Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 129 of 228
Found at i:38438752 original size:27 final size:27
Alignment explanation
Indices: 38438585--38438762 Score: 140
Period size: 27 Copynumber: 6.6 Consensus size: 27
38438575 TAAATTGTAC
* *
38438585 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** ** *
38438612 TGCACTAAGTGTGCGAAATGACCATGC
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** ** *
38438639 GGCACTAAGTGTGCGAAATGACCATGC
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
38438666 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
38438694 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
38438721 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
38438748 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38438763 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:38438753 original size:82 final size:81
Alignment explanation
Indices: 38438578--38438762 Score: 199
Period size: 82 Copynumber: 2.3 Consensus size: 81
38438568 GCGGGATTAA
* * * *
38438578 ATTGTACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGACCATGCGGCA
1 ATTGTACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCA
38438643 CTAAGTGTGCGAAATG
66 CTAAGTGTGCGAAATG
*** * * ** ** *
38438659 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGC
1 ATTGTACAGCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGC
**
38438724 ACTAAGTGTGCGAGTTG
65 ACTAAGTGTGCGAAATG
* *
38438741 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
38438763 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 23, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
81 18 0.22
82 62 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCA
CTAAGTGTGCGAAATG
Found at i:38446742 original size:82 final size:81
Alignment explanation
Indices: 38446626--38446776 Score: 212
Period size: 82 Copynumber: 1.9 Consensus size: 81
38446616 AAATTGTACA
* * * *
38446626 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGACCATGCGGCACTAAGTGT
1 GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCACTAAGTGT
38446691 GCGAAATGACCATGCG
66 GCGAAATGACCATGCG
** ** *
38446707 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCACTAAGTG
38446772 TGCGA
65 TGCGA
38446777 GTTGATTGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 15 0.25
82 45 0.75
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCACTAAGTGT
GCGAAATGACCATGCG
Found at i:38446783 original size:27 final size:27
Alignment explanation
Indices: 38446626--38446781 Score: 168
Period size: 27 Copynumber: 5.7 Consensus size: 27
38446616 AAATTGTACA
* *
38446626 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
38446653 GCACTAAGTGTGCGAAATGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
38446680 GCACTAAGTGTGCGAAATGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
38446707 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
38446735 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
38446762 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
38446782 TTGTATAGCA
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 89 0.80
28 22 0.20
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:38446792 original size:27 final size:27
Alignment explanation
Indices: 38446625--38446802 Score: 140
Period size: 27 Copynumber: 6.6 Consensus size: 27
38446615 TAAATTGTAC
* *
38446625 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** ** *
38446652 TGCACTAAGTGTGCGAAATGACCATGC
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** ** *
38446679 GGCACTAAGTGTGCGAAATGACCATGC
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
38446706 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
38446734 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
38446761 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
38446788 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38446803 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:38446793 original size:82 final size:81
Alignment explanation
Indices: 38446618--38446802 Score: 199
Period size: 82 Copynumber: 2.3 Consensus size: 81
38446608 GCGGGATTAA
* * * *
38446618 ATTGTACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGACCATGCGGCA
1 ATTGTACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCA
38446683 CTAAGTGTGCGAAATG
66 CTAAGTGTGCGAAATG
*** * * ** ** *
38446699 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGC
1 ATTGTACAGCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGC
**
38446764 ACTAAGTGTGCGAGTTG
65 ACTAAGTGTGCGAAATG
* *
38446781 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
38446803 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 23, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
81 18 0.22
82 62 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCA
CTAAGTGTGCGAAATG
Found at i:38458269 original size:20 final size:20
Alignment explanation
Indices: 38458246--38458286 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38458236 ATTTTGGCTC
* *
38458246 AATGAGCTCGTTCTTAGCTT
1 AATGAGCACATTCTTAGCTT
*
38458266 AATGAGCACATTTTTAGCTT
1 AATGAGCACATTCTTAGCTT
38458286 A
1 A
38458287 CTTTAGTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
AATGAGCACATTCTTAGCTT
Found at i:38461491 original size:25 final size:24
Alignment explanation
Indices: 38461446--38461493 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
38461436 CTCGTTAAGT
*
38461446 GCTCTTCGGAGCTACCTATTATAG
1 GCTCTTCGGAGCTACCCATTATAG
* *
38461470 GCTCTTTGTGAGCTTCCCATTATA
1 GCTCTTCG-GAGCTACCCATTATA
38461494 TTGCCCAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (24 bp):
GCTCTTCGGAGCTACCCATTATAG
Found at i:38463145 original size:25 final size:25
Alignment explanation
Indices: 38463110--38463199 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
38463100 TACACCACGA
*
38463110 CTCGTGTGAGCATACCAATTTATAG
1 CTCGTGTGAGCATACCAATTTACAG
* * * *
38463135 CTCGTGAGAGCATAGCGATCTACAG
1 CTCGTGTGAGCATACCAATTTACAG
* *
38463160 CTCGAGTGAGCATATCAATTTACAAG
1 CTCGTGTGAGCATACCAATTTAC-AG
*
38463186 -TCGTATGAGCATAC
1 CTCGTGTGAGCATAC
38463200 ATGTACATGA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 49 0.96
26 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
CTCGTGTGAGCATACCAATTTACAG
Found at i:38468023 original size:60 final size:60
Alignment explanation
Indices: 38467948--38468067 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 60
38467938 CTCAGTCATC
*
38467948 TATCACCCTATGAACAGGAGGATTAACATCCTGACCATTC-AGATTATCATTCAGACCAGG
1 TATCACCCTACGAACAGGAGGATTAACATCCTGACCATTCAAG-TTATCATTCAGACCAGG
* * * *
38468008 TATCACCCTACGAACAGGAGGATTAGCATCTTGACCATTCAAGTTATCATTGAGGCCAGG
1 TATCACCCTACGAACAGGAGGATTAACATCCTGACCATTCAAGTTATCATTCAGACCAGG
38468068 ATATTCTTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 52 0.96
61 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (60 bp):
TATCACCCTACGAACAGGAGGATTAACATCCTGACCATTCAAGTTATCATTCAGACCAGG
Found at i:38472399 original size:28 final size:28
Alignment explanation
Indices: 38472368--38472428 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
38472358 CAAAATCATA
38472368 ATACAACATTCAAAATAAGTAAGTCCCT
1 ATACAACATTCAAAATAAGTAAGTCCCT
**
38472396 ATACATGATTCAAAATAAGTAAGTCCCT
1 ATACAACATTCAAAATAAGTAAGTCCCT
38472424 ATACA
1 ATACA
38472429 TGCCATAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (28 bp):
ATACAACATTCAAAATAAGTAAGTCCCT
Found at i:38472442 original size:33 final size:28
Alignment explanation
Indices: 38472375--38472430 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38472365 ATAATACAAC
38472375 ATTCAAAATAAGTAAGTCCCTATACATG
1 ATTCAAAATAAGTAAGTCCCTATACATG
38472403 ATTCAAAATAAGTAAGTCCCTATACATG
1 ATTCAAAATAAGTAAGTCCCTATACATG
38472431 CCATAGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.29
Consensus pattern (28 bp):
ATTCAAAATAAGTAAGTCCCTATACATG
Found at i:38473072 original size:98 final size:102
Alignment explanation
Indices: 38472951--38473183 Score: 269
Period size: 98 Copynumber: 2.3 Consensus size: 102
38472941 CAATGCCATA
** * * *
38472951 TCCCAGA-TATGGTCTTACATGGGAGTTCTGATATCGGTGCCCATGCCATGTCCCAGACATGGTC
1 TCCCAGACT-TGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTC
*
38473015 TTACGGGGGACCTCTC-ATCT-AGG-TGCCAACGCC-G
65 TTACAGGGGACCTCTCAATCTAAGGATGCCAACGCCAG
* * *
38473049 TCCCAGACTTGGTCTTACATGGGACCTCTCATCTAGGTGCCAATGCCATGTGCTAGACATGGTCT
1 TCCCAGACTTGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCT
* *
38473114 TACATGGGACCTCTCATGATCTCAAGGATGCCAATGCCATG
66 TACAGGGGACCTCTCA--ATCT-AAGGATGCCAACGCCA-G
* *
38473155 TCCCAGACATGGTCTTACATGGGATCTCT
1 TCCCAGACTTGGTCTTACATGGGACCTCT
38473184 TTACCCAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
98 68 0.60
99 1 0.01
101 4 0.04
103 3 0.03
104 9 0.08
106 28 0.25
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (102 bp):
TCCCAGACTTGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCT
TACAGGGGACCTCTCAATCTAAGGATGCCAACGCCAG
Found at i:38473148 original size:56 final size:50
Alignment explanation
Indices: 38472889--38473183 Score: 299
Period size: 50 Copynumber: 5.8 Consensus size: 50
38472879 GATAATAACA
* * * ** * * *
38472889 TGCCAAAGACATGTCCCAGACATGGTCTTACATGGAATGTTTCATGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * ** * * *
38472938 TGTCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTGATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* **
38472988 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
38473038 TGCCAACGCC--GTCCCAGACTTGGTCTTACATGGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
38473086 TGCCAATGCCATGTGCTAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--AGG
*
38473141 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38473184 TTACCCAAAT
Statistics
Matches: 201, Mismatches: 36, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
48 44 0.22
49 36 0.18
50 75 0.37
53 4 0.02
55 3 0.01
56 39 0.19
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:38476020 original size:693 final size:702
Alignment explanation
Indices: 38474387--38476670 Score: 3187
Period size: 722 Copynumber: 3.2 Consensus size: 702
38474377 GGGCCATTAC
* ** * * *
38474387 ATAACTTGTTTGCGCCTATTGTTAGCTTTGTTGGCATTTGTGTCATTTGCTTTTGCAATACGTTG
1 ATAACTTGTTTGTGCCCCTTGTTAGCTTTGTTGGCATTTGTGTCATTTGTTTTTGCAATCCATTG
* * * *
38474452 TTTTGCATTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTTGCCATATGAACTAGAAATAT
66 TTTTGCCTTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTCGCCATCTAAACTAGAAATAT
* * * *
38474517 TTTCTATAGGTAATGGCTTGTTCAAGCTCATACATGAAATCCAAAGCGCTTTAGCTGTAAGATTC
131 TTTCTATAGGTAATGGCTTGTTCAAGCTCATACATGAAATCCAATGCGCCTTGGCTGCAAGATTC
* * ** * * * *
38474582 GATTTCTTGGATCAAGGCTTCCAAAATTTGAAATCTTGATTCTTGAAATTGTCT-ACAACAACAA
196 GATTTCTTAGACCAAGATTTCCAAAATTTGAAATCTTGATTCTTAAAACTGTCTGA-AAGAGCAA
* *
38474646 AATTGGACCAATATTTGGTTTCTTGATTTTCTTGAAAATAAGAAAGTGAATCTTGATTCTCTTTT
260 AATTGGACCAATA---------TTGA--TTCTTG------AGATA-T--ATCTTGATTTTCTTTT
* * *
38474711 TTGGTCATGTGAGCATCTAGGGCCTTGGTAACGAAGTCTTGGACGATCCCGTTTAATCTTGCTCA
305 TCGGTCATGTGAGCATCTAGGGCCTTGGTAACGAAGTCTTGGACGATCCCATTCAATCTTGCTCA
* * * * * *
38474776 AATTTGCTTGGCCTTCGACCTTGTTATTGGGCCATGAGGAATTTTTAGCCCGTCACATTCATTAG
370 GATTTGCTTGGCCTTCGACGTTGTTATTGGGCCATGAGGAAATTTGAGCCCATCACATTCATGA-
* *
38474841 A-CTGATTTTGGGCCTTGAGACTTGCATCATTCCCCTCTTCCTAAAAAACATTCGTCCTCGAATC
434 ACCTGATTTTGGGCCTTGAGACTCGCATCATTCCCCTCTTCCTCAAAAACATTCGTCCTCGAATC
* * *
38474905 TTAAACATCAAAGGGAGATAAATTAGCAATATTCAAAGTAGAACTTACATTGTACTCACT-TACA
499 TGAAACATCAAAGGGAGATAAATCAGCAATATT-AAAGTAGAACTTACATTGTACTCACTGGACA
*
38474969 GATCTATTTAATAGGCATTGTCATTGATCCATTTGAGTACTTGGAAAGGCCTATCGCCCCTAGGG
563 GATCTATTTAATAGGCATTGTCATTGATCCACTTGAGTACTTGGAAAGGCCTATCGCCCCTAGGG
* * *
38475034 TCCAATTTAGTCCTCCTTATACTTGGAAATCACTCTTTGCGCATATGGACCCAAACCAAACCATC
628 TCCAATTTAGTCCTCCTTTTACTTGGAAATCACTCTTTGCGCATATGGACCCAAACCCAATCATC
*
38475099 ACCTTCAAGG
693 AACTTCAAGG
* *
38475109 ATAACTTGTTTGTGCCCCTTGTTAGCTTTGTTGGCATTTGTGTCATTTGTTTTTGCAATCCGTTA
1 ATAACTTGTTTGTGCCCCTTGTTAGCTTTGTTGGCATTTGTGTCATTTGTTTTTGCAATCCATTG
* * * * * *
38475174 TTTTTCCTTTTCGTGTATTGATTTCACAAACTCAACTTTCTTCTCGCTATCTAAACTATAAATAT
66 TTTTGCCTTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTCGCCATCTAAACTAGAAATAT
* *
38475239 TTTCTATAGGTAATGGTTTGTTCAAGCTCATACATGAAATCCAATGTGCCTTGGCTGCAAGATTC
131 TTTCTATAGGTAATGGCTTGTTCAAGCTCATACATGAAATCCAATGCGCCTTGGCTGCAAGATTC
*
38475304 GATTTCTTGGACCAAGATTTCCAAAATTTGAAATCTTGATTCTTAAAACTGTCTGAAAGAGCAAA
196 GATTTCTTAGACCAAGATTTCCAAAATTTGAAATCTTGATTCTTAAAACTGTCTGAAAGAGCAAA
38475369 ATTGGACC-A-A-T-A-T-TTG-G-T-T-TCTTGATTTTCTTTTTCGGTCATGTGAGCATCTAGG
261 ATTGGACCAATATTGATTCTTGAGATATATCTTGATTTTCTTTTTCGGTCATGTGAGCATCTAGG
* ** * * *
38475424 GCCTTGGTAACGAAGTCTTGGACGATCCCACTCAATCTCACTCAGATTTGTTTGGCTTTCGATGT
326 GCCTTGGTAACGAAGTCTTGGACGATCCCATTCAATCTTGCTCAGATTTGCTTGGCCTTCGACGT
* * *
38475489 TGTTATTGGACCATGAGGAAATTCGAGCCCATCACATTCATGAACCTAATTTTGGGCCTTGAGAC
391 TGTTATTGGGCCATGAGGAAATTTGAGCCCATCACATTCATGAACCTGATTTTGGGCCTTGAGAC
*
38475554 TCGCATCATTCCCCTCTTCCTCAAAAATATTCGTCCTCGAATCTGAAACATCAAAGGGAGATAAA
456 TCGCATCATTCCCCTCTTCCTCAAAAACATTCGTCCTCGAATCTGAAACATCAAAGGGAGATAAA
* * *
38475619 TCAACAATATTAAATGTAAAACTTACATTATACTCACTGGACAGATCTATTTAATAGGCATTGTC
521 TCAGCAATATTAAA-GTAGAACTTACATTGTACTCACTGGACAGATCTATTTAATAGGCATTGTC
* *
38475684 TTTGATCCACTTGAGTACTTGGAAATGCCTATCGCCCCTAGGGTCCAATTTAGTCCTCCTTTTAC
585 ATTGATCCACTTGAGTACTTGGAAAGGCCTATCGCCCCTAGGGTCCAATTTAGTCCTCCTTTTAC
38475749 TTGGAAATCACTCTTTGCGCATATGGACCCAAACCCAATCATCAACTTCAAGG
650 TTGGAAATCACTCTTTGCGCATATGGACCCAAACCCAATCATCAACTTCAAGG
*
38475802 ATAACTTGTTTGTGCCCCTTGTTAGCTTTGTTGGCATTTGTG-CTATTTGTTTTTGCATTCCATT
1 ATAACTTGTTTGTGCCCCTTGTTAGCTTTGTTGGCATTTGTGTC-ATTTGTTTTTGCAATCCATT
38475866 GTTTTGCCTTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTCGCCATCTAAACTAGAAATA
65 GTTTTGCCTTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTCGCCATCTAAACTAGAAATA
*
38475931 TTTTCTATAGGTAATGGCTTGTTCAAGCTCGTACATGAAATCCAATGCGCCTTGGCTGCAAGATT
130 TTTTCTATAGGTAATGGCTTGTTCAAGCTCATACATGAAATCCAATGCGCCTTGGCTGCAAGATT
* * * *
38475996 CGATTTCTTAGACCAAGATTTCCAAGATTTGAAATCTTGATTCTTGAAATTGTTTGAAAGAGCAA
195 CGATTTCTTAGACCAAGATTTCCAAAATTTGAAATCTTGATTCTTAAAACTGTCTGAAAGAGCAA
38476061 AATTGGACCAATATTTGATTTCTTGATTTTCTTGAGAATAAGAAAGTGAATCTTGATTTTCTTTT
260 AATTGGACC-A-A--T-A----TTGA--TTCTTGAG-AT-----A-T--ATCTTGATTTTCTTTT
* * * *
38476126 TCGGTCATGTGAGCATCTAGGGCTTTGGTAACGAAGTCTTAGACTATCCCATTCAATCTTGCTCG
305 TCGGTCATGTGAGCATCTAGGGCCTTGGTAACGAAGTCTTGGACGATCCCATTCAATCTTGCTCA
* *
38476191 GATTTGCTTGGCCTTCGACGTTTTTATTGGGCCATGAGGAAATTTGAGCCCATCACATTCATGAG
370 GATTTGCTTGGCCTTCGACGTTGTTATTGGGCCATGAGGAAATTTGAGCCCATCACATTCATGAA
* * *
38476256 CCTGATTTTGGGCCTTGAGACTCGCATCATTCCTCTCTTCCTCAAAAAGATTCATCCTCGAATCT
435 CCTGATTTTGGGCCTTGAGACTCGCATCATTCCCCTCTTCCTCAAAAACATTCGTCCTCGAATCT
38476321 GAAACATC-AAGGGAGATAAATCAGCAATATTAAAAGTAGAACTTACATTGTACTCACTGGGA-A
500 GAAACATCAAAGGGAGATAAATCAGCAATATT-AAAGTAGAACTTACATTGTACTCACT-GGACA
* *
38476384 GATCTATTTAATAGGCATTGCCATTGACCCACTTGAGTACTTGGAAAGGCCTATCGCCCCTAGGG
563 GATCTATTTAATAGGCATTGTCATTGATCCACTTGAGTACTTGGAAAGGCCTATCGCCCCTAGGG
38476449 TCCAATTTAGTCCTCCTTTTACTTGGAAATCACTCTTTGCGCATATGGACCCAAACCCAATCATC
628 TCCAATTTAGTCCTCCTTTTACTTGGAAATCACTCTTTGCGCATATGGACCCAAACCCAATCATC
**
38476514 AGGTTCAAGG
693 AACTTCAAGG
* * *
38476524 ATAACTTGTTTGCGCCCCTTGTTAGCTTTATTGGCATTTGTGTCATTTGTTTTTGCAATCTATTG
1 ATAACTTGTTTGTGCCCCTTGTTAGCTTTGTTGGCATTTGTGTCATTTGTTTTTGCAATCCATTG
* * *
38476589 TTTTGCCTTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTCGCCATTTGAACTAGATATAT
66 TTTTGCCTTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTCGCCATCTAAACTAGAAATAT
38476654 TTTCTATAGGTAATGGC
131 TTTCTATAGGTAATGGC
38476671 ACAAGATCAA
Statistics
Matches: 1408, Mismatches: 116, Indels: 76
0.88 0.07 0.05
Matches are distributed among these distances:
691 4 0.00
692 237 0.17
693 385 0.27
695 1 0.00
696 1 0.00
698 1 0.00
700 1 0.00
705 4 0.00
706 2 0.00
709 2 0.00
710 4 0.00
711 1 0.00
713 1 0.00
720 2 0.00
721 1 0.00
722 553 0.39
723 208 0.15
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (702 bp):
ATAACTTGTTTGTGCCCCTTGTTAGCTTTGTTGGCATTTGTGTCATTTGTTTTTGCAATCCATTG
TTTTGCCTTTTCGTGCATTGATTTCACCAACTCAGCTTTCTTCTCGCCATCTAAACTAGAAATAT
TTTCTATAGGTAATGGCTTGTTCAAGCTCATACATGAAATCCAATGCGCCTTGGCTGCAAGATTC
GATTTCTTAGACCAAGATTTCCAAAATTTGAAATCTTGATTCTTAAAACTGTCTGAAAGAGCAAA
ATTGGACCAATATTGATTCTTGAGATATATCTTGATTTTCTTTTTCGGTCATGTGAGCATCTAGG
GCCTTGGTAACGAAGTCTTGGACGATCCCATTCAATCTTGCTCAGATTTGCTTGGCCTTCGACGT
TGTTATTGGGCCATGAGGAAATTTGAGCCCATCACATTCATGAACCTGATTTTGGGCCTTGAGAC
TCGCATCATTCCCCTCTTCCTCAAAAACATTCGTCCTCGAATCTGAAACATCAAAGGGAGATAAA
TCAGCAATATTAAAGTAGAACTTACATTGTACTCACTGGACAGATCTATTTAATAGGCATTGTCA
TTGATCCACTTGAGTACTTGGAAAGGCCTATCGCCCCTAGGGTCCAATTTAGTCCTCCTTTTACT
TGGAAATCACTCTTTGCGCATATGGACCCAAACCCAATCATCAACTTCAAGG
Found at i:38481974 original size:140 final size:140
Alignment explanation
Indices: 38481785--38482492 Score: 1249
Period size: 140 Copynumber: 5.1 Consensus size: 140
38481775 AAAGAACATA
38481785 AATATAATT--AATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTACCGAATTT
1 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTACCGAATTT
*
38481848 ATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTC
66 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTC
38481913 TTTTGGAAAG
131 TTTTGGAAAG
38481923 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTACCGAATTT
1 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTACCGAATTT
* *
38481988 ATTAATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTACTATTC
66 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTC
38482053 TTTTGGAAAG
131 TTTTGGAAAG
*
38482063 AATATAATTAAAATATATGAATTTGATTCATATAAAATATTGATTGTATATATTTTACCGAATTT
1 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTACCGAATTT
* * *
38482128 ATTAATATAAACAGTTATATTAATTAAATTCGATCAAAATATAAAAAACATGAAAATTAATATTC
66 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTC
38482193 TTTTGGAAAG
131 TTTTGGAAAG
* **
38482203 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTCATTGTATATATTTTACTAAATTT
1 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTACCGAATTT
*
38482268 ATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTC
66 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTC
38482333 TTTTGGAAAG
131 TTTTGGAAAG
* *
38482343 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTTATCGAATT
1 AATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATA-TTTTACCGAATT
* * *
38482408 TATTAATATAAACAGTTATTTTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATT
65 TATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATT
38482473 CTTTTGGAAAG
130 CTTTTGGAAAG
38482484 AATATAATT
1 AATATAATT
38482493 CTTTTTCTAA
Statistics
Matches: 542, Mismatches: 25, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
138 9 0.02
140 443 0.82
141 90 0.17
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (140 bp):
AATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTACCGAATTT
ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTC
TTTTGGAAAG
Found at i:38482558 original size:74 final size:75
Alignment explanation
Indices: 38482468--38482614 Score: 208
Period size: 75 Copynumber: 2.0 Consensus size: 75
38482458 ATGGAAATTA
* * * * *
38482468 ATATTCTTTTGGAAAGAATATAATTC-TTTTTCTAACTTTTTC-TTTGCCTTCTCTATTACTAAT
1 ATATTCTTTTGAAAAGAATATAACTCATTTTTCTAAC-TTTCCATTTGCCTTCTCTATTAATAAG
38482531 GGAAGAATCCT
65 GGAAGAATCCT
*
38482542 ATATTCTTTTGAAAAGAATATAACTCATTTTTCTAACTTTCCATTTGCCTTCTGTATTAATAAGG
1 ATATTCTTTTGAAAAGAATATAACTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
*
38482607 GAATAATC
66 GAAGAATC
38482615 TTGGTTTTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
74 28 0.44
75 36 0.56
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.45
Consensus pattern (75 bp):
ATATTCTTTTGAAAAGAATATAACTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
GAAGAATCCT
Found at i:38483480 original size:43 final size:43
Alignment explanation
Indices: 38483433--38483644 Score: 121
Period size: 43 Copynumber: 4.9 Consensus size: 43
38483423 GCATCATCGA
*
38483433 ATAAATAGAA-GAAATTGTA-TAAGCACACATAGTGCATCATAAG
1 ATAAATAGAAGGAAA-TATACT-AGCACACATAGTGCATCATAAG
* **
38483476 ATAAATCGAAGGAAATATACTAGCACACATAGTGCATCATCGG
1 ATAAATAGAAGGAAATATACTAGCACACATAGTGCATCATAAG
* * * * ** * * *
38483519 ACAAGCTA-AAGCAATTATGTTGGCACACACAGTGCATCATTAG
1 ATAA-ATAGAAGGAAATATACTAGCACACATAGTGCATCATAAG
* * * * *
38483562 ATAAACTA-AAGCAACTATACTGGCACACACAGTACATCATCAA-
1 ATAAA-TAGAAGGAAATATACTAGCACACATAGTGCATCAT-AAG
* * * **
38483605 ATAAACCA-AAAGAAATATACTAACACATGTAGTGCATCAT
1 ATAAA-TAGAAGGAAATATACTAGCACACATAGTGCATCAT
38483645 CAAACAAGGC
Statistics
Matches: 132, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
43 125 0.95
44 7 0.05
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.22
Consensus pattern (43 bp):
ATAAATAGAAGGAAATATACTAGCACACATAGTGCATCATAAG
Found at i:38483600 original size:129 final size:129
Alignment explanation
Indices: 38483455--38483697 Score: 337
Period size: 129 Copynumber: 1.9 Consensus size: 129
38483445 AATTGTATAA
* * * * * * **
38483455 GCACACATAGTGCATCAT-AAGATAAATCGAAGGAAATATACTAGCACACATAGTGCATCATCGG
1 GCACACACAGTACATCATCAA-ATAAACCAAAAGAAATATACTAACACACATAGTGCATCATCAA
*
38483519 ACAA-GCTAAAGCAATTATGTTGGCACACACAGTGCATCATTAGATAAACTAAAGCAACTATACT
65 ACAAGGC-AAAGCAATTATGTTGGCACACACAGTGCATCATCAGATAAACTAAAGCAACTATACT
38483583 G
129 G
**
38483584 GCACACACAGTACATCATCAAATAAACCAAAAGAAATATACTAACACATGTAGTGCATCATCAAA
1 GCACACACAGTACATCATCAAATAAACCAAAAGAAATATACTAACACACATAGTGCATCATCAAA
* *
38483649 CAAGGCGAAGCAATTATGTTGGCACACACAGTGCATCATCGGATAAACT
66 CAAGGCAAAGCAATTATGTTGGCACACACAGTGCATCATCAGATAAACT
38483698 GAAGTATAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
129 95 0.96
130 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (129 bp):
GCACACACAGTACATCATCAAATAAACCAAAAGAAATATACTAACACACATAGTGCATCATCAAA
CAAGGCAAAGCAATTATGTTGGCACACACAGTGCATCATCAGATAAACTAAAGCAACTATACTG
Found at i:38483682 original size:43 final size:43
Alignment explanation
Indices: 38483491--38483688 Score: 148
Period size: 43 Copynumber: 4.6 Consensus size: 43
38483481 TCGAAGGAAA
* * **
38483491 TATACTAGCACACATAGTGCATCATCGGACAAGCTAAAGCAAT
1 TATACTGGCACACACAGTGCATCATCAAACAAGCTAAAGCAAT
** * * * * *
38483534 TATGTTGGCACACACAGTGCATCATTAGATAAACTAAAGCAAC
1 TATACTGGCACACACAGTGCATCATCAAACAAGCTAAAGCAAT
* * * * *
38483577 TATACTGGCACACACAGTACATCATCAAATAAACCAAAAG-AAA
1 TATACTGGCACACACAGTGCATCATCAAA-CAAGCTAAAGCAAT
** *** *
38483620 TATACTAACACATGTAGTGCATCATCAAACAAGGC-GAAGCAAT
1 TATACTGGCACACACAGTGCATCATCAAACAA-GCTAAAGCAAT
**
38483663 TATGTTGGCACACACAGTGCATCATC
1 TATACTGGCACACACAGTGCATCATC
38483689 GGATAAACTG
Statistics
Matches: 117, Mismatches: 35, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
42 5 0.04
43 105 0.90
44 7 0.06
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (43 bp):
TATACTGGCACACACAGTGCATCATCAAACAAGCTAAAGCAAT
Found at i:38486479 original size:50 final size:50
Alignment explanation
Indices: 38486413--38486545 Score: 185
Period size: 50 Copynumber: 2.7 Consensus size: 50
38486403 ATGTCAAAGT
* * *
38486413 CATGTCCCAGACATGGTCTTACATGGGATTTCTCATATCGGTGCCTATGC
1 CATGTCCCAGACATGGTCTTACATGGGATCTCTCATATCAGTGCCAATGC
* * ** * *
38486463 CATGTCCGAGATATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGATCTCTCATATCAGTGCCAATGC
38486513 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGATCTCT
38486546 TTACCCAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGATCTCTCATATCAGTGCCAATGC
Found at i:38489438 original size:12 final size:12
Alignment explanation
Indices: 38489421--38489452 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
38489411 TACCGAATTA
38489421 AATTAATTCTAT
1 AATTAATTCTAT
38489433 AATTAATTCTAT
1 AATTAATTCTAT
38489445 AATTAATT
1 AATTAATT
38489453 TAATTCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAATTCTAT
Found at i:38495387 original size:50 final size:50
Alignment explanation
Indices: 38495248--38495439 Score: 127
Period size: 50 Copynumber: 3.9 Consensus size: 50
38495238 AATAACATGC
* * ** * * * * *
38495248 CCAA-GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC-TT
1 CCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCCGTG
* * * * * * ** *
38495296 CCAATGCCATATCCCAGATATGGCCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCCGTG
* * * ** *
38495346 CCTATGTCATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTCCGTG
1 CCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCCGTG
* * *
38495396 CCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATA
1 CCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATA
38495440 ACCTCAATGA
Statistics
Matches: 109, Mismatches: 33, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
48 4 0.04
49 32 0.29
50 73 0.67
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
CCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCCGTG
Found at i:38497335 original size:16 final size:15
Alignment explanation
Indices: 38497314--38497364 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
38497304 GGTTGGGGTG
38497314 AATGGAATAGGACTGT
1 AATGGAATA-GACTGT
*
38497330 AATGGAATAGAGTTGT
1 AATGGAATAGA-CTGT
*
38497346 AATGGAATAAAACTGT
1 AATGGAAT-AGACTGT
38497362 AAT
1 AAT
38497365 TAGTAATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 26 0.87
17 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.27
Consensus pattern (15 bp):
AATGGAATAGACTGT
Found at i:38499088 original size:17 final size:17
Alignment explanation
Indices: 38499066--38499099 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38499056 TTCATAAAGT
38499066 CTAAAAATTAAAACTAA
1 CTAAAAATTAAAACTAA
38499083 CTAAAAATTAAAACTAA
1 CTAAAAATTAAAACTAA
38499100 GTATTGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
CTAAAAATTAAAACTAA
Found at i:38512465 original size:17 final size:18
Alignment explanation
Indices: 38512435--38512480 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
38512425 ATTTAAATTG
38512435 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
38512453 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
38512469 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
38512481 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:38513355 original size:18 final size:18
Alignment explanation
Indices: 38513286--38513357 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
38513276 CAATTGATAT
* * *
38513286 GGAGGATATATTTGAGGA
1 GGAGGATACATTGGTGGA
38513304 GGAGGATACATGAATGGTGGA
1 GGAGGATACAT---TGGTGGA
*
38513325 GGTGGGTGATACATTGGTGGA
1 -G-GAG-GATACATTGGTGGA
38513346 GGAGGATACATT
1 GGAGGATACATT
38513358 TGAGGCTGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 18 0.42
19 2 0.05
20 1 0.02
21 12 0.28
22 1 0.02
23 2 0.05
24 7 0.16
ACGTcount: A:0.29, C:0.04, G:0.42, T:0.25
Consensus pattern (18 bp):
GGAGGATACATTGGTGGA
Found at i:38514291 original size:14 final size:14
Alignment explanation
Indices: 38514253--38514295 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
38514243 TAAAATGTAC
38514253 AATATAATTAAA-T
1 AATATAATTAAATT
38514266 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
38514281 AA-ATAATTTAATT
1 AATATAATTAAATT
38514294 AA
1 AA
38514296 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:38517897 original size:16 final size:16
Alignment explanation
Indices: 38517876--38517910 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
38517866 ATTTCAAGTC
38517876 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
38517892 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
38517908 TTA
1 TTA
38517911 GTCAAAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (16 bp):
TTACAGCCTATTAATT
Found at i:38523073 original size:30 final size:31
Alignment explanation
Indices: 38522999--38523234 Score: 102
Period size: 30 Copynumber: 7.8 Consensus size: 31
38522989 GATTATCGGC
38522999 TAATGAAAAGGGATAGCTTCGGCTATGAAAA
1 TAATGAAAAGGGATAGCTTCGGCTATGAAAA
*
38523030 TAATGAAAAGGGATAGCCTT-GGCTAT-CAAA
1 TAATGAAAAGGGATAG-CTTCGGCTATGAAAA
* * * * * *
38523060 TTATGAGAAGGGAT-GGTGACGACCATCG--AA
1 TAATGAAAAGGGATAGCT-TCGGCTAT-GAAAA
* * * *
38523090 CAATGAAAATGGATGGCTTTGGCTATTG--AA
1 TAATGAAAAGGGATAGCTTCGGCTA-TGAAAA
** * *
38523120 TTGTGAAAAGGGATAGCTTCTGCTAT-CAAA
1 TAATGAAAAGGGATAGCTTCGGCTATGAAAA
* * * * * *
38523150 TTATGAAAAGGGAT-GGTGACGACCAT--CAA
1 TAATGAAAAGGGATAGCT-TCGGCTATGAAAA
* **
38523179 CAATGAAAAGGGATAGCTTCGGCTATCG-AGC
1 TAATGAAAAGGGATAGCTTCGGCTAT-GAAAA
*
38523210 T-ATGAAAAGGGATAGCTTCAGCTAT
1 TAATGAAAAGGGATAGCTTCGGCTAT
38523235 CAAGCTATGA
Statistics
Matches: 151, Mismatches: 41, Indels: 27
0.69 0.19 0.12
Matches are distributed among these distances:
28 1 0.01
29 23 0.15
30 99 0.66
31 25 0.17
32 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (31 bp):
TAATGAAAAGGGATAGCTTCGGCTATGAAAA
Found at i:38523154 original size:90 final size:90
Alignment explanation
Indices: 38523000--38523265 Score: 342
Period size: 89 Copynumber: 3.0 Consensus size: 90
38522990 ATTATCGGCT
* *
38523000 AATGAAAAGGGATAGCTTCGGCTAT-GAAAATAATGAAAAGGGATAGCCTT-GGCTATCAAATTA
1 AATGAAAAGGGATAGCTTCGGCTATCG-AACT-ATGAAAAGGGATAG-CTTCAGCTATCAAATTA
*
38523063 TGAGAAGGGATGGTGACGACCATCGAAC
63 TGAAAAGGGATGGTGACGACCATCGAAC
* * * * * * *
38523091 AATGAAAATGGATGGCTTTGGCTATTGAATTGTGAAAAGGGATAGCTTCTGCTATCAAATTATGA
1 AATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGA
38523156 AAAGGGATGGTGACGACCATC-AAC
66 AAAGGGATGGTGACGACCATCGAAC
* **
38523180 AATGAAAAGGGATAGCTTCGGCTATCGAGCTATGAAAAGGGATAGCTTCAGCTATCAAGCTATGA
1 AATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGA
* *
38523245 AAAGGGTTGG-GACAACCATCG
66 AAAGGGATGGTGACGACCATCG
38523266 TGATTTTATT
Statistics
Matches: 153, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
88 9 0.06
89 70 0.46
90 48 0.31
91 25 0.16
92 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (90 bp):
AATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGA
AAAGGGATGGTGACGACCATCGAAC
Found at i:38523235 original size:30 final size:30
Alignment explanation
Indices: 38523123--38523250 Score: 136
Period size: 30 Copynumber: 4.3 Consensus size: 30
38523113 TATTGAATTG
* **
38523123 TGAAAAGGGATAGCTTCTGCTATCAAATTA
1 TGAAAAGGGATAGCTTCAGCTATCAAGCTA
* * * *
38523153 TGAAAAGGGAT-G-GTGACGACCATCAA-CAA
1 TGAAAAGGGATAGCTTCA-G-CTATCAAGCTA
* *
38523182 TGAAAAGGGATAGCTTCGGCTATCGAGCTA
1 TGAAAAGGGATAGCTTCAGCTATCAAGCTA
38523212 TGAAAAGGGATAGCTTCAGCTATCAAGCTA
1 TGAAAAGGGATAGCTTCAGCTATCAAGCTA
38523242 TGAAAAGGG
1 TGAAAAGGG
38523251 TTGGGACAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
28 1 0.01
29 19 0.24
30 58 0.73
31 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCAGCTATCAAGCTA
Found at i:38525068 original size:22 final size:23
Alignment explanation
Indices: 38525043--38525102 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
38525033 TGGACTGAAT
38525043 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
38525065 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
38525087 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
38525103 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:38525070 original size:4 final size:4
Alignment explanation
Indices: 38525052--38525085 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38525042 TATAAAAATT
38525052 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38525086 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38526491 original size:23 final size:22
Alignment explanation
Indices: 38526440--38526491 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
38526430 CCTCGTCTTT
*
38526440 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
38526462 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
38526485 TTCTTTT
1 TTCTTTT
38526492 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:38528878 original size:22 final size:23
Alignment explanation
Indices: 38528853--38528912 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
38528843 TGGACTGAAT
38528853 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
38528875 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
38528897 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
38528913 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:38528880 original size:4 final size:4
Alignment explanation
Indices: 38528862--38528895 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38528852 TATAAAAATT
38528862 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38528896 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38530301 original size:23 final size:22
Alignment explanation
Indices: 38530250--38530301 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
38530240 CCTCGTCTTT
*
38530250 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
38530272 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
38530295 TTCTTTT
1 TTCTTTT
38530302 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:38532687 original size:22 final size:23
Alignment explanation
Indices: 38532662--38532721 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
38532652 TGGACTGAAT
38532662 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
38532684 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
38532706 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
38532722 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:38532689 original size:4 final size:4
Alignment explanation
Indices: 38532671--38532704 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38532661 TATAAAAATT
38532671 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38532705 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38536141 original size:25 final size:24
Alignment explanation
Indices: 38536113--38536166 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
38536103 CTATTAATAT
38536113 AATT-ATATAAAAACTAAACTTCCAA
1 AATTCATAT-AAAACT-AACTTCCAA
*
38536138 AATTGCATGTAAAACTAACTTCCAA
1 AATT-CATATAAAACTAACTTCCAA
38536163 AATT
1 AATT
38536167 TCAGCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 17 0.65
26 6 0.23
27 3 0.12
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.30
Consensus pattern (24 bp):
AATTCATATAAAACTAACTTCCAA
Found at i:38544808 original size:41 final size:41
Alignment explanation
Indices: 38544762--38544840 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
38544752 ATGATACTGC
38544762 GATATAAACAATGTGAGATTTCGGTAACACCGCTTAGAACT
1 GATATAAACAATGTGAGATTTCGGTAACACCGCTTAGAACT
38544803 GATATAAACAATGTGAGATTTCGGTAACACCGCTTAGA
1 GATATAAACAATGTGAGATTTCGGTAACACCGCTTAGA
38544841 TTATAAATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (41 bp):
GATATAAACAATGTGAGATTTCGGTAACACCGCTTAGAACT
Found at i:38547339 original size:20 final size:20
Alignment explanation
Indices: 38547244--38547341 Score: 63
Period size: 20 Copynumber: 4.9 Consensus size: 20
38547234 TTGTACAGGA
* *
38547244 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTAT
* * * *
38547264 ATACACTTCGATGTCTCTAT
1 TTGCACTTCGGTGCCTCTAT
** * *
38547284 TTGCACCACGGTGCGTCTAA
1 TTGCACTTCGGTGCCTCTAT
* * *
38547304 TTGTACATT-TGTGCCTCTGT
1 TTGCAC-TTCGGTGCCTCTAT
38547324 TTGCACTTCGGTGCCTCT
1 TTGCACTTCGGTGCCTCT
38547342 CTTACGCATC
Statistics
Matches: 53, Mismatches: 23, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
19 2 0.04
20 51 0.96
ACGTcount: A:0.13, C:0.27, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTAT
Found at i:38560106 original size:28 final size:28
Alignment explanation
Indices: 38560075--38560130 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38560065 AATATGTTAT
38560075 GATGGATTTCGTATTGGGATCGCCTCTA
1 GATGGATTTCGTATTGGGATCGCCTCTA
38560103 GATGGATTTCGTATTGGGATCGCCTCTA
1 GATGGATTTCGTATTGGGATCGCCTCTA
38560131 TCTCTGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.36
Consensus pattern (28 bp):
GATGGATTTCGTATTGGGATCGCCTCTA
Found at i:38587380 original size:18 final size:19
Alignment explanation
Indices: 38587346--38587381 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38587336 ATAAGGTTAT
*
38587346 TTAAGTAAATGATAATAAG
1 TTAAGTAAATAATAATAAG
38587365 TTAAGT-AATAATAATAA
1 TTAAGTAAATAATAATAA
38587382 TAAAACATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (19 bp):
TTAAGTAAATAATAATAAG
Found at i:38592178 original size:56 final size:50
Alignment explanation
Indices: 38591955--38592190 Score: 229
Period size: 50 Copynumber: 4.6 Consensus size: 50
38591945 CTATACTACA
* * * * ** * * *
38591955 AATGCCATATCCTAGATATGGTCTTGCATGGGAGTTCTCATATCGATTCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCC
* * * ** * *
38592005 CATGCCAAGTCCCAGTCATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCC
* * *
38592055 AACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATCTTGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCC
*
38592105 AATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TGATGCC
*
38592161 AATGCCAAGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
38592191 AGATCTCTTT
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 114 0.75
53 4 0.03
56 34 0.22
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCC
Found at i:38598004 original size:50 final size:50
Alignment explanation
Indices: 38597904--38598098 Score: 239
Period size: 50 Copynumber: 3.9 Consensus size: 50
38597894 TTTCCTGTAC
* * * * **
38597904 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * ** *
38597954 TGCCCATGGCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
38598004 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
38598053 TGCCAACGCCATGTCCCAGACATGGTATTACATAGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
38598099 ATCTCAATGA
Statistics
Matches: 124, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 47 0.38
50 77 0.62
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:38598053 original size:99 final size:100
Alignment explanation
Indices: 38597904--38598097 Score: 246
Period size: 99 Copynumber: 1.9 Consensus size: 100
38597894 TTTCCTGTAC
* * ** * * *
38597904 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGGCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTC
* * * *
38597969 CTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
66 CCAGACATGGTATTACAGAGGACCTCTCATCTCGG
* * *
38598004 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATGTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTC
*
38598068 CCAGACATGGTATTACATAGGACCTCTCAT
66 CCAGACATGGTATTACAGAGGACCTCTCAT
38598098 AATCTCAATG
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
99 50 0.63
100 29 0.37
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTC
CCAGACATGGTATTACAGAGGACCTCTCATCTCGG
Found at i:38599679 original size:37 final size:37
Alignment explanation
Indices: 38599619--38599694 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
38599609 TATTACGAAA
* * *
38599619 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
38599656 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
38599693 TC
1 TC
38599695 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:38599893 original size:47 final size:47
Alignment explanation
Indices: 38599815--38600407 Score: 999
Period size: 47 Copynumber: 12.6 Consensus size: 47
38599805 CCCTTCGGGA
* * * * * *
38599815 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38599862 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38599909 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38599956 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38600005 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38600052 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38600099 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38600146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38600193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38600240 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38600287 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38600333 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38600380 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
38600408 ATGGGTTTAA
Statistics
Matches: 519, Mismatches: 22, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
46 44 0.08
47 415 0.80
49 60 0.12
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38603776 original size:40 final size:40
Alignment explanation
Indices: 38603732--38603998 Score: 165
Period size: 40 Copynumber: 6.7 Consensus size: 40
38603722 CTAGCATGAT
*
38603732 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *** *
38603772 TGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * *
38603812 TGCTCTTCGGAATTTAGCCCGGATTTAGTAAC-TC-GCACCAA
1 TGCTCTTCGGGACTTAGCCCGGA--TA-TAACACCAGCACGAA
* * **
38603853 TGC-CTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AA
1 TGCTCTTCGGGACTTAGCCCGGATATAAC-ACCAGCACGAA
* * * *
38603892 TTGC-CTTCGGGTCTTAGCCCGGATATATCAATTC-GCACAAA
1 -TGCTCTTCGGGACTTAGCCCGGATATAAC-A-CCAGCACGAA
* * * *
38603933 TGC-CTTCGGGTCTTAGCCCAGATATAATCACTAGCTC-AA
1 TGCTCTTCGGGACTTAGCCCGGATATAA-CACCAGCACGAA
* *
38603972 TTGC-CTTCGGGTCTTAACCCGGATATA
1 -TGCTCTTCGGGACTTAGCCCGGATATA
38603999 GCAACTCGTT
Statistics
Matches: 185, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
37 3 0.02
38 2 0.01
39 4 0.02
40 161 0.87
41 12 0.06
42 2 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:38603860 original size:80 final size:80
Alignment explanation
Indices: 38603746--38604006 Score: 230
Period size: 80 Copynumber: 3.3 Consensus size: 80
38603736 CTTCGGGACC
* * * *
38603746 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCA
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGAACTTAGCCCGGATACATCAACTAGCA
38603808 CGAA-TGCTCTTCGGAAT-T
64 C-AATTGC-CTTCGG-ATCT
* * ** * *
38603826 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCAC
*
38603890 AATTGCCTTCGGGTCT
65 AATTGCCTTCGGATCT
* ** * * *
38603906 TAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAATC-ACTAGCTC
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATA-CATCAACTAGCAC
*
38603970 AATTGCCTTCGGGTCT
65 AATTGCCTTCGGATCT
* *
38603986 TAACCCGGATATAGCAACTCG
1 TAGCCCGGATATATCAACTCG
38604007 TTCAAATACT
Statistics
Matches: 153, Mismatches: 20, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.01
80 126 0.82
81 24 0.16
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACA
ATTGCCTTCGGATCT
Found at i:38604013 original size:80 final size:80
Alignment explanation
Indices: 38603829--38604006 Score: 259
Period size: 80 Copynumber: 2.2 Consensus size: 80
38603819 CGGAATTTAG
* * * * *
38603829 CCCGGATTTAGTAACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATT
1 CCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTAGCACAATT
*
38603894 GCCTTCGGGTCTTAG
66 GCCTTCGGGTCTTAA
* * *
38603909 CCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAATC-ACTAGCTCAAT
1 CCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAT-ATCAACTAGCACAAT
38603973 TGCCTTCGGGTCTTAA
65 TGCCTTCGGGTCTTAA
38603989 CCCGGATATAGCAACTCG
1 CCCGGATATAGCAACTCG
38604007 TTCAAATACT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 83 0.97
81 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (80 bp):
CCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTAGCACAATT
GCCTTCGGGTCTTAA
Found at i:38604389 original size:29 final size:29
Alignment explanation
Indices: 38604350--38604428 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38604340 CTTAATAATC
*
38604350 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38604380 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38604409 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38604429 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38604471 original size:43 final size:43
Alignment explanation
Indices: 38604410--38604556 Score: 278
Period size: 43 Copynumber: 3.4 Consensus size: 43
38604400 TGCATTTCAA
38604410 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38604453 GCCCGCACACTTAGTGCCAATCTCACAACCGTG-ACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38604495 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
38604538 GCTCGCACACTTAGTGCCA
1 GCCCGCACACTTAGTGCCA
38604557 TGTACTTTAA
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
42 42 0.41
43 60 0.59
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38604611 original size:28 final size:29
Alignment explanation
Indices: 38604541--38604613 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
38604531 ACTTATTGCT
* * *
38604541 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTCAAACC
* *
38604570 TGCACACTTAGTGCCATGCA-TTCAAGCC
1 CGCACACTTAGTGCCATGCACTTCAAACC
38604598 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38604614 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 20 0.53
29 18 0.47
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTCAAACC
Found at i:38604640 original size:142 final size:143
Alignment explanation
Indices: 38604453--38604839 Score: 742
Period size: 142 Copynumber: 2.7 Consensus size: 143
38604443 AACACTTATT
38604453 GCCCGCACACTTAGTGCCAATCTCACAACCGTG-ACACTTATTGCCCGCACACTTAGTGCCAATC
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
*
38604517 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTTGCACACTTAGT
66 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
38604582 GCCATGCATTCAA
131 GCCATGCATTCAA
38604595 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA-TGCCCGCACACTTAGTGCCAATC
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
38604659 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
66 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
38604724 GCCATGCATTCAA
131 GCCATGCATTCAA
38604737 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
*
38604802 TCACAACCGTGAACACTTATTGCCCGCACACTTAGTGC
66 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGC
38604840 TGAAAACCAA
Statistics
Matches: 241, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
142 174 0.72
143 67 0.28
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.25
Consensus pattern (143 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
GCCATGCATTCAA
Found at i:38604715 original size:29 final size:28
Alignment explanation
Indices: 38604681--38604755 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
38604671 ACACTTATTG
* *
38604681 CTCGCACACTTAGTGCCATGTACTTTAAA
1 CTCGCACACTTAGTGCCATGCA-TTCAAA
*
38604710 CTCGCACACTTAGTGCCATGCATTCAAG
1 CTCGCACACTTAGTGCCATGCATTCAAA
*
38604738 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
38604756 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (28 bp):
CTCGCACACTTAGTGCCATGCATTCAAA
Found at i:38604798 original size:43 final size:43
Alignment explanation
Indices: 38604737--38604839 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
38604727 ATGCATTCAA
38604737 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38604780 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38604823 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
38604840 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38606743 original size:37 final size:37
Alignment explanation
Indices: 38606683--38606758 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
38606673 TATTACGAAA
* * *
38606683 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
38606720 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
38606757 TC
1 TC
38606759 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:38606956 original size:47 final size:47
Alignment explanation
Indices: 38606878--38607360 Score: 785
Period size: 47 Copynumber: 10.3 Consensus size: 47
38606868 CCCTTCGGGA
* * * * * *
38606878 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38606925 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38606972 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38607019 CTTATCACATATATATACACTTTCACATTCATCACATCGG-CATTA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38607066 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38607111 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38607158 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38607205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38607252 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38607299 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38607346 CTTATCACATATATA
1 CTTATCACATATATA
38607361 TACACTTCAC
Statistics
Matches: 410, Mismatches: 20, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
43 28 0.07
44 5 0.01
45 10 0.02
47 334 0.81
48 5 0.01
49 28 0.07
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38610737 original size:40 final size:40
Alignment explanation
Indices: 38610693--38610959 Score: 165
Period size: 40 Copynumber: 6.7 Consensus size: 40
38610683 CTAGCATGAT
*
38610693 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *** *
38610733 TGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * *
38610773 TGCTCTTCGGAATTTAGCCCGGATTTAGTAAC-TC-GCACCAA
1 TGCTCTTCGGGACTTAGCCCGGA--TA-TAACACCAGCACGAA
* * **
38610814 TGC-CTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AA
1 TGCTCTTCGGGACTTAGCCCGGATATAAC-ACCAGCACGAA
* * * *
38610853 TTGC-CTTCGGGTCTTAGCCCGGATATATCAATTC-GCACAAA
1 -TGCTCTTCGGGACTTAGCCCGGATATAAC-A-CCAGCACGAA
* * * *
38610894 TGC-CTTCGGGTCTTAGCCCAGATATAATCACTAGCTC-AA
1 TGCTCTTCGGGACTTAGCCCGGATATAA-CACCAGCACGAA
* *
38610933 TTGC-CTTCGGGTCTTAACCCGGATATA
1 -TGCTCTTCGGGACTTAGCCCGGATATA
38610960 GCAACTCGTT
Statistics
Matches: 185, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
37 3 0.02
38 2 0.01
39 4 0.02
40 161 0.87
41 12 0.06
42 2 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:38610821 original size:80 final size:80
Alignment explanation
Indices: 38610707--38610967 Score: 230
Period size: 80 Copynumber: 3.3 Consensus size: 80
38610697 CTTCGGGACC
* * * *
38610707 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCA
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGAACTTAGCCCGGATACATCAACTAGCA
38610769 CGAA-TGCTCTTCGGAAT-T
64 C-AATTGC-CTTCGG-ATCT
* * ** * *
38610787 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCAC
*
38610851 AATTGCCTTCGGGTCT
65 AATTGCCTTCGGATCT
* ** * * *
38610867 TAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAATC-ACTAGCTC
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATA-CATCAACTAGCAC
*
38610931 AATTGCCTTCGGGTCT
65 AATTGCCTTCGGATCT
* *
38610947 TAACCCGGATATAGCAACTCG
1 TAGCCCGGATATATCAACTCG
38610968 TTCAAATACT
Statistics
Matches: 153, Mismatches: 20, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.01
80 126 0.82
81 24 0.16
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACA
ATTGCCTTCGGATCT
Found at i:38610974 original size:80 final size:80
Alignment explanation
Indices: 38610790--38610967 Score: 259
Period size: 80 Copynumber: 2.2 Consensus size: 80
38610780 CGGAATTTAG
* * * * *
38610790 CCCGGATTTAGTAACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATT
1 CCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTAGCACAATT
*
38610855 GCCTTCGGGTCTTAG
66 GCCTTCGGGTCTTAA
* * *
38610870 CCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAATC-ACTAGCTCAAT
1 CCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAT-ATCAACTAGCACAAT
38610934 TGCCTTCGGGTCTTAA
65 TGCCTTCGGGTCTTAA
38610950 CCCGGATATAGCAACTCG
1 CCCGGATATAGCAACTCG
38610968 TTCAAATACT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 83 0.97
81 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (80 bp):
CCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTAGCACAATT
GCCTTCGGGTCTTAA
Found at i:38611351 original size:29 final size:29
Alignment explanation
Indices: 38611312--38611390 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38611302 CTTAATAATC
*
38611312 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38611342 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38611371 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38611391 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38611537 original size:28 final size:28
Alignment explanation
Indices: 38611504--38611575 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
38611494 ACTTATTGCT
*
38611504 CGCACACTTAGTGCCATGTACTTT-AA-C
1 CGCACACTTAGTGCCATGCA-TTTCAAGC
*
38611531 TTGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAGC
38611560 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38611576 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 35 0.90
29 1 0.03
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAGC
Found at i:38611541 original size:43 final size:43
Alignment explanation
Indices: 38611372--38611519 Score: 287
Period size: 43 Copynumber: 3.4 Consensus size: 43
38611362 TGCATTTCAA
38611372 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38611415 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38611458 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
38611501 GCTCGCACACTTAGTGCCA
1 GCCCGCACACTTAGTGCCA
38611520 TGTACTTTAA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38611595 original size:142 final size:144
Alignment explanation
Indices: 38611415--38611803 Score: 746
Period size: 142 Copynumber: 2.7 Consensus size: 144
38611405 AACACTTATT
38611415 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
*
38611480 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTT-AACTTGCACACTTAGT
66 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
38611544 GCCATGCATTTCAA
131 GCCATGCATTTCAA
38611558 G-CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
38611622 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
66 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
38611687 GCCATGCATTTCAA
131 GCCATGCATTTCAA
38611701 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
*
38611766 TCACAACCGTGAACACTTATTGCCCGCACACTTAGTGC
66 TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGC
38611804 TGAAAACCAA
Statistics
Matches: 242, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
142 111 0.46
143 31 0.13
144 100 0.41
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (144 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATC
TCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGT
GCCATGCATTTCAA
Found at i:38611620 original size:43 final size:43
Alignment explanation
Indices: 38611559--38611661 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
38611549 GCATTTCAAG
38611559 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
38611602 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
*
38611645 TCGCACACTTAGTGCCA
1 CCGCACACTTAGTGCCA
38611662 TGTACTTTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
Found at i:38611631 original size:185 final size:187
Alignment explanation
Indices: 38611317--38611661 Score: 658
Period size: 185 Copynumber: 1.9 Consensus size: 187
38611307 TAATCAACCA
38611317 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGCCCGCACAC
1 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGCCCGCACAC
38611382 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
66 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
38611447 GAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
131 GAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
*
38611504 CGCACACTTAGTGCCATGTACTTT-AACTTGCACACTTAGTGCCATGCATTTCAAG-CCGCACAC
1 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGCCCGCACAC
38611567 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
66 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
*
38611632 GAACACTTATTGCTCGCACACTTAGTGCCA
131 GAACACTTATTGCCCGCACACTTAGTGCCA
38611662 TGTACTTTAA
Statistics
Matches: 156, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
185 102 0.65
186 30 0.19
187 24 0.15
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.26
Consensus pattern (187 bp):
CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGCCCGCACAC
TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
GAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
Found at i:38611638 original size:99 final size:97
Alignment explanation
Indices: 38611460--38611640 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 97
38611450 CACTTATTGC
* *
38611460 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCTCGCACACTTAGTGCCATGTAC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCATCTAC
* *
38611525 TTTAACTTGCACACTTAGTGCCATGCATTTCAAG
66 --TAACGTGAACACTTAGTGCCATGCATTTCAAG
38611559 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCC-ATCT-
38611624 AC-AACCGTGAACACTTA
64 ACTAA-CGTGAACACTTA
38611641 TTGCTCGCAC
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
98 2 0.03
99 68 0.91
100 3 0.04
101 2 0.03
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (97 bp):
CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCATCTAC
TAACGTGAACACTTAGTGCCATGCATTTCAAG
Found at i:38611678 original size:29 final size:29
Alignment explanation
Indices: 38611644--38611719 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
38611634 ACACTTATTG
*
38611644 CTCGCACACTTAGTGCCATGTACTTT-AAA
1 CTCGCACACTTAGTGCCATGCA-TTTCAAA
*
38611673 CTCGCACACTTAGTGCCATGCATTTCAAG
1 CTCGCACACTTAGTGCCATGCATTTCAAA
*
38611702 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
38611720 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 3 0.07
29 40 0.93
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATGCATTTCAAA
Found at i:38611762 original size:43 final size:43
Alignment explanation
Indices: 38611701--38611803 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
38611691 TGCATTTCAA
38611701 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38611744 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38611787 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
38611804 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38613717 original size:37 final size:37
Alignment explanation
Indices: 38613657--38613732 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
38613647 TATTACGAAA
* * *
38613657 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
38613694 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
38613731 TC
1 TC
38613733 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:38613931 original size:47 final size:47
Alignment explanation
Indices: 38613853--38614385 Score: 870
Period size: 47 Copynumber: 11.3 Consensus size: 47
38613843 CCCTTCGGGA
* * * * * *
38613853 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38613900 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38613947 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38613994 ATTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38614043 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38614090 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38614137 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38614184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38614231 CTTATCACATATAT-CACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38614277 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38614324 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38614371 CTTATCACATATATA
1 CTTATCACATATATA
38614386 TACGCTTTCA
Statistics
Matches: 454, Mismatches: 29, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 46 0.10
47 366 0.81
49 42 0.09
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38614240 original size:22 final size:22
Alignment explanation
Indices: 38614212--38614286 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
38614202 TTTCACATTC
38614212 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**** *** *
38614234 ATCACATATATCACTTTCACATT
1 ATCACATCGGCCA-TTAGGCCTT
38614257 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
38614280 ATCACAT
1 ATCACAT
38614287 ATATACACTT
Statistics
Matches: 35, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
22 16 0.46
23 10 0.29
24 9 0.26
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.31
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:38620840 original size:50 final size:50
Alignment explanation
Indices: 38620761--38620952 Score: 267
Period size: 50 Copynumber: 3.8 Consensus size: 50
38620751 TTTCCTGTAC
* * ** *
38620761 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
38620811 TGCCCATGCCATGTCCCATACATGATCTTACGGGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
38620861 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
38620911 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38620953 TTACCCAAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 122 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:38622738 original size:27 final size:27
Alignment explanation
Indices: 38622701--38622869 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
38622691 AGAGGTCATT
* *
38622701 AAATGACCGAAATACCCTCATAAGGTT
1 AAATGACCGAAATACCCTCATAGGGTA
*
38622728 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
*
38622755 AAATGATCGAAATTACCC-CATAGGGTA
1 AAATGACCGAAA-TACCCTCATAGGGTA
* **
38622782 AAATGATCGAAATACCC-CTATAAAGTA
1 AAATGACCGAAATACCCTC-ATAGGGTA
* *
38622809 AAATGACCGAAATACCCTGATATGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
* * *
38622836 AAATGACCAAAACACCCCCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
38622863 AAATGAC
1 AAATGAC
38622870 TGTTATACCC
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 6 0.05
27 114 0.91
28 5 0.04
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCATAGGGTA
Found at i:38622836 original size:81 final size:81
Alignment explanation
Indices: 38622701--38622869 Score: 225
Period size: 81 Copynumber: 2.1 Consensus size: 81
38622691 AGAGGTCATT
* * * *
38622701 AAATGACCGAAATACCCTCATAAGGTTAAATGATCGAAATACCCTCATAGGGTAAAATGATCGAA
1 AAATGACCGAAATACCCTCATAAAGTAAAATGACCGAAATACCCTCATAGGGTAAAATGA-CCAA
**
38622766 ATTA-CCCCATAGGGTA
65 AACACCCCCATAGGGTA
* * *
38622782 AAATGATCGAAATACCC-CTATAAAGTAAAATGACCGAAATACCCTGATATGGTAAAATGACCAA
1 AAATGACCGAAATACCCTC-ATAAAGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAA
38622846 AACACCCCCATAGGGTA
65 AACACCCCCATAGGGTA
38622863 AAATGAC
1 AAATGAC
38622870 TGTTATACCC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
80 6 0.08
81 70 0.92
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (81 bp):
AAATGACCGAAATACCCTCATAAAGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAA
ACACCCCCATAGGGTA
Found at i:38623066 original size:26 final size:26
Alignment explanation
Indices: 38623036--38623110 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
38623026 GGAAGTATAT
*
38623036 TGTTACTGGCAGGTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
* *
38623062 TGTTACTGGCAGCTTTGTTGCGGTAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
*
38623088 TATTACTGGCAGCTTTGCTGCGA
1 TGTTACTGGCAGCTTTGCTGCGA
38623111 CATTGGTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.15, C:0.20, G:0.29, T:0.36
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAC
Found at i:38626520 original size:50 final size:50
Alignment explanation
Indices: 38626394--38626679 Score: 310
Period size: 50 Copynumber: 5.7 Consensus size: 50
38626384 GATAATAACA
* * * *
38626394 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGA-TGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGG
* * * * * *
38626443 TGCCAATGCCATATTCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* * * * ** * *
38626493 TGCCCATGCCATGTACCAGACAAGGTCTTACGGGGGACCTCTCTTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* *
38626543 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTTC-CGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATCTCGG
* * *
38626593 TGCTAACGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
38626643 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
38626680 TCTCTTTACC
Statistics
Matches: 198, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 41 0.21
50 153 0.77
51 3 0.02
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
Found at i:38630144 original size:16 final size:17
Alignment explanation
Indices: 38630123--38630155 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
38630113 TTGTTTTATT
38630123 ATTCATTT-CACACATC
1 ATTCATTTCCACACATC
38630139 ATTCATTTCCACACATC
1 ATTCATTTCCACACATC
38630156 TCTCTCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTCATTTCCACACATC
Found at i:38635076 original size:25 final size:25
Alignment explanation
Indices: 38635042--38635140 Score: 94
Period size: 25 Copynumber: 4.0 Consensus size: 25
38635032 GTACATGTAT
* * *
38635042 GCTCATACGAACTGTGAATCGGTAA
1 GCTCATACGAGCTGAGAATCAGTAA
*
38635067 GCTCATACGAGCTAAGAATCAGTAA
1 GCTCATACGAGCTGAGAATCAGTAA
* * *
38635092 GCTC-TCATGATCTG-CAATCAGTAA
1 GCTCAT-ACGAGCTGAGAATCAGTAA
* *
38635116 GCTCATATGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCAGTAA
38635141 TCCCTAATGA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 21 0.35
25 39 0.65
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCAGTAA
Found at i:38637426 original size:27 final size:27
Alignment explanation
Indices: 38637394--38637826 Score: 244
Period size: 27 Copynumber: 16.7 Consensus size: 27
38637384 AATTGTGGGC
* *
38637394 AAATGACTGAAATACCCTCGATGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
* *
38637421 AAATGA-TCGAATTACCCCCGAAGAGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
*
38637448 AAATGACTGAATTACCCTTGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
** * * *
38637475 AAATGACCAAATTACCCCCAAAAGGT-
1 AAATGACTGAATTACCCTCGAAGGGTA
* * *
38637501 -CAT---T-TATTACCC-CTAAAGGGTA
1 AAATGACTGAATTACCCTC-GAAGGGTA
* * * * *
38637523 AAATGACCGAATTACCTTTGAAGAGAA
1 AAATGACTGAATTACCCTCGAAGGGTA
38637550 AAATGACTGAATTACCCTCGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
*
38637577 AAATGACTGAATTACCCCCGAAGGGT-
1 AAATGACTGAATTACCCTCGAAGGGTA
* *
38637603 -CAT---TGAATTACCCCCGAAGGGT-
1 AAATGACTGAATTACCCTCGAAGGGTA
* * * *
38637625 -CAT---T-TATTAGCCTTGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
* * * *
38637647 AAAT-AATCGAATTACCCCCAAAGGGTG
1 AAATGACT-GAATTACCCTCGAAGGGTA
*
38637674 AAATGACCGAATTA-CCTCCGAAGGGTA
1 AAATGACTGAATTACCCT-CGAAGGGTA
* * **
38637701 AAATAACTGAGTTACCCTTAAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
* * * *
38637728 ATATGACCGAATTACCCTCAAAAGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
*
38637755 AAATGA-TCGAATTACCCTCGAAAGGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
* ** * * *
38637782 AAATAACCAAAATACCCCCGAATGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
* *
38637809 AAATGACCGAAATACCCT
1 AAATGACTGAATTACCCT
38637827 TAAAGGTAAA
Statistics
Matches: 314, Mismatches: 71, Indels: 42
0.74 0.17 0.10
Matches are distributed among these distances:
20 1 0.00
21 26 0.08
22 23 0.07
23 4 0.01
25 5 0.02
26 3 0.01
27 247 0.79
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (27 bp):
AAATGACTGAATTACCCTCGAAGGGTA
Found at i:38637582 original size:102 final size:103
Alignment explanation
Indices: 38637416--38637616 Score: 296
Period size: 102 Copynumber: 2.0 Consensus size: 103
38637406 TACCCTCGAT
* * *
38637416 GGGTAAAATGATCGAATTACCCCCGAAGAGTAAAATGACTGAATTACCCTTGAAGGGTAAAATGA
1 GGGTAAAATGACCGAATTACCCCCGAAGAGAAAAATGACTGAATTACCCTCGAAGGGTAAAATGA
*
38637481 CCAAATTACCCCCAAAAGGTCATT-TATTACCCCTAAA
66 CCAAATTACCCCCAAAAGGTCATTGAATTACCCCTAAA
***
38637518 GGGTAAAATGACCGAATTACCTTTGAAGAGAAAAATGACTGAATTACCCTCGAAGGGTAAAATGA
1 GGGTAAAATGACCGAATTACCCCCGAAGAGAAAAATGACTGAATTACCCTCGAAGGGTAAAATGA
** * *
38637583 CTGAATTACCCCCGAAGGGTCATTGAATTACCCC
66 CCAAATTACCCCCAAAAGGTCATTGAATTACCCC
38637617 CGAAGGGTCA
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
102 79 0.91
103 8 0.09
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (103 bp):
GGGTAAAATGACCGAATTACCCCCGAAGAGAAAAATGACTGAATTACCCTCGAAGGGTAAAATGA
CCAAATTACCCCCAAAAGGTCATTGAATTACCCCTAAA
Found at i:38637633 original size:21 final size:22
Alignment explanation
Indices: 38637584--38637628 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38637574 GTAAAATGAC
38637584 TGAATTACCCCCGAAGGGTCAT
1 TGAATTACCCCCGAAGGGTCAT
38637606 TGAATTACCCCCGAAGGGTCAT
1 TGAATTACCCCCGAAGGGTCAT
38637628 T
1 T
38637629 TATTAGCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (22 bp):
TGAATTACCCCCGAAGGGTCAT
Found at i:38637798 original size:81 final size:81
Alignment explanation
Indices: 38637635--38637877 Score: 249
Period size: 81 Copynumber: 3.0 Consensus size: 81
38637625 CATTTATTAG
* * * * * *
38637635 CCTTGAAGGGTAAAATAATCGAATTACCCCCAAAGGGTGAAATGACCGAATTA-CCTCCGAAGGG
1 CCTTGAAGGGTAAAATGACCGAATTACCCTCAAAAGGTAAAATGACCGAATTACCCT-CGAAAGG
* **
38637699 TAAAATAACTGAGTTAC
65 TAAAATAACCGAAATAC
* * *
38637716 CCTTAAAGGGTAATATGACCGAATTACCCTCAAAAGGTAAAATGATCGAATTACCCTCGAAAGGT
1 CCTTGAAGGGTAAAATGACCGAATTACCCTCAAAAGGTAAAATGACCGAATTACCCTCGAAAGGT
*
38637781 AAAATAACCAAAATAC
66 AAAATAACCGAAATAC
** * * * * * * *
38637797 CCCCGAATGGTAAAATGACCGAAATACCCT-TAAAGGTAAAATTACCTAAATACCTTC-AAAGGT
1 CCTTGAAGGGTAAAATGACCGAATTACCCTCAAAAGGTAAAATGACCGAATTACCCTCGAAAGGT
*
38637860 AAAATTACCGAAATAC
66 AAAATAACCGAAATAC
38637876 CC
1 CC
38637878 CCATTGGATA
Statistics
Matches: 134, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
79 22 0.16
80 21 0.16
81 88 0.66
82 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (81 bp):
CCTTGAAGGGTAAAATGACCGAATTACCCTCAAAAGGTAAAATGACCGAATTACCCTCGAAAGGT
AAAATAACCGAAATAC
Found at i:38637847 original size:26 final size:26
Alignment explanation
Indices: 38637713--38637877 Score: 152
Period size: 27 Copynumber: 6.2 Consensus size: 26
38637703 ATAACTGAGT
* *
38637713 TACCCTTAAAGGGTAATATGACCGAAT
1 TACCCTTAAA-GGTAAAATGACCGAAA
* * *
38637740 TACCCTCAAAAGGTAAAATGATCGAAT
1 TACCCT-TAAAGGTAAAATGACCGAAA
* * *
38637767 TACCCTCGAAAGGTAAAATAACCAAAA
1 TACCCT-TAAAGGTAAAATGACCGAAA
** *
38637794 TACCCCCGAATGGTAAAATGACCGAAA
1 TA-CCCTTAAAGGTAAAATGACCGAAA
* *
38637821 TACCCTTAAAGGTAAAATTACCTAAA
1 TACCCTTAAAGGTAAAATGACCGAAA
*
38637847 TA-CCTTCAAAGGTAAAATTACCGAAA
1 TACCCTT-AAAGGTAAAATGACCGAAA
38637873 TACCC
1 TACCC
38637878 CCATTGGATA
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
25 4 0.03
26 41 0.35
27 65 0.56
28 6 0.05
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.21
Consensus pattern (26 bp):
TACCCTTAAAGGTAAAATGACCGAAA
Found at i:38637904 original size:79 final size:80
Alignment explanation
Indices: 38637724--38637894 Score: 211
Period size: 79 Copynumber: 2.1 Consensus size: 80
38637714 ACCCTTAAAG
* * * * *
38637724 GGTAATATGACCGAATTACCCTCAAAAGGTAAAATGATCGAATTACCCTCGAAAGGTAAAATAAC
1 GGTAAAATGACCGAAATACCCT-TAAAGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATAAC
38637789 CAAAATACCCCCGAAT
65 CAAAATACCCCCGAAT
* * * *
38637805 GGTAAAATGACCGAAATACCCTTAAAGGTAAAATTACCTAAATACCTTC-AAAGGTAAAATTACC
1 GGTAAAATGACCGAAATACCCTTAAAGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATAACC
* *
38637869 GAAATACCCCC-ATT
66 AAAATACCCCCGAAT
38637883 GGATAAAATGAC
1 GG-TAAAATGAC
38637895 TGTTATACCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 4 0.05
79 33 0.42
80 21 0.27
81 20 0.26
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (80 bp):
GGTAAAATGACCGAAATACCCTTAAAGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATAACC
AAAATACCCCCGAAT
Found at i:38638241 original size:28 final size:28
Alignment explanation
Indices: 38638201--38638317 Score: 171
Period size: 28 Copynumber: 4.2 Consensus size: 28
38638191 ATTGCACTAT
*
38638201 ACTGTTATTGTATTGGGCTAATGCCCAC
1 ACTGTTATTGTATTGGGCTAAGGCCCAC
38638229 ACTGTTATTGTATTGGGCTAAGGCCCAC
1 ACTGTTATTGTATTGGGCTAAGGCCCAC
* ** *
38638257 ACTATTATTGTATTAAGCTAAGGCCTAC
1 ACTGTTATTGTATTGGGCTAAGGCCCAC
* *
38638285 ACTGTTACTGTATCGGGCTAAGGCCCAC
1 ACTGTTATTGTATTGGGCTAAGGCCCAC
38638313 ACTGT
1 ACTGT
38638318 GATGTTACTA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 78 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (28 bp):
ACTGTTATTGTATTGGGCTAAGGCCCAC
Found at i:38645633 original size:12 final size:12
Alignment explanation
Indices: 38645616--38645640 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38645606 GCCAAGGTAG
38645616 ATGTTATTGAGA
1 ATGTTATTGAGA
38645628 ATGTTATTGAGA
1 ATGTTATTGAGA
38645640 A
1 A
38645641 ACTCCCACCT
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
ATGTTATTGAGA
Found at i:38651399 original size:27 final size:27
Alignment explanation
Indices: 38651369--38651600 Score: 227
Period size: 27 Copynumber: 8.6 Consensus size: 27
38651359 TCATCTCCTA
** **
38651369 GGGGTATAACAGTCATTTTATGCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
38651396 GGGGTATTTC-GATCATTTTACCCTATA
1 GGGGTATTTCAG-TCATTTTACCCTATG
* *
38651423 GGGGTATTTCGGTCATTTTAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
38651450 GGGGTATTTCGGTCATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
38651477 GAGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
38651504 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
38651531 AGGGTA-TTCAGGTCATTTTATCCTATA
1 GGGGTATTTCA-GTCATTTTACCCTATG
* * * * * *
38651558 AGGGCATTT-TGATCATTCTACTCTATA
1 GGGGTATTTCAG-TCATTTTACCCTATG
*
38651585 GGGGTATTTCGGTCAT
1 GGGGTATTTCAGTCAT
38651601 AATAGTGTAA
Statistics
Matches: 175, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.03
27 165 0.94
28 4 0.02
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:38651425 original size:54 final size:54
Alignment explanation
Indices: 38651367--38651600 Score: 260
Period size: 54 Copynumber: 4.3 Consensus size: 54
38651357 TTTCATCTCC
** * *
38651367 TAGGGGTATAACAGTCATTTTATGCTATGGGGGTATTTCGATCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTATCCTATGGGGGTATTTCGATCATTCTACCCTA
* * *
38651421 TAGGGGTATTTCGGTCATTTTAACCTATGGGGGTATTTCGGTCATTCTACCCTA
1 TAGGGGTATTTCAGTCATTTTATCCTATGGGGGTATTTCGATCATTCTACCCTA
* * *
38651475 T-GGAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC-AGTCATTTTACCCTA
1 TAGG-GGTATTTCAGTCATTTTATCCTATGGGGGTATTTCGA-TCATTCTACCCTA
** * * *
38651529 T-GAGGGTA-TTCAGGTCATTTTATCCTATAAGGGCATTTTGATCATTCTACTCTA
1 TAG-GGGTATTTCA-GTCATTTTATCCTATGGGGGTATTTCGATCATTCTACCCTA
*
38651583 TAGGGGTATTTCGGTCAT
1 TAGGGGTATTTCAGTCAT
38651601 AATAGTGTAA
Statistics
Matches: 154, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
53 5 0.03
54 143 0.93
55 6 0.04
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTCAGTCATTTTATCCTATGGGGGTATTTCGATCATTCTACCCTA
Found at i:38651493 original size:81 final size:81
Alignment explanation
Indices: 38651391--38651600 Score: 271
Period size: 81 Copynumber: 2.6 Consensus size: 81
38651381 TCATTTTATG
* *
38651391 CTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCATTTTAACCTATGGGGGTA
1 CTATGGAGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCATTTTAACCTATGAGGGTA
38651456 TTTC-GGTCATTCTACC
66 -TTCAGGTCATTCTACC
* * * *
38651472 CTATGGAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTA
1 CTATGGAGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCATTTTAACCTATGAGGGTA
* *
38651537 TTCAGGTCATTTTATC
66 TTCAGGTCATTCTACC
* * * * *
38651553 CTAT-AAGGGCATTTTGATCATTCTACTCTATAGGGGTATTTCGGTCAT
1 CTATGGA-GGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCAT
38651601 AATAGTGTAA
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.04
81 107 0.96
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (81 bp):
CTATGGAGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCATTTTAACCTATGAGGGTA
TTCAGGTCATTCTACC
Found at i:38652228 original size:12 final size:12
Alignment explanation
Indices: 38652211--38652253 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
38652201 ATCCCAATAT
38652211 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
38652223 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
38652235 TCCCTCCTCAAA
1 TCTCTCCTCAAA
38652247 TCTCTCC
1 TCTCTCC
38652254 ATGACCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:38652785 original size:21 final size:22
Alignment explanation
Indices: 38652761--38652805 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
38652751 TATTTAACCC
*
38652761 AAAATAAATTGGATTAT-AATT
1 AAAATAAATTAGATTATGAATT
* *
38652782 AAAATTAATTATATTATGAATT
1 AAAATAAATTAGATTATGAATT
38652804 AA
1 AA
38652806 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
AAAATAAATTAGATTATGAATT
Found at i:38656166 original size:19 final size:19
Alignment explanation
Indices: 38656128--38656166 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38656118 GTATCTTGAC
* *
38656128 AAAAGTGGTAAATCATTAT
1 AAAAGTAGTAAATCACTAT
*
38656147 AAAAGTAGTAAATTACTAT
1 AAAAGTAGTAAATCACTAT
38656166 A
1 A
38656167 TATATTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AAAAGTAGTAAATCACTAT
Found at i:38657470 original size:18 final size:18
Alignment explanation
Indices: 38657449--38657486 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38657439 ATTCGGGTAA
38657449 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
38657467 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
38657485 AA
1 AA
38657487 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:38657830 original size:9 final size:9
Alignment explanation
Indices: 38657816--38657891 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
38657806 GCAGTGATTC
*
38657816 AATTTGGTT
1 AATTCGGTT
*
38657825 AATTTGGTT
1 AATTCGGTT
*
38657834 AATTCGGGT
1 AATTCGGTT
*
38657843 AATTCGGGT
1 AATTCGGTT
*
38657852 AATTCAGTT
1 AATTCGGTT
*
38657861 AATTCGGGT
1 AATTCGGTT
38657870 AATTCGGTT
1 AATTCGGTT
38657879 AATTCGGTT
1 AATTCGGTT
38657888 AATT
1 AATT
38657892 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:38657854 original size:27 final size:27
Alignment explanation
Indices: 38657824--38657891 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
38657814 TCAATTTGGT
*
38657824 TAATTTGGTTAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGGGTAATTCGGG
* *
38657851 TAATTCAGTTAATTCGGGTAATTCGGT
1 TAATTCGGTTAATTCGGGTAATTCGGG
38657878 TAATTCGGTTAATT
1 TAATTCGGTTAATT
38657892 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGGTAATTCGGG
Found at i:38658040 original size:12 final size:12
Alignment explanation
Indices: 38658023--38658047 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38658013 TATTATTTCG
38658023 GGTCGGTTAACC
1 GGTCGGTTAACC
38658035 GGTCGGTTAACC
1 GGTCGGTTAACC
38658047 G
1 G
38658048 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:38663978 original size:19 final size:19
Alignment explanation
Indices: 38663954--38663990 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38663944 CTACAACTCT
38663954 CAATATTTCGTCCTATTCC
1 CAATATTTCGTCCTATTCC
*
38663973 CAATATTTCTTCCTATTC
1 CAATATTTCGTCCTATTC
38663991 TCCATATCCA
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:0.30, G:0.03, T:0.46
Consensus pattern (19 bp):
CAATATTTCGTCCTATTCC
Found at i:38663997 original size:19 final size:19
Alignment explanation
Indices: 38663951--38663997 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
38663941 ACACTACAAC
*
38663951 TCTCAATATTTCGTCCTAT
1 TCTCCATATTTCGTCCTAT
*
38663970 TC-CCAATATTTCTTCCTAT
1 TCTCC-ATATTTCGTCCTAT
38663989 TCTCCATAT
1 TCTCCATAT
38663998 CCATCTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.88
20 2 0.08
ACGTcount: A:0.21, C:0.30, G:0.02, T:0.47
Consensus pattern (19 bp):
TCTCCATATTTCGTCCTAT
Found at i:38691181 original size:39 final size:39
Alignment explanation
Indices: 38691127--38691208 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
38691117 TCTAATACAA
*
38691127 GAGTTAGAAAAATTAATTGGCCAAAGGTTGTCACTGCAT
1 GAGTTAGAAAAATTAATTGGCCAAAGGCTGTCACTGCAT
38691166 GAGTTAGAAAAATTAATTGGCCAAAGGCTGTCACTGCAT
1 GAGTTAGAAAAATTAATTGGCCAAAGGCTGTCACTGCAT
38691205 GAGT
1 GAGT
38691209 GTGTGTCAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (39 bp):
GAGTTAGAAAAATTAATTGGCCAAAGGCTGTCACTGCAT
Found at i:38693340 original size:33 final size:34
Alignment explanation
Indices: 38693303--38693409 Score: 95
Period size: 33 Copynumber: 3.3 Consensus size: 34
38693293 AAGAAAACCA
38693303 AGTATG-TTCATAAGAACTTAGCGAGTTCCAAGG
1 AGTATGATTCATAAGAACTTAGCGAGTTCCAAGG
* ** **
38693336 AGTATGATTC--AACAA--TAG-G-GTCTATAACCA
1 AGTATGATTCATAAGAACTTAGCGAGT-TCCAA-GG
38693366 AGTATG-TTCATAAGAACTTAGCGAGTTCCAAGG
1 AGTATGATTCATAAGAACTTAGCGAGTTCCAAGG
38693399 AGTATGATTCA
1 AGTATGATTCA
38693410 ACAATAGGGT
Statistics
Matches: 54, Mismatches: 10, Indels: 19
0.65 0.12 0.23
Matches are distributed among these distances:
28 2 0.04
29 7 0.13
30 9 0.17
31 4 0.07
32 4 0.07
33 15 0.28
34 11 0.20
35 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (34 bp):
AGTATGATTCATAAGAACTTAGCGAGTTCCAAGG
Found at i:38693376 original size:63 final size:63
Alignment explanation
Indices: 38693298--38693425 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
38693288 AGAAGAAGAA
38693298 AACCAAGTATGTTCATAAGAACTTAGCGAGTTCCAAGGAGTATGATTCAACAATAGGGTCTAT
1 AACCAAGTATGTTCATAAGAACTTAGCGAGTTCCAAGGAGTATGATTCAACAATAGGGTCTAT
38693361 AACCAAGTATGTTCATAAGAACTTAGCGAGTTCCAAGGAGTATGATTCAACAATAGGGTCTAT
1 AACCAAGTATGTTCATAAGAACTTAGCGAGTTCCAAGGAGTATGATTCAACAATAGGGTCTAT
38693424 AA
1 AA
38693426 ACTCTAAATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (63 bp):
AACCAAGTATGTTCATAAGAACTTAGCGAGTTCCAAGGAGTATGATTCAACAATAGGGTCTAT
Found at i:38694713 original size:5 final size:5
Alignment explanation
Indices: 38694703--38694729 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38694693 TGAGCATTCG
38694703 ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA AT
38694730 AAAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:38695135 original size:17 final size:18
Alignment explanation
Indices: 38695095--38695136 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
38695085 AGCATGAGTC
*
38695095 GAAATAAACAACATTATAA
1 GAAA-AAACAACAATATAA
*
38695114 TAAAAAACAA-AATATAA
1 GAAAAAACAACAATATAA
38695131 GAAAAA
1 GAAAAA
38695137 GTCTAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 11 0.55
18 6 0.30
19 3 0.15
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (18 bp):
GAAAAAACAACAATATAA
Found at i:38704373 original size:40 final size:40
Alignment explanation
Indices: 38704191--38704413 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
38704181 TCCTCGTTCA
* * * * *
38704191 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38704230 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38704270 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38704310 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38704350 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38704390 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38704414 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38704422 original size:41 final size:41
Alignment explanation
Indices: 38704345--38704422 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38704335 TTAGTATCTC
* * *
38704345 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38704386 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38704423 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38712274 original size:40 final size:40
Alignment explanation
Indices: 38712092--38712314 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
38712082 TCCTCGTTCA
* * * * *
38712092 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38712131 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38712171 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38712211 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38712251 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38712291 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38712315 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38712323 original size:41 final size:41
Alignment explanation
Indices: 38712246--38712323 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38712236 TTAGTATCTC
* * *
38712246 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38712287 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38712324 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38713863 original size:29 final size:29
Alignment explanation
Indices: 38713831--38713889 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
38713821 TAATTTTTAA
*
38713831 ATGTAGTGTTTTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
*
38713860 ATGTGGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
38713889 A
1 A
38713890 GTTTATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (29 bp):
ATGTAGTGTATTTTAAAAATAAAAAATAT
Found at i:38713907 original size:9 final size:9
Alignment explanation
Indices: 38713895--38713931 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
38713885 ATATAGTTTA
38713895 TATTCGAAT
1 TATTCGAAT
38713904 TATTCGAAT
1 TATTCGAAT
*
38713913 TATTCGAGT
1 TATTCGAAT
*
38713922 TATTTGAAT
1 TATTCGAAT
38713931 T
1 T
38713932 TGAAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38720035 original size:50 final size:50
Alignment explanation
Indices: 38719903--38720149 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 50
38719893 ATTTGGGTCA
* *
38719903 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTAAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TATG
* * *
38719959 CGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
** *
38720009 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
** * * * *
38720059 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATG
* ** *
38720108 AAACATCCCATGTAAAACCATGTCTGGGACATGG-ATTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
38720150 TGTTATTATC
Statistics
Matches: 163, Mismatches: 26, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
48 2 0.01
49 37 0.23
50 82 0.50
51 2 0.01
55 1 0.01
56 39 0.24
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
Found at i:38723424 original size:17 final size:17
Alignment explanation
Indices: 38723404--38723440 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
38723394 TTATTCATCA
*
38723404 CATTTAGGTTAATTTTG
1 CATTTAGGATAATTTTG
*
38723421 CATTTAGGATCATTTTG
1 CATTTAGGATAATTTTG
38723438 CAT
1 CAT
38723441 GTAGTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (17 bp):
CATTTAGGATAATTTTG
Found at i:38731955 original size:47 final size:49
Alignment explanation
Indices: 38731847--38731988 Score: 164
Period size: 47 Copynumber: 2.9 Consensus size: 49
38731837 TCATCCATCC
*
38731847 GAAACACCATTTGTGGCCAAGCCACCACTGATTTGTAGATAAACTGCCACT
1 GAAACA-CA-TTGTGGACAAGCCACCACTGATTTGTAGATAAACTGCCACT
* * * *
38731898 AATAACACATTGTGGACAAGCCACTAC--ATATT-TAGATATACTGCCATT
1 GA-AACACATTGTGGACAAGCCACCACTGAT-TTGTAGATAAACTGCCACT
* *
38731946 GAAACACATTGTGGACAAGACACCACGGATTTGTAGATAAACT
1 GAAACACATTGTGGACAAGCCACCACTGATTTGTAGATAAACT
38731989 ATAACATACT
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
47 22 0.29
48 19 0.25
49 13 0.17
50 16 0.21
51 3 0.04
52 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (49 bp):
GAAACACATTGTGGACAAGCCACCACTGATTTGTAGATAAACTGCCACT
Found at i:38739551 original size:75 final size:74
Alignment explanation
Indices: 38739375--38739601 Score: 242
Period size: 75 Copynumber: 3.0 Consensus size: 74
38739365 ACAGTTTTGG
** * **
38739375 GCCCAGCGCTAGTCGGATAAACCAACAAATGTAATGACGTACCCAA-CACTAGTTAGATAAACTG
1 GCCCAGCGCTAGTCGGATAAACTGACAAGTGTAATGGTGTA-CCAAGCACTAGTTAGATAAACT-
*
38739439 AAAAAAGTT-T
64 AAGAAAGTTGT
* * * *
38739449 CGCCCAGCTCTAGTCGGATAAACTGACATGTGTAATGGTGTTCCTAGCACTAGTTAGATAAACTA
1 -GCCCAGCGCTAGTCGGATAAACTGACAAGTGTAATGGTGTACCAAGCACTAGTTAGATAAACTA
38739514 ACGAAAGTTGT
65 A-GAAAGTTGT
* * * * * *
38739525 GCCCAGCGCTAGTCGGATAAATTGACAAGTATAATGGTATGCCAAGTACTAGTCAGATAAACTGA
1 GCCCAGCGCTAGTCGGATAAACTGACAAGTGTAATGGTGTACCAAGCACTAGTTAGATAAACT-A
*
38739590 TGAAAGTTGT
65 AGAAAGTTGT
38739600 GC
1 GC
38739602 TTAGTGCTAG
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
74 5 0.04
75 121 0.95
76 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (74 bp):
GCCCAGCGCTAGTCGGATAAACTGACAAGTGTAATGGTGTACCAAGCACTAGTTAGATAAACTAA
GAAAGTTGT
Found at i:38739611 original size:75 final size:75
Alignment explanation
Indices: 38739375--38739658 Score: 229
Period size: 75 Copynumber: 3.8 Consensus size: 75
38739365 ACAGTTTTGG
** * * * *
38739375 GCCCAGCGCTAGTCGGATAAACCAACAAATGTAATGACGTA-CCCAA-CACTAGTTAGATAAACT
1 GCCCAGCGCTAGTCGGATAAACTGACAAGTATAATG--GTATGCCAAGCACTAGTCAGATAAACT
*
38739438 GAA-AAAAGTT-T
64 -AACGAAAGTTGT
* * * * * * *
38739449 CGCCCAGCTCTAGTCGGATAAACTGACATGTGTAATGGTGTTCCTAGCACTAGTTAGATAAACTA
1 -GCCCAGCGCTAGTCGGATAAACTGACAAGTATAATGGTATGCCAAGCACTAGTCAGATAAACTA
38739514 ACGAAAGTTGT
65 ACGAAAGTTGT
* * *
38739525 GCCCAGCGCTAGTCGGATAAATTGACAAGTATAATGGTATGCCAAGTACTAGTCAGATAAACTGA
1 GCCCAGCGCTAGTCGGATAAACTGACAAGTATAATGGTATGCCAAGCACTAGTCAGATAAACTAA
*
38739590 TGAAAGTTGT
66 CGAAAGTTGT
** * * *** * *
38739600 GCTTAGTGCTAGAT-GGATAAACCGATGGGTATAATGGTGTGTCC-AGCACTAGTAAGATA
1 GCCCAGCGCTAG-TCGGATAAACTGACAAGTATAATGGTATG-CCAAGCACTAGTCAGATA
38739659 TATAACACCC
Statistics
Matches: 172, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
73 2 0.01
74 5 0.03
75 161 0.94
76 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (75 bp):
GCCCAGCGCTAGTCGGATAAACTGACAAGTATAATGGTATGCCAAGCACTAGTCAGATAAACTAA
CGAAAGTTGT
Found at i:38741258 original size:50 final size:50
Alignment explanation
Indices: 38741197--38741303 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
38741187 ACATGGTAGT
* * *
38741197 TCTCATATCGGTGCCCATGCCATGCCCCAGACATGGTCTTACGGAGGACC
1 TCTCATATCGGTGCCAACGCCATGCCCCAGACATGGTCTTACAGAGGACC
* * * * *
38741247 TCTCATCTCGGTGCGAACGGCATGTCCCAGACATGGTCTTACATAGGACC
1 TCTCATATCGGTGCCAACGCCATGCCCCAGACATGGTCTTACAGAGGACC
38741297 TCTCATA
1 TCTCATA
38741304 ACCTCAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.24
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGCCCCAGACATGGTCTTACAGAGGACC
Done.