14380896 original size:22 final size:20
Alignment explanation
Indices: 14380871--14380910 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
14380861 AACAAGACGT
14380871 AAAATAAACTTAAACATAAAAA
1 AAAATAAAC-TAAA-ATAAAAA
*
14380893 AAAATTAACTAAAATAAA
1 AAAATAAACTAAAATAAA
14380911 CACTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATAAACTAAAATAAAAA
Found at i:14382212 original size:38 final size:38
Alignment explanation
Indices: 14382170--14382262 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
14382160 CTGGGCATGC
* *
14382170 TCATGCAGTGATAATTTTAGGCACAATTATGGACATCG
1 TCATGCAGTGACAATTCTAGGCACAATTATGGACATCG
* * * ** *
14382208 TCATGTAATGACAATTCTATGCGTAATTTTGGACATCG
1 TCATGCAGTGACAATTCTAGGCACAATTATGGACATCG
14382246 TCATGCAGTGACAATTC
1 TCATGCAGTGACAATTC
14382263 AGAAAGCAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (38 bp):
TCATGCAGTGACAATTCTAGGCACAATTATGGACATCG
Found at i:14384032 original size:22 final size:20
Alignment explanation
Indices: 14383984--14384033 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
14383974 CATAAACCAA
**
14383984 AACCCAAAACCCTTTGACCC
1 AACCCAAAACCCTTTGAAAC
*
14384004 AAACCAAAGACCCTTTTGAAAC
1 AACCCAAA-ACCC-TTTGAAAC
14384026 AACCCAAA
1 AACCCAAA
14384034 CCATACCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
22 13 0.54
ACGTcount: A:0.44, C:0.36, G:0.06, T:0.14
Consensus pattern (20 bp):
AACCCAAAACCCTTTGAAAC
Found at i:14388119 original size:24 final size:24
Alignment explanation
Indices: 14388086--14388140 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
14388076 GTTAAGAGTA
*
14388086 AAAATTGTCAGTGCAAATGTAATAT
1 AAAATTGTCAGAGCAAAT-TAATAT
14388111 AAAA-TGTCAGAGCAAATTAATA-
1 AAAATTGTCAGAGCAAATTAATAT
14388133 AAAGATTG
1 AAA-ATTG
14388141 AATTTATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.11
23 6 0.22
24 14 0.52
25 4 0.15
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (24 bp):
AAAATTGTCAGAGCAAATTAATAT
Found at i:14390735 original size:18 final size:17
Alignment explanation
Indices: 14390712--14390765 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
14390702 CGAGGAAAAA
14390712 TCTTCTTTTTCTTCCTTC
1 TCTTCTTTTTCTT-CTTC
*
14390730 TCTTCTTTTTCTTCTTA
1 TCTTCTTTTTCTTCTTC
*
14390747 TTTTCTTTCTTCTTCTTC
1 TCTTCTTT-TTCTTCTTC
14390765 T
1 T
14390766 GCCTCAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 10 0.31
18 22 0.69
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (17 bp):
TCTTCTTTTTCTTCTTC
Found at i:14396893 original size:18 final size:18
Alignment explanation
Indices: 14396854--14396903 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
14396844 CATTCGAACT
*
14396854 TGTGGCTGCATCTGAGTA
1 TGTGACTGCATCTGAGTA
*
14396872 TGTGACTGCATCT-AGTTC
1 TGTGACTGCATCTGAG-TA
*
14396890 TGTGATTGCATCTG
1 TGTGACTGCATCTG
14396904 GTCAGGCTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (18 bp):
TGTGACTGCATCTGAGTA
Found at i:14407840 original size:18 final size:18
Alignment explanation
Indices: 14407819--14407858 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14407809 AAATAGTTAG
14407819 TAAATAAAGAATAA-AAAA
1 TAAATAAAGAA-AATAAAA
*
14407837 TAAATAAATAAAATAAAA
1 TAAATAAAGAAAATAAAA
14407855 TAAA
1 TAAA
14407859 AACCAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (18 bp):
TAAATAAAGAAAATAAAA
Found at i:14407877 original size:27 final size:27
Alignment explanation
Indices: 14407847--14407933 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
14407837 TAAATAAATA
14407847 AAATAAAATAAAAACCAAATTGCAAAG
1 AAATAAAATAAAAACCAAATTGCAAAG
* * *
14407874 AAAT-AAA-AAGAA-TAAATTAGTAATTAG
1 AAATAAAATAAAAACCAAATT-GCAA--AG
* *
14407901 AAATAAAATGAAAACCAAATTTCAAAG
1 AAATAAAATAAAAACCAAATTGCAAAG
14407928 AAATAA
1 AAATAA
14407934 TTCCACAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
24 5 0.11
25 7 0.15
26 3 0.07
27 18 0.39
28 3 0.07
29 5 0.11
30 5 0.11
ACGTcount: A:0.66, C:0.07, G:0.08, T:0.20
Consensus pattern (27 bp):
AAATAAAATAAAAACCAAATTGCAAAG
Found at i:14410478 original size:9 final size:9
Alignment explanation
Indices: 14410464--14410506 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
14410454 CTCAAATCAT
14410464 TCTCTCAAC
1 TCTCTCAAC
14410473 TCTCTCAAAC
1 TCTCTC-AAC
* *
14410483 CCTCTCAAG
1 TCTCTCAAC
14410492 TCTCTCAAC
1 TCTCTCAAC
*
14410501 TTTCTC
1 TCTCTC
14410507 GTTTTAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.21, C:0.42, G:0.02, T:0.35
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:14410698 original size:31 final size:29
Alignment explanation
Indices: 14410663--14410722 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
14410653 GGTAATACAG
14410663 AAATTTAAATTTTGTTAATTTCAATATTGTT
1 AAATTT-AATTTTGTTAATTTCAA-ATTGTT
* * *
14410694 AAATTTATTTTTTTTAATTTTAAATTGTT
1 AAATTTAATTTTGTTAATTTCAAATTGTT
14410723 TTTGTGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 6 0.23
30 14 0.54
31 6 0.23
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (29 bp):
AAATTTAATTTTGTTAATTTCAAATTGTT
Found at i:14413657 original size:18 final size:18
Alignment explanation
Indices: 14413634--14413670 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14413624 TTTGTGATCA
14413634 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
14413652 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
14413670 A
1 A
14413671 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:14426831 original size:18 final size:17
Alignment explanation
Indices: 14426810--14426862 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
14426800 TCTTTTTTTT
14426810 AATTTAACTATTTTTTCA
1 AATTTAA-TATTTTTTCA
* *
14426828 AATTTTAATTTTTTTTGA
1 AA-TTTAATATTTTTTCA
14426846 ATATTTAGATATTTTTT
1 A-ATTTA-ATATTTTTT
14426863 TTTTTTTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (17 bp):
AATTTAATATTTTTTCA
Found at i:14429606 original size:25 final size:24
Alignment explanation
Indices: 14429553--14429606 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
14429543 TTCGGATAAG
* *
14429553 CAAAACGGGAGTTTCAGTTTTAAT
1 CAAAACGGGAGTTTAAGCTTTAAT
14429577 CAAAACGGGGAGTTTTAAGCTTTAAT
1 CAAAAC-GGGAG-TTTAAGCTTTAAT
14429603 -AAAA
1 CAAAA
14429607 TGATGCGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.23
25 9 0.35
26 11 0.42
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (24 bp):
CAAAACGGGAGTTTAAGCTTTAAT
Found at i:14429744 original size:5 final size:5
Alignment explanation
Indices: 14429722--14429760 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
14429712 CACAATATAT
*
14429722 TTCTT TTCTC TGTGCTC TTCTC TTCTC TTCTC TTCTC TT
1 TTCTC TTCTC T-T-CTC TTCTC TTCTC TTCTC TTCTC TT
14429761 TGATTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 25 0.81
6 2 0.06
7 4 0.13
ACGTcount: A:0.00, C:0.33, G:0.05, T:0.62
Consensus pattern (5 bp):
TTCTC
Found at i:14432557 original size:23 final size:23
Alignment explanation
Indices: 14432526--14432574 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
14432516 TTAAACCTCG
14432526 AAACCTAAAACAAAAAATTCT-CA
1 AAACCT-AAACAAAAAATTCTCCA
* *
14432549 AAACGTAAACACAAAATTCTCCA
1 AAACCTAAACAAAAAATTCTCCA
14432572 AAA
1 AAA
14432575 GTGTTATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.16
Consensus pattern (23 bp):
AAACCTAAACAAAAAATTCTCCA
Found at i:14436723 original size:39 final size:40
Alignment explanation
Indices: 14436612--14436723 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
14436602 CATATTTGGG
* * * *
14436612 ATTTAATTTTTATATTTTATTTTATCATAATGTTTTTGTA
1 ATTTAGTTTTTATATTTTAATTTAACATAATTTTTTTGTA
*
14436652 ATTTAG-TTTTATATTTTAATTTAACTTAAATTTTTTTG-A
1 ATTTAGTTTTTATATTTTAATTTAACAT-AATTTTTTTGTA
* *
14436691 GTTTAGTTTTTATATTTTAATGTAACATAATTT
1 ATTTAGTTTTTATATTTTAATTTAACATAATTT
14436724 GCTTCTCTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
39 29 0.47
40 33 0.53
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (40 bp):
ATTTAGTTTTTATATTTTAATTTAACATAATTTTTTTGTA
Found at i:14437376 original size:15 final size:16
Alignment explanation
Indices: 14437352--14437382 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
14437342 ATTAAAATTT
14437352 TAAAATTTAAAAAATA
1 TAAAATTTAAAAAATA
14437368 TAAAA-TTAAAAAATA
1 TAAAATTTAAAAAATA
14437383 ATTAACTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAATTTAAAAAATA
Found at i:14439025 original size:139 final size:140
Alignment explanation
Indices: 14438840--14439121 Score: 557
Period size: 139 Copynumber: 2.0 Consensus size: 140
14438830 CAATCTCATG
14438840 ATATCATATATATATATATATATATCAGAGTTCACAACATTTTATTCACAATATATCTCATGTTG
1 ATATCATATATATATATATATATATCAGAGTTCACAACATTTTATTCACAATATATCTCATGTTG
14438905 ATCACATTTCCCATAAATATGCACGACAATCAACATGCTTTGCACAGTTCAAAACTCTATCATAC
66 ATCACATTTCCCATAAATATGCACGACAATCAACATGCTTTGCACAGTTCAAAACTCTATCATAC
14438970 AATTTTTATA
131 AATTTTTATA
14438980 ATAT-ATATATATATATATATATATCAGAGTTCACAACATTTTATTCACAATATATCTCATGTTG
1 ATATCATATATATATATATATATATCAGAGTTCACAACATTTTATTCACAATATATCTCATGTTG
14439044 ATCACATTTCCCATAAATATGCACGACAATCAACATGCTTTGCACAGTTCAAAACTCTATCATAC
66 ATCACATTTCCCATAAATATGCACGACAATCAACATGCTTTGCACAGTTCAAAACTCTATCATAC
14439109 AATTTTTATA
131 AATTTTTATA
14439119 ATA
1 ATA
14439122 CAATATCAAT
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
139 138 0.97
140 4 0.03
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (140 bp):
ATATCATATATATATATATATATATCAGAGTTCACAACATTTTATTCACAATATATCTCATGTTG
ATCACATTTCCCATAAATATGCACGACAATCAACATGCTTTGCACAGTTCAAAACTCTATCATAC
AATTTTTATA
Found at i:14439745 original size:19 final size:19
Alignment explanation
Indices: 14439689--14439748 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
14439679 TGATTTCTCG
14439689 GAAAAAGTCAATTGGTCAAC
1 GAAAAAGTCAA-TGGTCAAC
* * *
14439709 GGAAAAGTCAACGATCAAC
1 GAAAAAGTCAATGGTCAAC
*
14439728 GAAAAAGTTAATGGTCAAC
1 GAAAAAGTCAATGGTCAAC
14439747 GA
1 GA
14439749 TCAACGGTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.17
Consensus pattern (19 bp):
GAAAAAGTCAATGGTCAAC
Found at i:14439888 original size:18 final size:18
Alignment explanation
Indices: 14439862--14439896 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14439852 ATCAATTGGG
*
14439862 TATTTGGTTTGGGTTAAT
1 TATTAGGTTTGGGTTAAT
14439880 TATTAGGTTTGGGTTAA
1 TATTAGGTTTGGGTTAA
14439897 AAGTATTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (18 bp):
TATTAGGTTTGGGTTAAT
Found at i:14450212 original size:13 final size:14
Alignment explanation
Indices: 14450186--14450218 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14450176 ATCCCAATAT
14450186 TTTTTAAAACAAAA
1 TTTTTAAAACAAAA
14450200 TTTTTAAAA-AAAA
1 TTTTTAAAACAAAA
*
14450213 TATTTA
1 TTTTTA
14450219 GAGAGTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTTTAAAACAAAA
Found at i:14450947 original size:2 final size:2
Alignment explanation
Indices: 14450935--14450973 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
14450925 CAATCTCATG
14450935 AT AT CAT AT AT AT 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
14450974 CAGAGTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14454652 original size:16 final size:17
Alignment explanation
Indices: 14454622--14454654 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14454612 ATGTTAGACA
14454622 TACAATTTTAGTAATTT
1 TACAATTTTAGTAATTT
*
14454639 TACATTTTTA-TAATTT
1 TACAATTTTAGTAATTT
14454655 CAAAAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (17 bp):
TACAATTTTAGTAATTT
Found at i:14454784 original size:26 final size:24
Alignment explanation
Indices: 14454755--14454813 Score: 57
Period size: 27 Copynumber: 2.3 Consensus size: 24
14454745 TTACAAAAAA
* *
14454755 ATTTCTTATTTTTATAATTCTTTTAT
1 ATTT-TTATTATTAAAATT-TTTTAT
14454781 ATTTTTTAATTATTAAAATTTTTTAT
1 A-TTTTT-ATTATTAAAATTTTTTAT
14454807 -TTTTTAT
1 ATTTTTAT
14454814 CAGATAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 2 0.07
24 5 0.17
26 9 0.31
27 13 0.45
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (24 bp):
ATTTTTATTATTAAAATTTTTTAT
Found at i:14455091 original size:18 final size:18
Alignment explanation
Indices: 14455068--14455167 Score: 58
Period size: 18 Copynumber: 5.4 Consensus size: 18
14455058 GTATTATGTG
14455068 AAAATAAAAAAAAATCTA
1 AAAATAAAAAAAAATCTA
*** *
14455086 AAAATATTTAAAAATATA
1 AAAATAAAAAAAAATCTA
* **
14455104 TAAATTTAAAAAAATCTTA
1 AAAATAAAAAAAAATC-TA
* *
14455123 AAAATTATAAAAACAAT-AA
1 AAAA-TA-AAAAAAAATCTA
* *
14455142 TAAAATATAAAAAATTCTA
1 -AAAATAAAAAAAAATCTA
14455161 AAAATAA
1 AAAATAA
14455168 CTGGAATTTT
Statistics
Matches: 58, Mismatches: 19, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
18 37 0.64
19 9 0.16
20 5 0.09
21 7 0.12
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAAAAAAAAATCTA
Found at i:14455113 original size:26 final size:26
Alignment explanation
Indices: 14455079--14455133 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
14455069 AAATAAAAAA
*
14455079 AAATCTAAAAATAT-TTAAAAATATAT
1 AAATCTAAAAAAATCTTAAAAAT-TAT
*
14455105 AAATTTAAAAAAATCTTAAAAATTAT
1 AAATCTAAAAAAATCTTAAAAATTAT
14455131 AAA
1 AAA
14455134 AACAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATCTAAAAAAATCTTAAAAATTAT
Found at i:14455145 original size:38 final size:38
Alignment explanation
Indices: 14455068--14455165 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 38
14455058 GTATTATGTG
* **
14455068 AAAATAAAAAAAAATCTAAAAA-TATTTAAAAATATAT
1 AAAATATAAAAAAATCTAAAAATTATAAAAAAATATAT
*
14455105 -AAATTTAAAAAAATCTTAAAAATTATAAAAACAATA-AT
1 AAAATATAAAAAAATC-TAAAAATTATAAAAA-AATATAT
*
14455143 AAAATATAAAAAATTCTAAAAAT
1 AAAATATAAAAAAATCTAAAAAT
14455166 AACTGGAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
36 13 0.25
37 6 0.12
38 15 0.29
39 17 0.33
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (38 bp):
AAAATATAAAAAAATCTAAAAATTATAAAAAAATATAT
Found at i:14460723 original size:28 final size:27
Alignment explanation
Indices: 14460692--14460759 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
14460682 TTTGAAGTTG
*
14460692 AGGGTTTGGATGTATG-GTTTAATGGTTT
1 AGGGTTT-GAGGTATGAGTTTAA-GGTTT
14460720 AGGGTTATGAGGTATGAGTTTAAGGTTT
1 AGGGTT-TGAGGTATGAGTTTAAGGTTT
* *
14460748 AAGGTTTAAGGT
1 AGGGTTTGAGGT
14460760 TTAAGGGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.14
28 23 0.66
29 7 0.20
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (27 bp):
AGGGTTTGAGGTATGAGTTTAAGGTTT
Found at i:14460770 original size:8 final size:7
Alignment explanation
Indices: 14460737--14460776 Score: 71
Period size: 7 Copynumber: 5.6 Consensus size: 7
14460727 TGAGGTATGA
14460737 GTTTAAG
1 GTTTAAG
14460744 GTTTAAG
1 GTTTAAG
14460751 GTTTAAG
1 GTTTAAG
14460758 GTTTAAGG
1 GTTTAA-G
14460766 GTTTAAG
1 GTTTAAG
14460773 GTTT
1 GTTT
14460777 GAGTTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 25 0.78
8 7 0.22
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (7 bp):
GTTTAAG
Found at i:14460784 original size:22 final size:21
Alignment explanation
Indices: 14460716--14460782 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
14460706 TGGTTTAATG
* *
14460716 GTTT-AGGGTTATGAGGTATGA
1 GTTTAAGGGTT-TAAGGTTTGA
*
14460737 GTTTAA-GGTTTAAGGTTTAA
1 GTTTAAGGGTTTAAGGTTTGA
14460757 GGTTTAAGGGTTTAAGGTTTGA
1 -GTTTAAGGGTTTAAGGTTTGA
14460779 GTTT
1 GTTT
14460783 TATATTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.18
21 18 0.46
22 14 0.36
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (21 bp):
GTTTAAGGGTTTAAGGTTTGA
Found at i:14463454 original size:23 final size:22
Alignment explanation
Indices: 14463403--14463454 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
14463393 TTTCCATCAT
*
14463403 ATTATTAAATTTACATTTAAAA
1 ATTATTAAATTTAAATTTAAAA
* *
14463425 ATAATTATAATTTAGAATTT-AGA
1 ATTATTA-AATTTA-AATTTAAAA
14463448 ATTATTA
1 ATTATTA
14463455 GTTAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTATTAAATTTAAATTTAAAA
Found at i:14463639 original size:17 final size:16
Alignment explanation
Indices: 14463619--14463650 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
14463609 TGAAGTTATG
14463619 ATAATTATACATTTAAA
1 ATAATTATA-ATTTAAA
14463636 ATAATTATAATTTAA
1 ATAATTATAATTTAA
14463651 TAGAACTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:14463694 original size:17 final size:18
Alignment explanation
Indices: 14463662--14463695 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14463652 AGAACTTGTG
14463662 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
14463680 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
14463696 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:14466319 original size:36 final size:36
Alignment explanation
Indices: 14466242--14466319 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
14466232 AACATAATCA
* **
14466242 GTCACATGGTATGAAGAACATACCCACATATTTTCT
1 GTCACATGGCATGAAGAACATACCCACATATTCACT
* *
14466278 GTCACATGGCATGAATAACATACCCATATATTCACT
1 GTCACATGGCATGAAGAACATACCCACATATTCACT
*
14466314 TTCACA
1 GTCACA
14466320 ACATTCACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (36 bp):
GTCACATGGCATGAAGAACATACCCACATATTCACT
Found at i:14468141 original size:107 final size:109
Alignment explanation
Indices: 14467995--14468205 Score: 338
Period size: 107 Copynumber: 1.9 Consensus size: 109
14467985 TTCTAAAAGG
* *
14467995 TGAATAATGGCCCAAAGGTGAATTTAAAAAAGTTGTTAAAGTG-TAAAACAATCATTTTTCAAAG
1 TGAATAATAGCCCAAAGGTGAATTT-AAAAAGTTGTTAAAG-GATAAAACAATCATTTCTCAAAG
* *
14468059 TAGATAATTTTGGAATTATAAATTAGGAAAATTGTGGATAACAAGA
64 TAGATAATTATGAAATTATAAATTAGGAAAATTGTGGATAACAAGA
*
14468105 TGAATAATAG-CCAAAGGTGAATTT-AAAAGTTGTTAAAGGATAAAACGATCATTTCTCAAAGTA
1 TGAATAATAGCCCAAAGGTGAATTTAAAAAGTTGTTAAAGGATAAAACAATCATTTCTCAAAGTA
14468168 GATAATTATGAAATTATAAATTAGGAAAATTGTGGATA
66 GATAATTATGAAATTATAAATTAGGAAAATTGTGGATA
14468206 TTCTAGCATG
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
106 1 0.01
107 71 0.75
109 14 0.15
110 9 0.09
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (109 bp):
TGAATAATAGCCCAAAGGTGAATTTAAAAAGTTGTTAAAGGATAAAACAATCATTTCTCAAAGTA
GATAATTATGAAATTATAAATTAGGAAAATTGTGGATAACAAGA
Found at i:14476178 original size:25 final size:25
Alignment explanation
Indices: 14476128--14476191 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
14476118 AATATCATTA
*
14476128 TAAAAATATTAATTATATTTTAAAT
1 TAAAAATATTAATTAAATTTTAAAT
14476153 TAAAAATATTTTAA-TAAATTTT-AAT
1 TAAAAATA--TTAATTAAATTTTAAAT
14476178 TAAATTAATATTAA
1 TAAA--AATATTAA
14476192 ATTTGACTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 19 0.56
26 7 0.21
27 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAAAATATTAATTAAATTTTAAAT
Found at i:14479984 original size:29 final size:30
Alignment explanation
Indices: 14479920--14479988 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
14479910 ACATTTAATT
*
14479920 AAATTTTAAATATTTTTTAAATAAAATTAA
1 AAATTTTAAATATTTTTAAAATAAAATTAA
** * **
14479950 TGATTTTTAAT-TTTTTAAAATAATTTTAA
1 AAATTTTAAATATTTTTAAAATAAAATTAA
14479979 AAATTTTAAA
1 AAATTTTAAA
14479989 AATTAATTAA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
AAATTTTAAATATTTTTAAAATAAAATTAA
Found at i:14484878 original size:22 final size:22
Alignment explanation
Indices: 14484853--14484902 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
14484843 GCCGTGCCCG
*
14484853 TGTGAGATAAGCCACATGGCCA
1 TGTGAGAAAAGCCACATGGCCA
14484875 TGTGAGAAAAGCCACATGGCCA
1 TGTGAGAAAAGCCACATGGCCA
14484897 TGTGAG
1 TGTGAG
14484903 TGAGTCACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.18
Consensus pattern (22 bp):
TGTGAGAAAAGCCACATGGCCA
Found at i:14484921 original size:21 final size:22
Alignment explanation
Indices: 14484897--14484944 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
14484887 CACATGGCCA
*
14484897 TGTGAG-TGAGTCACATGAATG
1 TGTGAGATGAGTCACATGAACG
*
14484918 TGTG-GATGGGTCACATGAACG
1 TGTGAGATGAGTCACATGAACG
14484939 TGTGAG
1 TGTGAG
14484945 CAAACCGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.25, C:0.10, G:0.38, T:0.27
Consensus pattern (22 bp):
TGTGAGATGAGTCACATGAACG
Found at i:14488220 original size:13 final size:12
Alignment explanation
Indices: 14488201--14488230 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
14488191 TAGCAATGTT
14488201 TTTTTTCTTTTC
1 TTTTTTCTTTTC
14488213 TCTTTTTCTTTTC
1 T-TTTTTCTTTTC
14488226 TTTTT
1 TTTTT
14488231 CTCATTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:14488860 original size:18 final size:19
Alignment explanation
Indices: 14488839--14488876 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14488829 TGAACAAAAG
14488839 AAATGCAATGACAA-AATA
1 AAATGCAATGACAATAATA
**
14488857 AAATGTGATGACAATAATA
1 AAATGCAATGACAATAATA
14488876 A
1 A
14488877 TGTATGCCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (19 bp):
AAATGCAATGACAATAATA
Found at i:14512381 original size:36 final size:36
Alignment explanation
Indices: 14512334--14512433 Score: 173
Period size: 36 Copynumber: 2.8 Consensus size: 36
14512324 TGGTAACAGG
*
14512334 CATGACCTTTGGGTCAACAGGGAGTAAGATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
14512370 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
* *
14512406 CATGACCTTTAGGTCAACACGGAGTAAA
1 CATGACCTTTGGGTCAACAGGGAGTAAA
14512434 TTGAATATCG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
Found at i:14519068 original size:52 final size:52
Alignment explanation
Indices: 14518969--14519068 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
14518959 TTAAAAATGG
** ** *
14518969 TAAGAAAATACTAATTAATTATTTAATTTTATTTCGTTAATTTTTATGATTT
1 TAAGAAAATACTAATTAATTATTTAATTTTAAATAATTAATTATTATGATTT
*
14519021 TAAGAAAATA-TAATTAAATTATTTAATTTTAAATAATTAGTTATTATG
1 TAAGAAAATACTAATT-AATTATTTAATTTTAAATAATTAATTATTATG
14519069 TTGTTTAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 5 0.12
52 36 0.88
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (52 bp):
TAAGAAAATACTAATTAATTATTTAATTTTAAATAATTAATTATTATGATTT
Found at i:14520597 original size:63 final size:63
Alignment explanation
Indices: 14520511--14520673 Score: 152
Period size: 63 Copynumber: 2.6 Consensus size: 63
14520501 TCTATAGCAT
* * * * **
14520511 CATCATAACACACACAATCATTCCCTACATCAACACATACAACATAA-GTTTATTTTACA-AGAG
1 CATCACAACACGCACAATTATTCCCTACACCAACACATACAACA-AAGGTTTATTACACACA-AG
* * * * * *
14520574 CATCACATCACGCGCAATTATTCCATGCACCAACACATTCATCAAAGGTTTATTACACACAAG
1 CATCACAACACGCACAATTATTCCCTACACCAACACATACAACAAAGGTTTATTACACACAAG
* *
14520637 CATCACAACACGCAC-ATTCATTCCCTGCACCGACACA
1 CATCACAACACGCACAATT-ATTCCCTACACCAACACA
14520674 ACCATTACCA
Statistics
Matches: 81, Mismatches: 16, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
62 5 0.06
63 75 0.93
64 1 0.01
ACGTcount: A:0.38, C:0.32, G:0.07, T:0.23
Consensus pattern (63 bp):
CATCACAACACGCACAATTATTCCCTACACCAACACATACAACAAAGGTTTATTACACACAAG
Found at i:14525049 original size:24 final size:24
Alignment explanation
Indices: 14525022--14525067 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
14525012 GGGCTCAAAT
*
14525022 GAGCTAACTTTTCTAGGCTCGTAA
1 GAGCTAACTTATCTAGGCTCGTAA
*
14525046 GAGCTAACTTATCTGGGCTCGT
1 GAGCTAACTTATCTAGGCTCGT
14525068 GATAGCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (24 bp):
GAGCTAACTTATCTAGGCTCGTAA
Found at i:14535918 original size:11 final size:11
Alignment explanation
Indices: 14535857--14535924 Score: 66
Period size: 11 Copynumber: 6.3 Consensus size: 11
14535847 TTTCCTGTTA
14535857 ATTTT-TTATT
1 ATTTTATTATT
*
14535867 ATTTTCTTATT
1 ATTTTATTATT
* *
14535878 GTTTTGTTATT
1 ATTTTATTATT
*
14535889 ATTTTATTATC
1 ATTTTATTATT
**
14535900 ATGCTATTATT
1 ATTTTATTATT
*
14535911 TTTTTATTATT
1 ATTTTATTATT
14535922 ATT
1 ATT
14535925 ATTGGACTAT
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
10 5 0.11
11 40 0.89
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:14541822 original size:2 final size:2
Alignment explanation
Indices: 14541815--14541844 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14541805 CTTTATAGCA
14541815 AT AT 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
14541845 TATGTGACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14560293 original size:43 final size:43
Alignment explanation
Indices: 14560241--14560461 Score: 307
Period size: 43 Copynumber: 5.0 Consensus size: 43
14560231 GAATCTCTTG
*
14560241 ATGTATAAATGGAAGAGTCATGTCTCGGGATGAGCATGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* *
14560284 ATGTATAAATGGAAGCCTCATGTCTCGGGATGAGCATGACATT
1 ATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* *
14560327 ATGTATAAATGGAAGACTCATGTCTCGAGATGAGAATGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* * *
14560370 ATGTATAAATGGAAGACTCATGTCTCGAGATGAGAATGAAATT
1 ATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
** *
14560413 ATGTATATATAAATGGAAGACTCATGTCTTAGGATGAGCATAAGATT
1 ATG----TATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
14560460 AT
1 AT
14560462 TGTCAATGAG
Statistics
Matches: 160, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
43 124 0.77
47 36 0.22
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (43 bp):
ATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
Found at i:14562919 original size:110 final size:110
Alignment explanation
Indices: 14562796--14562993 Score: 274
Period size: 110 Copynumber: 1.8 Consensus size: 110
14562786 AAGGCAATAT
* * * * *
14562796 TTTTTTTTATTTTAG-GAAATTCAAGAAATTGTGTCCTAACT-TATTGGGTATGGTTTTTCGTTG
1 TTTTTTTTATTTTAGTG-AACTCAAGAAATTGTGCCCTAA-TGTACTAGGTATGGTTTTCCGTTG
14562859 AACCTAAGTAATTGAATATCCTATTTAAAATCGATAAATGTTCAATG
64 AACCTAAGTAATTGAATATCCTATTTAAAATCGATAAATGTTCAATG
* * *
14562906 TTTTTTTTATTTTAGTGAACTCGAGAAATTGTGCCCTAATGTGCTAGGTATGGTTTTCCTTTGAA
1 TTTTTTTTATTTTAGTGAACTCAAGAAATTGTGCCCTAATGTACTAGGTATGGTTTTCCGTTGAA
* *
14562971 TCTAAGTAATTGAATATTCTATT
66 CCTAAGTAATTGAATATCCTATT
14562994 AATATATGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
109 1 0.01
110 74 0.97
111 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (110 bp):
TTTTTTTTATTTTAGTGAACTCAAGAAATTGTGCCCTAATGTACTAGGTATGGTTTTCCGTTGAA
CCTAAGTAATTGAATATCCTATTTAAAATCGATAAATGTTCAATG
Found at i:14566665 original size:30 final size:30
Alignment explanation
Indices: 14566631--14566693 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
14566621 CATCAAGACC
14566631 TACACCGGGGTAACACCTCTTTCATTGGTT
1 TACACCGGGGTAACACCTCTTTCATTGGTT
14566661 TACACCGGGGTAACACCTCTTTCATTGGTT
1 TACACCGGGGTAACACCTCTTTCATTGGTT
14566691 TAC
1 TAC
14566694 TCAACAGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (30 bp):
TACACCGGGGTAACACCTCTTTCATTGGTT
Found at i:14567105 original size:7 final size:7
Alignment explanation
Indices: 14567093--14567133 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
14567083 TTTCACCCAA
14567093 AAAAAAG
1 AAAAAAG
14567100 AAAAAAAG
1 -AAAAAAG
14567108 AAAAAAG
1 AAAAAAG
14567115 AAAAAAG
1 AAAAAAG
*
14567122 AAGAAAG
1 AAAAAAG
14567129 AAAAA
1 AAAAA
14567134 TGAGAGGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:14567448 original size:20 final size:20
Alignment explanation
Indices: 14567425--14567477 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14567415 TTGATTGATG
14567425 TTTGCAATTTTTTACCAACA
1 TTTGCAATTTTTTACCAACA
* * **
14567445 TTTGCCATTTTTGACCAATG
1 TTTGCAATTTTTTACCAACA
*
14567465 TTTGCGATTTTTT
1 TTTGCAATTTTTT
14567478 GCCATTGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTGCAATTTTTTACCAACA
Found at i:14568246 original size:98 final size:98
Alignment explanation
Indices: 14568118--14568466 Score: 311
Period size: 98 Copynumber: 3.6 Consensus size: 98
14568108 TTACTTCCTC
* * * * * ** * *
14568118 GAAGATGCAATAGAGTAAGATGCAGTTACAACGTCAAATCCTATTTTCTTGAAGTAGTAGTAAAG
1 GAAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGAAGTAGTAGTAAAG
* *
14568183 CGGATTAAAGCAGTAGCAAATCTTTATTTCCTT
66 CGGATTAAAGCAGTAGCAAATCTTTATCTCCCT
* * * *
14568216 GAAGTTGTAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTT--A-TAGTTGCAAGG
1 GAAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGAAGTAGTAGTAA--
* * * * *
14568278 ATCAGATTAAAACTAACATTGGCAGAA-CTTTATCTCCCT
64 AGCGGATT--AA--AGCAGTAGCA-AATCTTTATCTCCCT
* * * *
14568317 GAAGTTGCAATGGAGCAAGATTAAGC--C-ACACCAAATCCTATCTTCC-TGAAG-ATGCAGTGA
1 GAAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTAT-ATCCTTGAAGTA-GTAGTAA
* *
14568377 AGCGGATTAAAGTAGTAGCAAATCTTTACCTCCCT
64 AGCGGATTAAAGCAGTAGCAAATCTTTATCTCCCT
*
14568412 GAAGTTGCAATGGAGCAATATGAAGCTACAACACCAAATCCTATATCCTTGAAGT
1 GAAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGAAGT
14568467 TGCAAGGATC
Statistics
Matches: 195, Mismatches: 38, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
94 2 0.01
95 48 0.25
96 1 0.01
97 12 0.06
98 73 0.37
99 12 0.06
100 2 0.01
101 43 0.22
102 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (98 bp):
GAAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGAAGTAGTAGTAAAG
CGGATTAAAGCAGTAGCAAATCTTTATCTCCCT
Found at i:14568334 original size:101 final size:97
Alignment explanation
Indices: 14568198--14568558 Score: 362
Period size: 101 Copynumber: 3.7 Consensus size: 97
14568188 TAAAGCAGTA
* * * *
14568198 GCAAATCTTTATTTCCTTGAAGTTGTAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATC
1 GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGC-AC-ACACCAAATCCTATATC
14568263 CTTATAGTTGCAAGGATCAGATTAAAACTAACATTG
64 CTTA-AGTTGCAAGGATC-GATTAAAACTAACATTG
* *
14568299 GCAGAA-CTTTATCTCCCTGAAGTTGCAATGGAGCAAGATTAAGC-CACACCAAATCCTATCTTC
1 GCA-AATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCACACACCAAATCCTAT-ATC
* * * * * *
14568362 CTGAAGATGC-AGTGAAGCGGATT-AAAGT---AGTA
64 CTTAAGTTGCAAG-G-ATC-GATTAAAACTAACATTG
* *
14568394 GCAAATCTTTACCTCCCTGAAGTTGCAATGGAGCAATATGAAGCTACAACACCAAATCCTATATC
1 GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGC-AC-ACACCAAATCCTATATC
14568459 CTTGAAGTTGCAAGGATCGAATTAAAACTAACATTG
64 CTT-AAGTTGCAAGGATCG-ATTAAAACTAACATTG
* * * * * *
14568495 GTAAATCTTTTTCTCCCTAAAGTTACAGTGGAGCAAGATGAAG-ACATACCAAATCCTATA-CCT
1 GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCACACACCAAATCCTATATCCT
14568558 T
66 T
14568559 TGAAGTTGTA
Statistics
Matches: 214, Mismatches: 31, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
94 2 0.01
95 40 0.19
96 1 0.00
97 16 0.07
98 63 0.29
99 16 0.07
101 74 0.35
102 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (97 bp):
GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCACACACCAAATCCTATATCCT
TAAGTTGCAAGGATCGATTAAAACTAACATTG
Found at i:14568365 original size:47 final size:47
Alignment explanation
Indices: 14568308--14568471 Score: 134
Period size: 47 Copynumber: 3.4 Consensus size: 47
14568298 GGCAGAACTT
14568308 TATCTCCCTGAAGTTGCAATGGAGCAAGATTAAGCCACACCAAATCC
1 TATCTCCCTGAAGTTGCAATGGAGCAAGATTAAGCCACACCAAATCC
* * * * * * * * *
14568355 TATCTTCCTGAAGATGCAGTGAAGC-GGATTAAAG-TAGTAGCAAATCTT
1 TATCTCCCTGAAGTTGCAATGGAGCAAGATT-AAGCCA-CACCAAATC-C
* * *
14568403 TACCTCCCTGAAGTTGCAATGGAGCAATATGAAGCTACAACACCAAATCC
1 TATCTCCCTGAAGTTGCAATGGAGCAAGATTAAGC--C-ACACCAAATCC
* *
14568453 TATATCCTTGAAGTTGCAA
1 TATCTCCCTGAAGTTGCAA
14568472 GGATCGAATT
Statistics
Matches: 85, Mismatches: 24, Indels: 13
0.70 0.20 0.11
Matches are distributed among these distances:
46 5 0.06
47 31 0.36
48 23 0.27
49 2 0.02
50 16 0.19
51 7 0.08
52 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (47 bp):
TATCTCCCTGAAGTTGCAATGGAGCAAGATTAAGCCACACCAAATCC
Found at i:14568417 original size:196 final size:196
Alignment explanation
Indices: 14568152--14568553 Score: 569
Period size: 196 Copynumber: 2.1 Consensus size: 196
14568142 GTTACAACGT
* * * ** *
14568152 CAAATCCTATTTTCTTGAAGTAGTAGTAAAGCGGATTAAAGCAGTAGCAAATCTTTATTTCCTTG
1 CAAATCCTATCTTCCTGAAGTAGCAGTAAAGCGGATTAAAGCAGTAGCAAATCTTTACCTCCCTG
* *
14568217 AAGTTGTAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTT-ATAGTTGCAAGGATC
66 AAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGA-AGTTGCAAGGATC
* * * *
14568281 -AGATTAAAACTAACATTGGCAGAA-CTTTATCTCCCTGAAGTTGCAATGGAGCAAGATTAAGCC
130 GA-ATTAAAACTAACATTGGCA-AATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGAC
14568344 ACAC
193 ACAC
* *
14568348 CAAATCCTATCTTCCTGAAG-ATGCAGTGAAGCGGATTAAAGTAGTAGCAAATCTTTACCTCCCT
1 CAAATCCTATCTTCCTGAAGTA-GCAGTAAAGCGGATTAAAGCAGTAGCAAATCTTTACCTCCCT
*
14568412 GAAGTTGCAATGGAGCAATATGAAGCTACAACACCAAATCCTATATCCTTGAAGTTGCAAGGATC
65 GAAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGAAGTTGCAAGGATC
* * * *
14568477 GAATTAAAACTAACATTGGTAAATCTTTTTCTCCCTAAAGTTACAGTGGAGCAAGATGAAGACAT
130 GAATTAAAACTAACATTGGCAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGACAC
14568542 AC
195 AC
14568544 CAAATCCTAT
1 CAAATCCTAT
14568554 ACCTTTGAAG
Statistics
Matches: 183, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
195 3 0.02
196 178 0.97
197 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (196 bp):
CAAATCCTATCTTCCTGAAGTAGCAGTAAAGCGGATTAAAGCAGTAGCAAATCTTTACCTCCCTG
AAGTTGCAATGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGAAGTTGCAAGGATCG
AATTAAAACTAACATTGGCAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGACACA
C
Found at i:14568551 original size:98 final size:100
Alignment explanation
Indices: 14568198--14568566 Score: 379
Period size: 98 Copynumber: 3.7 Consensus size: 100
14568188 TAAAGCAGTA
* * * *
14568198 GCAAATCTTTATTTCCTTGAAGTTGTAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATC
1 GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGC-ACAACACCAAATCCTATATC
14568263 CTT-ATAGTTGCAAGGATC-AGATTAAAACTAACATTG
65 CTTGA-AGTTGCAAGGATCGA-ATTAAAACTAACATTG
* *
14568299 GCAGAA-CTTTATCTCCCTGAAGTTGCAATGGAGCAAGATTAAGC-C-ACACCAAATCCTATCTT
1 GCA-AATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCACAACACCAAATCCTAT-AT
* * * * * *
14568361 CC-TGAAGATGC-AGTGAAGCGGATT-AAAGT---AGTA
64 CCTTGAAGTTGCAAG-G-ATCGAATTAAAACTAACATTG
* *
14568394 GCAAATCTTTACCTCCCTGAAGTTGCAATGGAGCAATATGAAGCTACAACACCAAATCCTATATC
1 GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGC-ACAACACCAAATCCTATATC
14568459 CTTGAAGTTGCAAGGATCGAATTAAAACTAACATTG
65 CTTGAAGTTGCAAGGATCGAATTAAAACTAACATTG
* * * * * *
14568495 GTAAATCTTTTTCTCCCTAAAGTTACAGTGGAGCAAGATGAAG-AC-ATACCAAATCCTATA-CC
1 GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCACAACACCAAATCCTATATCC
14568557 TTTGAAGTTG
66 -TTGAAGTTG
14568567 TAGTAGAGCA
Statistics
Matches: 221, Mismatches: 30, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
94 2 0.01
95 40 0.18
97 14 0.06
98 75 0.34
99 14 0.06
101 74 0.33
102 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (100 bp):
GCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCACAACACCAAATCCTATATCC
TTGAAGTTGCAAGGATCGAATTAAAACTAACATTG
Found at i:14569023 original size:81 final size:80
Alignment explanation
Indices: 14568785--14569610 Score: 419
Period size: 81 Copynumber: 10.2 Consensus size: 80
14568775 ACGAAGTTCC
* * * *
14568785 ACCATTCAATCTCTTACCCTGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCA-
1 ACCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAACCAT
* * * *
14568849 GAGAGTAGATTAAAGA
66 GGGA-CAAATTGAAGA
* * * *
14568865 AGCCATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCA
1 A-CCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAACCA
* *
14568930 GAGGGA-AGATTGAAGA
65 -TGGGACAAATTGAAGA
* * * *
14568946 CACCAACCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCGACTA
1 -ACCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAACCA
14569011 TGGGACAAATTGAAG-
65 TGGGACAAATTGAAGA
* * ** * * *
14569026 -CCATCCAATCTTTTACCCTAACCAAAGGGCAAATTGAAGACACCATCCAATCTCTTACCTCGAC
1 ACCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAG--A-CATCCAATCTCTTACCCCAAC
14569090 CATGAGG-CAAATTGAAG-
63 CATG-GGACAAATTGAAGA
* * * * * ** * * *
14569107 -TCATCAAATCTTTTACTCTAACCAAAGGACAGATTGAAGACATAATCCAATCTCTTACCTCAAT
1 ACCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGAC---ATCCAATCTCTTACCCCAAC
* *
14569171 CATGGGGCAGATTGAAG-
63 CATGGGACAAATTGAAGA
** * * * * ***
14569188 -CCATTTAATCTTTTACCCTAACCA-GAGGGCAAATTGAAGAGACCACCCAATCTCTTACCTTGA
1 ACCATCCAATCTCTTACCCTGACCATG-GGGCAGATTG-A-AGA-CATCCAATCTCTTACCCCAA
*
14569251 CCATGAGG-CAGATTGAAG-
62 CCATG-GGACAAATTGAAGA
* * * * *
14569269 -CAATCCAATCTTTTACCCTAACCA-GAAGGCAGATTGAAGACACTATCCAATCTCTTACCCCGA
1 ACCATCCAATCTCTTACCCTGACCATG-GGGCAGATTGAAG--AC-ATCCAATCTCTTACCCCAA
* *
14569332 TCATGGGGA-AGATTGAAG-
62 CCAT-GGGACAAATTGAAGA
* * * *** * *
14569350 -CCATCCAATCTTTTAACCTAACCAAAAGGCAGATTGAAGAAGTCATCTAATCTCTTACCCCGAC
1 ACCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAG-A--CATCCAATCTCTTACCCCAAC
*
14569414 CATAGGG-CAGATTGAAG-
63 CAT-GGGACAAATTGAAGA
* * * * * * * *
14569431 -TCATCCAATCTTTTACCCTAACTA-GAGAGAAGATTGAAGATACCATCTAATCTCTTACCCCGA
1 ACCATCCAATCTCTTACCCTGACCATG-GGGCAGATTGAAG--A-CATCCAATCTCTTACCCCAA
*
14569494 CCATGGGACAGATT-AA-A
62 CCATGGGACAAATTGAAGA
** * * * **
14569511 GTCATCCAATCTTTTACCCTAACCA-GAGGGCAGATTAAAGACACCATCCAATCTCTTACCCTGA
1 ACCATCCAATCTCTTACCCTGACCATG-GGGCAGATTGAAG--A-CATCCAATCTCTTACCCCAA
* *
14569575 TCATGAGG-CAGATTGAAG-
62 CCATG-GGACAAATTGAAGA
*
14569593 -CCATCCAATCTTTTACCC
1 ACCATCCAATCTCTTACCC
14569611 CTAAATCAAG
Statistics
Matches: 635, Mismatches: 76, Indels: 69
0.81 0.10 0.09
Matches are distributed among these distances:
78 33 0.05
79 3 0.00
80 16 0.03
81 563 0.89
82 13 0.02
83 6 0.01
84 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (80 bp):
ACCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAACCAT
GGGACAAATTGAAGA
Found at i:14569074 original size:162 final size:160
Alignment explanation
Indices: 14568791--14569610 Score: 746
Period size: 162 Copynumber: 5.1 Consensus size: 160
14568781 TTCCACCATT
* * * * ** * * *
14568791 CAATCTCTTACCCTGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCA-GAGAGT
1 CAATCTTTTACCCTAACCA-GGGGCAGATTGAAGACATCCAATCTCTTACCCCGACTATGGGA-C
* ** *
14568855 AGATTAAAGAAGCCATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAG--CCATCCAATCTT
64 AGATT---GAAGCCATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGAACCATCCAATCTC
* *
14568918 TTACCCTAACCA-GAGGGAAGATTGAAGACACCAAC
126 TTACCCTGACCATGAGGGAAGATTGAAG-CATCAAC
* **
14568953 CAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCGACTATGGGACA
1 CAATCTTTTACCCTAACCA-GGGGCAGATTGAAGACATCCAATCTCTTACCCCGACTATGGGACA
* *
14569018 AATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGGCAAATTGAAGACACCATCCAATCTCTTA
65 GATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGA-ACCATCCAATCTCTTA
*
14569083 -CCTCGACCATGAGGCAA-ATTGAAGTCATC-A-
129 CCCT-GACCATGAGGGAAGATTGAAG-CATCAAC
* * * * *
14569113 -AATCTTTTACTCTAACCAAAGGACAGATTGAAGACATAATCCAATCTCTTACCTC-AATCATGG
1 CAATCTTTTACCCTAACC-AGGGGCAGATTGAAGAC---ATCCAATCTCTTACCCCGACT-ATGG
* ** * * *
14569176 GGCAGATTGAAGCCATTTAATCTTTTACCCTAACCAGAGGGCAAATTGAAGAGACCACCCAATCT
61 GACAGATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGA-ACCATCCAATCT
* * *
14569241 CTTACCTTGACCATGA-GGCAGATTGAAGCA--ATC
125 CTTACCCTGACCATGAGGGAAGATTGAAGCATCAAC
*
14569274 CAATCTTTTACCCTAACCAGAAGGCAGATTGAAGACACTATCCAATCTCTTACCCCGA-TCATGG
1 CAATCTTTTACCCTAACCAG-GGGCAGATTGAAG--AC-ATCCAATCTCTTACCCCGACT-AT-G
* * * *
14569338 GGA-AGATTGAAGCCATCCAATCTTTTAACCTAACCAAAAGGCAGATTGAAGAAGTCATCTAATC
60 GGACAGATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGAA-CCATCCAATC
* * *
14569402 TCTTACCCCGACCAT-AGGGCAGATTGAAG--TCATC
124 TCTTACCCTGACCATGAGGGAAGATTGAAGCATCAAC
* * * * *
14569436 CAATCTTTTACCCTAACTAGAGAGAAGATTGAAGATACCATCTAATCTCTTACCCCGACCATGGG
1 CAATCTTTTACCCTAACCAG-GGGCAGATTGAAG--A-CATCCAATCTCTTACCCCGACTATGGG
* * * *
14569501 ACAGATTAAAGTCATCCAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACACCATCCAATCTC
62 ACAGATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGA-ACCATCCAATCTC
* * *
14569566 TTACCCTGATCATGA-GGCAGATTGAAGC--CATC
126 TTACCCTGACCATGAGGGAAGATTGAAGCATCAAC
14569598 CAATCTTTTACCC
1 CAATCTTTTACCC
14569611 CTAAATCAAG
Statistics
Matches: 555, Mismatches: 72, Indels: 62
0.81 0.10 0.09
Matches are distributed among these distances:
159 66 0.12
160 1 0.00
161 17 0.03
162 451 0.81
163 18 0.03
164 2 0.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (160 bp):
CAATCTTTTACCCTAACCAGGGGCAGATTGAAGACATCCAATCTCTTACCCCGACTATGGGACAG
ATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGAACCATCCAATCTCTTACC
CTGACCATGAGGGAAGATTGAAGCATCAAC
Found at i:14569246 original size:243 final size:241
Alignment explanation
Indices: 14568863--14569609 Score: 836
Period size: 243 Copynumber: 3.1 Consensus size: 241
14568853 GTAGATTAAA
* *** ** * *
14568863 GAAGCCATCCAATCTTTTACCCTGACCATGGGGCAGATT---GAAGCCATCCAATCTTTTACCCT
1 GAAGCCATCCAATCTTTTA-CCTAACCAAAAGGCAGATTGAAGAAGTAATCCAATCTCTTACCCC
* * * * ** * *
14568925 AACCAGAGGGAAGATTGAAGACACCAACCAATCTCTTACCCCGACCATG-GGGCAGATTG-A-AG
65 AACCATAGGGCAGATTGAAG---CCATCCAATCTTTTACCCTAACCA-GAGAGAAGATTGAAGAG
* * *
14568987 A-CATCCAATCTCTTACCCCGACTATGGGACAAATTGAAGCCATCCAATCTTTTACCCTAACCAA
126 ACCACCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCCATCCAATCTTTTACCCTAACCAA
* *
14569051 AGGGCAAATTGAAGACACCATCCAATCTCTTACCTCGACCATGAGGCAAATT
191 AGGGCAGATTGAAGACACCATCCAATCTCTTACC-CGATCATGAGGCAAATT
* *
14569103 GAAGTCATCAAATCTTTTACTCTAACC-AAAGGACAGATTGAAGACA-TAATCCAATCTCTTACC
1 GAAGCCATCCAATCTTTTAC-CTAACCAAAAGG-CAGATTGAAGA-AGTAATCCAATCTCTTACC
* * * ** *
14569166 TCAATCATGGGGCAGATTGAAGCCATTTAATCTTTTACCCTAACCAGAGGGCAA-ATTGAAGAGA
63 CCAACCATAGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGAG-AAGATTGAAGAGA
** *
14569230 CCACCCAATCTCTTACCTTGACCATGAGG-CAGATTGAAGCAATCCAATCTTTTACCCTAACCAG
127 CCACCCAATCTCTTACCCCGACCATG-GGACAGATTGAAGCCATCCAATCTTTTACCCTAACCA-
* *
14569294 AA-GGCAGATTGAAGACACTATCCAATCTCTTACCCCGATCATG-GGGAAGATT
190 AAGGGCAGATTGAAGACACCATCCAATCTCTTA-CCCGATCATGAGGCAA-ATT
* *
14569346 GAAGCCATCCAATCTTTTAACCTAACCAAAAGGCAGATTGAAGAAGTCATCTAATCTCTTACCCC
1 GAAGCCATCCAATCTTTT-ACCTAACCAAAAGGCAGATTGAAGAAGTAATCCAATCTCTTACCCC
* * * *
14569411 GACCATAGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACTAGAGAGAAGATTGAAGATACCA
65 AACCATAGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGAGAAGATTGAAGAGACCA
* * * * *
14569476 TCTAATCTCTTACCCCGACCATGGGACAGATTAAAGTCATCCAATCTTTTACCCTAACCAGAGGG
130 CCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGG
* *
14569541 CAGATTAAAGACACCATCCAATCTCTTACCCTGATCATGAGGCAGATT
195 CAGATTGAAGACACCATCCAATCTCTTACCC-GATCATGAGGCAAATT
14569589 GAAGCCATCCAATCTTTTACC
1 GAAGCCATCCAATCTTTTACC
14569610 CCTAAATCAA
Statistics
Matches: 426, Mismatches: 58, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
239 4 0.01
240 53 0.12
241 2 0.00
242 19 0.04
243 331 0.78
244 17 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (241 bp):
GAAGCCATCCAATCTTTTACCTAACCAAAAGGCAGATTGAAGAAGTAATCCAATCTCTTACCCCA
ACCATAGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGAGAAGATTGAAGAGACCAC
CCAATCTCTTACCCCGACCATGGGACAGATTGAAGCCATCCAATCTTTTACCCTAACCAAAGGGC
AGATTGAAGACACCATCCAATCTCTTACCCGATCATGAGGCAAATT
Found at i:14579168 original size:6 final size:6
Alignment explanation
Indices: 14579142--14579225 Score: 50
Period size: 6 Copynumber: 14.3 Consensus size: 6
14579132 TAATTCTACC
* *
14579142 TAAATTT TAATTT TAAA-- TAAATT TAAATT T-ATTT TAAATT TAAATT
1 TAAA-TT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
** * * * *
14579188 TATTTTT TGAGTT TGAATT T-ACTT TAAATT TAAATT TA
1 TA-AATT TAAATT TAAATT TAAATT TAAATT TAAATT TA
14579226 TTTTCAATTA
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 42 0.70
7 6 0.10
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (6 bp):
TAAATT
Found at i:14579168 original size:23 final size:22
Alignment explanation
Indices: 14579142--14579189 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
14579132 TAATTCTACC
14579142 TAAATTTTAATTTTAAA-TAAATT
1 TAAA-TTT-ATTTTAAATTAAATT
14579165 TAAATTTATTTTAAATTTAAATT
1 TAAATTTATTTTAAA-TTAAATT
14579188 TA
1 TA
14579190 TTTTTTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
23 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAAATTTATTTTAAATTAAATT
Found at i:14579179 original size:17 final size:17
Alignment explanation
Indices: 14579159--14579239 Score: 90
Period size: 17 Copynumber: 4.6 Consensus size: 17
14579149 TAATTTTAAA
14579159 TAAATTTAAATTTATTT
1 TAAATTTAAATTTATTT
14579176 TAAATTTAAATTTATTTTT
1 TAAATTTAAATTTA--TTT
* * * *
14579195 TGAGTTTGAATTTACTT
1 TAAATTTAAATTTATTT
14579212 TAAATTTAAATTTATTT
1 TAAATTTAAATTTATTT
* *
14579229 TCAATTAAAAT
1 TAAATTTAAAT
14579240 AAACTTAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
17 38 0.73
19 14 0.27
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:14580707 original size:3 final size:3
Alignment explanation
Indices: 14580699--14580745 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
14580689 TTTAAACCCT
*
14580699 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14580746 TCATTCCCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14584947 original size:17 final size:19
Alignment explanation
Indices: 14584916--14584951 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
14584906 CCTTGTTGCA
14584916 TGCATTTTGTCATTTCATG
1 TGCATTTTGTCATTTCATG
14584935 TGCA-TTTGT-ATTTCATG
1 TGCATTTTGTCATTTCATG
14584952 CATTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.53
Consensus pattern (19 bp):
TGCATTTTGTCATTTCATG
Found at i:14586604 original size:6 final size:6
Alignment explanation
Indices: 14586581--14586668 Score: 69
Period size: 6 Copynumber: 14.5 Consensus size: 6
14586571 TTCAATGAAT
*
14586581 AAAAG- AAAAG- AAAA-A AAAAGA AAAATA AAAAGCA AAAATGA AAAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG-A AAAA-GA AAAAGA
*
14586627 ATGAAA-A AAAACA AACAAGAA AAAAGA AAAAGA AAAAGA AAA
1 A--AAAGA AAAAGA AA-AAG-A AAAAGA AAAAGA AAAAGA AAA
14586669 GGAGAGGTCG
Statistics
Matches: 71, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
5 18 0.25
6 29 0.41
7 20 0.28
8 4 0.06
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:14587669 original size:100 final size:100
Alignment explanation
Indices: 14587494--14588130 Score: 925
Period size: 100 Copynumber: 6.4 Consensus size: 100
14587484 AAGTTTGAAA
*
14587494 GGAAAGATCTAAGATCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
*
14587559 CGCAACGGCGGACCGTGTACCTCAGAAACACGACG
66 CACAACGGCGGACCGTGTACCTCAGAAACACGACG
** * * * *
14587594 AAAAAGATCTAATAGCGCAATGGTGGATCTAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
* * *
14587659 CGCAACGGCGGACCATGTGCCTCAGAAACACGACG
66 CACAACGGCGGACCGTGTACCTCAGAAACACGACG
* * * * *
14587694 GGAAAGATCTAAGACTGTAATTGCGGATCCAGTATCGCAAAGATACTAAAGGGAAAGCTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
14587759 CACAACGGCGGACCGTGTACCTCAGAAACACGACG
66 CACAACGGCGGACCGTGTACCTCAGAAACACGACG
** *
14587794 AAAAAGATCTAAGACCGCAATGGCGGATCCAGTACTGCAAAGATACTAAAGGGAAAGGTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
** * * *
14587859 CGTAACGGCGAACTGTGTACCTTAGAAACACGACG
66 CACAACGGCGGACCGTGTACCTCAGAAACACGACG
* *
14587894 GGAAAGATCTAAAACCGCAATGGCGGATCCAGTACCGTAAAGATACTAAAGGGAAAGGTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
* *
14587959 CACAACGACGGACCGTGTACCTCAAAAGACACGACG
66 CACAACGGCGGACCGTGTACCTCAGAA-ACACGACG
* * * *
14587995 GGAAAGATCTAAGATCGCAATGGCGGATCGAGTACCGCAAAGATACAAAAGAGAAAGGTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
**
14588060 CACAACGGCGGACCGTGTACCTCAGAAACA-GAAA
66 CACAACGGCGGACCGTGTACCTCAGAAACACGACG
* *
14588094 GGAAAGGATCTAAGACCGCAACGGCGGATCCAATACC
1 GGAAA-GATCTAAGACCGCAATGGCGGATCCAGTACC
14588131 ATGAAGATTT
Statistics
Matches: 474, Mismatches: 61, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
99 7 0.01
100 375 0.79
101 92 0.19
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (100 bp):
GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
CACAACGGCGGACCGTGTACCTCAGAAACACGACG
Found at i:14589116 original size:201 final size:200
Alignment explanation
Indices: 14588560--14589118 Score: 636
Period size: 206 Copynumber: 2.8 Consensus size: 200
14588550 CATATTCCTG
* * * * *
14588560 ATGAGATACAGAGAAGTATACCAACTCAATGCTCAAATACTAGCAAATCTTCGAACCGCAACTTC
1 ATGAGATACAAAGAAGTATATCAACTC-ACGCTC-AATACGAGCAAATCTTCGAACCCCAACTTC
* * *
14588625 CTGATGAGACACTGAGAAGTAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGA
64 CTGATGAGATACTGAGAAGCAGGTAGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGA
* * * * *
14588690 AGTGGATCAAATTCGTCTTCCTGAGGAGATCCAGATAAGCGAATTAAAACAGGTGATGCGGTCAT
129 AGTGGATCAAATTCGTCTTCCTGAGGAGATACAGAGAAACGAATTAAAACAAGTGATACGGTCAT
*
14588755 CTTCTTG
194 CTTCTTA
* * * * * * *
14588762 ATGAGACACTAAGAAGAAGACCAAATCAAACTCAGGCTCAATGCGAGCAAATCTTCAAATCCCAA
1 ATGAGATAC--A-AAGAAG--TATATC-AACTCACGCTCAATACGAGCAAATCTTCGAACCCCAA
* *
14588827 CTTCCTGATGAGATACTAAGAAGCAAGTCA-AAGCAATAAAATGGTTAGCTTCCTGATGAGATAC
60 CTTCCTGATGAGATACTGAGAAGCAGGT-AGAAGCAATAAAATGGTTAGCTTCCTGATGAGATAC
* * * * * *
14588891 TGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAACGAATTGAAATAAGTGATATG
124 TGAGAAGTGGATCAAATTCGTCTTCCTGAGGAGATACAGAGAAACGAATTAAAACAAGTGATACG
14588956 GTCATCTTCTTA
189 GTCATCTTCTTA
* * * *
14588968 ATGAGATACAAAGAAGTATGTCAACTCGACGCTCGATACGAGTAAATCTTCGAACCCCAGCTTCC
1 ATGAGATACAAAGAAGTATATCAACTC-ACGCTCAATACGAGCAAATCTTCGAACCCCAACTTCC
* * * ** *
14589033 TGACGAGATACTGAGAAGCAGGTAGAAGCAATAAAGTAGTTAGCTTCCTGATGA-ACCCTAAAGA
65 TGATGAGATACTGAGAAGCAGGTAGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT-GAGA
* *
14589097 AGTGAATCAAATCCGTCTTCCT
129 AGTGGATCAAATTCGTCTTCCT
14589119 ATTAAAACAC
Statistics
Matches: 296, Mismatches: 51, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
200 9 0.03
201 101 0.34
202 8 0.03
203 6 0.02
204 2 0.01
205 5 0.02
206 152 0.51
207 8 0.03
208 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (200 bp):
ATGAGATACAAAGAAGTATATCAACTCACGCTCAATACGAGCAAATCTTCGAACCCCAACTTCCT
GATGAGATACTGAGAAGCAGGTAGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAG
TGGATCAAATTCGTCTTCCTGAGGAGATACAGAGAAACGAATTAAAACAAGTGATACGGTCATCT
TCTTA
Found at i:14589564 original size:17 final size:17
Alignment explanation
Indices: 14589544--14589616 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
14589534 AATAAGTTTG
14589544 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * *
14589561 AATTTATTTTTTGAGTTTG
1 AATTTA--TTTTAAATTTA
*
14589580 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
14589597 AATTTATTTTCAATTAA
1 AATTTATTTTAAATTTA
14589614 AAT
1 AAT
14589617 AAAATTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
17 30 0.68
19 14 0.32
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:14589584 original size:36 final size:36
Alignment explanation
Indices: 14589538--14589606 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
14589528 ATTTTAAATA
*
14589538 AGTTTGAATTTATTTTAAATTTAAATTTATTTTTTG
1 AGTTTGAATTTACTTTAAATTTAAATTTATTTTTTG
14589574 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
14589607 CAATTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.59
Consensus pattern (36 bp):
AGTTTGAATTTACTTTAAATTTAAATTTATTTTTTG
Found at i:14591087 original size:3 final size:3
Alignment explanation
Indices: 14591081--14591124 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14591071 TTTAAACCCT
14591081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14591125 GCTATTTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14598822 original size:32 final size:32
Alignment explanation
Indices: 14598753--14598823 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
14598743 TGAACTTGTT
*
14598753 AAAAAAATATTTAATTAATATTTGAATTTATC
1 AAAAAAATATTTAATTAATATTTGAATATATC
* * * *
14598785 TAAAAAGTATTTAATTGATATTTG-ATCATGTC
1 AAAAAAATATTTAATTAATATTTGAAT-ATATC
14598817 AAAAAAA
1 AAAAAAA
14598824 ATATAAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (32 bp):
AAAAAAATATTTAATTAATATTTGAATATATC
Found at i:14599228 original size:96 final size:96
Alignment explanation
Indices: 14599064--14599242 Score: 358
Period size: 96 Copynumber: 1.9 Consensus size: 96
14599054 CACATTTTGC
14599064 CACATTTTGCCACTTTTAGCTGCAACGATTTATCAAACTCAGATACGTAGTCACTTTTCAAACTA
1 CACATTTTGCCACTTTTAGCTGCAACGATTTATCAAACTCAGATACGTAGTCACTTTTCAAACTA
14599129 ATTAACAGCAATCTTAATTACAATTTAAATT
66 ATTAACAGCAATCTTAATTACAATTTAAATT
14599160 CACATTTTGCCACTTTTAGCTGCAACGATTTATCAAACTCAGATACGTAGTCACTTTTCAAACTA
1 CACATTTTGCCACTTTTAGCTGCAACGATTTATCAAACTCAGATACGTAGTCACTTTTCAAACTA
14599225 ATTAACAGCAATCTTAAT
66 ATTAACAGCAATCTTAAT
14599243 CAGCCAGACT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (96 bp):
CACATTTTGCCACTTTTAGCTGCAACGATTTATCAAACTCAGATACGTAGTCACTTTTCAAACTA
ATTAACAGCAATCTTAATTACAATTTAAATT
Found at i:14601339 original size:19 final size:20
Alignment explanation
Indices: 14601302--14601352 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
14601292 AAGCAAAAAG
*
14601302 AAAATTTAAATAATAATTAA
1 AAAATTTATATAATAATTAA
*
14601322 AAAATTTATATCAT-ATTAA
1 AAAATTTATATAATAATTAA
*
14601341 AAAATTGATATA
1 AAAATTTATATA
14601353 TTATTGATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATTTATATAATAATTAA
Found at i:14601342 original size:18 final size:20
Alignment explanation
Indices: 14601302--14601346 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
14601292 AAGCAAAAAG
14601302 AAAATTTAAATAATAATTAA
1 AAAATTTAAATAATAATTAA
* *
14601322 AAAATTTATATCAT-ATTAA
1 AAAATTTAAATAATAATTAA
14601341 AAAATT
1 AAAATT
14601347 GATATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTTAAATAATAATTAA
Found at i:14609145 original size:23 final size:21
Alignment explanation
Indices: 14609098--14609168 Score: 61
Period size: 24 Copynumber: 3.1 Consensus size: 21
14609088 CCATTGTTTT
* *
14609098 TTATTTATTTTATTTTTTGTCA
1 TTATTTATTTTATTATTTAT-A
14609120 TTAATTTATTTCTATTATTTATA
1 TT-ATTTATTT-TATTATTTATA
*
14609143 TTATATTATTTTTACTTATTTTTA
1 TTAT-TTA-TTTTA-TTATTTATA
14609167 TT
1 TT
14609169 TTTGGTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.10
23 16 0.39
24 21 0.51
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (21 bp):
TTATTTATTTTATTATTTATA
Found at i:14609149 original size:14 final size:13
Alignment explanation
Indices: 14609097--14609153 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
14609087 CCCATTGTTT
*
14609097 TTTATTTATTTTA
1 TTTATTTATATTA
*
14609110 TTT-TTTGTCATTAA
1 TTTATTTAT-ATT-A
*
14609124 TTTATTTCTATTA
1 TTTATTTATATTA
14609137 TTTATATTATATTA
1 TTTAT-TTATATTA
14609151 TTT
1 TTT
14609154 TTACTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 4 0.11
13 11 0.31
14 17 0.47
15 4 0.11
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:14610105 original size:12 final size:12
Alignment explanation
Indices: 14610088--14610130 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
14610078 AGGTTCGAAA
14610088 AGAAAAAAAAAG
1 AGAAAAAAAAAG
*
14610100 AGAAAAAAAAGG
1 AGAAAAAAAAAG
*
14610112 AG-AAAAAGAAG
1 AGAAAAAAAAAG
14610123 A-AAAAAAA
1 AGAAAAAAA
14610131 CATGGTTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:14610109 original size:21 final size:21
Alignment explanation
Indices: 14610085--14610130 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14610075 AAAAGGTTCG
14610085 AAAAGAAAAAAAA-AGAGAAAA
1 AAAAGAAAAAAAAGA-AGAAAA
* *
14610106 AAAAGGAGAAAAAGAAGAAAA
1 AAAAGAAAAAAAAGAAGAAAA
14610127 AAAA
1 AAAA
14610131 CATGGTTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAAAAGAAGAAAA
Found at i:14610853 original size:23 final size:23
Alignment explanation
Indices: 14610818--14610861 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14610808 GACGTGGCGT
** *
14610818 CCAGTCAGTAGCTTCTAGAAGAC
1 CCAGTCAACAGCTTCCAGAAGAC
14610841 CCAGTCAACAGCTTCCAGAAG
1 CCAGTCAACAGCTTCCAGAAG
14610862 GTCTAGTCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (23 bp):
CCAGTCAACAGCTTCCAGAAGAC
Found at i:14621215 original size:41 final size:41
Alignment explanation
Indices: 14621136--14621367 Score: 263
Period size: 41 Copynumber: 5.6 Consensus size: 41
14621126 CAACCTTATG
* * * *
14621136 CTCTT-TCGAGTCATAAGTCTTCCTTTAACCATATTCTCATT
1 CTCTTCTCGAGACATGAGTCTTCC-TTAATCATAATCTCATT
** *
14621177 CTCTTCTATAGACATGAGTCTTCCTTAATCAAAATCTCATT
1 CTCTTCTCGAGACATGAGTCTTCCTTAATCATAATCTCATT
* * *
14621218 CTCATT-TCGAGACATGAGTCTTTCTTATTCCTAATCTCATT
1 CTC-TTCTCGAGACATGAGTCTTCCTTAATCATAATCTCATT
* * * *
14621259 CTCATCTCAAGACATGAGTCTTTCTTATTCATAATCTCATT
1 CTCTTCTCGAGACATGAGTCTTCCTTAATCATAATCTCATT
* *
14621300 CTCATCTCGAGACATGAGTCTTCCTTAAATCAAAATCTCATT
1 CTCTTCTCGAGACATGAGTCTTCCTT-AATCATAATCTCATT
14621342 CTCATT-TCGAGACATGAGTCTTCCTT
1 CTC-TTCTCGAGACATGAGTCTTCCTT
14621368 TCTATACACC
Statistics
Matches: 165, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 111 0.67
42 52 0.32
43 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (41 bp):
CTCTTCTCGAGACATGAGTCTTCCTTAATCATAATCTCATT
Found at i:14631671 original size:41 final size:41
Alignment explanation
Indices: 14631582--14631767 Score: 239
Period size: 41 Copynumber: 4.5 Consensus size: 41
14631572 CCTTATGCTC
* * * * *
14631582 TTTCGAGTCATAAGTCTTCCTTTAAGCATATTCTCATTCTCA
1 TTTCGAGACATGAGTCTTCC-TTAATCAAAATCTCATTCTCA
*
14631624 TCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
* *
14631665 TTTCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
* *
14631706 TCTT-GAGACATGCGTCTTCTTTAAATCAAAATCTCATTCTCA
1 T-TTCGAGACATGAGTCTTCCTT-AATCAAAATCTCATTCTCA
*
14631748 TTTTGAGACATGAGTCTTCC
1 TTTCGAGACATGAGTCTTCC
14631768 ATTTATACAA
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
41 75 0.60
42 51 0.40
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (41 bp):
TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
Found at i:14631739 original size:83 final size:83
Alignment explanation
Indices: 14631582--14631772 Score: 276
Period size: 83 Copynumber: 2.3 Consensus size: 83
14631572 CCTTATGCTC
* * *
14631582 TTTCGAGTCATAAGTCTTCCTTTAAGCATATTCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
1 TTTCGAGACATGAGTCTTCCTTTAAGCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
14631647 ATCAAAATCTCATTCTCA
66 ATCAAAATCTCATTCTCA
** * * *
14631665 TTTCGAGACATGAGTCTTCC-TTATTCATAATCTCATTCTCATCTTGAGACATGCGTCTTCTTTA
1 TTTCGAGACATGAGTCTTCCTTTAAGCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTT-
14631729 AATCAAAATCTCATTCTCA
65 AATCAAAATCTCATTCTCA
*
14631748 TTTTGAGACATGAGTCTTCCATTTA
1 TTTCGAGACATGAGTCTTCC-TTTA
14631773 TACAATTTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
82 37 0.39
83 56 0.58
85 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (83 bp):
TTTCGAGACATGAGTCTTCCTTTAAGCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
ATCAAAATCTCATTCTCA
Found at i:14632655 original size:22 final size:21
Alignment explanation
Indices: 14632608--14632655 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
14632598 GACTTTCATA
*
14632608 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
* * *
14632629 TTTAACCTTAATTTATCCTATT
1 ATTAA-CTTAATTAATCATATT
14632651 ATTAA
1 ATTAA
14632656 TCAATAGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAACTTAATTAATCATATT
Found at i:14642278 original size:5 final size:6
Alignment explanation
Indices: 14642262--14642286 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14642252 TATTCTAAGT
14642262 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
14642287 TAATTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:14643862 original size:27 final size:27
Alignment explanation
Indices: 14643801--14643866 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
14643791 ATGCTTAATA
*
14643801 TTTATAAAAATAATTAAAAATTACTATG
1 TTTAT-AAATTAATTAAAAATTACTATG
* * *
14643829 TTAATAAATTAATTACAAATTAATTAT-
1 TTTATAAATTAATTAAAAATT-ACTATG
14643856 TTTAT-AATTAA
1 TTTATAAATTAA
14643867 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.19
27 18 0.56
28 8 0.25
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
TTTATAAATTAATTAAAAATTACTATG
Found at i:14648208 original size:29 final size:29
Alignment explanation
Indices: 14648171--14648247 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
14648161 TAAAGTACGT
* * *
14648171 TGACGTGGATGCACTTTACTGAAGTGCGC
1 TGACATGGACGCACTTTACTGAAGCGCGC
**
14648200 TGACATGGACGTGCTTTACTGAAGCGCGC
1 TGACATGGACGCACTTTACTGAAGCGCGC
* * *
14648229 TAACATGGACACGCTTTAC
1 TGACATGGACGCACTTTAC
14648248 CCCGTGTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (29 bp):
TGACATGGACGCACTTTACTGAAGCGCGC
Found at i:14648435 original size:11 final size:12
Alignment explanation
Indices: 14648414--14648446 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14648404 ATTTTTCTTA
14648414 ATTATATTTATT
1 ATTATATTTATT
14648426 ATTA-ATTTATT
1 ATTATATTTATT
14648437 ATTACTATTT
1 ATTA-TATTT
14648447 TTAAGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 4 0.21
13 4 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTATATTTATT
Found at i:14648600 original size:20 final size:20
Alignment explanation
Indices: 14648577--14648623 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14648567 TTTTAACTTT
14648577 TAATTTTATT-TTAATTTTTA
1 TAATTTTATTATT-ATTTTTA
* *
14648597 TAATTTAATTATTTTTTTTA
1 TAATTTTATTATTATTTTTA
14648617 TAATTTT
1 TAATTTT
14648624 TATGTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TAATTTTATTATTATTTTTA
Found at i:14651506 original size:21 final size:22
Alignment explanation
Indices: 14651475--14651516 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14651465 ATTCACATGT
14651475 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
14651497 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
14651517 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:14656996 original size:12 final size:12
Alignment explanation
Indices: 14656979--14657013 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14656969 TTTAAAGAGC
14656979 ATAAAATAAAAA
1 ATAAAATAAAAA
*
14656991 ATAAAATAAAAC
1 ATAAAATAAAAA
*
14657003 AGAAAATAAAA
1 ATAAAATAAAA
14657014 GCAAAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:14657001 original size:17 final size:17
Alignment explanation
Indices: 14656979--14657013 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14656969 TTTAAAGAGC
*
14656979 ATAAAATAAAAAATAAA
1 ATAAAACAAAAAATAAA
*
14656996 ATAAAACAGAAAATAAA
1 ATAAAACAAAAAATAAA
14657013 A
1 A
14657014 GCAAAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (17 bp):
ATAAAACAAAAAATAAA
Done.