Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 248 of 322
Found at i:82376208 original size:16 final size:16
Alignment explanation
Indices: 82376187--82376217 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
82376177 TTGGTGACAA
82376187 AATTGAAAATTCTTGG
1 AATTGAAAATTCTTGG
82376203 AATTGAAAATTCTTG
1 AATTGAAAATTCTTG
82376218 AGGAGTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (16 bp):
AATTGAAAATTCTTGG
Found at i:82386828 original size:26 final size:26
Alignment explanation
Indices: 82386799--82386870 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 26
82386789 ATTTATTCTT
*
82386799 TTTAAACCGTTTTGTATATTATTTAG
1 TTTAAACCGTTTTTTATATTATTTAG
*
82386825 TTTAAACC-TCTTTTTACATATTATTTAT
1 TTTAAACCGT-TTTTT--ATATTATTTAG
82386853 TTTAAA-CGTTTTTTATAT
1 TTTAAACCGTTTTTTATAT
82386871 ATTATTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 5 0.12
26 12 0.30
27 6 0.15
28 17 0.43
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTAAACCGTTTTTTATATTATTTAG
Found at i:82386879 original size:28 final size:28
Alignment explanation
Indices: 82386808--82386877 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
82386798 TTTTAAACCG
*
82386808 TTTTGTATATTATTTAGTTTAAACCTCT
1 TTTTATATATTATTTAGTTTAAACCTCT
* * *
82386836 TTTTACATATTATTTATTTTAAACGT-T
1 TTTTATATATTATTTAGTTTAAACCTCT
82386863 TTTTATATATTATTT
1 TTTTATATATTATTT
82386878 TAAGTTGTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTTATATATTATTTAGTTTAAACCTCT
Found at i:82386947 original size:51 final size:49
Alignment explanation
Indices: 82386836--82386958 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 49
82386826 TTAAACCTCT
* *
82386836 TTTTACATATTATTTATTTTAAACGTTTTTTATATATTATTTTAAGTTG
1 TTTTACATATTATTTATTTAAAACGTTTTGTATATATTATTTTAAGTTG
* ** *
82386885 TCTTATGTATTATTTGTTTAAAAC-TACTTTGTATATCATTATTTTTAA-TTG
1 TTTTACATATTATTTATTTAAAACGT--TTTGTATAT-ATTA-TTTTAAGTTG
82386936 TTTTACATATTATTTATCTTAAA
1 TTTTACATATTATTTAT-TTAAA
82386959 TTATTTTATA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
48 1 0.02
49 19 0.32
50 8 0.14
51 20 0.34
52 11 0.19
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (49 bp):
TTTTACATATTATTTATTTAAAACGTTTTGTATATATTATTTTAAGTTG
Found at i:82386960 original size:26 final size:25
Alignment explanation
Indices: 82386931--82386998 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
82386921 CATTATTTTT
82386931 AATTGTTTTACATATTATTTATCTT-A
1 AATTGTTTTA-ATATTATTTA-CTTCA
* *
82386957 AATTATTTT-ATACTATTTACTTCA
1 AATTGTTTTAATATTATTTACTTCA
*
82386981 AACTGTTTTATATATTAT
1 AATTGTTTTA-ATATTAT
82386999 GTTGTTTCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.09
24 17 0.50
26 14 0.41
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (25 bp):
AATTGTTTTAATATTATTTACTTCA
Found at i:82389567 original size:46 final size:46
Alignment explanation
Indices: 82389511--82389691 Score: 265
Period size: 46 Copynumber: 3.9 Consensus size: 46
82389501 GTGTGCTTAC
**
82389511 TGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
82389557 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
82389603 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
82389649 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGACATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
82389692 TCATGTCAAA
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 124 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:82404066 original size:714 final size:714
Alignment explanation
Indices: 82402694--82404123 Score: 2833
Period size: 714 Copynumber: 2.0 Consensus size: 714
82402684 TTATCTTATT
82402694 CATTTTGTATCCTAGCAAAATTCGCTATCTTGATTAATTTATCCACTTCGAGCTTTGCTCTTAAT
1 CATTTTGTATCCTAGCAAAATTCGCTATCTTGATTAATTTATCCACTTCGAGCTTTGCTCTTAAT
82402759 AAGATTCTATCTTGTTCATCGTGATAGTATTTTTCAAGCATTTTTCATTGAAACAACGATCATTG
66 AAGATTCTATCTTGTTCATCGTGATAGTATTTTTCAAGCATTTTTCATTGAAACAACGATCATTG
82402824 GACTTATAATATTCACAGAAAAGAAGTTCTGCATATTACTCTGAAGGCTTCTAAATAGTACAAGA
131 GACTTATAATATTCACAGAAAAGAAGTTCTGCATATTACTCTGAAGGCTTCTAAATAGTACAAGA
82402889 GCCTGAAACAGGACTATTGTTTATGTAACAGCCTAGTTTAGACCCTAGTAAGAACAGTGGTTTCG
196 GCCTGAAACAGGACTATTGTTTATGTAACAGCCTAGTTTAGACCCTAGTAAGAACAGTGGTTTCG
82402954 GGACCACGAATCCGAGTAAATATATATATATATATTTTTATATTATTTTCTGTGTTTAAAGTATG
261 GGACCACGAATCCGAGTAAATATATATATATATATTTTTATATTATTTTCTGTGTTTAAAGTATG
82403019 TGAATTGATTTGTGTAAAATTTTCGTACGAAAATTTTATTGTTGTGTGCTTGATTTAATAAAAAG
326 TGAATTGATTTGTGTAAAATTTTCGTACGAAAATTTTATTGTTGTGTGCTTGATTTAATAAAAAG
82403084 GACTTAATCGCATAAATTAAAAACTTGATAGTTTAAAGCATGAGGGCCAAATTGTTAGTGGCTTT
391 GACTTAATCGCATAAATTAAAAACTTGATAGTTTAAAGCATGAGGGCCAAATTGTTAGTGGCTTT
82403149 CTAAGTTGGGACATTTATGTTGTAAATATCCCATTAATAAGTAAGTGGGACGGCATAAAATATAA
456 CTAAGTTGGGACATTTATGTTGTAAATATCCCATTAATAAGTAAGTGGGACGGCATAAAATATAA
82403214 GTTACATGGTTTTTCTATTATATTAGTAAAGATATATAAGTAAATTAAATATTATATAATATATG
521 GTTACATGGTTTTTCTATTATATTAGTAAAGATATATAAGTAAATTAAATATTATATAATATATG
82403279 TTATATTATAATATAAACATAAAATAAACAAAGCCATATTTGAGTGTTCATATGTTCTTGGTAGC
586 TTATATTATAATATAAACATAAAATAAACAAAGCCATATTTGAGTGTTCATATGTTCTTGGTAGC
* *
82403344 CAAAACTAAACAAAATAAAAAGAAAAGAAAGCAAGTTAGGGTTCGGTCAATATTCAAGCCTATA
651 CAAAACTAAACAAAATAAAAAGAAAAGAAAGCAAGCTAGGGTTCGGTCAATATTCAAGCCCATA
82403408 CATTTTGTATCCTAGCAAAATTCGCTATCTTGATTAATTTATCCACTTCGAGCTTTGCTCTTAAT
1 CATTTTGTATCCTAGCAAAATTCGCTATCTTGATTAATTTATCCACTTCGAGCTTTGCTCTTAAT
82403473 AAGATTCTATCTTGTTCATCGTGATAGTATTTTTCAAGCATTTTTCATTGAAACAACGATCATTG
66 AAGATTCTATCTTGTTCATCGTGATAGTATTTTTCAAGCATTTTTCATTGAAACAACGATCATTG
82403538 GACTTATAATATTCACAGAAAAGAAGTTCTGCATATTACTCTGAAGGCTTCTAAATAGTACAAGA
131 GACTTATAATATTCACAGAAAAGAAGTTCTGCATATTACTCTGAAGGCTTCTAAATAGTACAAGA
82403603 GCCTGAAACAGGACTATTGTTTATGTAACAGCCTAGTTTAGACCCTAGTAAGAACAGTGGTTTCG
196 GCCTGAAACAGGACTATTGTTTATGTAACAGCCTAGTTTAGACCCTAGTAAGAACAGTGGTTTCG
82403668 GGACCACGAATCCGAGTAAATATATATATATATATTTTTATATTATTTTCTGTGTTTAAAGTATG
261 GGACCACGAATCCGAGTAAATATATATATATATATTTTTATATTATTTTCTGTGTTTAAAGTATG
82403733 TGAATTGATTTGTGTAAAATTTTCGTACGAAAATTTTATTGTTGTGTGCTTGATTTAATAAAAAG
326 TGAATTGATTTGTGTAAAATTTTCGTACGAAAATTTTATTGTTGTGTGCTTGATTTAATAAAAAG
82403798 GACTTAATCGCATAAATTAAAAACTTGATAGTTTAAAGCATGAGGGCCAAATTGTTAGTGGCTTT
391 GACTTAATCGCATAAATTAAAAACTTGATAGTTTAAAGCATGAGGGCCAAATTGTTAGTGGCTTT
82403863 CTAAGTTGGGACATTTATGTTGTAAATATCCCATTAATAAGTAAGTGGGACGGCATAAAATATAA
456 CTAAGTTGGGACATTTATGTTGTAAATATCCCATTAATAAGTAAGTGGGACGGCATAAAATATAA
82403928 GTTACATGGTTTTTCTATTATATTAGTAAAGATATATAAGTAAATTAAATATTATATAATATATG
521 GTTACATGGTTTTTCTATTATATTAGTAAAGATATATAAGTAAATTAAATATTATATAATATATG
82403993 TTATATTATAATATAAACATAAAATAAACAAAGCCATATTTGAGTGTTCATATGTTCTTGGTAGC
586 TTATATTATAATATAAACATAAAATAAACAAAGCCATATTTGAGTGTTCATATGTTCTTGGTAGC
*
82404058 CGAAACTAAACAAAATAAAAAGAAAAGAAAGCAAGCTAGGGTTCGGTCAATATTCAAGCCCATA
651 CAAAACTAAACAAAATAAAAAGAAAAGAAAGCAAGCTAGGGTTCGGTCAATATTCAAGCCCATA
82404122 CA
1 CA
82404124 AGGTTCGTTT
Statistics
Matches: 713, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
714 713 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (714 bp):
CATTTTGTATCCTAGCAAAATTCGCTATCTTGATTAATTTATCCACTTCGAGCTTTGCTCTTAAT
AAGATTCTATCTTGTTCATCGTGATAGTATTTTTCAAGCATTTTTCATTGAAACAACGATCATTG
GACTTATAATATTCACAGAAAAGAAGTTCTGCATATTACTCTGAAGGCTTCTAAATAGTACAAGA
GCCTGAAACAGGACTATTGTTTATGTAACAGCCTAGTTTAGACCCTAGTAAGAACAGTGGTTTCG
GGACCACGAATCCGAGTAAATATATATATATATATTTTTATATTATTTTCTGTGTTTAAAGTATG
TGAATTGATTTGTGTAAAATTTTCGTACGAAAATTTTATTGTTGTGTGCTTGATTTAATAAAAAG
GACTTAATCGCATAAATTAAAAACTTGATAGTTTAAAGCATGAGGGCCAAATTGTTAGTGGCTTT
CTAAGTTGGGACATTTATGTTGTAAATATCCCATTAATAAGTAAGTGGGACGGCATAAAATATAA
GTTACATGGTTTTTCTATTATATTAGTAAAGATATATAAGTAAATTAAATATTATATAATATATG
TTATATTATAATATAAACATAAAATAAACAAAGCCATATTTGAGTGTTCATATGTTCTTGGTAGC
CAAAACTAAACAAAATAAAAAGAAAAGAAAGCAAGCTAGGGTTCGGTCAATATTCAAGCCCATA
Found at i:82406394 original size:47 final size:46
Alignment explanation
Indices: 82406325--82406416 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
82406315 AGATCAAATT
* *
82406325 GATTGAAGAAGATACAAATCCTATACCCCCTGAGTTGTAGTGGGATA
1 GATTGAAGAAGATAAAAATCCTATA-CCCCTGAGTTGCAGTGGGATA
* *
82406372 GATTGAAGATGATAAAAATCCTATACCCTTGAGTTGCAGTGGGAT
1 GATTGAAGAAGATAAAAATCCTATACCCCTGAGTTGCAGTGGGAT
82406417 GGATAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 18 0.44
47 23 0.56
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (46 bp):
GATTGAAGAAGATAAAAATCCTATACCCCTGAGTTGCAGTGGGATA
Found at i:82406972 original size:45 final size:44
Alignment explanation
Indices: 82406824--82407127 Score: 272
Period size: 44 Copynumber: 6.8 Consensus size: 44
82406814 TCATGGCGAA
* * * *
82406824 TCTTATCTCCCTGAAGTTGTATTGGAGCAGATTAAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACAAG
*
82406868 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACAAG
* * *
82406912 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-CAAG
* * * *
82406957 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-CAAG
* ** *
82407001 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAG-CTACCA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC-ACAAG
* * * * ** * *
82407045 TCTTTATCTCTCTGAAGTTGAAGTAGAGTAGGATAAAACTACACAAA
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAA-GACACAAG
* * * *
82407092 CCATATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
82407128 ATTACCAATT
Statistics
Matches: 219, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.01
44 104 0.47
45 87 0.40
46 24 0.11
47 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACAAG
Found at i:82406981 original size:89 final size:89
Alignment explanation
Indices: 82406823--82407068 Score: 277
Period size: 89 Copynumber: 2.8 Consensus size: 89
82406813 ATCATGGCGA
* * * * *
82406823 ATCTTATCTCCCTGAAGTTGTATTGGAGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACACAAGTCTTATCTCCCTGAAGTTGA
* *
82406888 AGTGGAGCAGATTGAAGCCA-CA-
66 AGTGGAGCAGACTGAAGACAGCAG
* * *
82406910 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCAAGTCTTATCTCCCTGAAGTT
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACA-CAAGTCTTATCTCCCTGAAGTT
* *
82406975 GAAGTGGAGTAGACTGAAGATAGCAG
64 GAAGTGGAGCAGACTGAAGACAGCAG
* * *
82407001 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TCAAAG-CTACCA-TCTTTATCTCTCTGAAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGT-AAAGAC-ACAAGTC-TTATCTCCCTGAAGT
82407063 TGAAGT
63 TGAAGT
82407069 AGAGTAGGAT
Statistics
Matches: 134, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
87 1 0.01
88 35 0.26
89 62 0.46
90 35 0.26
91 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (89 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACACAAGTCTTATCTCCCTGAAGTTGA
AGTGGAGCAGACTGAAGACAGCAG
Found at i:82407063 original size:134 final size:133
Alignment explanation
Indices: 82406824--82407064 Score: 333
Period size: 134 Copynumber: 1.8 Consensus size: 133
82406814 TCATGGCGAA
* * * *
82406824 TCTTATCTCCCTGAAGTTGTATTGGAGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTAAAGACACAAGTCTTATCTCCCTGAAGTTGCA
**
82406889 GTGGAGCAGATTGAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGC
66 GTGGAGCAGATCAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGC
82406954 AAG
131 AAG
* * *
82406957 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGC-AGATCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTAAAGACA-CAAG-TCTTATCTCCCTGAAGTTG
* * *
82407021 CAGTGGAGTAGATCAAAGCTACCA-TCTTTATCTCTCTGAAGTTG
64 CAGTGGAGCAGATCAAAGCCACAAGTC-TTATCTCTCTGAAGTTG
82407065 AAGTAGAGTA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
133 37 0.40
134 56 0.60
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTAAAGACACAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATCAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGC
AAG
Found at i:82407108 original size:46 final size:44
Alignment explanation
Indices: 82406960--82407110 Score: 126
Period size: 45 Copynumber: 3.4 Consensus size: 44
82406950 TAGCAAGTCT
* * * * * *
82406960 TATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGA-TAGCAGATCT
1 TATCTCCCTGAAGTTGAAGTAGAGTAGA-TCAAAACTACCA-ACCA
* * * * **
82407005 TATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCTACCATCTT
1 TATCTCCCTGAAGTTGAAGTAGAGTAGATCAAAACTACCAACCA
*
82407049 TATCTCTCTGAAGTTGAAGTAGAGTAGGAT-AAAACTACACAAACCA
1 TATCTCCCTGAAGTTGAAGTAGAGTA-GATCAAAACTAC-C-AACCA
82407095 TATCTCCCTGAAGTTG
1 TATCTCCCTGAAGTTG
82407111 CAGTGAAGCA
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
44 34 0.40
45 35 0.41
46 17 0.20
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGAAGTAGAGTAGATCAAAACTACCAACCA
Found at i:82408972 original size:26 final size:25
Alignment explanation
Indices: 82408943--82409020 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 25
82408933 ATTTATTCTT
*
82408943 TTTAAACCGTTTTGTATATTATTTAG
1 TTTAAACC-TTTTATATATTATTTAG
* *
82408969 TTTAAACCTCTTTTTACATATTATTTAT
1 TTTAAA-C-C-TTTTATATATTATTTAG
*
82408997 TTTAAACTTTTTTATATATTATTT
1 TTTAAAC-CTTTTATATATTATTT
82409021 TAAGTTGTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.45
27 3 0.07
28 21 0.48
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTAAACCTTTTATATATTATTTAG
Found at i:82408991 original size:28 final size:26
Alignment explanation
Indices: 82408958--82409020 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
82408948 ACCGTTTTGT
82408958 ATATTATTTAGTTTAAACCTCTTTTTAC
1 ATATTATTTAGTTTAAA-CT-TTTTTAC
* *
82408986 ATATTATTTATTTTAAACTTTTTTAT
1 ATATTATTTAGTTTAAACTTTTTTAC
82409012 ATATTATTT
1 ATATTATTT
82409021 TAAGTTGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 15 0.45
27 2 0.06
28 16 0.48
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTATTTAGTTTAAACTTTTTTAC
Found at i:82409090 original size:51 final size:48
Alignment explanation
Indices: 82408980--82409101 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
82408970 TTAAACCTCT
* *
82408980 TTTTACATATTATTTATTTTAAACTTTTTTATATATTATTTTAAGTTG
1 TTTTACATATTATTTATTTAAAACTTTTGTATATATTATTTTAAGTTG
* ** *
82409028 TCTTATGTATTATTTGTTTAAAACTGCTTTGTATATCATTATTTTTAA-TTG
1 TTTTACATATTATTTATTTAAAACT--TTTGTATAT-ATTA-TTTTAAGTTG
82409079 TTTTACATATTATTTATCTTAAA
1 TTTTACATATTATTTAT-TTAAA
82409102 TTATTTTATA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
48 20 0.34
50 8 0.14
51 20 0.34
52 11 0.19
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (48 bp):
TTTTACATATTATTTATTTAAAACTTTTGTATATATTATTTTAAGTTG
Found at i:82409103 original size:26 final size:25
Alignment explanation
Indices: 82409074--82409141 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
82409064 CATTATTTTT
82409074 AATTGTTTTACATATTATTTATCTT-A
1 AATTGTTTTA-ATATTATTTA-CTTCA
* *
82409100 AATTATTTT-ATATAATTTACTTCA
1 AATTGTTTTAATATTATTTACTTCA
*
82409124 AACTGTTTTATATATTAT
1 AATTGTTTTA-ATATTAT
82409142 GTTGTTTCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.09
24 17 0.50
26 14 0.41
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
AATTGTTTTAATATTATTTACTTCA
Found at i:82415714 original size:27 final size:27
Alignment explanation
Indices: 82415672--82415727 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
82415662 ATTTAGATGG
82415672 GTGGAGGGTGTCAGATAAGCAGCACCA
1 GTGGAGGGTGTCAGATAAGCAGCACCA
* *
82415699 GTGGAGGGTGTTAGATAAGCGGCACCA
1 GTGGAGGGTGTCAGATAAGCAGCACCA
82415726 GT
1 GT
82415728 TGCGTCATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.39, T:0.18
Consensus pattern (27 bp):
GTGGAGGGTGTCAGATAAGCAGCACCA
Found at i:82418115 original size:19 final size:18
Alignment explanation
Indices: 82418072--82418119 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
82418062 AAATTAAATT
82418072 AATTA-TTTTATTAAAAA
1 AATTATTTTTATTAAAAA
*
82418089 ATATTTATTTTTATTATTAAA
1 A-A-TTATTTTTATTA-AAAA
82418110 AATTATTTTT
1 AATTATTTTT
82418120 TATATGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 11 0.42
20 9 0.35
21 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTATTTTTATTAAAAA
Found at i:82418226 original size:23 final size:23
Alignment explanation
Indices: 82418200--82418243 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
82418190 TTTTAACCGT
82418200 AAAAATAAATAAATTT-TTAATAA
1 AAAAAT-AATAAATTTGTTAATAA
* *
82418223 AAAACTAATATATTTGTTAAT
1 AAAAATAATAAATTTGTTAAT
82418244 TTAACATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAAATAATAAATTTGTTAATAA
Found at i:82419649 original size:21 final size:21
Alignment explanation
Indices: 82419624--82419672 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
82419614 TTCAGAATCC
* **
82419624 CACACAAACGTGTGTTTTGGA
1 CACACAAACGTGTCTGGTGGA
* *
82419645 CACACGACCGTGTCTGGTGGA
1 CACACAAACGTGTCTGGTGGA
82419666 CACACAA
1 CACACAA
82419673 GTGTGTGAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (21 bp):
CACACAAACGTGTCTGGTGGA
Found at i:82423104 original size:13 final size:13
Alignment explanation
Indices: 82423086--82423122 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
82423076 TTTTGTGAAG
82423086 TATTGATATTTAA
1 TATTGATATTTAA
*
82423099 TATTGAT-TTTTA
1 TATTGATATTTAA
82423111 TA-TGATATTTAA
1 TATTGATATTTAA
82423123 AAAAATATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 4 0.19
12 10 0.48
13 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (13 bp):
TATTGATATTTAA
Found at i:82427300 original size:30 final size:30
Alignment explanation
Indices: 82427266--82427326 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82427256 TCCTTAACTC
82427266 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
82427296 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
82427326 A
1 A
82427327 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:82430942 original size:68 final size:63
Alignment explanation
Indices: 82430795--82430942 Score: 156
Period size: 63 Copynumber: 2.3 Consensus size: 63
82430785 ATATAATTCG
* *
82430795 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAACCAATTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAACCAATATATCTCGTA
* * * *
82430858 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGCGACCTAAC--CA--AT-ATATC
*
82430921 TTGTA
59 TCGTA
82430926 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
82430943 ATGTGCACTC
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 41 0.59
64 1 0.01
65 2 0.03
67 2 0.03
68 22 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAACCAATATATCTCGTA
Found at i:82432598 original size:34 final size:34
Alignment explanation
Indices: 82432555--82432628 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
82432545 ATGTAAGAAT
*
82432555 ATTACACACATGGAAGCAAGAAGGAACTCACCAG
1 ATTACACACATGAAAGCAAGAAGGAACTCACCAG
82432589 ATTACACACATGAAAGCAAGAAGGAACTCACCAG
1 ATTACACACATGAAAGCAAGAAGGAACTCACCAG
*
82432623 AATACA
1 ATTACA
82432629 ACAAAGTCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (34 bp):
ATTACACACATGAAAGCAAGAAGGAACTCACCAG
Found at i:82434257 original size:56 final size:54
Alignment explanation
Indices: 82434106--82434262 Score: 145
Period size: 56 Copynumber: 2.8 Consensus size: 54
82434096 CATAACATAG
* * *
82434106 CACGCCTCTCAAC-AGGGCTACCTAAAAGCACCCGGACCTAGCATGTATCACATAAT
1 CACGCCTCTCAACGA-GGCTA-C-ACAAGCTCCCGGACCTAGCATGTACCACATAAT
* * * ** * *
82434162 CACGCCTTTCAACGGGGCTACATAAGCTTTCGGATCTAGCGTGTACCACATAATT
1 CACGCCTCTCAACGAGGCTACACAAGCTCCCGGACCTAGCATGTACCACATAA-T
* * *
82434217 ACATGCCTCTCAATGAGGCTGCACAAGCTCCCGGACCTAGCATGTA
1 -CACGCCTCTCAACGAGGCTACACAAGCTCCCGGACCTAGCATGTA
82434263 TCATGCCATC
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
54 25 0.32
55 2 0.03
56 52 0.66
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (54 bp):
CACGCCTCTCAACGAGGCTACACAAGCTCCCGGACCTAGCATGTACCACATAAT
Found at i:82436199 original size:16 final size:16
Alignment explanation
Indices: 82436139--82436200 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
82436129 TCAATAGAAG
*
82436139 AATTTGCCAAACCACA
1 AATTTGCCAAAACACA
* * *
82436155 AATCTCGCGAAAAGCATA
1 AAT-TTGCCAAAA-CACA
*
82436173 GAATTTACCAAAACACA
1 -AATTTGCCAAAACACA
82436190 AATTTGCCAAA
1 AATTTGCCAAA
82436201 TCATGGAATT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
16 13 0.38
17 9 0.26
18 9 0.26
19 3 0.09
ACGTcount: A:0.47, C:0.24, G:0.10, T:0.19
Consensus pattern (16 bp):
AATTTGCCAAAACACA
Found at i:82438139 original size:24 final size:25
Alignment explanation
Indices: 82438100--82438150 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
82438090 ATTTTTGGAA
*
82438100 AAATTAATTCAGATCAAGTAAAATT
1 AAATTAATTCAAATCAAGTAAAATT
* *
82438125 AAATT-ATTCAAATCAATTATAATT
1 AAATTAATTCAAATCAAGTAAAATT
82438149 AA
1 AA
82438151 TATGATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (25 bp):
AAATTAATTCAAATCAAGTAAAATT
Found at i:82438597 original size:37 final size:36
Alignment explanation
Indices: 82438546--82438621 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
82438536 ATTCTAAAAA
*
82438546 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATTAAA-TTAATAT
*
82438582 TAATACTTATCTTAATAGTATTTTATTAAATTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAAATTAATAT
82438619 TAA
1 TAA
82438622 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAAATTAATAT
Found at i:82438908 original size:37 final size:36
Alignment explanation
Indices: 82438857--82438932 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
82438847 ATTCTAAAAA
*
82438857 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATTAAA-TTAATAT
*
82438893 TAATACTTATCTTAATAGTATTTTATTAAATTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAAATTAATAT
82438930 TAA
1 TAA
82438933 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAAATTAATAT
Found at i:82438935 original size:311 final size:311
Alignment explanation
Indices: 82438372--82438993 Score: 1244
Period size: 311 Copynumber: 2.0 Consensus size: 311
82438362 ACCGAACTGG
82438372 CAGCAGCTGAACCGGCTCGATGTGTCGTAAGGGTGTTGCACTTACATCACCAGATATGGTGGTGC
1 CAGCAGCTGAACCGGCTCGATGTGTCGTAAGGGTGTTGCACTTACATCACCAGATATGGTGGTGC
82438437 CAGTGGTTGTGAGGGCCATGGTTAGTCATCGATGGTTGAGCAGTGAAAAAGTTACGCTGCTATTG
66 CAGTGGTTGTGAGGGCCATGGTTAGTCATCGATGGTTGAGCAGTGAAAAAGTTACGCTGCTATTG
82438502 GGACTCTACTAGAGAATTTGATTTCAGATTAATTATTCTAAAAATAATATTATTTTAATAGTTTA
131 GGACTCTACTAGAGAATTTGATTTCAGATTAATTATTCTAAAAATAATATTATTTTAATAGTTTA
82438567 ATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAAATTAATATTAAAGTGATTAAG
196 ATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAAATTAATATTAAAGTGATTAAG
82438632 TTTAATTATTGTTAAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTAA
261 TTTAATTATTGTTAAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTAA
82438683 CAGCAGCTGAACCGGCTCGATGTGTCGTAAGGGTGTTGCACTTACATCACCAGATATGGTGGTGC
1 CAGCAGCTGAACCGGCTCGATGTGTCGTAAGGGTGTTGCACTTACATCACCAGATATGGTGGTGC
82438748 CAGTGGTTGTGAGGGCCATGGTTAGTCATCGATGGTTGAGCAGTGAAAAAGTTACGCTGCTATTG
66 CAGTGGTTGTGAGGGCCATGGTTAGTCATCGATGGTTGAGCAGTGAAAAAGTTACGCTGCTATTG
82438813 GGACTCTACTAGAGAATTTGATTTCAGATTAATTATTCTAAAAATAATATTATTTTAATAGTTTA
131 GGACTCTACTAGAGAATTTGATTTCAGATTAATTATTCTAAAAATAATATTATTTTAATAGTTTA
82438878 ATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAAATTAATATTAAAGTGATTAAG
196 ATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAAATTAATATTAAAGTGATTAAG
82438943 TTTAATTATTGTTAAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTAA
261 TTTAATTATTGTTAAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTAA
82438994 GTCATTATTT
Statistics
Matches: 311, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
311 311 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (311 bp):
CAGCAGCTGAACCGGCTCGATGTGTCGTAAGGGTGTTGCACTTACATCACCAGATATGGTGGTGC
CAGTGGTTGTGAGGGCCATGGTTAGTCATCGATGGTTGAGCAGTGAAAAAGTTACGCTGCTATTG
GGACTCTACTAGAGAATTTGATTTCAGATTAATTATTCTAAAAATAATATTATTTTAATAGTTTA
ATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAAATTAATATTAAAGTGATTAAG
TTTAATTATTGTTAAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTAA
Found at i:82449899 original size:46 final size:46
Alignment explanation
Indices: 82449832--82449920 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
82449822 GTCTACTATC
82449832 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
* * *
82449878 TTTAAACTCAATATAACAAGTGATTTAAGTCCTATCAGATCCT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCT
82449921 AATATAGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (46 bp):
TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
Found at i:82449904 original size:23 final size:23
Alignment explanation
Indices: 82449832--82449905 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
82449822 GTCTACTATC
*
82449832 TTTAAACTCAATACAACAAGTGA
1 TTTAAACTCAATATAACAAGTGA
* * ** *
82449855 TTT-AAGTC-ATATCACATCCTGTT
1 TTTAAACTCAATATAACA-AGTG-A
82449878 TTTAAACTCAATATAACAAGTGA
1 TTTAAACTCAATATAACAAGTGA
82449901 TTTAA
1 TTTAA
82449906 GTCCTATCAG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 6 0.17
22 6 0.17
23 11 0.31
24 6 0.17
25 7 0.19
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (23 bp):
TTTAAACTCAATATAACAAGTGA
Found at i:82459387 original size:40 final size:39
Alignment explanation
Indices: 82459329--82459418 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 39
82459319 CATTTTTATT
*
82459329 CGTATAAACTATAATTCATTCA-T-ATAACCAGTAGTTCACC
1 CGTATAAAC-ATAATTCA-TCACTAATAA-CAGTAATTCACC
* *
82459369 CGTATAAACAGTAGTTCATCACTAATAACAGTAATTCATC
1 CGTATAAACA-TAATTCATCACTAATAACAGTAATTCACC
*
82459409 CATATAAACA
1 CGTATAAACA
82459419 CATATCTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
39 4 0.09
40 35 0.81
41 4 0.09
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (39 bp):
CGTATAAACATAATTCATCACTAATAACAGTAATTCACC
Found at i:82459418 original size:20 final size:20
Alignment explanation
Indices: 82459331--82459418 Score: 74
Period size: 20 Copynumber: 4.4 Consensus size: 20
82459321 TTTTTATTCG
*
82459331 TATAAACTA-TAATTCATTCA
1 TATAAAC-AGTAATTCATCCA
* * * *
82459351 TATAACCAGTAGTTCACCCG
1 TATAAACAGTAATTCATCCA
*
82459371 TATAAACAGTAGTTCAT-CA
1 TATAAACAGTAATTCATCCA
82459390 CTA-ATAACAGTAATTCATCCA
1 -TATA-AACAGTAATTCATCCA
82459411 TATAAACA
1 TATAAACA
82459419 CATATCTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (20 bp):
TATAAACAGTAATTCATCCA
Found at i:82459611 original size:23 final size:24
Alignment explanation
Indices: 82459562--82459949 Score: 180
Period size: 23 Copynumber: 16.5 Consensus size: 24
82459552 GAGCCATGAT
*
82459562 CAGTAAGCTCCTCTTGAGCTGATAAA
1 CAGTAAGCT-CTATTGAGCTGA-AAA
*
82459588 CAGTAAGCTCTATTGAGTTG-AAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* * *
82459611 CGGTAAGCTCTATCGAACTG--AA
1 CAGTAAGCTCTATTGAGCTGAAAA
* *
82459633 CAATAAGCTCT-TATGAGCT-AAAT
1 CAGTAAGCTCTAT-TGAGCTGAAAA
* ** * * *
82459656 CGGTAATTTCCAATGAGCTAAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* * **
82459680 TAGTAAGCTCTTTTGAGCTG-AGT
1 CAGTAAGCTCTATTGAGCTGAAAA
* * * *
82459703 CGGTAAGCT-TTTTCGAGC-GATGAT
1 CAGTAAGCTCTATT-GAGCTGA-AAA
*
82459727 CAGTAAGCTCCTCTTGAGCTGATAAA
1 CAGTAAGCT-CTATTGAGCTGA-AAA
*
82459753 CAGTAAGCTCTATTGAGTTG-AAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* * *
82459776 CGGTAAGCTCTATCGAACTG--AA
1 CAGTAAGCTCTATTGAGCTGAAAA
* *
82459798 CAATAAGCTCT-TATGAGCT-AAAT
1 CAGTAAGCTCTAT-TGAGCTGAAAA
* * * *
82459821 CGGTAAGCTCCAATGAGCTAAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* **
82459845 CAGTAAGCTCT-TTCGAGCCG-AGT
1 CAGTAAGCTCTATT-GAGCTGAAAA
* * * *
82459868 CGGTAAGCTCCAATAAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
*
82459892 CAGTAAGCTCT-TTCGAGCTG-AAT
1 CAGTAAGCTCTATT-GAGCTGAAAA
* *
82459915 CAGTAAGCTCCAATGAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
*
82459939 TAGTAAGCTCT
1 CAGTAAGCTCT
82459950 TACGAGCTGA
Statistics
Matches: 264, Mismatches: 76, Indels: 46
0.68 0.20 0.12
Matches are distributed among these distances:
21 2 0.01
22 35 0.13
23 112 0.42
24 68 0.26
25 22 0.08
26 25 0.09
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
CAGTAAGCTCTATTGAGCTGAAAA
Found at i:82459820 original size:165 final size:165
Alignment explanation
Indices: 82459548--82459876 Score: 604
Period size: 165 Copynumber: 2.0 Consensus size: 165
82459538 ATTTATGCTC
82459548 TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
1 TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
**
82459613 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATTTCCAATGAGCTAAA
66 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
* * *
82459678 AATAGTAAGCTCTTTTGAGCTGAGTCGGTAAGCTT
131 AACAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCTT
*
82459713 TTTCGAGCGATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
1 TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
82459778 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
66 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
82459843 AACAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCT
131 AACAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCT
82459877 CCAATAAGCT
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 158 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (165 bp):
TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
AACAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCTT
Found at i:82459871 original size:47 final size:47
Alignment explanation
Indices: 82459705--82459974 Score: 228
Period size: 47 Copynumber: 5.7 Consensus size: 47
82459695 AGCTGAGTCG
* * **
82459705 GTAAGCTTTTTCGAG-CGATGATCAGTAAGCTCCTCTTGAGCTGATAAACA
1 GTAAGCTCTTTCGAGCCGA--ATCGGTAAGCTCC-AATGAGCTGA-AAACA
** * * *
82459755 GTAAGCTCTATT-GAGTTGAAACGGTAAGCT-CTATCGAACTG--AACA
1 GTAAGCTCT-TTCGAGCCGAATCGGTAAGCTCCAAT-GAGCTGAAAACA
* ** *
82459800 ATAAGCTCTTAT-GAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACA
1 GTAAGCTCTT-TCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAACA
* *
82459847 GTAAGCTCTTTCGAGCCGAGTCGGTAAGCTCCAATAAGCTGAAAACA
1 GTAAGCTCTTTCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAACA
* * *
82459894 GTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAATGAGCTGAAAATA
1 GTAAGCTCTTTCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAACA
* *
82459941 GTAAGCTCTTACGAGCTGATATACCGGTAAGCTC
1 GTAAGCTCTTTCGAGCCGA-AT--CGGTAAGCTC
82459975 ATACGAGCTG
Statistics
Matches: 182, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 32 0.18
46 4 0.02
47 104 0.57
48 8 0.04
49 9 0.05
50 20 0.11
51 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (47 bp):
GTAAGCTCTTTCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAACA
Found at i:82459898 original size:165 final size:165
Alignment explanation
Indices: 82459562--82459924 Score: 549
Period size: 165 Copynumber: 2.2 Consensus size: 165
82459552 GAGCCATGAT
82459562 CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
1 CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
** *
82459627 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATTTCCAATGAGCTAAAAATAGTAAGCTCTT
66 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTT
* * *** * * *
82459692 TTGAGCTGAGTCGGTAAGCTTTTTCGAGCGATGAT
131 TCGAGCCGAGTCGGTAAGCTCAATCAAGCGATAAA
82459727 CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
1 CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
82459792 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTT
66 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTT
82459857 TCGAGCCGAGTCGGTAAGCTCCAAT-AAGCTGA-AAA
131 TCGAGCCGAGTCGGTAAGCT-CAATCAAGC-GATAAA
*
82459892 CAGTAAGCT-CT-TTCGAGCTG--AATCAGTAAGCTC
1 CAGTAAGCTCCTCTT-GAGCTGATAAACAGTAAGCTC
82459925 CAATGAGCTG
Statistics
Matches: 183, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
162 12 0.07
163 2 0.01
164 8 0.04
165 158 0.86
166 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (165 bp):
CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTT
TCGAGCCGAGTCGGTAAGCTCAATCAAGCGATAAA
Found at i:82459947 original size:24 final size:24
Alignment explanation
Indices: 82459870--82459948 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
82459860 AGCCGAGTCG
* *
82459870 GTAAGCTCCAATAAGCTGAAAACA
1 GTAAGCTCCAATGAGCTGAAAATA
**
82459894 GTAAGCT-CTTTCGAGCTG--AATCA
1 GTAAGCTCCAAT-GAGCTGAAAAT-A
82459917 GTAAGCTCCAATGAGCTGAAAATA
1 GTAAGCTCCAATGAGCTGAAAATA
82459941 GTAAGCTC
1 GTAAGCTC
82459949 TTACGAGCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 2 0.05
23 16 0.36
24 23 0.52
25 3 0.07
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (24 bp):
GTAAGCTCCAATGAGCTGAAAATA
Found at i:82459956 original size:24 final size:24
Alignment explanation
Indices: 82459883--82459959 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
82459873 AGCTCCAATA
* *
82459883 AGCTGAAAACAGTAAGCTCTTTCG
1 AGCTGAAAATAGTAAGCTCTTACG
** *
82459907 AGCTG--AATCAGTAAGCTCCAATG
1 AGCTGAAAAT-AGTAAGCTCTTACG
82459930 AGCTGAAAATAGTAAGCTCTTACG
1 AGCTGAAAATAGTAAGCTCTTACG
82459954 AGCTGA
1 AGCTGA
82459960 TATACCGGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.05
23 15 0.36
24 22 0.52
25 3 0.07
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (24 bp):
AGCTGAAAATAGTAAGCTCTTACG
Found at i:82461255 original size:20 final size:20
Alignment explanation
Indices: 82461232--82461269 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
82461222 TAGGGTTTTA
82461232 GAGTTAT-ATGATGTTACTTG
1 GAGTTATAATG-TGTTACTTG
*
82461252 GAGTTTTAATGTGTTACT
1 GAGTTATAATGTGTTACT
82461270 CTATGGTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (20 bp):
GAGTTATAATGTGTTACTTG
Found at i:82464414 original size:20 final size:20
Alignment explanation
Indices: 82464389--82464426 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
82464379 AAAGCATAAA
*
82464389 ATACCAAGTATCAACAAAAC
1 ATACCAAATATCAACAAAAC
82464409 ATACCAAATATCAACAAA
1 ATACCAAATATCAACAAA
82464427 GTGCATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.03, T:0.16
Consensus pattern (20 bp):
ATACCAAATATCAACAAAAC
Found at i:82469636 original size:20 final size:20
Alignment explanation
Indices: 82469613--82469758 Score: 68
Period size: 20 Copynumber: 7.5 Consensus size: 20
82469603 TTGTACTTCG
* *
82469613 GTGCCCTTGATCGCACTTAT
1 GTGCCCCTGATCGCACTTAC
* *
82469633 GTGCCCCT-ATTGTACTT-C
1 GTGCCCCTGATCGCACTTAC
*
82469651 GGTACCCCTGATCGCACTTAC
1 -GTGCCCCTGATCGCACTTAC
* * *
82469672 GTGCCCTTG-TTGTACTT-C
1 GTGCCCCTGATCGCACTTAC
** * *
82469690 GGTATCGCTGATCGCACTTAT
1 -GTGCCCCTGATCGCACTTAC
* **
82469711 GTGCCCCTG-TCGTACTTTG
1 GTGCCCCTGATCGCACTTAC
* * *
82469730 GTACCCCTGATCGTACTTAT
1 GTGCCCCTGATCGCACTTAC
*
82469750 GTGACCCTG
1 GTGCCCCTG
82469759 TTGTATTTCG
Statistics
Matches: 90, Mismatches: 29, Indels: 14
0.68 0.22 0.11
Matches are distributed among these distances:
18 1 0.01
19 40 0.44
20 48 0.53
21 1 0.01
ACGTcount: A:0.14, C:0.31, G:0.21, T:0.34
Consensus pattern (20 bp):
GTGCCCCTGATCGCACTTAC
Found at i:82469663 original size:39 final size:39
Alignment explanation
Indices: 82469600--82469770 Score: 234
Period size: 39 Copynumber: 4.4 Consensus size: 39
82469590 TAGTAGAAAA
* *
82469600 CTGTTGTACTTCGGTGCCCTTGATCGCACTTATGTGCCC
1 CTGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCC
* *
82469639 CTATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCC
1 CTGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCC
* * *
82469678 TTGTTGTACTTCGGTATCGCTGATCGCACTTATGTGCCC
1 CTGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCC
* * * *
82469717 CTGTCGTACTTTGGTACCCCTGATCGTACTTATGTGACC
1 CTGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCC
*
82469756 CTGTTGTATTTCGGT
1 CTGTTGTACTTCGGT
82469771 TGTCCTGATA
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.13, C:0.29, G:0.22, T:0.37
Consensus pattern (39 bp):
CTGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCC
Found at i:82479201 original size:93 final size:93
Alignment explanation
Indices: 82479089--82479259 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
82479079 GCCCATAAGT
* *
82479089 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
82479154 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
82479182 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
82479247 CGAGTTCGGATGC
66 CGAGCTCGGATGC
82479260 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:82479256 original size:46 final size:46
Alignment explanation
Indices: 82479081--82479256 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
82479071 TGTAACCCGC
* *
82479081 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
82479127 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
82479173 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
82479220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
82479257 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:82486800 original size:12 final size:12
Alignment explanation
Indices: 82486773--82486804 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
82486763 TAAAATAGAA
82486773 TATG-TTTTTCT
1 TATGATTTTTCT
82486784 T-TGATTTTTCT
1 TATGATTTTTCT
82486795 TATGATTTTT
1 TATGATTTTT
82486805 GTGCTTGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 9 0.47
12 8 0.42
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.72
Consensus pattern (12 bp):
TATGATTTTTCT
Found at i:82493930 original size:11 final size:11
Alignment explanation
Indices: 82493903--82493949 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
82493893 TGACCTTTCC
82493903 AAGGTATGGG-
1 AAGGTATGGGA
*
82493913 TAGGTATGGGA
1 AAGGTATGGGA
*
82493924 AAGGTATGGGC
1 AAGGTATGGGA
82493935 AAGGTATGGGCA
1 AAGGTATGGG-A
82493947 AAG
1 AAG
82493950 AATGGGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.29
11 19 0.61
12 3 0.10
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:82493942 original size:22 final size:22
Alignment explanation
Indices: 82493903--82493949 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
82493893 TGACCTTTCC
*
82493903 AAGGTATGGGTAGGTATGGG-A
1 AAGGTATGGGAAGGTATGGGCA
82493924 AAGGTATGGGCAAGGTATGGGCA
1 AAGGTATGGG-AAGGTATGGGCA
82493947 AAG
1 AAG
82493950 AATGGGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (22 bp):
AAGGTATGGGAAGGTATGGGCA
Found at i:82493954 original size:22 final size:22
Alignment explanation
Indices: 82493914--82493955 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
82493904 AGGTATGGGT
*
82493914 AGGTATGGGAAAGGTATGGGCA
1 AGGTATGGGAAAGGAATGGGCA
82493936 AGGTATGGGCAAA-GAATGGG
1 AGGTATGGG-AAAGGAATGGG
82493956 TATATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.05, G:0.45, T:0.17
Consensus pattern (22 bp):
AGGTATGGGAAAGGAATGGGCA
Found at i:82506831 original size:79 final size:79
Alignment explanation
Indices: 82506738--82506970 Score: 459
Period size: 79 Copynumber: 3.0 Consensus size: 79
82506728 TTGAATTTGT
82506738 GTATGTGTATGTGTGAATGAGGGTGGCAAATGGCTTGGTAAATAGCCTTTATTTTGTCCACACGG
1 GTATGTGTATGTGTGAATGAGGGTGGCAAATGGCTTGGTAAATAGCCTTTATTTTGTCCACACGG
82506803 GTAGACACACGCTC
66 GTAGACACACGCTC
82506817 GTATGTGTATGTGTGAATGAGGGTGGCAAATGGCTTGGTAAATAGCCTTTATTTTGTCCACACGG
1 GTATGTGTATGTGTGAATGAGGGTGGCAAATGGCTTGGTAAATAGCCTTTATTTTGTCCACACGG
82506882 GTAGACACACGCTC
66 GTAGACACACGCTC
82506896 GTATGTGTATGTGTGAATGAGGGTGGCAAATGGCTTGGTAAATAGCCTTTATTTTGT-CACACGG
1 GTATGTGTATGTGTGAATGAGGGTGGCAAATGGCTTGGTAAATAGCCTTTATTTTGTCCACACGG
82506960 GTAGACACACG
66 GTAGACACACG
82506971 AGCGTGTGTC
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 18 0.12
79 136 0.88
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (79 bp):
GTATGTGTATGTGTGAATGAGGGTGGCAAATGGCTTGGTAAATAGCCTTTATTTTGTCCACACGG
GTAGACACACGCTC
Found at i:82509191 original size:7 final size:7
Alignment explanation
Indices: 82509181--82509214 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
82509171 AACAGTTAAC
82509181 ATATAAT
1 ATATAAT
82509188 ATATAAT
1 ATATAAT
82509195 ATATAAT
1 ATATAAT
*
82509202 AAATAAT
1 ATATAAT
82509209 AATATA
1 -ATATA
82509215 TTATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
ATATAAT
Found at i:82509318 original size:28 final size:28
Alignment explanation
Indices: 82509278--82509331 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
82509268 ACTGTTCTAA
*
82509278 AATATTTACAAAAAAGACATCTAATTTC
1 AATATTTACAAAAAAGACAACTAATTTC
*
82509306 AATATTTACAAAAAAGGCAACTAATT
1 AATATTTACAAAAAAGACAACTAATT
82509332 ATTGAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.30
Consensus pattern (28 bp):
AATATTTACAAAAAAGACAACTAATTTC
Found at i:82514611 original size:79 final size:82
Alignment explanation
Indices: 82514500--82514684 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
82514490 GCTACTCGTT
* * *
82514500 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
82514563 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
82514580 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
82514643 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
82514660 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
82514685 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:82514684 original size:40 final size:40
Alignment explanation
Indices: 82514481--82514684 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
82514471 CGGAATTTAA
** *
82514481 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
82514521 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
82514561 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
82514600 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
82514640 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
82514680 CCGGA
1 CCGGA
82514685 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:82527217 original size:42 final size:42
Alignment explanation
Indices: 82527090--82527219 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
82527080 ACACATAGTA
* ***
82527090 TCATATCAATGCCATATCCCAGATATGGTCTTACATGGGGTC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACGTAATC
* * *
82527132 TCATATCAATGCCAATAGCCTAGCTATGGTCTTACAC-TAAATC
1 TCATATCAATGCC-ATATCCCAGATATGGTCTTACACGT-AATC
* *
82527175 TCATATCGATGCCATATCCCAGATATGGTCCTACACGTAATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACGTAATC
82527217 TCA
1 TCA
82527220 ACTAACCTTA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 39 0.53
43 34 0.47
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCATATCAATGCCATATCCCAGATATGGTCTTACACGTAATC
Found at i:82535443 original size:46 final size:46
Alignment explanation
Indices: 82535383--82535832 Score: 711
Period size: 46 Copynumber: 10.0 Consensus size: 46
82535373 TTTGACATGA
* * * * * *
82535383 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** *
82535429 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
82535475 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
82535521 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * * *
82535559 TGCCATGGCATCTTTCGACCATGGTCTTACACATTTCCTGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
82535605 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
82535651 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
82535697 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
82535743 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
82535789 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
82535833 AGAGCACACT
Statistics
Matches: 379, Mismatches: 16, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
38 31 0.08
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 4 0.01
46 335 0.88
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:82543229 original size:40 final size:40
Alignment explanation
Indices: 82543185--82543446 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
82543175 GCTCCTCGTT
* *
82543185 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
82543225 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
82543265 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
82543304 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
82543343 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
82543382 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
82543423 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
82543447 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:82561622 original size:24 final size:24
Alignment explanation
Indices: 82561591--82561636 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
82561581 AGTTTATCGA
**
82561591 AAAGGGCTTTGCC-CCAGTTATTT
1 AAAGGGCTAGGCCTCCAGTTATTT
82561614 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCCTCCAGTTAT
82561637 ATGATAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTAGGCCTCCAGTTATTT
Found at i:82562992 original size:26 final size:26
Alignment explanation
Indices: 82562960--82563015 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
82562950 AAATTAAAAG
82562960 AAAAGAAAAACAAACGAA-GAAGAAGA
1 AAAAGAAAAA-AAACGAATGAAGAAGA
* * *
82562986 AAAAGAAAGAAAAGGAATGAAGGAGA
1 AAAAGAAAAAAAACGAATGAAGAAGA
82563012 AAAA
1 AAAA
82563016 AGATACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.02
Consensus pattern (26 bp):
AAAAGAAAAAAAACGAATGAAGAAGA
Found at i:82571642 original size:611 final size:611
Alignment explanation
Indices: 82570479--82571700 Score: 2444
Period size: 611 Copynumber: 2.0 Consensus size: 611
82570469 CTTCCAGAAC
82570479 TTTTCTGGAATACAGAACCACACGCCAGGAATTACTTGAAGGAAGGCAGACGATCTATCCCAAAA
1 TTTTCTGGAATACAGAACCACACGCCAGGAATTACTTGAAGGAAGGCAGACGATCTATCCCAAAA
82570544 GCCGGAGCTATTTCAAGACTGAAGATCTCTCTCAGAATTCTTTCAGGGGTTTTAGAGTTTTCTTC
66 GCCGGAGCTATTTCAAGACTGAAGATCTCTCTCAGAATTCTTTCAGGGGTTTTAGAGTTTTCTTC
82570609 ATGTTTTGTTATTTTTATACTTTTGAGATGTACTCTTATTTTATTATGAACTAAACCCCTTAGAT
131 ATGTTTTGTTATTTTTATACTTTTGAGATGTACTCTTATTTTATTATGAACTAAACCCCTTAGAT
82570674 ACCTAAGGGGGATAAAACCTATGATGGATCTTGTTATTATTATCTGAACTCTATGATAAATACTT
196 ACCTAAGGGGGATAAAACCTATGATGGATCTTGTTATTATTATCTGAACTCTATGATAAATACTT
82570739 GATTTGTTCTTAATTATGTATTCTTCATGCTTGAGTTAATATTCTGGGTATTAATTCATGATTTG
261 GATTTGTTCTTAATTATGTATTCTTCATGCTTGAGTTAATATTCTGGGTATTAATTCATGATTTG
82570804 ATGTGCTTATGCAGAGGAGGAATAAACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTT
326 ATGTGCTTATGCAGAGGAGGAATAAACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTT
82570869 GATCGAACGCCGAGAAATAGGGTTATGAGATTTTGCCGGATTAGGGTGAAACCTAATATGGGAGT
391 GATCGAACGCCGAGAAATAGGGTTATGAGATTTTGCCGGATTAGGGTGAAACCTAATATGGGAGT
82570934 CCATAGAGTGATTTACTGCTTCCCTAGGAGTTTTAATTAAGAAAGAAATTTTGATTAATTCAACT
456 CCATAGAGTGATTTACTGCTTCCCTAGGAGTTTTAATTAAGAAAGAAATTTTGATTAATTCAACT
82570999 GAGGGTTAGACGTTATTAGTCTCGAAAGGGATAATAACATAGGTTAGGGAATCTCACGGATCAAG
521 GAGGGTTAGACGTTATTAGTCTCGAAAGGGATAATAACATAGGTTAGGGAATCTCACGGATCAAG
82571064 TCAAGTGAATGAATCATCTGGTTCAA
586 TCAAGTGAATGAATCATCTGGTTCAA
82571090 TTTTCTGGAATACAGAACCACACGCCAGGAATTACTTGAAGGAAGGCAGACGATCTATCCCAAAA
1 TTTTCTGGAATACAGAACCACACGCCAGGAATTACTTGAAGGAAGGCAGACGATCTATCCCAAAA
82571155 GCCGGAGCTATTTCAAGACTGAAGATCTCTCTCAGAATTCTTTCAGGGGTTTTAGAGTTTTCTTC
66 GCCGGAGCTATTTCAAGACTGAAGATCTCTCTCAGAATTCTTTCAGGGGTTTTAGAGTTTTCTTC
82571220 ATGTTTTGTTATTTTTATACTTTTGAGATGTACTCTTATTTTATTATGAACTAAACCCCTTAGAT
131 ATGTTTTGTTATTTTTATACTTTTGAGATGTACTCTTATTTTATTATGAACTAAACCCCTTAGAT
82571285 ACCTAAGGGGGATAAAACCTATGATGGATCTTGTTATTATTATCTGAACTCTATGATAAATACTT
196 ACCTAAGGGGGATAAAACCTATGATGGATCTTGTTATTATTATCTGAACTCTATGATAAATACTT
82571350 GATTTGTTCTTAATTATGTATTCTTCATGCTTGAGTTAATATTCTGGGTATTAATTCATGATTTG
261 GATTTGTTCTTAATTATGTATTCTTCATGCTTGAGTTAATATTCTGGGTATTAATTCATGATTTG
82571415 ATGTGCTTATGCAGAGGAGGAATAAACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTT
326 ATGTGCTTATGCAGAGGAGGAATAAACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTT
82571480 GATCGAACGCCGAGAAATAGGGTTATGAGATTTTGCCGGATTAGGGTGAAACCTAATATGGGAGT
391 GATCGAACGCCGAGAAATAGGGTTATGAGATTTTGCCGGATTAGGGTGAAACCTAATATGGGAGT
82571545 CCATAGAGTGATTTACTGCTTCCCTAGGAGTTTTAATTAAGAAAGAAATTTTGATTAATTCAACT
456 CCATAGAGTGATTTACTGCTTCCCTAGGAGTTTTAATTAAGAAAGAAATTTTGATTAATTCAACT
82571610 GAGGGTTAGACGTTATTAGTCTCGAAAGGGATAATAACATAGGTTAGGGAATCTCACGGATCAAG
521 GAGGGTTAGACGTTATTAGTCTCGAAAGGGATAATAACATAGGTTAGGGAATCTCACGGATCAAG
82571675 TCAAGTGAATGAATCATCTGGTTCAA
586 TCAAGTGAATGAATCATCTGGTTCAA
82571701 AGTCAAATAA
Statistics
Matches: 611, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
611 611 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (611 bp):
TTTTCTGGAATACAGAACCACACGCCAGGAATTACTTGAAGGAAGGCAGACGATCTATCCCAAAA
GCCGGAGCTATTTCAAGACTGAAGATCTCTCTCAGAATTCTTTCAGGGGTTTTAGAGTTTTCTTC
ATGTTTTGTTATTTTTATACTTTTGAGATGTACTCTTATTTTATTATGAACTAAACCCCTTAGAT
ACCTAAGGGGGATAAAACCTATGATGGATCTTGTTATTATTATCTGAACTCTATGATAAATACTT
GATTTGTTCTTAATTATGTATTCTTCATGCTTGAGTTAATATTCTGGGTATTAATTCATGATTTG
ATGTGCTTATGCAGAGGAGGAATAAACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTT
GATCGAACGCCGAGAAATAGGGTTATGAGATTTTGCCGGATTAGGGTGAAACCTAATATGGGAGT
CCATAGAGTGATTTACTGCTTCCCTAGGAGTTTTAATTAAGAAAGAAATTTTGATTAATTCAACT
GAGGGTTAGACGTTATTAGTCTCGAAAGGGATAATAACATAGGTTAGGGAATCTCACGGATCAAG
TCAAGTGAATGAATCATCTGGTTCAA
Found at i:82571831 original size:13 final size:13
Alignment explanation
Indices: 82571798--82571838 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
82571788 CTCTTTGCTT
* *
82571798 TAATTAGATTAGT
1 TAATTAGTTTAGA
82571811 TAATTAGTTTAGA
1 TAATTAGTTTAGA
82571824 TAATTAGTTTA-A
1 TAATTAGTTTAGA
82571836 TAA
1 TAA
82571839 ACAAACCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (13 bp):
TAATTAGTTTAGA
Found at i:82572716 original size:227 final size:227
Alignment explanation
Indices: 82572321--82572774 Score: 899
Period size: 227 Copynumber: 2.0 Consensus size: 227
82572311 CGATACTCAA
82572321 CACCCAACCGACGAGATGGCTGAAAACCAAGGCAATCAGCTACCTACTGCAATTGTGACAAATCA
1 CACCCAACCGACGAGATGGCTGAAAACCAAGGCAATCAGCTACCTACTGCAATTGTGACAAATCA
82572386 AAATCCTGCTCCACGTACTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTGAATCTAGCA
66 AAATCCTGCTCCACGTACTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTGAATCTAGCA
82572451 TAGTTAAACCTGCTGTAGCTGCAAATACTTTTGTATTAAAACCTAACACTATTCAGATGATACAG
131 TAGTTAAACCTGCTGTAGCTGCAAATACTTTTGTATTAAAACCTAACACTATTCAGATGATACAG
*
82572516 TAGTTTATTCAGTTTGATGGTTTGCAGGATGG
196 TAGTTCATTCAGTTTGATGGTTTGCAGGATGG
82572548 CACCCAACCGACGAGATGGCTGAAAACCAAGGCAATCAGCTACCTACTGCAATTGTGACAAATCA
1 CACCCAACCGACGAGATGGCTGAAAACCAAGGCAATCAGCTACCTACTGCAATTGTGACAAATCA
82572613 AAATCCTGCTCCACGTACTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTGAATCTAGCA
66 AAATCCTGCTCCACGTACTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTGAATCTAGCA
82572678 TAGTTAAACCTGCTGTAGCTGCAAATACTTTTGTATTAAAACCTAACACTATTCAGATGATACAG
131 TAGTTAAACCTGCTGTAGCTGCAAATACTTTTGTATTAAAACCTAACACTATTCAGATGATACAG
82572743 TAGTTCATTCAGTTTGATGGTTTGCAGGATGG
196 TAGTTCATTCAGTTTGATGGTTTGCAGGATGG
82572775 AGATCCCAAC
Statistics
Matches: 226, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 226 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (227 bp):
CACCCAACCGACGAGATGGCTGAAAACCAAGGCAATCAGCTACCTACTGCAATTGTGACAAATCA
AAATCCTGCTCCACGTACTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTGAATCTAGCA
TAGTTAAACCTGCTGTAGCTGCAAATACTTTTGTATTAAAACCTAACACTATTCAGATGATACAG
TAGTTCATTCAGTTTGATGGTTTGCAGGATGG
Found at i:82589274 original size:6 final size:6
Alignment explanation
Indices: 82589263--82589302 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
82589253 TCCTCCTATC
*
82589263 TTTTTA TTTTTA TTTTTA TTTTCA TTTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
82589303 TTGAAAGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:82604613 original size:48 final size:48
Alignment explanation
Indices: 82604507--82604669 Score: 170
Period size: 48 Copynumber: 3.4 Consensus size: 48
82604497 CTGACGCCAA
* * * * * *
82604507 GTCCCAGACAGGACTCACACTAGCTTATATATCGCGAGGCTGATGCAT
1 GTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTGATGCAT
*
82604555 GTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTGATGCAT
* ** * * * *
82604603 GTCCCAGACATGCCTTACTGTGGCTCT-CAT-GCT-GTGGCTAATGCAT
1 GTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCTGATGCAT
82604649 GTCCCAGACATGTCTTACACT
1 GTCCCAGACATGTCTTACACT
82604670 AGCACACATA
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
46 28 0.29
47 2 0.02
48 65 0.68
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTGATGCAT
Found at i:82607993 original size:16 final size:17
Alignment explanation
Indices: 82607951--82607997 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
82607941 ATTTTATCTC
*
82607951 ATGATATTTTTAAAATTA
1 ATGA-ATTTTTAAAATAA
*
82607969 ATTAA-TTTTAAAA-AA
1 ATGAATTTTTAAAATAA
82607984 ATGAATTTTTAAAA
1 ATGAATTTTTAAAA
82607998 CCCACACGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 1 0.04
18 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
ATGAATTTTTAAAATAA
Found at i:82609067 original size:5 final size:5
Alignment explanation
Indices: 82609057--82609103 Score: 78
Period size: 5 Copynumber: 9.6 Consensus size: 5
82609047 CCCTATGTTC
*
82609057 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT GTTAT TTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
82609104 CTAAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:82610729 original size:5 final size:5
Alignment explanation
Indices: 82610719--82610788 Score: 54
Period size: 5 Copynumber: 13.4 Consensus size: 5
82610709 TTGAGTTCAC
*
82610719 TTATT TTATT TTCTT TTAATT TTAATTT TTATT TTATT TATATT TATATT
1 TTATT TTATT TTATT TT-ATT TT-A-TT TTATT TTATT T-TATT T-TATT
* *
82610769 TT-TT TT-GT TTATT GTATT TT
1 TTATT TTATT TTATT TTATT TT
82610789 CCTAAACTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
4 7 0.13
5 26 0.47
6 18 0.33
7 4 0.07
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:82610763 original size:23 final size:24
Alignment explanation
Indices: 82610722--82610781 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
82610712 AGTTCACTTA
*
82610722 TTTTATTTTCTTTTAATTT-TAAT
1 TTTTATTTTATTTTAATTTATAAT
*
82610745 TTTTATTTTA-TTTATATTTATATT
1 TTTTATTTTATTTTA-ATTTATAAT
*
82610769 TTTTTTGTTTATT
1 TTTTAT-TTTATT
82610782 GTATTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.13
23 13 0.43
24 8 0.27
25 4 0.13
26 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTATTTTATTTTAATTTATAAT
Found at i:82617926 original size:47 final size:47
Alignment explanation
Indices: 82617863--82618098 Score: 391
Period size: 47 Copynumber: 5.0 Consensus size: 47
82617853 ATGATAGTAT
82617863 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
82617910 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
82617957 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
82618004 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * *
82618051 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
82618098 G
1 G
82618099 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 179 1.00
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:82622911 original size:47 final size:46
Alignment explanation
Indices: 82622841--82623201 Score: 281
Period size: 47 Copynumber: 7.7 Consensus size: 46
82622831 GATTTGTGCA
* * *
82622841 CCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACATTATGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGATAG
* * * * **
82622887 CAAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATCAAGAAGAGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CAATATGATAG
* * * *
82622935 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGATAG
* *
82622981 CCAGTGTAAGACCATGTCTGGGACATGGCATTGG-CACAGAGATGAGT-G
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-ATATGA-TAG
*
82623029 CCAGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAC-AGA-GATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATC-GGC-C-ACAATATGATAG
* * **
82623076 CCAGTGTAAGACGTGTCTGGGACACGCATCGGGTA-AGAGT-TG-T-G
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-A-TATGATAG
* * * * * *
82623120 CTAGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-CAC-AATATGATAG
82623168 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
82623202 TAATATATCC
Statistics
Matches: 249, Mismatches: 41, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
44 29 0.12
45 3 0.01
46 43 0.17
47 95 0.38
48 56 0.22
49 15 0.06
50 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGATAG
Found at i:82623004 original size:94 final size:94
Alignment explanation
Indices: 82622843--82623200 Score: 378
Period size: 94 Copynumber: 3.8 Consensus size: 94
82622833 TTTGTGCACC
* * * * * *
82622843 AGTGTAAGACGTGTCTGGGACATGCTTCGGC-CACATTATGATAGCAAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGCATACTATGATAGCCAGTGTAAGACCATGTCTG
*
82622907 GGACATGGCATCAGCATCAAGAAGAGGGCT
66 GGACATGGCATC-GCATCAAGAAGAGTGCT
82622937 AGTGTAAGACATGTCTGGGACATGCATCAGC-CATACTATGATAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGCATACTATGATAGCCAGTGTAAGACCATGTCTG
* * *
82623001 GGACATGGCATTGGCA-CAGAGATGAGTGCC
66 GGACATGGCA-TCGCATCA-AGAAGAGTGCT
* * *
82623031 AGTGTAAGACATGTCTGGGACATGCATC-GGGC-TCGAC-AGAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGCAT--ACTA-TGATAGCCAGTGTAAGACCATGT
* ** *
82623092 CTGGGACA-CGCATCGGGT-AAG-AGTTGTGCT
63 CTGGGACATGGCATCGCATCAAGAAG-AGTGCT
* * *
82623122 AGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--CGCATACTATGATAGCCAGTGTAAGACCATGTC
82623186 TGGGACATGGCATCG
64 TGGGACATGGCATCG
82623201 GTAATATATC
Statistics
Matches: 223, Mismatches: 26, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
90 1 0.00
91 33 0.15
92 19 0.09
93 21 0.09
94 129 0.58
95 20 0.09
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCGCATACTATGATAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGCATCAAGAAGAGTGCT
Found at i:82623094 original size:141 final size:141
Alignment explanation
Indices: 82622841--82623201 Score: 348
Period size: 141 Copynumber: 2.6 Consensus size: 141
82622831 GATTTGTGCA
* * * * * * *
82622841 CCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCAC-A-T-TATGATAGCAAGTGTAAGACCATG
1 CCAGTGTAAGACATGTCTAGGACATGCATCAG-CACGAGTAGATGAGAGCCAGTGTAAGACCATG
* * * *
82622903 TCTGGGACATGGCATC-AGCATCAAGAAGAGGGCTAGTGTAAGACATGTCTGGGACATGCATC-A
65 TCTGGGACATGGCATCGGGCATCAAGAAGAGAGCCAGTGTAAGACATGTCTGGGACACGCATCGA
* *
82622966 GCCATACTATGATAG
130 GCAAGACT-TG-T-G
* ** *
82622981 CCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-AG-AGATGAGTGCCAGTGTAAGA-CAT
1 CCAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCACGAGTAGATGAGAGCCAGTGTAAGACCAT
* *
82623043 GTCTGGGACAT-GCATCGGGC-TCGACAG-AGATAGCCAGTGTAAGACGTGTCTGGGACACGCAT
64 GTCTGGGACATGGCATCGGGCATC-A-AGAAGAGAGCCAGTGTAAGACATGTCTGGGACACGCAT
* * *
82623105 CGGGTAAGAGTTGTG
127 CGAGCAAGACTTGTG
* * *
82623120 CTAGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATGT
1 CCAGTGTAAGACATGTCTAGGACATGCATCAGCACGAGTAGATGAGAGCCAGTGTAAGACCATGT
82623185 CTGGGACATGGCATCGG
66 CTGGGACATGGCATCGG
82623202 TAATATATCC
Statistics
Matches: 184, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
137 8 0.04
138 14 0.08
139 29 0.16
140 33 0.18
141 74 0.40
142 26 0.14
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (141 bp):
CCAGTGTAAGACATGTCTAGGACATGCATCAGCACGAGTAGATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGGCATCAAGAAGAGAGCCAGTGTAAGACATGTCTGGGACACGCATCGAG
CAAGACTTGTG
Found at i:82623923 original size:43 final size:43
Alignment explanation
Indices: 82623858--82623939 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
82623848 CTAGTTTGTC
*
82623858 CACACGGGTAAGACACACGGGCGTGTGTCTA-GGCCGTGTATGA
1 CACACGGGTAACACACACGGGCGTGTGT-TATGGCCGTGTATGA
* * *
82623901 CACACGGTTAACACCCATGGGCGTGTGTTATGGCCGTGT
1 CACACGGGTAACACACACGGGCGTGTGTTATGGCCGTGT
82623940 GTCCCCTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.22
Consensus pattern (43 bp):
CACACGGGTAACACACACGGGCGTGTGTTATGGCCGTGTATGA
Found at i:82630597 original size:93 final size:93
Alignment explanation
Indices: 82630443--82630796 Score: 351
Period size: 93 Copynumber: 3.9 Consensus size: 93
82630433 TTTATGCGCC
* * *
82630443 AGTGTAAGACGTGTCTGGGACATGC--CA---C-ATTATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGCTACTATGATAGCCAGTGTAAGACCATGTCTGG
* *
82630502 GACATGGCATCGGCATCTAGACGAGGGCT
66 GACATGGCATCGGCATCAAGA-GAGTGCT
* *
82630531 AGTGTAAGACATGTTTGGGA-ATGCATCAGC-CATACTATGATAGCCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGC-TACTATGATAGCCAGTGTAAGACCATGTCTG
*
82630594 GGACATGGCATCGGCA-CAGAGATGAGTGCC
65 GGACATGGCATCGGCATCA-AGA-GAGTGCT
* * * * * *
82630624 AGTGTAAGACATGTCTGGGACATGCATC-GGGCTCGACAAAGATAGCCAATGTAAGA-CGTGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGCT--ACTATGATAGCCAGTGTAAGACCATGTCT
* *
82630687 GGGACA-GGCATCAGC-T-AAGAGTTGTGCT
64 GGGACATGGCATCGGCATCAAGAG-AGTGCT
* *
82630715 AGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--CGC-TACTATGATAGCCAGTGTAAGACCATGTC
82630779 TGGGACATGGCATCGGCA
63 TGGGACATGGCATCGGCA
82630797 ATATATCCCA
Statistics
Matches: 219, Mismatches: 27, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
87 4 0.02
88 18 0.08
89 2 0.01
90 1 0.00
91 35 0.16
92 18 0.08
93 92 0.42
94 30 0.14
95 19 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCGCTACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:82630677 original size:47 final size:43
Alignment explanation
Indices: 82630476--82630796 Score: 171
Period size: 47 Copynumber: 6.9 Consensus size: 43
82630466 GCCACATTAT
* * *
82630476 GATAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGAC
1 GATAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCA-C-A-AA
** * *
82630524 GAGGGCTAGTGTAAGACATGTTTGGGA-ATGCATCAGC-CATACTA
1 GATAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCACA-A--A
*
82630568 TGATAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGA
1 -GATAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCACAAA
*
82630614 GATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCTCGACAAA
1 GAT-A--GCCAGTGTAAGACATGTTTGGGACATGCATC-GG--C-ACAAA
* * * * *
82630664 GATAGCCAATGTAAGACGTGTTTGGGACAGGCATCAGCTA-AGA
1 GATAGCCAGTGTAAGACATGTTTGGGACATGCATCGGC-ACAAA
* * * * * * *
82630707 GTTGTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTATAT
1 GAT-AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCA--C--A-AA
* *
82630756 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GATAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCA
82630797 ATATATCCCA
Statistics
Matches: 214, Mismatches: 36, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.01
43 6 0.03
44 30 0.14
45 23 0.11
46 21 0.10
47 54 0.25
48 45 0.21
49 18 0.08
50 15 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (43 bp):
GATAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCACAAA
Found at i:82633708 original size:47 final size:47
Alignment explanation
Indices: 82633650--82634138 Score: 888
Period size: 47 Copynumber: 10.4 Consensus size: 47
82633640 CAGCCAAGAC
82633650 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82633697 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82633744 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82633791 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82633838 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82633885 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82633932 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82633979 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
82634026 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *** * * * *
82634073 AGTGTATATATGTGACAGGGCCGGGTGGCCAACGTGGTGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
82634120 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
82634139 TCCCGAAGGG
Statistics
Matches: 430, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 430 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:82634313 original size:37 final size:37
Alignment explanation
Indices: 82634257--82634335 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
82634247 CCGAGCTCTA
* * *
82634257 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
82634294 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
82634331 AAGAC
1 AAGAC
82634336 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:82635830 original size:7 final size:7
Alignment explanation
Indices: 82635818--82635844 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
82635808 TAATAATGCC
82635818 GATAAAT
1 GATAAAT
82635825 GATAAAT
1 GATAAAT
82635832 GATAAAT
1 GATAAAT
82635839 GATAAA
1 GATAAA
82635845 AATGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:82636200 original size:57 final size:58
Alignment explanation
Indices: 82636071--82636214 Score: 145
Period size: 57 Copynumber: 2.5 Consensus size: 58
82636061 ACCTTATTAC
* * * *
82636071 AAAAAGGATTTAGCTCAGACGGGTAATCCTGATATTAGTCCTCTCGAGCATATGTTATGG
1 AAAAAGGATTTAGCCCAGACGGGTAATCCAGATA-TAGTCCTCTAGAGCATATGTCAT-G
**
82636131 ACTAA--ATTTAGCCCAGACGGGTAATCCAGATCA-AGCTCCT-TAGAGCATATGTCAT-
1 AAAAAGGATTTAGCCCAGACGGGTAATCCAGAT-ATAG-TCCTCTAGAGCATATGTCATG
* *
82636186 AAAAAGGATTTAGCCTAGACTGGTAATCC
1 AAAAAGGATTTAGCCCAGACGGGTAATCC
82636215 TGTTGTATAC
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
55 3 0.04
57 35 0.50
58 28 0.40
59 1 0.01
60 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (58 bp):
AAAAAGGATTTAGCCCAGACGGGTAATCCAGATATAGTCCTCTAGAGCATATGTCATG
Found at i:82638021 original size:39 final size:39
Alignment explanation
Indices: 82637967--82638092 Score: 182
Period size: 39 Copynumber: 3.2 Consensus size: 39
82637957 TTCAGTGATG
*
82637967 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGAAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGAAAT
*
82638006 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGAAAT
* * *
82638045 TATATCCGGAGTTAAGGTCCGCAGGCTACGTGCTGGAAA-
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCT-GAAAT
*
82638084 TATGTCCGG
1 TATATCCGG
82638093 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 76 0.96
40 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGAAAT
Found at i:82638106 original size:39 final size:38
Alignment explanation
Indices: 82637982--82638119 Score: 143
Period size: 39 Copynumber: 3.6 Consensus size: 38
82637972 CCAGACTTAG
* * *
82637982 GGTCCGCAGGCTATGTGCT-GAAATTATATCCGGACTTAG
1 GGTCCGCAGGCTACGTGCTGGAAA-TATATCCGGGC-TAA
* * *
82638021 GGTCCGCAGGCTATGTGCTGGAATTATATCCGGAGTTAA
1 GGTCCGCAGGCTACGTGCTGGAAATATATCCGG-GCTAA
*
82638060 GGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAA
1 GGTCCGCAGGCTACGTGCTGGAAATATATCCGGGCTAA
* * *
82638098 AGTCCCGCAGGCTTCGAGCTGG
1 GGT-CCGCAGGCTACGTGCTGG
82638120 TATTATACTA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 6 0.07
39 76 0.89
40 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (38 bp):
GGTCCGCAGGCTACGTGCTGGAAATATATCCGGGCTAA
Found at i:82638106 original size:78 final size:78
Alignment explanation
Indices: 82637967--82638110 Score: 184
Period size: 78 Copynumber: 1.8 Consensus size: 78
82637957 TTCAGTGATG
* * **
82637967 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGAAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGAAATTATATCCGGACTTAAAGTCCGCAGGC
82638032 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * * *
82638045 TATATCCGGAGTTAAGGTCCGCAGGCTACGTGCTGGAAA-TATGTCCGGGC-TAAAGTCCCGCAG
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCT-GAAATTATATCCGGACTTAAAGT-CCGCAG
82638108 GCT
64 GCT
82638111 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
77 4 0.07
78 48 0.86
79 4 0.07
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGAAATTATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:82639730 original size:21 final size:21
Alignment explanation
Indices: 82639705--82639756 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
82639695 CCTATAGCAC
*
82639705 GGCGTGTCCTAGGGTCACACG
1 GGCGTGTCCCAGGGTCACACG
82639726 GGCGTGTCCCAGGGTCACACG
1 GGCGTGTCCCAGGGTCACACG
*
82639747 GGTGTGTCCC
1 GGCGTGTCCC
82639757 TCAAACCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.31, G:0.38, T:0.19
Consensus pattern (21 bp):
GGCGTGTCCCAGGGTCACACG
Found at i:82639949 original size:12 final size:12
Alignment explanation
Indices: 82639929--82639958 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
82639919 AGTTTACATG
*
82639929 AATTATCTGAAA
1 AATTTTCTGAAA
82639941 AATTTTCTGAAA
1 AATTTTCTGAAA
82639953 AATTTT
1 AATTTT
82639959 GGTAACACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
AATTTTCTGAAA
Found at i:82648701 original size:31 final size:31
Alignment explanation
Indices: 82648659--82648735 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
82648649 TAAACCTTTC
* *
82648659 AAAGTGTTCAAATAAGGGACAAA-AGTTTTTG
1 AAAGTGCTCAAATAAGAGACAAATA-TTTTTG
*
82648690 AAAGTGCTCAAATAAGAGCCAAATATTTTTG
1 AAAGTGCTCAAATAAGAGACAAATATTTTTG
82648721 AAAGTGCTCAAATAA
1 AAAGTGCTCAAATAA
82648736 CGGCTTCTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.27
Consensus pattern (31 bp):
AAAGTGCTCAAATAAGAGACAAATATTTTTG
Found at i:82649120 original size:17 final size:18
Alignment explanation
Indices: 82649098--82649131 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82649088 TAATTGTAAT
82649098 TTAAAT-TCTAATTATTC
1 TTAAATATCTAATTATTC
*
82649115 TTAAATATGTAATTATT
1 TTAAATATCTAATTATT
82649132 ATAATTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAAATATCTAATTATTC
Found at i:82653644 original size:28 final size:28
Alignment explanation
Indices: 82653613--82653669 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
82653603 AAGAATGTTA
82653613 TATTTAGGTTTGTGTCAAATAAAAGTAT
1 TATTTAGGTTTGTGTCAAATAAAAGTAT
82653641 TATTTAGGTTTGTGTCAAATAAAAGTAT
1 TATTTAGGTTTGTGTCAAATAAAAGTAT
82653669 T
1 T
82653670 CTTTTTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.44
Consensus pattern (28 bp):
TATTTAGGTTTGTGTCAAATAAAAGTAT
Found at i:82653676 original size:24 final size:26
Alignment explanation
Indices: 82653620--82653679 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
82653610 TTATATTTAG
*
82653620 GTTTGTGTCAAATAAAAGTATTATTT
1 GTTTGTGTCAAATAAAAGTATTACTT
82653646 AGGTTTGTGTCAAATAAAAGTATT-CTT
1 --GTTTGTGTCAAATAAAAGTATTACTT
82653673 -TTTGTGT
1 GTTTGTGT
82653680 ATTTCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
27 2 0.06
28 22 0.71
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (26 bp):
GTTTGTGTCAAATAAAAGTATTACTT
Found at i:82657107 original size:15 final size:15
Alignment explanation
Indices: 82657087--82657116 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
82657077 AACTCGAATC
82657087 GTTACCAATTCGAGT
1 GTTACCAATTCGAGT
82657102 GTTACCAATTCGAGT
1 GTTACCAATTCGAGT
82657117 CTGAGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
GTTACCAATTCGAGT
Found at i:82657207 original size:26 final size:26
Alignment explanation
Indices: 82657171--82657223 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
82657161 GAGCTCGTCA
82657171 TAGTTCTGAGCCCAAGATCAATTTGG
1 TAGTTCTGAGCCCAAGATCAATTTGG
*
82657197 TAGTTCTGAGCCTAAGATCAATTTGG
1 TAGTTCTGAGCCCAAGATCAATTTGG
82657223 T
1 T
82657224 TTGTGTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (26 bp):
TAGTTCTGAGCCCAAGATCAATTTGG
Found at i:82657620 original size:15 final size:15
Alignment explanation
Indices: 82657602--82657651 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
82657592 AACTATAAAT
* *
82657602 ATATTATATTATATG
1 ATATAATATTATATA
* *
82657617 ATATGATATGATATA
1 ATATAATATTATATA
*
82657632 ATATAACATTATATA
1 ATATAATATTATATA
82657647 ATATA
1 ATATA
82657652 GTAGGAGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (15 bp):
ATATAATATTATATA
Found at i:82661586 original size:27 final size:27
Alignment explanation
Indices: 82661548--82661601 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
82661538 TATTAACTTA
82661548 TTCAAAAGATTGAGTAAAACTAAAATT
1 TTCAAAAGATTGAGTAAAACTAAAATT
*
82661575 TTCAAAAGATTGAGTAAAGCTAAAATT
1 TTCAAAAGATTGAGTAAAACTAAAATT
82661602 AACTAAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (27 bp):
TTCAAAAGATTGAGTAAAACTAAAATT
Found at i:82663616 original size:39 final size:39
Alignment explanation
Indices: 82663562--82663639 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
82663552 GTGGGAATGA
*
82663562 ATACTAAAAATAGCAACTAAGTTTCATCCATTCAATCTC
1 ATACTAAAAATAGCAACTAACTTTCATCCATTCAATCTC
82663601 ATACTAAAAATAGCAACTAACTTTCATCCATTCAATCTC
1 ATACTAAAAATAGCAACTAACTTTCATCCATTCAATCTC
82663640 CCTTGGCCAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (39 bp):
ATACTAAAAATAGCAACTAACTTTCATCCATTCAATCTC
Found at i:82666579 original size:23 final size:23
Alignment explanation
Indices: 82666553--82666603 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
82666543 TGATTTTTAA
*
82666553 ATTTTCAATTATTTAGCGATAAT
1 ATTTACAATTATTTAGCGATAAT
** *
82666576 ATTTAGGATTATTTAGTGATAAT
1 ATTTACAATTATTTAGCGATAAT
82666599 ATTTA
1 ATTTA
82666604 GGAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTACAATTATTTAGCGATAAT
Found at i:82666580 original size:13 final size:12
Alignment explanation
Indices: 82666562--82666615 Score: 60
Period size: 13 Copynumber: 4.6 Consensus size: 12
82666552 AATTTTCAAT
82666562 TATTTAGCGATAA
1 TATTTAG-GATAA
82666575 TATTTAGGAT--
1 TATTTAGGATAA
82666585 TATTTAGTGATAA
1 TATTTAG-GATAA
*
82666598 TATTTAGGAAAA
1 TATTTAGGATAA
82666610 T-TTTAG
1 TATTTAG
82666616 CTAAATTGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 7 0.19
11 8 0.22
12 8 0.22
13 14 0.38
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (12 bp):
TATTTAGGATAA
Found at i:82666604 original size:23 final size:23
Alignment explanation
Indices: 82666560--82666606 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
82666550 TAAATTTTCA
82666560 ATTATTTAGCGATAATATTTAGG
1 ATTATTTAGCGATAATATTTAGG
*
82666583 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGCGATAATATTTAGG
82666606 A
1 A
82666607 AAATTTTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (23 bp):
ATTATTTAGCGATAATATTTAGG
Found at i:82666612 original size:23 final size:23
Alignment explanation
Indices: 82666563--82666612 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
82666553 ATTTTCAATT
**
82666563 ATTTAGCGATAATATTTAGGATT
1 ATTTAGCGATAATATTTAGGAAA
*
82666586 ATTTAGTGATAATATTTAGGAAA
1 ATTTAGCGATAATATTTAGGAAA
82666609 ATTT
1 ATTT
82666613 TAGCTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (23 bp):
ATTTAGCGATAATATTTAGGAAA
Found at i:82667815 original size:24 final size:25
Alignment explanation
Indices: 82667788--82667843 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
82667778 TATAATGTAC
*
82667788 TATTATTATA-TATAACTAATAT-TA
1 TATTATTATATTATAA-TAAAATATA
82667812 TATTA-TATATTATAATAAAATATA
1 TATTATTATATTATAATAAAATATA
*
82667836 TAATATTA
1 TATTATTA
82667844 CATGATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 9 0.33
24 16 0.59
25 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTATTATATTATAATAAAATATA
Found at i:82667905 original size:18 final size:17
Alignment explanation
Indices: 82667874--82667907 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
82667864 TCATTGATGC
82667874 ATATATATAAACTATTA
1 ATATATATAAACTATTA
*
82667891 ATATATTATATACTATT
1 ATATA-TATAAACTATT
82667908 TGACATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATAAACTATTA
Found at i:82671654 original size:46 final size:46
Alignment explanation
Indices: 82671502--82671721 Score: 182
Period size: 46 Copynumber: 4.7 Consensus size: 46
82671492 ACATAGGGTT
* ** *
82671502 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGACTA-C-ATCTTGAG
** *
82671551 GCCGACACCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-
1 GCCGA-TGCATGTCCCAGACATGGTCTTACACTGACTACATCTTG-AG
* *
82671597 GCTGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGAC-TACATCTTGAG
* * * * *
82671643 GCCGATGCATGTCCCAGACAT-GTTTTACACT-AGCT-CTTGTTTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGA-CTACAT-CTT-GAG
82671689 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACT
82671722 AGCACACAAA
Statistics
Matches: 143, Mismatches: 18, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
44 14 0.10
45 18 0.13
46 53 0.37
47 16 0.11
48 10 0.07
49 32 0.22
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGACTACATCTTGAG
Found at i:82672490 original size:20 final size:20
Alignment explanation
Indices: 82672465--82672504 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
82672455 ATCCTTCCAC
82672465 AAAAGTTGTTTATTACACAA
1 AAAAGTTGTTTATTACACAA
*
82672485 AAAAGTTGTTTATTTCACAA
1 AAAAGTTGTTTATTACACAA
82672505 CCAAGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAGTTGTTTATTACACAA
Found at i:82674788 original size:40 final size:40
Alignment explanation
Indices: 82674744--82674821 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
82674734 AAAAATGTTG
* *
82674744 CTAAAGAACGAGCATTAGCAGCGCTTTTCAAAAAACGCCA
1 CTAAAGAACGAACATTAGCAGCACTTTTCAAAAAACGCCA
* * *
82674784 CTAAAGAACTAACATTAGCGGCACTTTTTAAAAAACGC
1 CTAAAGAACGAACATTAGCAGCACTTTTCAAAAAACGC
82674822 TGCTATATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (40 bp):
CTAAAGAACGAACATTAGCAGCACTTTTCAAAAAACGCCA
Found at i:82675093 original size:75 final size:75
Alignment explanation
Indices: 82674970--82675135 Score: 221
Period size: 75 Copynumber: 2.2 Consensus size: 75
82674960 AATGCTTGAT
* * *
82674970 CTTTAGCGGAGCTTTTCAAAAAATGCCGCAAAAAATTTAACACAACGCCGTCGTTTTGTATTGAG
1 CTTTAGCGGAGCTTTTCAAAAAACGCCACAAAAAATTTAACACAACGCCGTCGTTTTGTATTAAG
82675035 CCTTTAGTGG
66 CCTTTAGTGG
* *
82675045 CTTTAGCAGCGCTTTT-AAAAAACGCCACAAAAGAATTTTGAA-A-AACGCCGTCGTTTTGTATT
1 CTTTAGCGGAGCTTTTCAAAAAACGCCACAAAA-AA-TTT-AACACAACGCCGTCGTTTTGTATT
*
82675107 AAGCTTTTAGTGG
63 AAGCCTTTAGTGG
*
82675120 CTTTAGCGGTGCTTTT
1 CTTTAGCGGAGCTTTT
82675136 GTAAAAACAC
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
74 14 0.17
75 60 0.75
76 4 0.05
77 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (75 bp):
CTTTAGCGGAGCTTTTCAAAAAACGCCACAAAAAATTTAACACAACGCCGTCGTTTTGTATTAAG
CCTTTAGTGG
Found at i:82675453 original size:22 final size:22
Alignment explanation
Indices: 82675428--82675476 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
82675418 TGTTAAATAT
*
82675428 TTTAAGG-TTTATGGATTATGAG
1 TTTAAGGAATTATGGATTATG-G
*
82675450 TTT-AGGAATTATGGTTTATGG
1 TTTAAGGAATTATGGATTATGG
82675471 TTTAAG
1 TTTAAG
82675477 AGTTGGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (22 bp):
TTTAAGGAATTATGGATTATGG
Found at i:82676186 original size:25 final size:25
Alignment explanation
Indices: 82676139--82676186 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
82676129 ACAATTATTG
* *
82676139 ATATAAAAATATTTATATTTATTCA
1 ATATAAAAATATTTAGATGTATTCA
82676164 ATATAAAAATATATT-GATGTATT
1 ATATAAAAATAT-TTAGATGTATT
82676187 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATAAAAATATTTAGATGTATTCA
Found at i:82676594 original size:7 final size:7
Alignment explanation
Indices: 82676516--82676590 Score: 105
Period size: 7 Copynumber: 10.4 Consensus size: 7
82676506 ATCTTCAAAA
82676516 AAAAATTT
1 AAAAA-TT
82676524 AAAAATT
1 AAAAATT
82676531 AAAAATT
1 AAAAATT
82676538 AAAAATT
1 AAAAATT
82676545 AAAAATT
1 AAAAATT
82676552 AAAAATT
1 AAAAATT
*
82676559 AAAAAAT
1 AAAAATT
82676566 AAAAACTT
1 AAAAA-TT
82676574 AAAAATT
1 AAAAATT
* *
82676581 TAATATT
1 AAAAATT
82676588 AAA
1 AAA
82676591 TATTTTAATC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
7 50 0.82
8 11 0.18
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:82681951 original size:22 final size:22
Alignment explanation
Indices: 82681923--82681967 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
82681913 AGGGGGAGTG
*
82681923 TAGGAATATTCTGTAAATATTT
1 TAGGAATATACTGTAAATATTT
*
82681945 TAGGAATATACTGTAGATATTT
1 TAGGAATATACTGTAAATATTT
82681967 T
1 T
82681968 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (22 bp):
TAGGAATATACTGTAAATATTT
Found at i:82696211 original size:40 final size:40
Alignment explanation
Indices: 82696156--82696418 Score: 427
Period size: 40 Copynumber: 6.6 Consensus size: 40
82696146 ATTTGAATAC
82696156 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
82696196 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
82696236 ATACGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
82696276 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
82696316 ATACGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
82696356 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
82696396 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
82696419 ATTGAGCTTG
Statistics
Matches: 206, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 206 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:82696441 original size:80 final size:80
Alignment explanation
Indices: 82696159--82696422 Score: 474
Period size: 80 Copynumber: 3.3 Consensus size: 80
82696149 TGAATACATC
*
82696159 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
82696224 GCGAGTTGATATATA
66 GCGAGTTGATATATA
82696239 CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
82696304 GCGAGTTGATATATA
66 GCGAGTTGATATATA
*
82696319 CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
* **
82696384 GCGAGTTGCTATACC
66 GCGAGTTGATATATA
*
82696399 CGGGTTAAGACCCGAAGGCAATTG
1 CGGGCTAAGACCCGAAGGCAATTG
82696423 AGCTTGTGGT
Statistics
Matches: 178, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 178 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
GCGAGTTGATATATA
Found at i:82698185 original size:30 final size:30
Alignment explanation
Indices: 82698139--82698322 Score: 323
Period size: 30 Copynumber: 6.1 Consensus size: 30
82698129 TTTTATTATG
*
82698139 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
82698170 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
82698200 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
82698230 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
82698260 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
82698290 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
82698320 CCA
1 CCA
82698323 TAAATATGGA
Statistics
Matches: 148, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 141 0.95
31 7 0.05
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:82706423 original size:91 final size:91
Alignment explanation
Indices: 82706308--82706977 Score: 531
Period size: 91 Copynumber: 7.3 Consensus size: 91
82706298 AAAGTGCAGC
*
82706308 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGGGTTAAAGTGCTACAAATTGAAGTGTTAAATGC
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGGGTTAAAGTGCTGCAAATTGAAGTGTTAAATGC
* *
82706373 TGTAAATTGAAGTGTTTAAATGTTGT
66 TGCAAATTGAAGTGTTTAAATGCTGT
* * * * * **
82706399 AAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTG
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGGGTTAAAGTGCTGCAAATTGAAGTG-TTAAATG
*
82706464 CTGGAAATTG-AGATGCTTT--ATCGCTGT
65 CTGCAAATTGAAG-TG-TTTAAAT-GCTGT
* * * * *
82706491 -AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAGT
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAG-GGTTAAAGTGCTGCAAATTGAAGTGTTAAA-T
82706554 GCTGCAAATTGAAGTG-TTAAATGCTGT
64 GCTGCAAATTGAAGTGTTTAAATGCTGT
* * * *
82706581 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA-TGTTGTAAATTGAAGTGTTTAAGT
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAG-GGTTAAAGTGCTGCAAATTGAAGTG-TTAAAT
* ** *
82706645 ACTGCAAATTGAAGTGTTTAGTTGCTGG
64 GCTGCAAATTGAAGTGTTTAAATGCTGT
* * **
82706673 AAATTG-AGATGTTT-TATCGCTGT-AATTG-AGGTGTATAAA-TGTTGTTAATTG-AGATGTTA
1 AAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAGG-GT-TAAAGTGCTGCAAATTGAAG-TGTTA
*
82706732 AAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGC
61 AA-TGCTGCAAATTGAAGTGTTTAAA-TGCTGT
* * * * *
82706764 AAATTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAA-TGTTGTC-AATTGAAGTGTTTAAG
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAG-GGTTAAAGTGCTG-CAAATTGAAGTG-TTAAA
* * **
82706827 TACTACAAATTGAAGTGTTTAGTTGCTAG-
63 TGCTGCAAATTGAAGTGTTTAAATGCT-GT
* * ** *
82706856 AAATTG-AGATGTTTTAATGCTGT-AATTG-AGGAGTATAAA-TGTTGTTAATTG-AGATATTAA
1 AAATTGAAG-TGTTTAAATGCTGTAAATTGAAGG-GT-TAAAGTGCTGCAAATTGAAG-TGTTAA
* * *
82706916 AGTGCTACAAATTGAAGTGTTTAATTGTTGT
62 A-TGCTGCAAATTGAAGTGTTTAAATGCTGT
*
82706947 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAA
1 AAATTGAAGTGTTTAAA-TGCTGTAAATTGAA
82706978 TTGTTTAAAT
Statistics
Matches: 477, Mismatches: 61, Indels: 80
0.77 0.10 0.13
Matches are distributed among these distances:
89 4 0.01
90 36 0.08
91 293 0.61
92 126 0.26
93 17 0.04
94 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (91 bp):
AAATTGAAGTGTTTAAATGCTGTAAATTGAAGGGTTAAAGTGCTGCAAATTGAAGTGTTAAATGC
TGCAAATTGAAGTGTTTAAATGCTGT
Found at i:82706472 original size:114 final size:114
Alignment explanation
Indices: 82706263--82707035 Score: 550
Period size: 114 Copynumber: 6.8 Consensus size: 114
82706253 TTGAGATGTT
* * * * *
82706263 AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCAGCAAATTGAAGTGTTTAAATG
1 AATTGAAGTGTTTAAATGTTGTAAATTGAAG-TGTTAAA-TGCTGCAAATTGAAGTGTTTAAGTG
* * * *
82706327 CTGTAAATTGAAGGGTTAAAG-TGCTACAAATTGAAGTG-TTAAATGCTGTA
64 CTGCAAATTGAAGTGTT-TAGTTGCTGCAAATTGAAGTGTTTAAATGCTGTA
* * *
82706377 AATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTAC
1 AATTGAAGTGTTTAAATGTTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAGTGC
*
82706442 TGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGCTTT--ATCGCTGT-
65 TGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAAG-TG-TTTAAAT-GCTGTA
* * * *
82706491 AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAGTG
1 AATTGAAGTGTTTAAATGTTGTAAATTGAAG-TGTTAAA-TGCTGCAAATTGAAGTGTTTAAGTG
** *
82706555 CTGCAAATTGAAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTA
64 CTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAAGTGTTTAAATGCTGTA
* * *
82706605 AATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTG
1 AATTGAAGTGTTTAAATGTTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAG-TG
* * * * * * *
82706669 CTGGAAATTG-AGATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATGTTGTT
64 CTGCAAATTGAAG-TG-TTTAGTTGCTGCAAATTGAAGTGTTTAAATGCTGTA
* *
82706719 AATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAA-
1 AATTGAAG-TGTTTAAA-TGTTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTT-AAG
* * ** * * * **
82706781 TGTTGTAAATTGAAGTGTTTAAATGTTGTC-AATTGAAGTGTTTAAGTACTACA
62 TGCTGCAAATTGAAGTGTTTAGTTGCTG-CAAATTGAAGTGTTTAAATGCTGTA
** * * * * * * *
82706834 AATTGAAGTGTTTAGTTGCTAG-AAATTG-AGATGTTTTAATGCTG-TAATTGAGGAGTATAAAT
1 AATTGAAGTGTTTAAATG-TTGTAAATTGAAG-TG-TTAAATGCTGCAAATTGAAGTGTTTAAGT
* ** * * * * *
82706896 GTTGTTAATTG-AGATATTAAAG-TGCTACAAATTGAAGTGTTTAATTGTTGTA
63 GCTGCAAATTGAAG-TGTT-TAGTTGCTGCAAATTGAAGTGTTTAAATGCTGTA
* * * * * * *
82706948 AATTGAAGTG-TTAAAGTGCTGCAAATTGAATTGTTTAAATGTTGTAAATTGAAGTTTTTAAGTA
1 AATTGAAGTGTTTAAA-TGTTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAGTG
* *
82707012 CTACAAA-TGAATTGTTTAGTTGCT
64 CTGCAAATTGAAGTGTTTAGTTGCT
82707036 AAAATTTAGT
Statistics
Matches: 520, Mismatches: 96, Indels: 86
0.74 0.14 0.12
Matches are distributed among these distances:
112 3 0.01
113 62 0.12
114 360 0.69
115 79 0.15
116 16 0.03
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (114 bp):
AATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGTTTAAGTGCT
GCAAATTGAAGTGTTTAGTTGCTGCAAATTGAAGTGTTTAAATGCTGTA
Found at i:82706817 original size:183 final size:180
Alignment explanation
Indices: 82706355--82707041 Score: 834
Period size: 183 Copynumber: 3.8 Consensus size: 180
82706345 AAGTGCTACA
* * * *
82706355 AATTGAAGTGTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
1 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAATGC
* ** * * **
82706419 TGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTGCTGGAAATTG-AGATGCTT
65 TGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAG-TACTACAAATTGAAG-TG-TT
* * * ** * * * **
82706482 TA-TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGT-TAAAGTGCTGCA
127 TAGTTGCTGAAATTGAGATGT-TTTATGCTG-TAATTGAGGTGTATAAA-TGTTGTT
82706537 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAGTGTTTAAATGCT
1 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAGTGTTTAAATGCT
* *
82706602 GTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGT
66 GTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTTAGT
82706667 TGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
131 TGCT-GAAATTGAGATGTTTTAT-GCTGTAATTGAGGTGTATAAATGTTGTT
* *
82706719 AATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATG
1 AATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTAAA-TGCTGTAAATTGAAGTGTTTAAATG
* *
82706783 TTGTAAATTGAAGTGTTTAAATGTTGTCAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTTA
64 CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTTA
*
82706848 GTTGCTAGAAATTGAGATGTTTTAATGCTGTAATTGAGGAGTATAAATGTTGTT
129 GTTGCT-GAAATTGAGATGTTTT-ATGCTGTAATTGAGGTGTATAAATGTTGTT
* * * *
82706902 AATTG-AGATATTAAAGTGCTACAAATTGAAGTGTTTAATTGTTGTAAATTGAAGTG-TTAAAGT
1 AATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAA-T
* * * *
82706965 GCTGCAAATTGAATTGTTTAAATGTTGTAAATTGAAGTTTTTAAGTACTACAAA-TGAATTGTTT
63 GCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTT
*
82707029 AGTTGCTAAAATT
128 AGTTGCTGAAATT
82707042 TAGTTTATGT
Statistics
Matches: 451, Mismatches: 42, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
181 11 0.02
182 167 0.37
183 267 0.59
184 6 0.01
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (180 bp):
AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAGTGTTTAAATGCT
GTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTTAGT
TGCTGAAATTGAGATGTTTTATGCTGTAATTGAGGTGTATAAATGTTGTT
Found at i:82706885 original size:205 final size:205
Alignment explanation
Indices: 82706320--82706825 Score: 915
Period size: 205 Copynumber: 2.5 Consensus size: 205
82706310 ATTGAAGTGT
* * *
82706320 TTAAA-TGCTGTAAATTGAAGGGTTAAAGTGCTACAAATTGAAGTGTTAAATGCTGTAAATTGAA
1 TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAA
82706384 GTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
66 GTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
*
82706449 TGAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
131 TGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
82706514 AATTGAGATG
196 AATTGAGATG
82706524 TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAA
1 TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAA
*
82706589 GTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
66 GTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
82706654 TGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
131 TGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
82706719 AATTGAGATG
196 AATTGAGATG
* *
82706729 TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGTTGTAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTG-TTAAATGCTGTAAATTGA
* *
82706794 AGTGTTTAAATGTTGTCAATTGAAGTGTTTAA
65 AGTGTTTAAATGTTGTAAATTGAAGTGCTTAA
82706826 GTACTACAAA
Statistics
Matches: 290, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
204 5 0.02
205 240 0.83
206 45 0.16
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (205 bp):
TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAA
GTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
TGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
AATTGAGATG
Found at i:82706985 original size:160 final size:160
Alignment explanation
Indices: 82706560--82706985 Score: 437
Period size: 160 Copynumber: 2.7 Consensus size: 160
82706550 AAGTGCTGCA
* * ** *
82706560 AATTGA-AGTGTTAAA-TGCTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGCTTAAAT
1 AATTGAGA-TGTTAAAGTGCTGCAAATTGAAGT-ATTAAAGTGCTACAAATTGAAGTG-TTTAAT
* * * **
82706622 GTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTGCTGGAAATTGAGATGTT
63 GTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAGTTACTACAAATTGAGATGTT
* * *
82706686 TTATCGCTGTAATTGAGGTGTATAAATGTTGTT
128 TTATCGCTGAAATTGAGATGTATAAATGCTGTT
* *
82706719 AATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGT
1 AATTGAGATGTTAAAGTGCTGCAAATTGAAGTATTAAAGTGCTACAAATTGAAGTGTTT-AATGT
*
82706784 TGTAAATTGAAGTGTTTAAA-TGTTGTC-AATTGAAGTGTTTAAG-TACTACAAATTGA-A-GTG
65 TGTAAATTGAAGTG-TTAAAGTGCTG-CAAATTGAAGTGTTTAAGTTACTACAAATTGAGATGT-
* * *
82706844 TTTAGTTGCTAGAAATTGAGATGTTTTAATGCTG-T
127 TTTA-TCGCT-GAAATTGAGATGTATAAATGCTGTT
* **
82706879 AATTGAGGA-GTATAAA-TGTTGTTAATTG-AGATATTAAAGTGCTACAAATTGAAGTGTTTAAT
1 AATTGA-GATGT-TAAAGTGCTGCAAATTGAAG-TATTAAAGTGCTACAAATTGAAGTGTTTAA-
*
82706941 TGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAATTGTTTAA
62 TGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAA
82706986 ATGTTGTAAA
Statistics
Matches: 228, Mismatches: 23, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
158 2 0.01
159 35 0.15
160 160 0.70
161 31 0.14
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (160 bp):
AATTGAGATGTTAAAGTGCTGCAAATTGAAGTATTAAAGTGCTACAAATTGAAGTGTTTAATGTT
GTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAGTTACTACAAATTGAGATGTTTTA
TCGCTGAAATTGAGATGTATAAATGCTGTT
Found at i:82707007 original size:23 final size:23
Alignment explanation
Indices: 82706263--82707008 Score: 577
Period size: 23 Copynumber: 32.7 Consensus size: 23
82706253 TTGAGATGTT
* * * *
82706263 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
* *
82706286 AATTG-AGATG-TTAAAGTGCAGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
82706309 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* **
82706332 AATTGAAG-GGTTAAAGTGCTACA
1 AATTGAAGTGTTTAAA-TGCTGTA
82706355 AATTGAAGTG-TTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
82706377 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* *
82706400 AATTGAAGTGCTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* * *
82706423 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTA
** *
82706446 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTA
82706469 AATTG-AGATGCTTT--ATCGCTGT-
1 AATTGAAG-TG-TTTAAAT-GCTGTA
* * * *
82706491 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
*
82706514 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
*
82706537 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
82706560 AATTGAAGTG-TTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
82706582 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* *
82706605 AATTGAAGTGCTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* * *
82706628 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTA
** *
82706651 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTA
*
82706674 AATTG-AGATGTTT-TATCGCTGT-
1 AATTGAAG-TGTTTAAAT-GCTGTA
* * * *
82706696 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
*
82706719 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
*
82706742 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
* *
82706765 AATTGAAGTGTTTGAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* *
82706788 AATTGAAGTGTTTAAATGTTGTC
1 AATTGAAGTGTTTAAATGCTGTA
* * **
82706811 AATTGAAGTGTTTAAGTACTACA
1 AATTGAAGTGTTTAAATGCTGTA
**
82706834 AATTGAAGTGTTTAGTTGCTAG-A
1 AATTGAAGTGTTTAAATGCT-GTA
*
82706857 AATTG-AGATGTTTTAATGCTGT-
1 AATTGAAG-TGTTTAAATGCTGTA
* * * * *
82706879 AATTGAGGAGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
* **
82706902 AATTG-AGAT-ATTAAAGTGCTACA
1 AATTGAAG-TGTTTAAA-TGCTGTA
* *
82706925 AATTGAAGTGTTTAATTGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
82706948 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
* *
82706971 AATTGAATTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
82706994 AATTGAAGTTTTTAA
1 AATTGAAGTGTTTAA
82707009 GTACTACAAA
Statistics
Matches: 583, Mismatches: 102, Indels: 76
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.00
22 109 0.19
23 442 0.76
24 30 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGTA
Found at i:82707720 original size:43 final size:43
Alignment explanation
Indices: 82707592--82707803 Score: 202
Period size: 43 Copynumber: 5.0 Consensus size: 43
82707582 AAAAATGACT
* * * *
82707592 TTTAGTGGCATTTTTGGA-AAAGTGTCGCTAAAAGTCA-GATTC
1 TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTCATG-TTC
** * ** **
82707634 TTTAGCGTTGTTTTTGGA-AAAGCGTCATTAAAAGTCAAATTC
1 TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTCATGTTC
*
82707676 TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTCATGTTC
* * *
82707719 TTTAGCGGCGTTTGCGG-GAAAAGCG-CTGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGAG-AAAGCGTC-GCTAAAAGTCATGTTC
*
82707762 TTTAGCGGCGTTTGTGG-GAAAAGCGCCGCTAAAAGTCATGTT
1 TTTAGCGGCGTTTGTGGAG-AAAGCGTCGCTAAAAGTCATGTT
82707804 TAACGGCGTT
Statistics
Matches: 144, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
42 50 0.35
43 93 0.65
44 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTCATGTTC
Found at i:82711601 original size:11 final size:11
Alignment explanation
Indices: 82711585--82711617 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
82711575 ATAAACCTAG
82711585 AAATTTTCTTA
1 AAATTTTCTTA
82711596 AAATTTTCTTA
1 AAATTTTCTTA
82711607 AAATTTTCTTA
1 AAATTTTCTTA
82711618 GGTCCTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (11 bp):
AAATTTTCTTA
Found at i:82712218 original size:22 final size:22
Alignment explanation
Indices: 82712190--82712243 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
82712180 AGGCTAGTAG
*
82712190 CATGGGCTTGTACCTTGGACCA
1 CATGGGCGTGTACCTTGGACCA
*
82712212 CATGGGCGTGTCCCTTGGACCA
1 CATGGGCGTGTACCTTGGACCA
*
82712234 CACGGGCGTG
1 CATGGGCGTG
82712244 GTGAGCCTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (22 bp):
CATGGGCGTGTACCTTGGACCA
Done.