Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
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: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 31
Found at i:4762645 original size:52 final size:52
Alignment explanation
Indices: 4762582--4762685 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
4762572 CCAAACTTAA
4762582 CTACAACCATTTTAACTAACTTCTATCATTTCAACACTTTAGAATCTCCCAT
1 CTACAACCATTTTAACTAACTTCTATCATTTCAACACTTTAGAATCTCCCAT
*
4762634 CTACAGCCATTTTAACTAACTTCTATCATTTCAACACTTTAGAATCTCCCAT
1 CTACAACCATTTTAACTAACTTCTATCATTTCAACACTTTAGAATCTCCCAT
4762686 ACTTCATTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.37
Consensus pattern (52 bp):
CTACAACCATTTTAACTAACTTCTATCATTTCAACACTTTAGAATCTCCCAT
Found at i:4764016 original size:87 final size:87
Alignment explanation
Indices: 4763870--4764032 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
4763860 TATGTTATAT
*
4763870 TATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACAGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
4763935 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
4763957 TATTTAACAGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACAGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
4764022 AGCGCTTATAT
66 AGCGCTTATAT
4764033 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (87 bp):
TATTTAACAGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:4767835 original size:184 final size:184
Alignment explanation
Indices: 4767509--4768041 Score: 978
Period size: 184 Copynumber: 2.9 Consensus size: 184
4767499 GCGTTACTTA
* *
4767509 AAAGTATG-GACATAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACTG
1 AAAGT-TGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
*
4767573 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
65 GTATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
*
4767638 TTCAATTGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
*
4767693 AAAGTTGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGA
1 AAAGTTGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
4767758 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
* *
4767823 TCGATCGACACTTTTTGACAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
*
4767877 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTTGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
4767942 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
4768007 TCAATCGACACTTTTTGAAAAGGTATCGACACTTT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTT
4768042 ATGATGATAT
Statistics
Matches: 337, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 2 0.01
184 335 0.99
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (184 bp):
AAAGTTGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
Found at i:4769436 original size:12 final size:12
Alignment explanation
Indices: 4769419--4769452 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4769409 GTTTGGATCA
4769419 TCATCGTCATCT
1 TCATCGTCATCT
*
4769431 TCATCGTCAGCT
1 TCATCGTCATCT
*
4769443 TCATCTTCAT
1 TCATCGTCAT
4769453 TGACCGCTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:4771287 original size:200 final size:200
Alignment explanation
Indices: 4770941--4771925 Score: 1697
Period size: 200 Copynumber: 4.9 Consensus size: 200
4770931 ATATTTAAAT
* * *
4770941 TAGTATCGACACAAAATTAAAAAGTGTCAATACATATATTACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
4771006 ATA-TTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
* * * *
4771070 GGATCGACATTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
4771135 ACCAA
196 ACCAA
*
4771140 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
*
4771205 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCTATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
* *
4771270 GGATCGACACCTTTTATATATGGATCGGCACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
4771335 ACCAA
196 ACCAA
* * *
4771340 TAGTATCGACTCAAAATTTAAAAGTGTCGATACATAT-TATATACCTAATCTCTCATAAAACCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATAT-TACACCTAATCTCTCATAAAACCGG
4771404 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
65 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
* *
4771469 GGGATCGACACCTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
4771534 GACCAA
195 GACCAA
*
4771540 TAGTATCGACACAAAATTAAAAAGTGTCGATACATAT-TATATACCTAATCTCTCATAAAACCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATAT-TACACCTAATCTCTCATAAAACCGG
* *
4771604 TATACTTATACCGATTAGATTGAAAAATTACCTATTACATTGTACTTATGGGTTTCGATGTTTCT
65 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
* *
4771669 TGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCTCCCTGTTTGCCATTCATTCTG
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
4771734 GACCAA
195 GACCAA
* * * *
4771740 TAATATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCGAATCTCTTATAAAACTGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
4771805 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
*
4771870 GGATCGACACTTTTTATATATGGATCGACACTTTGTGGTTGCACCCTGTTTGCCAT
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
4771926 ATTGTAAATT
Statistics
Matches: 749, Mismatches: 34, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
199 67 0.09
200 681 0.91
201 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
ACCAA
Found at i:4772183 original size:19 final size:19
Alignment explanation
Indices: 4772159--4772202 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
4772149 ACATACAAAC
4772159 AAATTATAAATCGTATACA
1 AAATTATAAATCGTATACA
*
4772178 AAATTATAAATCTTATACA
1 AAATTATAAATCGTATACA
4772197 AAATTA
1 AAATTA
4772203 ACCCTACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTATAAATCGTATACA
Found at i:4773787 original size:15 final size:15
Alignment explanation
Indices: 4773767--4773821 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
4773757 TCCTCCTCAT
4773767 TTCTTCCATCTCTTC
1 TTCTTCCATCTCTTC
*
4773782 TTCTTCC-TCCTCCCTCTT
1 TTCTTCCAT-CT--CT-TC
4773800 TTCTTCCATCTCTTC
1 TTCTTCCATCTCTTC
4773815 TTCTTCC
1 TTCTTCC
4773822 TCCTCTCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 17 0.52
16 2 0.06
17 2 0.06
18 10 0.30
19 1 0.03
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCTTCCATCTCTTC
Found at i:4773803 original size:33 final size:33
Alignment explanation
Indices: 4773751--4773838 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
4773741 ATGACATCGA
*
4773751 CTTCCTTCCT-CCTCATTTCTTCCATCTCTTCTT
1 CTTCC-TCCTCCCTCTTTTCTTCCATCTCTTCTT
4773784 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
1 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
*
4773817 CTTCCTCCTCTCTCTTTTCTTC
1 CTTCCTCCTCCCTCTTTTCTTC
4773839 TTCATATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 4 0.08
33 48 0.92
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.52
Consensus pattern (33 bp):
CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
Found at i:4774072 original size:33 final size:33
Alignment explanation
Indices: 4774026--4774091 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4774016 CATCTTAAGA
* *
4774026 TCACTCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
4774059 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
4774092 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:4774150 original size:21 final size:21
Alignment explanation
Indices: 4774125--4774189 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
4774115 CCCCTTATGC
* * *
4774125 CTCTCAAGTGTATCTTTGACT
1 CTCTCAAGTTTCTCTTCGACT
4774146 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
4774167 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4774188 CT
1 CT
4774190 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:4776488 original size:20 final size:19
Alignment explanation
Indices: 4776442--4776488 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4776432 TCCGGTAGCG
4776442 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
* *
4776461 TTGATACCGGTTTTATTATAT
1 TT-TTACCGGTTTTATCAT-T
4776482 TTTTACC
1 TTTTACC
4776489 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:4776629 original size:181 final size:182
Alignment explanation
Indices: 4776413--4776881 Score: 787
Period size: 181 Copynumber: 2.6 Consensus size: 182
4776403 CTTACGAAAG
*
4776413 TATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATT
1 TATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
*
4776478 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTACAGGC
66 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTACAGAC
*
4776543 GCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAA
131 GCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATTAAAA
* *
4776594 TATCGACACTTTCAATACATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTTTATC
1 TATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
*
4776659 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGAC
66 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTACAGAC
* *
4776724 GCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATTAAAG
131 GCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATTAAAA
* * * * ** *
4776776 TACCGACACTTTAAATATATCCGGTACCGCTTTACCGGTTTTATCATTTCAATACCGGTTTTGTC
1 TATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
*
4776841 ATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
66 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
4776882 AATTTGGATC
Statistics
Matches: 269, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
181 169 0.63
182 100 0.37
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (182 bp):
TATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
ATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTACAGAC
GCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATTAAAA
Found at i:4776669 original size:20 final size:19
Alignment explanation
Indices: 4776623--4776669 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4776613 TCCGGTAGCG
4776623 TTTTACCGGTTTCATCATT
1 TTTTACCGGTTTCATCATT
* *
4776642 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTCATCAT-T
4776663 TTTTACC
1 TTTTACC
4776670 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (19 bp):
TTTTACCGGTTTCATCATT
Found at i:4777533 original size:20 final size:20
Alignment explanation
Indices: 4777439--4777807 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
4777429 GATTTTCCAT
* ** *
4777439 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
4777459 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
4777479 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4777499 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
4777519 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
4777539 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4777559 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4777579 AATCGCAACGCGTATCCTTA
1 AATCGCAACGCGTATCCGTA
* *
4777599 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4777619 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4777639 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4777659 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4777679 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
4777699 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4777719 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4777739 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4777759 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4777779 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4777799 AATCACAAC
1 AATCGCAAC
4777808 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:4778517 original size:24 final size:24
Alignment explanation
Indices: 4778478--4778524 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4778468 AAATTTGGTC
4778478 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
4778502 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
4778525 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:4778716 original size:12 final size:12
Alignment explanation
Indices: 4778699--4778723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4778689 ATATAATCCT
4778699 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4778711 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4778723 G
1 G
4778724 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4781046 original size:19 final size:19
Alignment explanation
Indices: 4781024--4781348 Score: 412
Period size: 19 Copynumber: 18.4 Consensus size: 19
4781014 CGGAAAATAC
*
4781024 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4781043 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
4781057 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4781076 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4781090 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4781109 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4781128 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4781142 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4781161 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4781180 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4781194 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4781213 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
4781232 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
4781251 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4781270 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4781289 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
4781303 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4781322 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4781341 AATCGCAA
1 AATCGCAA
4781349 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 50
0.81 0.04 0.15
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 13 0.05
18 3 0.01
19 187 0.70
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4781070 original size:33 final size:34
Alignment explanation
Indices: 4781024--4781348 Score: 306
Period size: 33 Copynumber: 9.2 Consensus size: 34
4781014 CGGAAAATAC
* *
4781024 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
* *
4781057 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
4781090 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
* * * *
4781128 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCGCAACAATGAA
* *
4781161 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
*
4781194 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
*
4781232 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
*
4781270 AATCGCAATGCGAAATGAAAATCGCAACGAA--AG
1 AATCGCAATGCGAAATGAAAATCGCAAC-AATGAA
4781303 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
4781341 AATCGCAA
1 AATCGCAA
4781349 CGAGATAATC
Statistics
Matches: 246, Mismatches: 25, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
31 1 0.00
32 6 0.02
33 132 0.54
34 2 0.01
35 5 0.02
36 3 0.01
37 2 0.01
38 88 0.36
39 6 0.02
40 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACAATGAA
Found at i:4781386 original size:52 final size:52
Alignment explanation
Indices: 4781052--4781370 Score: 557
Period size: 52 Copynumber: 6.0 Consensus size: 52
4781042 AAATCCCAAC
4781052 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
4781104 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
4781156 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
4781208 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
4781265 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
4781317 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
4781369 AT
1 AT
4781371 TATAAACGCA
Statistics
Matches: 255, Mismatches: 7, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
52 200 0.78
53 2 0.01
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:4781486 original size:19 final size:19
Alignment explanation
Indices: 4781377--4781478 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
4781367 AAATTATAAA
4781377 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4781396 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
* *
4781416 CGTATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
4781432 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4781449 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4781468 CGCATTGCGAT
1 CGCATTGCGAT
4781479 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 35 0.47
20 19 0.26
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:4781604 original size:14 final size:14
Alignment explanation
Indices: 4781585--4781621 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4781575 CATCAATTAC
4781585 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4781599 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4781613 ACAAATCAA
1 ACAAATCAA
4781622 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4781649 original size:37 final size:37
Alignment explanation
Indices: 4781602--4781672 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
4781592 AACTTTTACA
*
4781602 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
4781639 AATCAACTTTTACAAATCAATTAAACAATCAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAA
4781673 AACAATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
Found at i:4781680 original size:37 final size:37
Alignment explanation
Indices: 4781602--4781681 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
4781592 AACTTTTACA
* ***
4781602 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
4781639 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
4781676 AATCAA
1 AATCAA
4781682 TTAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
Found at i:4783564 original size:14 final size:14
Alignment explanation
Indices: 4783545--4783601 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4783535 GCGAAATGAA
*
4783545 AATCGCAACGACAG
1 AATCGCAACGAAAG
4783559 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4783576 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4783592 AATCGCAACG
1 AATCGCAACG
4783602 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4783572 original size:33 final size:33
Alignment explanation
Indices: 4783526--4783618 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4783516 GAGAAACCAA
*
4783526 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
4783559 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
4783592 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4783619 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:4783583 original size:19 final size:19
Alignment explanation
Indices: 4783489--4783623 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
4783479 TAGTTTACTT
* *
4783489 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
4783509 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4783528 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4783547 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4783561 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4783580 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
4783594 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4783613 TCGCAATGCGA
1 TCGCAACGCGA
4783624 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 46 0.48
20 11 0.12
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4783641 original size:19 final size:19
Alignment explanation
Indices: 4783619--4783747 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4783609 AAAATCGCAA
4783619 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4783638 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4783652 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4783671 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4783685 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4783704 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4783723 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4783743 TGCGA
1 TGCGA
4783748 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4783661 original size:33 final size:33
Alignment explanation
Indices: 4783619--4783710 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4783609 AAAATCGCAA
4783619 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4783652 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4783685 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4783711 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4783950 original size:93 final size:93
Alignment explanation
Indices: 4783791--4784170 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
4783781 TTGAATGGAT
4783791 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4783856 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4783884 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4783949 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4783977 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4784041 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4784069 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4784134 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4784162 AAATTTACT
1 AAATTTACT
4784171 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4784104 original size:185 final size:186
Alignment explanation
Indices: 4783791--4784170 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
4783781 TTGAATGGAT
4783791 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4783856 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4783921 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4783977 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4784041 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4784106 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4784162 AAATTTACT
1 AAATTTACT
4784171 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4785896 original size:14 final size:14
Alignment explanation
Indices: 4785877--4785966 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
4785867 TTGAAATGAA
4785877 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4785891 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
4785908 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
4785924 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4785943 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4785957 AATCGCAACG
1 AATCGCAACG
4785967 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4785914 original size:33 final size:33
Alignment explanation
Indices: 4785869--4785983 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
4785859 TCTTTTGGTT
4785869 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
4785902 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4785935 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4785968 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4785984 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4785915 original size:19 final size:18
Alignment explanation
Indices: 4785876--4785988 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
4785866 GTTGAAATGA
4785876 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
4785891 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
4785908 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
4785924 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
4785941 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
4785957 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
4785974 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
4785989 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:4786019 original size:14 final size:14
Alignment explanation
Indices: 4786000--4786054 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4785990 TTTGGTTTCG
4786000 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4786014 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4786033 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4786047 CGTTGCGA
1 CGTTGCGA
4786055 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4786032 original size:33 final size:33
Alignment explanation
Indices: 4785984--4786054 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
4785974 AAAATCGCAA
**
4785984 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4786017 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4786050 TGCGA
1 TGCGA
4786055 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:4786062 original size:33 final size:33
Alignment explanation
Indices: 4785995--4786076 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
4785985 GCGATTTTGG
***
4785995 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
4786028 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
4786061 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
4786077 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:4786081 original size:20 final size:20
Alignment explanation
Indices: 4786007--4786095 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
4785997 TCGCGTTGCG
4786007 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
4786027 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
4786040 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
4786060 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
4786080 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
4786096 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:4786217 original size:33 final size:33
Alignment explanation
Indices: 4786175--4786245 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4786165 AATACTAACT
*
4786175 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
4786208 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
4786241 TGAAA
1 TGAAA
4786246 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:4786478 original size:22 final size:22
Alignment explanation
Indices: 4786426--4786480 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4786416 TGGTTGTGAG
**
4786426 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
4786448 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
4786470 GGATTTCTTCG
1 GGATTTCTTCG
4786481 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:4786651 original size:20 final size:20
Alignment explanation
Indices: 4786626--4786819 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
4786616 CTTTAAATAT
4786626 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4786646 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4786668 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4786687 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
4786707 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4786727 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4786747 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4786767 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4786787 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4786807 CGCGTTGCGATTT
1 CGCGTTGCGATTT
4786820 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4786813 original size:60 final size:60
Alignment explanation
Indices: 4786626--4786819 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
4786616 CTTTAAATAT
**
4786626 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
4786687 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
4786747 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
4786807 CGCGTTGCGATTT
1 CGCGTTGCGATTT
4786820 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:4786836 original size:21 final size:20
Alignment explanation
Indices: 4786812--4786888 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
4786802 ATATTCGCGT
4786812 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
4786833 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
4786853 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
4786875 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
4786889 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:4786899 original size:20 final size:20
Alignment explanation
Indices: 4786874--4786925 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4786864 AAGAATCGCG
*
4786874 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4786894 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4786914 TTGCGATTCTGG
1 TTGCGATTCTGG
4786926 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:4792139 original size:25 final size:25
Alignment explanation
Indices: 4792111--4792159 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4792101 GATTTTGGGG
* *
4792111 CCATGCACATCCCTAGTAGTGAGTC
1 CCATGCACATCCCTAATACTGAGTC
4792136 CCATGCACATCCCTAATACTGAGT
1 CCATGCACATCCCTAATACTGAGT
4792160 ACGTTGCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (25 bp):
CCATGCACATCCCTAATACTGAGTC
Found at i:4796096 original size:20 final size:20
Alignment explanation
Indices: 4796073--4796117 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
4796063 GAATATGTAA
*
4796073 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTAACT
*
4796093 ATCGCAACGCGATTTTAACT
1 ATCGCAACGCGATTCTAACT
4796113 ATCGC
1 ATCGC
4796118 GTTGCGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTAACT
Found at i:4796317 original size:22 final size:22
Alignment explanation
Indices: 4796291--4796341 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
4796281 CTACGGCGAC
4796291 ATCCGTCCCCATCTCCGACAAA
1 ATCCGTCCCCATCTCCGACAAA
* *
4796313 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACAAA
4796335 ATCCGTC
1 ATCCGTC
4796342 TATCTCAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.45, G:0.14, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACAAA
Found at i:4796768 original size:20 final size:20
Alignment explanation
Indices: 4796745--4796783 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4796735 TGCAATAGTT
4796745 ATTTTCGTGTTGCGATTTTC
1 ATTTTCGTGTTGCGATTTTC
4796765 ATTTTCGTGTTGCGATTTT
1 ATTTTCGTGTTGCGATTTT
4796784 AAGTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.56
Consensus pattern (20 bp):
ATTTTCGTGTTGCGATTTTC
Found at i:4796790 original size:20 final size:20
Alignment explanation
Indices: 4796747--4796790 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4796737 CAATAGTTAT
* *
4796747 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
4796767 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
4796787 TTTC
1 TTTC
4796791 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:4798712 original size:20 final size:19
Alignment explanation
Indices: 4798689--4798748 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 19
4798679 CGTAATGCGA
4798689 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACG-GG
*
4798709 AAATGACTATCGCAACGTG
1 AAATGACTATCGCAACGGG
*
4798728 AATTTGACTATCGCAACGGG
1 AA-ATGACTATCGCAACGGG
4798748 A
1 A
4798749 TAATCGCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 3 0.08
20 33 0.92
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (19 bp):
AAATGACTATCGCAACGGG
Found at i:4798774 original size:19 final size:20
Alignment explanation
Indices: 4798750--4798794 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
4798740 GCAACGGGAT
4798750 AATCGCAATGCG-AAATAAA
1 AATCGCAATGCGAAAATAAA
*
4798769 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATAAA
4798789 AATCGC
1 AATCGC
4798795 GACGCGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
AATCGCAATGCGAAAATAAA
Found at i:4798801 original size:20 final size:20
Alignment explanation
Indices: 4798750--4798802 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
4798740 GCAACGGGAT
*
4798750 AATCGCAATGCG-AAATAAA
1 AATCGCAACGCGAAAATAAA
* *
4798769 AATCGCAATGCGAAAATGAA
1 AATCGCAACGCGAAAATAAA
*
4798789 AATCGCGACGCGAA
1 AATCGCAACGCGAA
4798803 TTTAGTTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAAAATAAA
Found at i:4798820 original size:19 final size:19
Alignment explanation
Indices: 4798798--4798860 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
4798788 AAATCGCGAC
*
4798798 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
4798817 GCGATTTTGGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
4798836 GCGATTTTTA-TTTCGCATT
1 GCGA-TTTTAGTTTCGCGTT
4798855 GCGATT
1 GCGATT
4798861 ATCCCGTTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 2 0.05
19 33 0.85
20 4 0.10
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:4798910 original size:20 final size:20
Alignment explanation
Indices: 4798865--4798933 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
4798855 GCGATTATCC
*
4798865 CGTTGCGATAGTCAAATTC-G
1 CGTTGCGATAGTC-ATTTCTG
**
4798885 AATTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCTG
4798905 CGTTGCGATAGTCATTT-TCG
1 CGTTGCGATAGTCATTTCT-G
4798925 CGTTGCGAT
1 CGTTGCGAT
4798934 TTAAGTTTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 5 0.12
20 37 0.88
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCTG
Found at i:4798948 original size:19 final size:20
Alignment explanation
Indices: 4798920--4798962 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
4798910 CGATAGTCAT
4798920 TTTCGCGTTGCGA-TTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
4798939 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
4798959 TTTC
1 TTTC
4798963 AGAAACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:4799515 original size:42 final size:42
Alignment explanation
Indices: 4799452--4799545 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
4799442 CACCTGTCAT
4799452 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
4799494 CGTTCAAGAGGCCCCTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCAC
*
4799536 CATTCAAGAG
1 CGTTCAAGAG
4799546 CCCGATTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:4799518 original size:21 final size:21
Alignment explanation
Indices: 4799444--4799530 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
4799434 GCCTGACTCA
4799444 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* ** *
4799465 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
4799486 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
4799507 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
4799528 CCT
1 CCT
4799531 CCCACCATTC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.23
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:4799544 original size:21 final size:21
Alignment explanation
Indices: 4799476--4799545 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
4799466 CTATCATCCC
4799476 TCAAGA-GTCCCCTCCCACCGT
1 TCAAGAGGT-CCCTCCCACCGT
* ** *
4799497 TCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGTCCCTCCCACCGT
* *
4799518 TGAAGAGGTCCCTCCCACCAT
1 TCAAGAGGTCCCTCCCACCGT
4799539 TCAAGAG
1 TCAAGAG
4799546 CCCGATTCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAAGAGGTCCCTCCCACCGT
Found at i:4800951 original size:14 final size:14
Alignment explanation
Indices: 4800932--4800968 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
4800922 GCTTGTTTAA
4800932 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
4800946 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
4800960 TTGATTTGT
1 TTGATTTGT
4800969 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:4801012 original size:36 final size:36
Alignment explanation
Indices: 4800965--4801076 Score: 125
Period size: 36 Copynumber: 3.4 Consensus size: 36
4800955 AAAAGTTGAT
4800965 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
* * *
4801001 TTGTTTAATTGATTTGT-AA-AAGT-TGA----T--
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
4801028 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
4801064 TTATTTAATTGAT
1 TTGTTTAATTGAT
4801077 TGAAATGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
27 16 0.27
28 2 0.03
29 4 0.07
30 2 0.03
33 2 0.03
34 4 0.07
35 2 0.03
36 28 0.47
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.54
Consensus pattern (36 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:4801045 original size:63 final size:63
Alignment explanation
Indices: 4800946--4801099 Score: 263
Period size: 63 Copynumber: 2.4 Consensus size: 63
4800936 TTTGTAAAAG
*
4800946 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
4801009 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
4801072 TTGATTGAAATGTAAAAGTTGATTTGTT
1 TTGATT----TGTAAAAGTTGATTTGTT
4801100 GATTTCAATC
Statistics
Matches: 86, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
63 68 0.79
67 18 0.21
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.51
Consensus pattern (63 bp):
TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
Found at i:4801176 original size:20 final size:20
Alignment explanation
Indices: 4801151--4801228 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
4801141 AGGTACACTT
*
4801151 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
4801171 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
* **
4801191 TCGCGATTCGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
* *
4801211 TCGCAACGTGAAAGTCAA
1 TCGCAACGCGAAACTCAA
4801229 TTCGCGTTGC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:4801292 original size:20 final size:20
Alignment explanation
Indices: 4801267--4801343 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
4801257 GCAATTTTCT
*
4801267 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
4801287 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
4801307 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
4801327 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
4801344 GAATGTGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4803605 original size:14 final size:14
Alignment explanation
Indices: 4803586--4803622 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4803576 TCCCGTGGCA
4803586 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
4803600 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
4803614 TTCTTCTTC
1 TT-TTCTTC
4803623 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:4803879 original size:24 final size:24
Alignment explanation
Indices: 4803828--4803879 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4803818 ATCTGAGTAT
* *
4803828 TGACCAAGATCAAAGTTCAGGTAT
1 TGACCAAGATCAAAGTTCAGATAC
*
4803852 TGACCAAGATCAAATTTC-GAATAC
1 TGACCAAGATCAAAGTTCAG-ATAC
4803876 TGAC
1 TGAC
4803880 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCAGATAC
Found at i:4804722 original size:20 final size:20
Alignment explanation
Indices: 4804679--4804807 Score: 127
Period size: 20 Copynumber: 6.3 Consensus size: 20
4804669 AAATTCAGCA
* *
4804679 TTGCGACAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCG
*
4804699 TTGCGATAGTCAGAATCGTG
1 TTGCGATAGTCAGAATCGCG
**
4804719 TTGCGATTATGT-ATTATCGCG
1 TTGCGA-TA-GTCAGAATCGCG
*
4804740 TTGCGATAGTCAGAATCACG
1 TTGCGATAGTCAGAATCGCG
** *
4804760 TTGCGATTATGT-ATTATCGGG
1 TTGCGA-TA-GTCAGAATCGCG
4804781 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
4804801 TTGCGAT
1 TTGCGAT
4804808 TTACATATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.05
20 52 0.60
21 27 0.31
22 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:4804738 original size:41 final size:41
Alignment explanation
Indices: 4804693--4804808 Score: 196
Period size: 41 Copynumber: 2.8 Consensus size: 41
4804683 GACAGTCAGA
* *
4804693 ATCGCATTGCGATAGTCAGAATCGTGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
*
4804734 ATCGCGTTGCGATAGTCAGAATCACGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
*
4804775 ATCGGGTTGCGATAGTCAGAATCGCGTTGCGATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATT
4804809 TACATATTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
Found at i:4804889 original size:41 final size:41
Alignment explanation
Indices: 4804782--4804897 Score: 99
Period size: 41 Copynumber: 2.8 Consensus size: 41
4804772 ATTATCGGGT
* ** * * *
4804782 TGCGATAGTCAGAATCGCGTTGCG-ATTTACATATTCACAT
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCACAA
* ** ***
4804822 TGTGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCACAA
1 TGCGATAGTC-AAAATCGCGTTGCGAATTTGGAAAATCACAA
*
4804864 TGCGATAGTCAAAATCGCGTTGCGAATCTGGAAA
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAA
4804898 CTGATTTGCG
Statistics
Matches: 55, Mismatches: 19, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
40 7 0.13
41 30 0.55
42 18 0.33
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (41 bp):
TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCACAA
Found at i:4804926 original size:20 final size:19
Alignment explanation
Indices: 4804903--4804948 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4804893 GGAAACTGAT
* *
4804903 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
4804923 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
4804942 TTGCGAT
1 TTGCGAT
4804949 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:4804938 original size:19 final size:19
Alignment explanation
Indices: 4804914--4804950 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4804904 TGCGATACTG
*
4804914 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
4804933 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
4804951 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:4806830 original size:138 final size:127
Alignment explanation
Indices: 4806661--4806991 Score: 376
Period size: 138 Copynumber: 2.5 Consensus size: 127
4806651 GATTCTAATT
* * *
4806661 ATTAAATTGGAATCTCGAGCAAAAACGATGACCAAATTAAGAATTCTCCTAATTTAAGGATTAAA
1 ATTAAATTGAAACCTCAAGC-AAAACGATGACCAAATTAAGAATTCTCCTAATTTAAGGATTAAA
* *
4806726 GGTAAAATTAGGCATAAGATGGAGGCCCTAAAATTAATCCTAATTAATTTTAATTAATATGGACT
65 GATAAAATTAGGCATAAGATGGAGGACCTAAAATTAATCC----TAA--TTAATT-ATAT-GA-T
*
4806791 ACCTAATA
121 -CCAAATA
*
4806799 ATT-AATTCGAAACCTCAAGCATAAACGATGACCAAATTAAGAATTCTCCTAATTTAAGGACTAA
1 ATTAAATT-GAAACCTCAAGCA-AAACGATGACCAAATTAAGAATTCTCCTAATTTAAGGATTAA
* * * * * *
4806863 ATATGAAATTAGGCCTAAGATGGAGGATCTAATATTAATCCTAATTAATTATATGATTCAAATA
64 AGATAAAATTAGGCATAAGATGGAGGACCTAAAATTAATCCTAATTAATTATATGATCCAAATA
* * * *
4806927 ATTAAATTGAAACCTCGAGCAAAAGCGATGATCAAAATAAGAATTCACCTAATTTAAGGATTAAA
1 ATTAAATTGAAACCTCAAGCAAAA-CGATGACCAAATTAAGAATTCTCCTAATTTAAGGATTAAA
4806992 CCTAAAATAA
Statistics
Matches: 171, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
127 3 0.02
128 56 0.33
129 5 0.03
130 2 0.01
131 4 0.02
132 6 0.04
134 3 0.02
137 5 0.03
138 87 0.51
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (127 bp):
ATTAAATTGAAACCTCAAGCAAAACGATGACCAAATTAAGAATTCTCCTAATTTAAGGATTAAAG
ATAAAATTAGGCATAAGATGGAGGACCTAAAATTAATCCTAATTAATTATATGATCCAAATA
Found at i:4809300 original size:40 final size:39
Alignment explanation
Indices: 4809256--4809343 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 39
4809246 CCAACTCATT
* *
4809256 TGTGATGATTGACCCAAGGTGATGTTGATCCAAATCCTTA
1 TGTGATGA-TGACCCAAGGTGATGCTGATCCAAATCCTGA
* *
4809296 TGTGATGGATGAGCCAAGGTGATGCTGATCCAACTCCTGA
1 TGTGAT-GATGACCCAAGGTGATGCTGATCCAAATCCTGA
4809336 TGTGATGA
1 TGTGATGA
4809344 ACGAGTGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.05
40 39 0.91
41 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (39 bp):
TGTGATGATGACCCAAGGTGATGCTGATCCAAATCCTGA
Found at i:4809471 original size:42 final size:42
Alignment explanation
Indices: 4809275--4809475 Score: 253
Period size: 42 Copynumber: 4.8 Consensus size: 42
4809265 TGACCCAAGG
* * *
4809275 TGATGTTGATCCAAATCCTTATGTGATGGATGAGC-CAA-GG
1 TGATGTTGATCCAACTCCTTATGTGATGGATGAGCGAAATGA
* * * * *
4809315 TGATGCTGATCCAACTCCTGATGTGATGAACGAGTGAAATGA
1 TGATGTTGATCCAACTCCTTATGTGATGGATGAGCGAAATGA
* * *
4809357 TGATGATGATCCAACTCCTTATGTGATGGACGAGTGAAATGA
1 TGATGTTGATCCAACTCCTTATGTGATGGATGAGCGAAATGA
* * *
4809399 TGATGTTGATCCTACTCTTTATGTGATGGATGAGCAAAATGA
1 TGATGTTGATCCAACTCCTTATGTGATGGATGAGCGAAATGA
*
4809441 TGATGTTGATCCAACTCCTTATGCGATGGATGAGC
1 TGATGTTGATCCAACTCCTTATGTGATGGATGAGC
4809476 CAAGGTCGGT
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 29 0.21
41 2 0.01
42 108 0.78
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TGATGTTGATCCAACTCCTTATGTGATGGATGAGCGAAATGA
Found at i:4809574 original size:39 final size:39
Alignment explanation
Indices: 4809531--4809628 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
4809521 AGGTTAAACA
*
4809531 AGTTCTTCTTATTATGAACTTCTTCTTCTTCATCAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCATCAGATG
* *
4809570 AGTTCTTCTCATTATGAACTTCTTTTTCTTCATCGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCATCAGATG
4809609 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
4809629 CTCCACTGGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCATCAGATG
Found at i:4809862 original size:117 final size:117
Alignment explanation
Indices: 4809570--4810022 Score: 592
Period size: 117 Copynumber: 3.9 Consensus size: 117
4809560 TCATCAGATG
* * * *
4809570 AGTTCTTCTCATTATGAACTTCTTTTTCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCAC
* * *
4809635 TGGAAATTTTGATCCA-CTTGCTTCTGTGATGGAATCGAACCAAGGTTGAACA
66 TAGAAATGTTGATCCACCTT-CTTCTATGATGGAATCGAACCAAGGTTGAACA
* *
4809687 AG---TTCTCATTATGAACTTCTTATCCCTCATCGGATGATTTATTCTCATTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCAC
* *
4809749 AAGAAATGTTGATCCACCTTCTTTTATGATGGAATCGAACCAAGGTTGAACA
66 TAGAAATGTTGATCCACCTTCTTCTATGATGGAATCGAACCAAGGTTGAACA
* * * * *
4809801 AGTTCTTCTTATTATGAACTTCTTCTCCCTCGTAGGATGAGTTATTCTGATTATGAACTCTCCAG
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCAC
* * * * *
4809866 TGGAAATGTTAATTCACC-TCATTCTGTGATGGAATTGAACCAAGGTTGAACA
66 TAGAAATGTTGATCCACCTTC-TTCTATGATGGAATCGAACCAAGGTTGAACA
* ** * * *
4809918 AGTTCTTCTCATTATGAACTTCTTCTCCTTCATTTGATGAGTTCTTCTCATTATAAACTCTCTAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCAC
* *
4809983 TAGAAATGTTGATCCACCTCCTTTTATGATGGAATCGAAC
66 TAGAAATGTTGATCCACCTTCTTCTATGATGGAATCGAAC
4810023 AAAGTGATGA
Statistics
Matches: 289, Mismatches: 41, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
114 100 0.35
115 3 0.01
116 2 0.01
117 183 0.63
118 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (117 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCAC
TAGAAATGTTGATCCACCTTCTTCTATGATGGAATCGAACCAAGGTTGAACA
Found at i:4810251 original size:203 final size:203
Alignment explanation
Indices: 4809890--4810266 Score: 524
Period size: 203 Copynumber: 1.9 Consensus size: 203
4809880 CACCTCATTC
* * ****
4809890 TGTGATGGAATTGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATTTGA
1 TGTGATGGAATCGAACCAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCACCAAA
* * * * *
4809955 TGAGTTCTTCTCATTATAAACTCTCTACTAGAAATGTTGATCCACCTCCTTTTATGATGGAATCG
66 TGAGTTATTCTCATTATAAACTCTCCACCAGAAATATTGATCCACCTCCTTCTATGATGGAATCG
* * *
4810020 AACAAAGTGATGATGCTTATCTAACTCCATATGCGATGGATGAGACAAGTATTGGTATTGTTCCA
131 AACAAAGTGAAGACGCTTATCCAACTCCATATGCGATGGATGAGACAAGTATTGGTATTGTTCCA
4810085 ACTCTTTA
196 ACTCTTTA
* *
4810093 TGTGATGGAATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCAC-TCACCAA
1 TGTGATGGAATCGAACCAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTC-CTTCACCAA
* * * * * *
4810157 ATGAGTTATTCTCATTATGAACTTTCCGCCGGAAATATTGATCCACCTCCTTCTGTGCTGGAATC
65 ATGAGTTATTCTCATTATAAACTCTCCACCAGAAATATTGATCCACCTCCTTCTATGATGGAATC
4810222 GAACAAAGTGAAGACG-TTGATCCAACTCCATATGCGATGGATGAG
130 GAACAAAGTGAAGACGCTT-ATCCAACTCCATATGCGATGGATGAG
4810267 CTCAGTGTTT
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
202 2 0.01
203 147 0.98
204 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (203 bp):
TGTGATGGAATCGAACCAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCACCAAA
TGAGTTATTCTCATTATAAACTCTCCACCAGAAATATTGATCCACCTCCTTCTATGATGGAATCG
AACAAAGTGAAGACGCTTATCCAACTCCATATGCGATGGATGAGACAAGTATTGGTATTGTTCCA
ACTCTTTA
Found at i:4812282 original size:232 final size:232
Alignment explanation
Indices: 4811847--4813008 Score: 1417
Period size: 232 Copynumber: 4.9 Consensus size: 232
4811837 CAACTATATA
* * * *
4811847 TTACT-ATGCCCAAAGGACTTACTAAGTAAGAAAC-TTAAGAAATCGTTTTC-TTACTTAAAGAA
1 TTACTGATGCCCGAAGGACTTACTAAGTAAGAAACTTTGA-AAATCATTTTCTTTTC-TAAA-AA
4811909 ATTCAATTTTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATC
63 A--CAA-TTTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATC
* * * * *
4811974 ATGTGAAAACATCATGCCCGAAGGTTTTATGGATGGTCCGAAGAACTTATCATTTTGCTTGAAAG
125 ATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCAAAG-ACTTATCATCTTGCTCGAAAG
* **
4812039 GCTTTTAGATGACGAGAAGGATTTAAGCATCATGCTCGAAAGAC
189 GCTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
4812083 TTACTGATGACCCGAAGGACTTACTAAGTAAGAAACTTTGAAAATCATTTTCTTTTCTAAAAAA-
1 TTACTGATG-CCCGAAGGACTTACTAAGTAAGAAACTTTGAAAATCATTTTCTTTTCTAAAAAAC
* *
4812147 AA-TTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATTGCTTTCTCATTTTTCAAAAATCATGTG
65 AATTTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTG
* *
4812211 AAAACATCATACCCGAAGGTCTTATGGATGGCCCAAAGATCTTATCATCTTGCTCGAAAAGCTTA
130 AAAACATCATGCCCGAAGGTCTTATGGATGGCCCAAAGA-CTTATCATCTTGCTCGAAAGGCTTA
* **
4812276 TAGATGACCCAAATAATTTAAGCATCATGCTCGAAAGAC
194 TAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
** * * * *
4812315 TTACTGATGGCCTAAAGGACTTACTATGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTAAAAA
1 TTACTGAT-GCCCGAAGGACTTACTAAGTAAGAAACTTTGAAAATCATTTTCTT--TTCTAAAAA
* * *
4812380 A-AAATTCAGAAAAGATTTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCGAAAATCATG
63 ACAATTTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATG
* * *
4812444 TGAAAACATCCTGCCAGAAGGTCTTATGGAT-GCCCAAATGACTTATCATCTTGATCGAAAGGCT
128 TGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCAAA-GACTTATCATCTTGCTCGAAAGGCT
*
4812508 TATAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGAC
192 TATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
* * * * ** **
4812549 TTATTGATTGCCCGAAGGACTTACTAAGTAAGAAACTTAGGAAATAATTTAATACT-TAAAAAAC
1 TTACTGA-TGCCCGAAGGACTTACTAAGTAAGAAACTTTGAAAATCATTTTCTTTTCTAAAAAAC
* * *
4812613 AATTTTCAAAAAAAGATTTAAATGAGAAGCATTT-GAAATCGTTTTCTCATTTTTCAAAAATCAT
65 AA-TTTC-AGAAAAGATTTAAATGAGAAGC-TTTGGAAATCGCTTTCTCATTTTTCGAAAATCAT
* * * * * *
4812677 GTGAAAACATCCTGCCCAAAAGTGTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGC
127 GTGAAAACATCATGCCCGAAGGTCTTATGGATGGCC-CAAAGACTTATCATCTTGCTCGAAAGGC
*
4812742 TTATAGATGACCCGAAGGATTTAAGAATCATGCTCGAAAGAC
191 TTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
* * * * * * *
4812784 TTACTAATGGCCCGAGGGACTTACTATGTAAGAAAATTCGAAAATCGTTTTCTTACTTTTCAAAA
1 TTACTGAT-GCCCGAAGGACTTACTAAGTAAGAAACTTTGAAAATC--ATT-TT-CTTTTCTAAA
* * * * * *
4812849 AAATCAATTTTCAGAAAATATTTAAATGGGAAACTTTGGAAACCACTTTCTCATTTTTTGAAAAT
61 AAA-CAA-TTTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAAT
* *
4812914 CATGTGAAAACATCATGTCCGAAGGTC-TATGGATGGCCCAAAGGACTTATCATCTAGCTCGAAA
124 CATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCAAA-GACTTATCATCTTGCTCGAAA
* *
4812978 GGCTTATAGATCACTCGAAGGATTTAAGCAT
188 GGCTTATAGATGACCCGAAGGATTTAAGCAT
4813009 TGACAATTTT
Statistics
Matches: 804, Mismatches: 96, Indels: 49
0.85 0.10 0.05
Matches are distributed among these distances:
231 8 0.01
232 199 0.25
233 4 0.00
234 198 0.25
235 192 0.24
236 7 0.01
237 8 0.01
238 42 0.05
239 70 0.09
240 68 0.08
241 8 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (232 bp):
TTACTGATGCCCGAAGGACTTACTAAGTAAGAAACTTTGAAAATCATTTTCTTTTCTAAAAAACA
ATTTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGA
AAACATCATGCCCGAAGGTCTTATGGATGGCCCAAAGACTTATCATCTTGCTCGAAAGGCTTATA
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
Found at i:4812569 original size:234 final size:234
Alignment explanation
Indices: 4811853--4813008 Score: 1431
Period size: 235 Copynumber: 4.9 Consensus size: 234
4811843 TATATTACTA
* *
4811853 TGCCCAAAGGACTTACTAAGTAAGAAACTTAAGAAATCGTTTTCTTAC--TTAAAGAAATTCAAT
1 TGCCCGAAGGACTTACTAAGTAAGAAACTTAGGAAATCGTTTTCTTACTTTTAAA-AAA---AA-
*
4811916 TTTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAA
61 ATTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAA
* * * * * * *
4811981 AACATCATGCCCGAAGGTTTTATGGATGGTCCGAAGAACTTATCATTTTGCTTGAAAGGCTTTTA
126 AACATCATGCCAGAAGGTCTTATGGATGGCCCAAAG-ACTTATCATCTTGCTCGAAAGGCTTATA
**
4812046 GATGACGAGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA-
190 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
* * * *
4812090 TGACCCGAAGGACTTACTAAGTAAGAAACTTTGAAAATCATTTTCTT--TTCT-AAAAAAAATTC
1 TG-CCCGAAGGACTTACTAAGTAAGAAACTTAGGAAATCGTTTTCTTACTTTTAAAAAAAAATTC
* *
4812152 AGAAAAGATTTAAATGAGAAGCTTTGGAAATTGCTTTCTCATTTTTCAAAAATCATGTGAAAACA
65 AGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAACA
* * *
4812217 TCATACCCGAAGGTCTTATGGATGGCCCAAAGATCTTATCATCTTGCTCGAAAAGCTTATAGATG
130 TCATGCCAGAAGGTCTTATGGATGGCCCAAAGA-CTTATCATCTTGCTCGAAAGGCTTATAGATG
* **
4812282 ACCCAAATAATTTAAGCATCATGCTCGAAAGACTTACTGAT
194 ACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
* ** * *
4812323 GGCCTAAAGGACTTACTATGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTAAAAAAAAATTCA
1 TGCCCGAAGGACTTACTAAGTAAGAAACTTAGGAAATCGTTTTCTTACTTTTAAAAAAAAATTCA
* *
4812388 GAAAAGATTTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAACAT
66 GAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAACAT
* *
4812453 CCTGCCAGAAGGTCTTATGGAT-GCCCAAATGACTTATCATCTTGATCGAAAGGCTTATAGATGA
131 CATGCCAGAAGGTCTTATGGATGGCCCAAA-GACTTATCATCTTGCTCGAAAGGCTTATAGATGA
* *
4812517 CCCGAATGATTTAAGCATCATGCTCGAAAGACTTATTGAT
195 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
** ** *
4812557 TGCCCGAAGGACTTACTAAGTAAGAAACTTAGGAAAT-AATTTAATAC--TTAAAAAACAATTTT
1 TGCCCGAAGGACTTACTAAGTAAGAAACTTAGGAAATCGTTTTCTTACTTTTAAAAAA-AA-ATT
* * *
4812619 CAAAAAAAGATTTAAATGAGAAGCATTT-GAAATCGTTTTCTCATTTTTCAAAAATCATGTGAAA
64 C-AGAAAAGATTTAAATGAGAAGC-TTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAA
* * * * *
4812683 ACATCCTGCCCA-AAAGTGTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATA
127 ACATCATG-CCAGAAGGTCTTATGGATGGCC-CAAAGACTTATCATCTTGCTCGAAAGGCTTATA
* *
4812747 GATGACCCGAAGGATTTAAGAATCATGCTCGAAAGACTTACTAAT
190 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
* * * * * *
4812792 GGCCCGAGGGACTTACTATGTAAGAAAATTCGAAAATCGTTTTCTTACTTTTCAAAAAAATCAAT
1 TGCCCGAAGGACTTACTAAGTAAGAAACTTAGGAAATCGTTTTCTTACTTTT-AAAAAAA--AA-
* * * * * *
4812857 TTTCAGAAAATATTTAAATGGGAAACTTTGGAAACCACTTTCTCATTTTTTGAAAATCATGTGAA
62 -TTCAGAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAA
*
4812922 AACATCATGTCC-GAAGGTC-TATGGATGGCCCAAAGGACTTATCATCTAGCTCGAAAGGCTTAT
126 AACATCATG-CCAGAAGGTCTTATGGATGGCCCAAA-GACTTATCATCTTGCTCGAAAGGCTTAT
* *
4812985 AGATCACTCGAAGGATTTAAGCAT
189 AGATGACCCGAAGGATTTAAGCAT
4813009 TGACAATTTT
Statistics
Matches: 797, Mismatches: 95, Indels: 52
0.84 0.10 0.06
Matches are distributed among these distances:
231 9 0.01
232 197 0.25
233 12 0.02
234 182 0.23
235 203 0.25
236 11 0.01
237 4 0.01
238 45 0.06
239 68 0.09
240 63 0.08
241 3 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (234 bp):
TGCCCGAAGGACTTACTAAGTAAGAAACTTAGGAAATCGTTTTCTTACTTTTAAAAAAAAATTCA
GAAAAGATTTAAATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAACAT
CATGCCAGAAGGTCTTATGGATGGCCCAAAGACTTATCATCTTGCTCGAAAGGCTTATAGATGAC
CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
Found at i:4825068 original size:240 final size:239
Alignment explanation
Indices: 4824625--4825145 Score: 712
Period size: 240 Copynumber: 2.2 Consensus size: 239
4824615 AACACTCATC
* * * * *
4824625 AAGCATGATGCTCAAAAGAC-TACTGATGGCCTGAATGACTTACGAAGTAAGAAACTTTTAAAAT
1 AAGCATCATGCTCGAAAGACTTACTGATGGCCCG-AGGACTTACGAAGTAAGAAACTTTGAAAAT
* * *
4824689 TGTTTTCTTACTTTTTAAAGAAAACAATTTTCAGAAAAGATTTAAATAGGAAGCTTTGGAGATCA
65 CGTTTTCTTACTTTTTAAAGAAAACAATTTTCAGAAAAGATTTAAATAGGAAACTTTGGAAATCA
*
4824754 CTTTCCTATTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTCTAGATGGCTCGAAAG
130 CTTTCCTATTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCTCGAAAG
* *
4824819 ACTTATCATCTTGCTCAAAAGGCTTATATATGACCCGAAGGATTT
195 ACTTATCATCTTGCTCAAAAGGCTTATAGATGACCAGAAGGATTT
* * *
4824864 AAGCATCATGCTCGAAAGACTTACTGATGGCCCGAGGGACTTACTAAGTAATAAACTTTGGAAAT
1 AAGCATCATGCTCGAAAGACTTACTGATGGCCCGA-GGACTTACGAAGTAAGAAACTTTGAAAAT
*
4824929 CGTTTTCTTAC-TTTTAAA-AAAATCAATTTT-AGAAAATATTTAAAT-GAGAAACTTTGGAAAT
65 CGTTTTCTTACTTTTTAAAGAAAA-CAATTTTCAGAAAAGATTTAAATAG-GAAACTTTGGAAAT
* * *
4824990 CGCTTTCTCATTTTTTTCGAAAATCATGTGAAAACATCCTGCCCGATGGTCTTATAGATGG-TCT
128 CACTTTC-C-TATTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCTC-
* * * **
4825054 GAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATTACCAGGGGGATTT
190 GAAAGACTTATCATCTTGCTCAAAAGGCTTATAGATGACCAGAAGGATTT
* *
4825104 AACCATCATGCTCGAAAGACTTACTGATGTCCCGAGGACTTA
1 AAGCATCATGCTCGAAAGACTTACTGATGGCCCGAGGACTTA
4825146 TTCATCAAGA
Statistics
Matches: 250, Mismatches: 25, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
237 1 0.00
238 36 0.14
239 43 0.17
240 170 0.68
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (239 bp):
AAGCATCATGCTCGAAAGACTTACTGATGGCCCGAGGACTTACGAAGTAAGAAACTTTGAAAATC
GTTTTCTTACTTTTTAAAGAAAACAATTTTCAGAAAAGATTTAAATAGGAAACTTTGGAAATCAC
TTTCCTATTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCTCGAAAGA
CTTATCATCTTGCTCAAAAGGCTTATAGATGACCAGAAGGATTT
Found at i:4825332 original size:56 final size:57
Alignment explanation
Indices: 4825222--4825354 Score: 153
Period size: 56 Copynumber: 2.3 Consensus size: 57
4825212 AGTAATCGTT
* *
4825222 AAGAAACCTCTGAAAATCAGAATTAGCTTCTTTAAAACTCATGTGAAGAAATC-ATC
1 AAGAAACCTATGAAAATCAGAATTAGCTTCTTTAAAACTAATGTGAAGAAATCAATC
* * * * * * *
4825278 TAGAAACTTATGAAAATCGGACTTTGCTTCTTTAAAATTAATTTGAA-AACATCATATC
1 AAGAAACCTATGAAAATCAGAATTAGCTTCTTTAAAACTAATGTGAAGAA-ATCA-ATC
4825336 AAGAAACCTATGAAAATCA
1 AAGAAACCTATGAAAATCA
4825355 TACCTAATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
55 2 0.03
56 41 0.66
58 19 0.31
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (57 bp):
AAGAAACCTATGAAAATCAGAATTAGCTTCTTTAAAACTAATGTGAAGAAATCAATC
Found at i:4825402 original size:50 final size:50
Alignment explanation
Indices: 4825323--4825418 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
4825313 AATTAATTTG
* *
4825323 AAAACATCATATCAAGAAACCTATGAAAATCATACCTAATTTCTTTTATA
1 AAAACATCATATCAAGAAACCTATAAAAATCAGACCTAATTTCTTTTATA
* * * * *
4825373 AAAACATCATGTCAAGAAATCTCTAAAAATCAGACTTAGTTTCTTT
1 AAAACATCATATCAAGAAACCTATAAAAATCAGACCTAATTTCTTT
4825419 AAAAATGCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (50 bp):
AAAACATCATATCAAGAAACCTATAAAAATCAGACCTAATTTCTTTTATA
Found at i:4826841 original size:28 final size:28
Alignment explanation
Indices: 4826821--4826886 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
4826811 GGGAAAGTAG
4826821 TGTGTTTCAGA-TTAATTTGGGGAGGTAA
1 TGTGTTTCAGAGTTAATTT-GGGAGGTAA
*
4826849 TGTATTTCA-AGTTAATTTGGCGAGGTAA
1 TGTGTTTCAGAGTTAATTTGG-GAGGTAA
4826877 TGTGTTTCAG
1 TGTGTTTCAG
4826887 GTTGGCTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 3 0.09
28 30 0.91
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (28 bp):
TGTGTTTCAGAGTTAATTTGGGAGGTAA
Found at i:4828106 original size:2 final size:2
Alignment explanation
Indices: 4828099--4828133 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4828089 AAGATTACCC
4828099 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4828134 TTTTAGGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4832289 original size:24 final size:24
Alignment explanation
Indices: 4832257--4832311 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
4832247 TGTTGTTGTT
**
4832257 GCTGCTGCTGTTGCAGCTGAGGGA
1 GCTGCTGCTGTTGCAAATGAGGGA
*
4832281 GCTGCTGCTGTTGCAAATGCGGGA
1 GCTGCTGCTGTTGCAAATGAGGGA
4832305 GCTGCTG
1 GCTGCTG
4832312 TGACTGCTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.22, G:0.40, T:0.25
Consensus pattern (24 bp):
GCTGCTGCTGTTGCAAATGAGGGA
Found at i:4832336 original size:15 final size:16
Alignment explanation
Indices: 4832318--4832359 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
4832308 GCTGTGACTG
*
4832318 CTGCTGTTGTTGC-AT
1 CTGCTGCTGTTGCAAT
4832333 CTGCTGCTGTTGCAAT
1 CTGCTGCTGTTGCAAT
4832349 -TGCTGCTGTTG
1 CTGCTGCTGTTG
4832360 ATGCTGGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 23 0.92
16 2 0.08
ACGTcount: A:0.07, C:0.21, G:0.29, T:0.43
Consensus pattern (16 bp):
CTGCTGCTGTTGCAAT
Found at i:4832354 original size:18 final size:16
Alignment explanation
Indices: 4832316--4832365 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
4832306 CTGCTGTGAC
*
4832316 TGCTGCTGTTGTTGCA
1 TGCTGCTGCTGTTGCA
4832332 T-CTGCTGCTGTTGCAA
1 TGCTGCTGCTGTTGC-A
4832348 T--TGCTGCTGTTG-A
1 TGCTGCTGCTGTTGCA
4832361 TGCTG
1 TGCTG
4832366 GCTTGATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
15 25 0.83
16 3 0.10
ACGTcount: A:0.08, C:0.20, G:0.30, T:0.42
Consensus pattern (16 bp):
TGCTGCTGCTGTTGCA
Found at i:4843799 original size:18 final size:18
Alignment explanation
Indices: 4843772--4843823 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
4843762 ACTTAGAATT
*
4843772 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
4843790 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
4843808 TGCCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
4843824 ATATCACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.15
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4849743 original size:22 final size:22
Alignment explanation
Indices: 4849697--4849750 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
4849687 GAAGTTCCCC
4849697 GGTATCGATA-CCCTCCACATA
1 GGTATCGATACCCCTCCACATA
* *
4849718 GGTATCAATACCCCTTCA-ATA
1 GGTATCGATACCCCTCCACATA
4849739 TGGTATCGATAC
1 -GGTATCGATAC
4849751 TGTTCATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (22 bp):
GGTATCGATACCCCTCCACATA
Found at i:4852158 original size:27 final size:27
Alignment explanation
Indices: 4852075--4852150 Score: 118
Period size: 26 Copynumber: 2.9 Consensus size: 27
4852065 TCAGTTAGGA
*
4852075 AAAATTACAAAAATACTCTTATGGAGT
1 AAAATTACAAAAATACCCTTATGGAGT
* *
4852102 AAAACTACGAAAATA-CCTTATGGAGT
1 AAAATTACAAAAATACCCTTATGGAGT
4852128 AAAATTACAAAAATACCCTTATG
1 AAAATTACAAAAATACCCTTATG
4852151 TCGTAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.53
27 20 0.47
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (27 bp):
AAAATTACAAAAATACCCTTATGGAGT
Found at i:4855968 original size:26 final size:27
Alignment explanation
Indices: 4855933--4856037 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
4855923 ACTTTGGTTA
*
4855933 GGTAAAATTACGAATATA-CCTTATGG
1 GGTAAAATTACGAAAATACCCTTATGG
4855959 GGTAAAATTAC-AAAATACCCTTATGG
1 GGTAAAATTACGAAAATACCCTTATGG
* ** * *
4855985 GATAAAATTATAAAAATACCCTTTTGA
1 GGTAAAATTACGAAAATACCCTTATGG
* *
4856012 GGTAAAGTTACGAAAATATCCTTATG
1 GGTAAAATTACGAAAATACCCTTATG
4856038 TTGTAAAAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 5 0.08
26 28 0.42
27 33 0.50
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (27 bp):
GGTAAAATTACGAAAATACCCTTATGG
Found at i:4855975 original size:27 final size:27
Alignment explanation
Indices: 4855933--4856037 Score: 101
Period size: 26 Copynumber: 4.0 Consensus size: 27
4855923 ACTTTGGTTA
*
4855933 GGTAAAATTAC-GAATATACCTTATGG
1 GGTAAAATTACAAAATATACCTTATGG
*
4855959 GGTAAAATTACAAAATA-CCCTTATGG
1 GGTAAAATTACAAAATATACCTTATGG
* * * *
4855985 GATAAAATTATAAAA-ATACCCTTTTGA
1 GGTAAAATTACAAAATATA-CCTTATGG
*
4856012 GGTAAAGTTACGAAAATAT-CCTTATG
1 GGTAAAATTAC-AAAATATACCTTATG
4856038 TTGTAAAAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.02
26 32 0.51
27 24 0.38
28 4 0.06
29 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (27 bp):
GGTAAAATTACAAAATATACCTTATGG
Found at i:4857139 original size:66 final size:66
Alignment explanation
Indices: 4857016--4857139 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 66
4857006 ATATAAAGAC
* * * * *
4857016 TGGCAGGTTCAGTCGCTGCTGGTAATTCATTGTATAGGTTCAACATCGATTAGTAATTTCTATCT
1 TGGCAGGTTCAGTCACTGCTGATAATTCATTATATAGGTTCAACACCGATGAGTAATTTCTATCT
4857081 T
66 T
* * *
4857082 TGGCAGGTTGAGTCACTGCTGATAATTCCTTATATAGGTTCAGCACCGACTGA-TAATT
1 TGGCAGGTTCAGTCACTGCTGATAATTCATTATATAGGTTCAACACCGA-TGAGTAATT
4857140 CCTAATGGAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 47 0.96
67 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (66 bp):
TGGCAGGTTCAGTCACTGCTGATAATTCATTATATAGGTTCAACACCGATGAGTAATTTCTATCT
T
Found at i:4861388 original size:19 final size:19
Alignment explanation
Indices: 4861364--4861406 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
4861354 ATTTGAGCTT
4861364 GTTAAAGTATAGTTTTATG
1 GTTAAAGTATAGTTTTATG
4861383 GTTAAAGTATAGTTTTATG
1 GTTAAAGTATAGTTTTATG
4861402 GTTAA
1 GTTAA
4861407 TACTCATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (19 bp):
GTTAAAGTATAGTTTTATG
Found at i:4863569 original size:19 final size:18
Alignment explanation
Indices: 4863542--4863584 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
4863532 ACCTTTTATG
*
4863542 TCATTTCACATA-TTCATAT
1 TCATATCACATAGTTC-T-T
4863561 TCATATCACATAGTTCTT
1 TCATATCACATAGTTCTT
4863579 TCATAT
1 TCATAT
4863585 AGCTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 12 0.55
20 3 0.14
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.47
Consensus pattern (18 bp):
TCATATCACATAGTTCTT
Found at i:4868184 original size:18 final size:18
Alignment explanation
Indices: 4868158--4868209 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
4868148 TTAAAATTTT
*
4868158 TCCCAAAGGACCACTGTG
1 TCCCGAAGGACCACTGTG
4868176 TCCCGAAGGACCACTGTG
1 TCCCGAAGGACCACTGTG
4868194 TCCCGAAGGACCACTG
1 TCCCGAAGGACCACTG
4868210 GAAAGACCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.15
Consensus pattern (18 bp):
TCCCGAAGGACCACTGTG
Found at i:4868261 original size:38 final size:39
Alignment explanation
Indices: 4868192--4868266 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 39
4868182 AGGACCACTG
* *
4868192 TGTCCCGAAGGACCACTGGAAAGACCACATAT-CATATA
1 TGTCCCGAAGGACCACTCGAAAGAACACATATACATATA
**
4868230 TGTCCCGAAGGACCACTCCTTAAGAAC-CATATACATA
1 TGTCCCGAAGGACCACT-CGAAAGAACACATATACATA
4868267 ATACAATGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 22 0.71
39 9 0.29
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (39 bp):
TGTCCCGAAGGACCACTCGAAAGAACACATATACATATA
Found at i:4869141 original size:35 final size:36
Alignment explanation
Indices: 4869095--4869164 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
4869085 TGTTCAAATG
*
4869095 TGGTATCGATACCCTCCTT-AAGGTATCGGTACCCT
1 TGGTATCGATACCCTCCTTCAAGGTATCGATACCCT
** *
4869130 TGGTATCGATACTGTTCTTCAAGGTATCGATACCC
1 TGGTATCGATACCCTCCTTCAAGGTATCGATACCC
4869165 CTTGAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (36 bp):
TGGTATCGATACCCTCCTTCAAGGTATCGATACCCT
Found at i:4875651 original size:21 final size:21
Alignment explanation
Indices: 4875625--4875665 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4875615 CAAATTTTAG
*
4875625 TGCATCGGTGCACTGTAGCAA
1 TGCATCGATGCACTGTAGCAA
4875646 TGCATCGATGCACTGTAGCA
1 TGCATCGATGCACTGTAGCA
4875666 CTGTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTGTAGCAA
Found at i:4880089 original size:18 final size:19
Alignment explanation
Indices: 4880066--4880104 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4880056 AGATAAAATT
*
4880066 TTAA-GGTGCATCGATGCA
1 TTAAGGGTGCATCAATGCA
4880084 TTAAGGGGTGCATCAATGCA
1 TTAA-GGGTGCATCAATGCA
4880104 T
1 T
4880105 GGGAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (19 bp):
TTAAGGGTGCATCAATGCA
Found at i:4880825 original size:23 final size:23
Alignment explanation
Indices: 4880792--4880835 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4880782 GAGTCGAGGG
4880792 TCTACGCGGTCCTTCGGGACAAT
1 TCTACGCGGTCCTTCGGGACAAT
*
4880815 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
4880836 TATGTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACAAT
Found at i:4880940 original size:18 final size:18
Alignment explanation
Indices: 4880917--4880952 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4880907 GTTCTTAAGG
4880917 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
4880935 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
4880953 TTCTACGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:4881663 original size:21 final size:21
Alignment explanation
Indices: 4881634--4881675 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4881624 CGAAAGTCAA
*
4881634 TGTAGCAGTGCATCGATGCAC
1 TGTAACAGTGCATCGATGCAC
4881655 TGTAACAGTGCATCGATGCAC
1 TGTAACAGTGCATCGATGCAC
4881676 AATTTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
TGTAACAGTGCATCGATGCAC
Found at i:4884620 original size:2 final size:2
Alignment explanation
Indices: 4884613--4884646 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4884603 ACATGTTACA
4884613 AT 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
4884647 TATGAGTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4884789 original size:16 final size:17
Alignment explanation
Indices: 4884768--4884805 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
4884758 ATAAAAAACA
*
4884768 ATATGAAATAT-ATATC
1 ATATGAAATATGAAATC
4884784 ATATG-AATATGAAATC
1 ATATGAAATATGAAATC
4884800 ATATGA
1 ATATGA
4884806 GAAAAGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (17 bp):
ATATGAAATATGAAATC
Found at i:4885009 original size:32 final size:31
Alignment explanation
Indices: 4884968--4885074 Score: 87
Period size: 31 Copynumber: 3.4 Consensus size: 31
4884958 AGTCGAGGGT
4884968 TTACCTATGTTCTACAGAATATATGGACAGAA
1 TTACCTATGTTCTACAGAATATATGGACAG-A
* * *
4885000 TTACCTATG-TCTTTC-GAGATAAATGGATAG-
1 TTACCTATGTTC-TACAGA-ATATATGGACAGA
* *
4885030 TATACCTATGTTCTA-AGGAACATATGGACAGT
1 T-TACCTATGTTCTACA-GAATATATGGACAGA
*
4885062 TTACCTAGGTTCT
1 TTACCTATGTTCT
4885075 TCGGGACCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
30 1 0.02
31 33 0.55
32 26 0.43
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (31 bp):
TTACCTATGTTCTACAGAATATATGGACAGA
Found at i:4895904 original size:45 final size:46
Alignment explanation
Indices: 4895817--4895923 Score: 162
Period size: 45 Copynumber: 2.3 Consensus size: 46
4895807 TGCACATACC
* *
4895817 ATGCATCGATGCACTTAGGGTTTTATAAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGGCTTTTATAAAAACATCGAATGCATTTG
* * *
4895863 ATGCATCGATGCACTCAGGCTTTT-TCAAAACATTGAATGCATTTT
1 ATGCATCGATGCACTCAGGCTTTTATAAAAACATCGAATGCATTTG
4895908 ATGCATCGATGCACTC
1 ATGCATCGATGCACTC
4895924 TTAGTGCACG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 34 0.61
46 22 0.39
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (46 bp):
ATGCATCGATGCACTCAGGCTTTTATAAAAACATCGAATGCATTTG
Found at i:4896796 original size:21 final size:21
Alignment explanation
Indices: 4896767--4896806 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4896757 TTTGAGTAGA
4896767 AAAATCATCTCCAAACGGCTCC
1 AAAATCATC-CCAAACGGCTCC
*
4896789 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
4896807 ATATACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:4897065 original size:34 final size:32
Alignment explanation
Indices: 4897026--4897091 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
4897016 GTAAAGGGGG
* *
4897026 AAGGTTCTAGCTTATCCCGTGTAAAAGCTAGGGA
1 AAGGTTCTAGCTTAGCCCG-G-AAAAACTAGGGA
*
4897060 AAGGTTCTAGTTTAGCCCGGAAAAACTAGGGA
1 AAGGTTCTAGCTTAGCCCGGAAAAACTAGGGA
4897092 GTTGTAAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 11 0.38
33 1 0.03
34 17 0.59
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (32 bp):
AAGGTTCTAGCTTAGCCCGGAAAAACTAGGGA
Found at i:4900402 original size:32 final size:31
Alignment explanation
Indices: 4900361--4900482 Score: 99
Period size: 31 Copynumber: 3.9 Consensus size: 31
4900351 AGTCGAGGGT
4900361 TTACCTATGTTCTACGGAACATATGGACTGAA
1 TTACCTATGTTCTACGGAACATATGGACT-AA
* *
4900393 TTACCTATG-TCTTTC-GAGACATATGGA-TAG
1 TTACCTATGTTC-TACGGA-ACATATGGACTAA
*
4900423 TATACCTATGTTCTAAGGAACATATGGAC-AA
1 T-TACCTATGTTCTACGGAACATATGGACTAA
* * * * *
4900454 TTTACCAAGGTTCTTCGGGACCTATGGAC
1 -TTACCTATGTTCTACGGAACATATGGAC
4900483 AGTTGCCGAG
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
30 2 0.03
31 45 0.62
32 25 0.35
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (31 bp):
TTACCTATGTTCTACGGAACATATGGACTAA
Found at i:4902152 original size:23 final size:23
Alignment explanation
Indices: 4902124--4902187 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
4902114 CTAAACAATC
4902124 GAAAACGTGTTATAAAGGCA-AA
1 GAAAACGTGTTATAAAGGCAGAA
* *
4902146 GAAAAACATGTCATAAAGGCAGAA
1 G-AAAACGTGTTATAAAGGCAGAA
* *
4902170 GAAGATGTGTTATAAAGG
1 GAAAACGTGTTATAAAGG
4902188 AAAATTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.03
23 30 0.88
24 3 0.09
ACGTcount: A:0.48, C:0.08, G:0.25, T:0.19
Consensus pattern (23 bp):
GAAAACGTGTTATAAAGGCAGAA
Found at i:4908356 original size:88 final size:88
Alignment explanation
Indices: 4908204--4908372 Score: 284
Period size: 88 Copynumber: 1.9 Consensus size: 88
4908194 TACAGCAGAT
* *
4908204 TTTAACCTAAAATGTTACCATGTCTACTCTAAAAAGTTACACAATTGGTAATAATTTCGGTTACA
1 TTTAACCTAAAATGTTACCATGTCTACTCTAAAAAGTAACACAATTGGTAATAATTTCGATTACA
*
4908269 ACCGATAACGTTACATTGCGGCG
66 ACCGAGAACGTTACATTGCGGCG
* *
4908292 TTTAACCTAAAATGTTACCCTGTCTACTCTAAAAGGTAACACAATTGGTAATAATTTCGATTACA
1 TTTAACCTAAAATGTTACCATGTCTACTCTAAAAAGTAACACAATTGGTAATAATTTCGATTACA
*
4908357 ACCGAGAATGTTACAT
66 ACCGAGAACGTTACAT
4908373 GAGCTTCTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (88 bp):
TTTAACCTAAAATGTTACCATGTCTACTCTAAAAAGTAACACAATTGGTAATAATTTCGATTACA
ACCGAGAACGTTACATTGCGGCG
Found at i:4911959 original size:15 final size:15
Alignment explanation
Indices: 4911939--4911968 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4911929 GTTCACTTTT
*
4911939 AAAATAATTTTTATA
1 AAAATAATTCTTATA
4911954 AAAATAATTCTTATA
1 AAAATAATTCTTATA
4911969 TTACAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATAATTCTTATA
Found at i:4912376 original size:20 final size:21
Alignment explanation
Indices: 4912351--4912392 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
4912341 GTAGGCGAGT
*
4912351 AAAATTAACTTGAT-TTAAAA
1 AAAATTAAATTGATGTTAAAA
4912371 AAAATTAAATTGATGTTAAAA
1 AAAATTAAATTGATGTTAAAA
4912392 A
1 A
4912393 CTTAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAATTAAATTGATGTTAAAA
Found at i:4912737 original size:20 final size:20
Alignment explanation
Indices: 4912688--4912737 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4912678 TAGAAATTCG
4912688 AACTCGACTCGAATTTCACA
1 AACTCGACTCGAATTTCACA
* ** * *
4912708 AGCTTTACTCTAATTTCATA
1 AACTCGACTCGAATTTCACA
4912728 AACTCGACTC
1 AACTCGACTC
4912738 AAACTTTTTT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (20 bp):
AACTCGACTCGAATTTCACA
Found at i:4913461 original size:17 final size:17
Alignment explanation
Indices: 4913421--4913534 Score: 156
Period size: 17 Copynumber: 6.6 Consensus size: 17
4913411 GTTTATGAGG
* *
4913421 GAATTGGAATCTCTGAA
1 GAATTGGAATCTGTCAA
4913438 GGAATTGGAATCTGTCAA
1 -GAATTGGAATCTGTCAA
4913456 GAATTGGAATCTGTCAA
1 GAATTGGAATCTGTCAA
* *
4913473 GAATTGAAATCTGTTAA
1 GAATTGGAATCTGTCAA
*
4913490 GAATTGGAATCTGTTAA
1 GAATTGGAATCTGTCAA
* *
4913507 GAATTGGAATCTATCAG
1 GAATTGGAATCTGTCAA
4913524 GAATTGGAATC
1 GAATTGGAATC
4913535 CAATTCCATA
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
17 73 0.83
18 15 0.17
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (17 bp):
GAATTGGAATCTGTCAA
Found at i:4913959 original size:38 final size:38
Alignment explanation
Indices: 4913915--4914001 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
4913905 CTAAACCCGA
*
4913915 ACCCGACCCGACCTGAATATCACACTTAAAAAAACCTG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCTG
*
4913953 ACCCGACTCGACCCGAATATCACACTTAAAAAAACCTG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCTG
4913991 ACCCGACCCGA
1 ACCCGACCCGA
4914002 ATATATGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.38, C:0.37, G:0.11, T:0.14
Consensus pattern (38 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAAACCTG
Found at i:4915776 original size:14 final size:15
Alignment explanation
Indices: 4915749--4915778 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4915739 TATATGAATC
4915749 TTTAAAAATATTAAA
1 TTTAAAAATATTAAA
4915764 TTTAAAAAT-TTAAA
1 TTTAAAAATATTAAA
4915778 T
1 T
4915779 CATATAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAAAATATTAAA
Found at i:4933374 original size:11 final size:11
Alignment explanation
Indices: 4933358--4933388 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4933348 CCGAATTGGG
4933358 AGGAGAAAGGA
1 AGGAGAAAGGA
*
4933369 AGGAGAAAAGA
1 AGGAGAAAGGA
4933380 AGGAGAAAG
1 AGGAGAAAG
4933389 AGTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (11 bp):
AGGAGAAAGGA
Found at i:4934122 original size:21 final size:23
Alignment explanation
Indices: 4934081--4934132 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
4934071 ATATTTATAT
* *
4934081 TTATTTTATGTTGTTTTTTTTAC
1 TTATTTTATGTTGTTTGTTTTAA
*
4934104 TTTTTTTAT-TTG-TTGTTTTAA
1 TTATTTTATGTTGTTTGTTTTAA
4934125 TTATTTTA
1 TTATTTTA
4934133 ATTAAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 14 0.56
22 3 0.12
23 8 0.32
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (23 bp):
TTATTTTATGTTGTTTGTTTTAA
Found at i:4934131 original size:22 final size:23
Alignment explanation
Indices: 4934074--4934132 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 23
4934064 TTATTTTATA
*
4934074 TTTATATTTATTTTATGTTGTTTTT
1 TTTA-ATTT-TTTTATGTTGTTTGT
*
4934099 TTTACTTTTTTTAT-TTG-TTGT
1 TTTAATTTTTTTATGTTGTTTGT
*
4934120 TTTAATTATTTTA
1 TTTAATTTTTTTA
4934133 ATTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 14 0.47
22 3 0.10
23 6 0.20
24 3 0.10
25 4 0.13
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.75
Consensus pattern (23 bp):
TTTAATTTTTTTATGTTGTTTGT
Found at i:4941979 original size:17 final size:19
Alignment explanation
Indices: 4941951--4941997 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
4941941 AAAGAGAGAG
*
4941951 AAATGAAAGAAATAA-GAA
1 AAATGAAAGAAAAAAGGAA
4941969 AAATG-AAGAAAAAAGGAA
1 AAATGAAAGAAAAAAGGAA
4941987 AAA-GAAA-AAAA
1 AAATGAAAGAAAA
4941998 GAGACAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (19 bp):
AAATGAAAGAAAAAAGGAA
Done.