Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 118 of 378
Found at i:32930983 original size:27 final size:27
Alignment explanation
Indices: 32930811--32930970 Score: 232
Period size: 27 Copynumber: 5.9 Consensus size: 27
32930801 CACGCGATCA
* *
32930811 ATTTGTAAAATTA-CTTAAATACCCCCG
1 ATTTGTAAAATTATC-GAAATACCCTCG
*
32930838 ATTTGTAAAATTATCGAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTCG
* * *
32930865 ATTTGTAAAATTACCGAAACACCATCG
1 ATTTGTAAAATTATCGAAATACCCTCG
*
32930892 ATTTGTAAAATTATCGAAATACCATCG
1 ATTTGTAAAATTATCGAAATACCCTCG
*
32930919 ATTTGTAAAATTATCGAAATACCCTCA
1 ATTTGTAAAATTATCGAAATACCCTCG
32930946 ATTTGTAAAATTATCGAAATACCCT
1 ATTTGTAAAATTATCGAAATACCCT
32930971 TATAGTGTAA
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 122 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
ATTTGTAAAATTATCGAAATACCCTCG
Found at i:32930994 original size:27 final size:27
Alignment explanation
Indices: 32930922--32931012 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
32930912 ACCATCGATT
* * * *
32930922 TGTAAAATTATCGAAATACCCTCA-ATT
1 TGTAAAATGACCGAAATACCCTTATA-G
* *
32930949 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
* *
32930976 TGTAAAATGACCGACATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTATAG
*
32931003 GGTAAAATGA
1 TGTAAAATGA
32931013 TTATTTTGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTATAG
Found at i:32930995 original size:81 final size:81
Alignment explanation
Indices: 32930827--32930995 Score: 214
Period size: 81 Copynumber: 2.1 Consensus size: 81
32930817 AAAATTACTT
** *
32930827 AAATACCCCCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAACACCATCG
1 AAATACCATCGATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCATCG
* * *
32930892 ATTTGTAAAATTATCG
66 ATGTGTAAAATGACCG
* * * * *
32930908 AAATACCATCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCT-T
1 AAATACCATCGATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCATCG
32930972 ATAGTGTAAAATGACCG
66 AT-GTGTAAAATGACCG
*
32930989 ACATACC
1 AAATACC
32930996 CTTGTAGGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
80 2 0.03
81 73 0.97
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (81 bp):
AAATACCATCGATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCATCG
ATGTGTAAAATGACCG
Found at i:32932818 original size:13 final size:13
Alignment explanation
Indices: 32932797--32932839 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
32932787 TCAAGATAGA
32932797 AATTCTATAATTC
1 AATTCTATAATTC
*
32932810 AATTTTATAATTC
1 AATTCTATAATTC
32932823 TATAATTCTATAATTC
1 ---AATTCTATAATTC
32932839 A
1 A
32932840 TAATTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 13 0.52
16 12 0.48
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTCTATAATTC
Found at i:32932821 original size:8 final size:8
Alignment explanation
Indices: 32932797--32932851 Score: 64
Period size: 8 Copynumber: 7.2 Consensus size: 8
32932787 TCAAGATAGA
32932797 AATTCTAT
1 AATTCTAT
32932805 AATTC---
1 AATTCTAT
*
32932810 AATTTTAT
1 AATTCTAT
32932818 AATTCTAT
1 AATTCTAT
32932826 AATTCTAT
1 AATTCTAT
32932834 AATTC-AT
1 AATTCTAT
32932841 AATTCATAT
1 AATTC-TAT
32932850 AA
1 AA
32932852 CCACTAGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.10
7 7 0.17
8 25 0.62
9 4 0.10
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (8 bp):
AATTCTAT
Found at i:32932888 original size:2 final size:2
Alignment explanation
Indices: 32932881--32932910 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32932871 TATAATTCAC
32932881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32932911 TCTTACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32938713 original size:40 final size:40
Alignment explanation
Indices: 32938654--32938795 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
32938644 AAATTGAATG
* * *
32938654 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
32938694 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
32938734 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
32938774 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
32938796 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:32938796 original size:40 final size:39
Alignment explanation
Indices: 32938693--32938821 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
32938683 TGCTGGAAAT
* * *
32938693 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
32938733 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
32938773 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
32938813 TATATCCGG
1 TATATCCGG
32938822 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:32946733 original size:40 final size:40
Alignment explanation
Indices: 32946674--32946815 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
32946664 AAATTGAATG
* * *
32946674 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
32946714 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
32946754 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
32946794 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
32946816 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:32946816 original size:40 final size:39
Alignment explanation
Indices: 32946713--32946841 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
32946703 TGCTGGAAAT
* * *
32946713 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
32946753 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
32946793 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
32946833 TATATCCGG
1 TATATCCGG
32946842 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:32951505 original size:22 final size:23
Alignment explanation
Indices: 32951463--32951589 Score: 109
Period size: 22 Copynumber: 5.6 Consensus size: 23
32951453 CTGAGCTGAT
* * *
32951463 AAACAGTAAGCTCAATTGAGCTG
1 AAACGGTAAGCTCAGTAGAGCTG
* *
32951486 -AACGATAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCAGTAGAGCTG
* **
32951508 AAACAGTAAGC-CCCTA-AGGACTG
1 AAACGGTAAGCTCAGTAGA-G-CTG
*
32951531 AAACGGTAAGCTCAGAAGAGCTG
1 AAACGGTAAGCTCAGTAGAGCTG
* *
32951554 -AACGGTAATCTCATTAGAGCTG
1 AAACGGTAAGCTCAGTAGAGCTG
32951576 AAACGGTAAGCTCA
1 AAACGGTAAGCTCA
32951590 TACAAGCTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
21 1 0.01
22 41 0.50
23 36 0.44
24 3 0.04
25 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.18
Consensus pattern (23 bp):
AAACGGTAAGCTCAGTAGAGCTG
Found at i:32951590 original size:23 final size:23
Alignment explanation
Indices: 32951463--32951590 Score: 111
Period size: 23 Copynumber: 5.7 Consensus size: 23
32951453 CTGAGCTGAT
*
32951463 AAACAGTAAGCTCAATT-GAGCTG
1 AAACGGTAAGCTC-ATTAGAGCTG
* **
32951486 -AACGATAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCATTAGAGCTG
* * * *
32951508 AAACAGTAAGCCCCTAAG-GACTG
1 AAACGGTAAGCTCATTAGAG-CTG
**
32951531 AAACGGTAAGCTCAGAAGAGCTG
1 AAACGGTAAGCTCATTAGAGCTG
*
32951554 -AACGGTAATCTCATTAGAGCTG
1 AAACGGTAAGCTCATTAGAGCTG
32951576 AAACGGTAAGCTCAT
1 AAACGGTAAGCTCAT
32951591 ACAAGCTTTG
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
21 1 0.01
22 36 0.43
23 45 0.54
24 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (23 bp):
AAACGGTAAGCTCATTAGAGCTG
Found at i:32954067 original size:15 final size:17
Alignment explanation
Indices: 32954049--32954080 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
32954039 TAGCATAATT
32954049 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
32954064 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
32954081 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:32964086 original size:2 final size:2
Alignment explanation
Indices: 32964079--32964106 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32964069 TCGTAAGCTC
32964079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32964107 GCATGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32974949 original size:40 final size:40
Alignment explanation
Indices: 32974905--32975056 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
32974895 TTATAGTGAT
*
32974905 TCGCAC-AATTGCCTTCGGGAATTAGCCCGGAATTAGTAAC
1 TCGCACGAA-TGCCTTCGGGAATTAGCCCGGATTTAGTAAC
* * * *
32974945 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACGAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
*
32974985 TCGCACGAATGCCTTCGGGAATT-GACCCGGATTTAGTCAC
1 TCGCACGAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC
* * * *
32975025 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACGAATGCCTTCGGGAATTAGCCCGGA
32975057 CACCATTCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
40 66 0.70
41 27 0.29
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TCGCACGAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
Found at i:32974989 original size:80 final size:81
Alignment explanation
Indices: 32974905--32975055 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 81
32974895 TTATAGTGAT
* * *
32974905 TCGCAC-AATTGCCTTCGGGAATT-AGCCCGGAATTAGTAAC-TCGCACGAATGCCTTCGGGACT
1 TCGCACGAA-TGCCTTCGGGAATTGA-CCCGGAATTAGTAACTTAGCACAAAAGCCTTCGGGACT
32974967 TAACCCGGTTTTGGTAAC
64 TAACCCGGTTTTGGTAAC
* *
32974985 TCGCACGAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACGAATGCCTTCGGGAATTGACCCGGAATTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
32975050 GCCCGG
66 ACCCGG
32975056 ACACCATTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 33 0.53
81 29 0.47
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (81 bp):
TCGCACGAATGCCTTCGGGAATTGACCCGGAATTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGGTTTTGGTAAC
Found at i:32982273 original size:41 final size:40
Alignment explanation
Indices: 32982095--32982274 Score: 140
Period size: 40 Copynumber: 4.5 Consensus size: 40
32982085 GCTCGATTGT
*
32982095 CTTCGGGACA-TAGCCCGG-TTATAGTGA-TTCGTAC-AATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGT-ACTTCGCACGAA-TGC
* * *
32982135 CTTCGGGAATTAGCCCGAAATTAGTAATTCGCACGAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTACTTCGCACGAATGC
* * *
32982175 CTTCGGGACTTAACCC-GATTTTGGTAAC-TCGCACGAATGC
1 CTTCGGGAATTAGCCCGGA-TTTAGT-ACTTCGCACGAATGC
* * *
32982215 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGT-ACTTCGCACGAATGC
*
32982256 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTAGCCCGGA
32982275 CACCATTCGA
Statistics
Matches: 113, Mismatches: 17, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
39 3 0.03
40 78 0.69
41 31 0.27
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTACTTCGCACGAATGC
Found at i:32985603 original size:75 final size:76
Alignment explanation
Indices: 32985480--32985630 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 76
32985470 CAGGCATGTT
*
32985480 ACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGTTACATAAGTTAGGGACA
1 ACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGTTACATAAGTTAGGAACA
32985545 -CGGGCGTGTG
66 TCGGGCGTGTG
32985555 ACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGTTACATAAGTTAGGAACA
1 ACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGTTACATAAGTTAGGAACA
*
32985620 TGGGGCGTGTG
66 TCGGGCGTGTG
32985631 TAACCACACG
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 64 0.88
76 9 0.12
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (76 bp):
ACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGTTACATAAGTTAGGAACA
TCGGGCGTGTG
Found at i:32985728 original size:14 final size:14
Alignment explanation
Indices: 32985709--32985736 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32985699 AAATTTCTAA
32985709 GTTTTGTAAAAATT
1 GTTTTGTAAAAATT
32985723 GTTTTGTAAAAATT
1 GTTTTGTAAAAATT
32985737 CCCTGAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
GTTTTGTAAAAATT
Found at i:32987207 original size:26 final size:25
Alignment explanation
Indices: 32987178--32987234 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
32987168 AAAAATGTTG
*
32987178 TACCATACATCATTTCTTGACCTTTT
1 TACCA-ACATCATTTATTGACCTTTT
*
32987204 TACCCCAATATCATTTATTGACCTTTT
1 TA--CCAACATCATTTATTGACCTTTT
32987231 TACC
1 TACC
32987235 CCAATAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.07
26 2 0.07
27 20 0.74
28 3 0.11
ACGTcount: A:0.25, C:0.28, G:0.04, T:0.44
Consensus pattern (25 bp):
TACCAACATCATTTATTGACCTTTT
Found at i:32987216 original size:27 final size:27
Alignment explanation
Indices: 32987186--32987240 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
32987176 TGTACCATAC
*
32987186 ATCATTTCTTGACCTTTTTACCCCAAT
1 ATCATTTATTGACCTTTTTACCCCAAT
32987213 ATCATTTATTGACCTTTTTACCCCAAT
1 ATCATTTATTGACCTTTTTACCCCAAT
32987240 A
1 A
32987241 ATCCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (27 bp):
ATCATTTATTGACCTTTTTACCCCAAT
Found at i:32990948 original size:10 final size:11
Alignment explanation
Indices: 32990918--32990947 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
32990908 ACAACATTTG
32990918 ATTAAAAAATA
1 ATTAAAAAATA
32990929 ATTAAAAAATA
1 ATTAAAAAATA
32990940 ATTAAAAA
1 ATTAAAAA
32990948 TTCATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATTAAAAAATA
Found at i:32993089 original size:21 final size:21
Alignment explanation
Indices: 32993052--32993091 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32993042 TGAGAAATAC
*
32993052 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
32993073 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
32993092 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:32993477 original size:20 final size:18
Alignment explanation
Indices: 32993433--32993477 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
32993423 CAATTCAAAA
32993433 ATAAAAATAATATTTTAT
1 ATAAAAATAATATTTTAT
*
32993451 TTAAAAATATATATTTTAAT
1 ATAAAAATA-ATATTTT-AT
32993471 ATAAAAA
1 ATAAAAA
32993478 AAAGTCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAAATAATATTTTAT
Found at i:33000969 original size:40 final size:40
Alignment explanation
Indices: 33000895--33001116 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
33000885 AACCCAAGTA
* * *
33000895 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
33000934 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
33000974 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
33001014 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
33001054 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
33001094 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
33001117 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:33009417 original size:40 final size:40
Alignment explanation
Indices: 33009343--33009564 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
33009333 AACCCAAGTA
* * *
33009343 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
33009382 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
33009422 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
33009462 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
33009502 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
33009542 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
33009565 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:33017850 original size:40 final size:40
Alignment explanation
Indices: 33017776--33017997 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
33017766 AACCCAAGTA
* * *
33017776 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
33017815 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
33017855 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
33017895 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
33017935 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
33017975 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
33017998 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:33020125 original size:31 final size:32
Alignment explanation
Indices: 33020061--33020190 Score: 172
Period size: 32 Copynumber: 4.1 Consensus size: 32
33020051 CTGTCACATA
* *
33020061 TATGATCTACTTTTTCATTTGCAAAACTAATG
1 TATGATCTACTTTTTTATATGCAAAACTAATG
** *
33020093 TATGATCTAC-TTTTTATATGTGAACCTAATG
1 TATGATCTACTTTTTTATATGCAAAACTAATG
*
33020124 TATTATCTACTTTTTTATATGCAAAACTAATG
1 TATGATCTACTTTTTTATATGCAAAACTAATG
* * *
33020156 TATGATCTACTTTTTTATACGTAAACCTAATG
1 TATGATCTACTTTTTTATATGCAAAACTAATG
33020188 TAT
1 TAT
33020191 CATATTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
31 25 0.30
32 59 0.70
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (32 bp):
TATGATCTACTTTTTTATATGCAAAACTAATG
Found at i:33020147 original size:63 final size:64
Alignment explanation
Indices: 33020065--33020190 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 64
33020055 CACATATATG
* * *
33020065 ATCTACTTTTTCATTTGCAAAACTAATGTATGATCTAC-TTTTTATATGTGAACCTAATGTATT
1 ATCTACTTTTTCATATGCAAAACTAATGTATGATCTACTTTTTTATACGTAAACCTAATGTATT
*
33020128 ATCTACTTTTTTATATGCAAAACTAATGTATGATCTACTTTTTTATACGTAAACCTAATGTAT
1 ATCTACTTTTTCATATGCAAAACTAATGTATGATCTACTTTTTTATACGTAAACCTAATGTAT
33020191 CATATTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 36 0.62
64 22 0.38
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (64 bp):
ATCTACTTTTTCATATGCAAAACTAATGTATGATCTACTTTTTTATACGTAAACCTAATGTATT
Found at i:33023750 original size:38 final size:38
Alignment explanation
Indices: 33023699--33023775 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
33023689 CTAAACACAC
33023699 ATTCTACCACTATTTCTAATCTCACCGCTACAGTAATT
1 ATTCTACCACTATTTCTAATCTCACCGCTACAGTAATT
33023737 ATTCTACCACTATTTCTAATCTCACCGCTACAGTAATT
1 ATTCTACCACTATTTCTAATCTCACCGCTACAGTAATT
33023775 A
1 A
33023776 ATCTCACCGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (38 bp):
ATTCTACCACTATTTCTAATCTCACCGCTACAGTAATT
Found at i:33023810 original size:27 final size:21
Alignment explanation
Indices: 33023753--33023806 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
33023743 CCACTATTTC
33023753 TAATCTCACCGCTACAGTAAT
1 TAATCTCACCGCTACAGTAAT
33023774 TAATCTCACCGCTACAGTAAT
1 TAATCTCACCGCTACAGTAAT
*
33023795 TAATCTTACCGC
1 TAATCTCACCGC
33023807 CACCATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (21 bp):
TAATCTCACCGCTACAGTAAT
Found at i:33025327 original size:232 final size:232
Alignment explanation
Indices: 33024918--33025388 Score: 849
Period size: 232 Copynumber: 2.0 Consensus size: 232
33024908 AATACTCGGA
33024918 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
1 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
*
33024983 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCGTTGATGAGATTGCAAATTCTTA
66 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
* *
33025048 TAATCTTCTAAGACTAAGAAACGCCAATGAATTTGTTTGTCTTTGATT-CTACAGATGATTAGTT
131 TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCT-CAGATGATTAGTT
*
33025112 GTGAATATATGTATCTGGAATTGCCTTCCATTGAATGG
195 GTGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
33025150 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
1 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
* *
33025215 AAGGTAGTTTAGATGTTAT-ACATCATTTCCCTAAACTTTGTCATTGATGAGATTGCGAATTCTT
66 AAGGTAGTTTAGATGTT-TCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTT
33025279 ATAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTT
130 ATAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTT
33025344 GTGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
195 GTGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
33025382 AC-ATTTA
1 ACAATTTA
33025389 GCATGGATGG
Statistics
Matches: 231, Mismatches: 6, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
231 5 0.02
232 223 0.97
233 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (232 bp):
ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTTG
TGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
Found at i:33026846 original size:68 final size:68
Alignment explanation
Indices: 33026771--33026906 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
33026761 ACCAAGAGAC
* * * *
33026771 ATAGGATAAAATCCTAAATGTTTATTATGCTTTTTGTCTTTATATGTTTTGAATATTCCATTTTA
1 ATAGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
33026836 ACT
66 ACT
*
33026839 ATAGGATAAAATCCTAAATGTTTCTTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
1 ATAGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
33026904 ACT
66 ACT
33026907 TTATCTTCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.47
Consensus pattern (68 bp):
ATAGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
ACT
Found at i:33027432 original size:19 final size:19
Alignment explanation
Indices: 33027385--33027432 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
33027375 GTATATATTT
**
33027385 TAAA-TTTATTTAGTTAGA
1 TAAATTTTATTTAGAAAGA
*
33027403 TAAATTGTATTTAGAAAGA
1 TAAATTTTATTTAGAAAGA
*
33027422 TAAGTTTTATT
1 TAAATTTTATT
33027433 CATATTCTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGAAAGA
Found at i:33031262 original size:19 final size:19
Alignment explanation
Indices: 33031215--33031263 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
33031205 GTATATATTT
**
33031215 TAAATTTTATTTAGTTAGA
1 TAAATTTTATTTAGAAAGA
*
33031234 TAAATCTTATTTAGAAAGA
1 TAAATTTTATTTAGAAAGA
*
33031253 TAAGTTTTATT
1 TAAATTTTATT
33031264 CATAGTCTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (19 bp):
TAAATTTTATTTAGAAAGA
Found at i:33031476 original size:17 final size:17
Alignment explanation
Indices: 33031454--33031486 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33031444 ACTCTCTTGA
33031454 TTCACATTTTGCCATCT
1 TTCACATTTTGCCATCT
33031471 TTCACATTTTGCCATC
1 TTCACATTTTGCCATC
33031487 AGCCATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.30, G:0.06, T:0.45
Consensus pattern (17 bp):
TTCACATTTTGCCATCT
Found at i:33039097 original size:261 final size:261
Alignment explanation
Indices: 33038624--33039145 Score: 606
Period size: 261 Copynumber: 2.0 Consensus size: 261
33038614 TTATACTTCG
* * * * * **
33038624 TGTAACATCCCTAACCTGTATCCGTCGCCAGAATAGGGTTACGGAGCGTTACCAGGACTTTCAGA
1 TGTAACACCCCTAACCTGTATCCGTCACCAGAACAGGGTTACAGAGCATTACCAAAACTTTCAGA
* * * ** ** *
33038689 ACATTTTACAAATAAATCATATCAATCATTGTTCTTTTTCTGAGATTACTCATAACGTCCCTTAA
66 ACATTTTACAAATAAATCATATAAATCACTATTCACTAACTGAGATTACTCAAAACGTCCCTTAA
* *
33038754 ATTGACCCTCGAGGTCCAATACGAGCATTAGAATCAAGTCGGGACTTAATCGAAACCTCTAAGAA
131 ATTGACCCTCGAAGTCAAATACGAGCATTAGAATCAAGTCGGGACTTAATCGAAACCTCTAAGAA
* * *
33038819 TTTTTCACTAAATTTC-AAAATTTTTCCAAGTTACA-GGACTCACACACTCGTGTGGTTTAAGGG
196 TTTTTCACGAAATTTCAAAAATTTTTCCAAGTTACATGG-CTCACACACCCGTGTGGTCT-AGGG
33038882 ACA
259 ACA
* * ** *
33038885 TGTAACACCCCTAACCTGTATCTGTCATCAGAACAGGGTTTTAGAGCATTACTAAAACTTTCAGA
1 TGTAACACCCCTAACCTGTATCCGTCACCAGAACAGGGTTACAGAGCATTACCAAAACTTTCAGA
* * * * *
33038950 ACATTTTACAAATAATTTATGTAAATTACTATTCACTAACTGAGATTATTCAAAACGTTCCC-T-
66 ACATTTTACAAATAAATCATATAAATCACTATTCACTAACTGAGATTACTCAAAACG-TCCCTTA
* *
33039013 AATTGGACCTTCGAAGTCAAATACGAGCATTAGAATCAAGTTGGGACTTAATCGGAAACC-CATA
130 AATT-GACCCTCGAAGTCAAATACGAGCATTAGAATCAAGTCGGGACTTAATC-GAAACCTC-TA
* ** * * *
33039077 A-ATTTTTTTGCGACATTTCAAAAATTTTTCGAAGTTACATGGTTCACACACCCGTGTGGTCTAG
192 AGAATTTTTCACGAAATTTCAAAAATTTTTCCAAGTTACATGGCTCACACACCCGTGTGGTCTAG
33039141 GGACA
257 GGACA
33039146 CGCCCATGTG
Statistics
Matches: 217, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
260 4 0.02
261 163 0.75
262 48 0.22
263 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (261 bp):
TGTAACACCCCTAACCTGTATCCGTCACCAGAACAGGGTTACAGAGCATTACCAAAACTTTCAGA
ACATTTTACAAATAAATCATATAAATCACTATTCACTAACTGAGATTACTCAAAACGTCCCTTAA
ATTGACCCTCGAAGTCAAATACGAGCATTAGAATCAAGTCGGGACTTAATCGAAACCTCTAAGAA
TTTTTCACGAAATTTCAAAAATTTTTCCAAGTTACATGGCTCACACACCCGTGTGGTCTAGGGAC
A
Found at i:33043975 original size:28 final size:29
Alignment explanation
Indices: 33043943--33044056 Score: 146
Period size: 28 Copynumber: 4.0 Consensus size: 29
33043933 TACTTGTATC
* *
33043943 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
33043971 TGGCCCATT-GGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
33043999 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
33044028 TGGCCCATTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
33044056 T
1 T
33044057 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.05
28 40 0.53
29 32 0.42
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:33044020 original size:29 final size:29
Alignment explanation
Indices: 33043937--33044043 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
33043927 TTCACATACT
* * *
33043937 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
33043965 T-TCATATGGCCCATT-GGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
33043993 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
33044022 TTTATATGGCCCATTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
33044044 GTCACATTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.07
28 30 0.43
29 34 0.49
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:33044299 original size:16 final size:16
Alignment explanation
Indices: 33044274--33044304 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33044264 AACTTTTTCC
*
33044274 ATTTCGGCATTTCGGT
1 ATTTCAGCATTTCGGT
33044290 ATTTCAGCATTTCGG
1 ATTTCAGCATTTCGG
33044305 CTTTTGCTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (16 bp):
ATTTCAGCATTTCGGT
Found at i:33044947 original size:52 final size:51
Alignment explanation
Indices: 33044885--33044987 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
33044875 ATTGAAACAA
* * *
33044885 AGAAATCGACACAAGGAAAATGAA-AAGGAGAACAAGGGTTTTCGGCTTTTAG
1 AGAAATCGACACAAAGAAAAGGAAGAA-AAGAA-AAGGGTTTTCGGCTTTTAG
* *
33044937 AGAAATCGACAGAAAGAAAAGGAAGAAAATAAAAGGGTTTTCGGCTTTTAG
1 AGAAATCGACACAAAGAAAAGGAAGAAAAGAAAAGGGTTTTCGGCTTTTAG
33044988 GGAAGAGGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 19 0.42
52 24 0.53
53 2 0.04
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.19
Consensus pattern (51 bp):
AGAAATCGACACAAAGAAAAGGAAGAAAAGAAAAGGGTTTTCGGCTTTTAG
Found at i:33060295 original size:42 final size:42
Alignment explanation
Indices: 33060236--33060337 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 42
33060226 TGTGGATTCT
* * *
33060236 CCACATCTCATGTGAGCAGCATCGTGTAGTTTACATTTCGAC
1 CCACAACTCGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
*
33060278 CCACAACTTGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
1 CCACAACTCGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
*
33060320 CCACAACTCGTGTAAGCA
1 CCACAACTCGTGTGAGCA
33060338 AGCCCATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (42 bp):
CCACAACTCGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
Found at i:33061695 original size:25 final size:25
Alignment explanation
Indices: 33061663--33061758 Score: 122
Period size: 25 Copynumber: 3.9 Consensus size: 25
33061653 CAGCTCTTAT
* * * * *
33061663 GAGCTTCCCGATATTTAGTTCGCAT
1 GAGCTTCCCGTTATTCAGCTCGAAG
33061688 GAGCTTCCCGTTATTCAGCTCGAAG
1 GAGCTTCCCGTTATTCAGCTCGAAG
*
33061713 GAGCTTCCCGTTATTCAGCTCGGAG
1 GAGCTTCCCGTTATTCAGCTCGAAG
*
33061738 GAGCTTCCCGTT-TGCAGCTCG
1 GAGCTTCCCGTTATTCAGCTCG
33061759 TATGAGCATA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 8 0.12
25 56 0.88
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGTTATTCAGCTCGAAG
Found at i:33068739 original size:25 final size:25
Alignment explanation
Indices: 33068705--33068777 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
33068695 CCACAACTCT
33068705 TATGAGCTTCCCAATATTTAGCTCA-
1 TATGAGCTTCCCAATATTTAGCT-AG
* *
33068730 TATGAGCTTCCCGATACTTAGCTAG
1 TATGAGCTTCCCAATATTTAGCTAG
* * *
33068755 CATGAGCTTCCCATTATTCAGCT
1 TATGAGCTTCCCAATATTTAGCT
33068778 TAGAGGAGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (25 bp):
TATGAGCTTCCCAATATTTAGCTAG
Found at i:33071937 original size:3 final size:3
Alignment explanation
Indices: 33071931--33071980 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
33071921 CACTCTTGCC
* * *
33071931 TCT TCT TCT TCT TCT TCT TCT AT-A TCT TCT TCT TGT TCT TCA TCT
1 TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT
33071976 TCT TC
1 TCT TC
33071981 CTGTTCTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.06, C:0.30, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:33071985 original size:18 final size:18
Alignment explanation
Indices: 33071931--33071989 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
33071921 CACTCTTGCC
* *
33071931 TCTTCTTCTTCTTCTTCT
1 TCTTCATCTTCTTCTTGT
33071949 TCTAT-ATCTTCTTCTTGT
1 TCT-TCATCTTCTTCTTGT
*
33071967 TCTTCATCTTCTTCCTGT
1 TCTTCATCTTCTTCTTGT
33071985 TCTTC
1 TCTTC
33071990 CTCTCCCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.05, C:0.31, G:0.03, T:0.61
Consensus pattern (18 bp):
TCTTCATCTTCTTCTTGT
Found at i:33080644 original size:16 final size:16
Alignment explanation
Indices: 33080623--33080653 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33080613 TATATAAGTA
*
33080623 TAAAAAATTAATAATC
1 TAAAAAAATAATAATC
33080639 TAAAAAAATAATAAT
1 TAAAAAAATAATAAT
33080654 TAATTATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAAAATAATAATC
Found at i:33080654 original size:23 final size:24
Alignment explanation
Indices: 33080628--33080682 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
33080618 AAGTATAAAA
33080628 AATTAATAATCTAAAA-AAATAAT
1 AATTAATAATCTAAAATAAATAAT
* *
33080651 AATTAATTATTTAAAATTAAATAAT
1 AATTAATAATCTAAAA-TAAATAAT
33080676 --TTAATAA
1 AATTAATAA
33080683 ATTTTCTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 20 0.74
25 7 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTAATAATCTAAAATAAATAAT
Found at i:33080842 original size:7 final size:7
Alignment explanation
Indices: 33080832--33080861 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
33080822 AGGATTGAGG
33080832 ATTGAAA
1 ATTGAAA
33080839 ATTGAAA
1 ATTGAAA
*
33080846 ATTGAAG
1 ATTGAAA
33080853 ATTGAAA
1 ATTGAAA
33080860 AT
1 AT
33080862 ATAGGGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (7 bp):
ATTGAAA
Found at i:33080842 original size:14 final size:14
Alignment explanation
Indices: 33080817--33080861 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
33080807 ATTAAAAAAT
* *
33080817 AATTGAGGATTGAG
1 AATTGAAGATTGAA
* *
33080831 GATTGAAAATTGAA
1 AATTGAAGATTGAA
33080845 AATTGAAGATTGAA
1 AATTGAAGATTGAA
33080859 AAT
1 AAT
33080862 ATAGGGTGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (14 bp):
AATTGAAGATTGAA
Found at i:33083093 original size:19 final size:19
Alignment explanation
Indices: 33083069--33083111 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
33083059 ATATTTTTCC
33083069 ATAAAAATGATTAAATATT
1 ATAAAAATGATTAAATATT
*
33083088 ATAAAAATTATTAAATATT
1 ATAAAAATGATTAAATATT
33083107 A-AAAA
1 ATAAAA
33083112 TACTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAATGATTAAATATT
Found at i:33087987 original size:46 final size:46
Alignment explanation
Indices: 33087920--33088014 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
33087910 CCATGCTGTT
33087920 TATTTATCCTAAAATTAGACTCAATAAGGAATCTATACATATAAAG
1 TATTTATCCTAAAATTAGACTCAATAAGGAATCTATACATATAAAG
33087966 TATTTATCCTAAAATTAGACTCAATAAGGAATCTATACATATAAAG
1 TATTTATCCTAAAATTAGACTCAATAAGGAATCTATACATATAAAG
33088012 TAT
1 TAT
33088015 AACTCCTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (46 bp):
TATTTATCCTAAAATTAGACTCAATAAGGAATCTATACATATAAAG
Found at i:33088723 original size:16 final size:16
Alignment explanation
Indices: 33088704--33088734 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33088694 CTTCTTCACT
33088704 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
33088720 TACTTACTTACTTAA
1 TACTCACTTACTTAA
33088735 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:33088740 original size:20 final size:20
Alignment explanation
Indices: 33088701--33088740 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33088691 AAACTTCTTC
* *
33088701 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
33088721 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
33088741 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:33089116 original size:55 final size:53
Alignment explanation
Indices: 33088926--33089180 Score: 272
Period size: 55 Copynumber: 4.8 Consensus size: 53
33088916 ACATGGGTAC
* * **
33088926 CTTACCATTGCCATGACTTTTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
*
33088975 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * *
33089028 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AA
*
33089083 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* ** *
33089136 CCTTACCAATTGTCATCCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
33089181 AAACCCTAAT
Statistics
Matches: 176, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 74 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:33089117 original size:108 final size:110
Alignment explanation
Indices: 33088973--33089173 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
33088963 ATCCTTTTGA
*
33088973 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
*
33089036 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATCCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
33089081 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
*
33089146 TGTCATCCCTTGGCATGGTCTTACATGG
66 TGCCATCCCTTGGCATGGTCTTACATGG
33089174 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 51 0.60
109 7 0.08
110 26 0.31
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATCCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:33089550 original size:30 final size:30
Alignment explanation
Indices: 33089516--33089574 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33089506 TCATTGACTC
33089516 AAAC-TTTAGAAAAATTACACTTTTGCCCCT
1 AAACTTTTA-AAAAATTACACTTTTGCCCCT
* * *
33089546 AAACTTTTACATATTTACACTTTTGCCCC
1 AAACTTTTAAAAAATTACACTTTTGCCCC
33089575 AAGGTTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AAACTTTTAAAAAATTACACTTTTGCCCCT
Found at i:33092354 original size:40 final size:40
Alignment explanation
Indices: 33092306--33092493 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
33092296 GCTACTCACT
*
33092306 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
33092346 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
33092386 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
33092426 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
33092466 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
33092494 CAATCCGAAT
Statistics
Matches: 140, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 127 0.91
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:33092405 original size:80 final size:80
Alignment explanation
Indices: 33092273--33092493 Score: 331
Period size: 80 Copynumber: 2.8 Consensus size: 80
33092263 AAACCAAGTA
** * *
33092273 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCACTCAAATGCCTTCGGGACTTAGCTCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
33092336 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * * *
33092352 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATAG
33092417 TAACTCGCACAAATG
66 TAACTCGCACAAATG
33092432 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTAT
33092494 CAATCCGAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 25 0.20
80 102 0.80
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:33095355 original size:40 final size:40
Alignment explanation
Indices: 33095296--33095503 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
33095286 CAATTGAATG
* * *
33095296 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** * *
33095336 ATATCCGAGTTAAGACCCGAAGGCAATTGTGTTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
33095376 ACATCCGGGTTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
33095416 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
33095456 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
33095496 ATATCCGG
1 ATATCCGG
33095504 TTGTAATCCG
Statistics
Matches: 141, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:33095439 original size:80 final size:80
Alignment explanation
Indices: 33095298--33095503 Score: 234
Period size: 80 Copynumber: 2.6 Consensus size: 80
33095288 ATTGAATGAT
* * * * * * *
33095298 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGAGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
**
33095363 TGTGTTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * * *
33095378 ATCCGGGTTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
33095443 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
33095458 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
33095504 TTGTAATCCG
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
80 104 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:33100224 original size:53 final size:53
Alignment explanation
Indices: 33100131--33100304 Score: 180
Period size: 53 Copynumber: 3.3 Consensus size: 53
33100121 ATGTAAGACC
* * * *
33100131 GACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAA
1 GACATGGCAATGGTAAGTT-C-ATAAGGC-AAGGATACCATGTAAGACCATGACAA
* * * *
33100186 GGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAA
1 GACATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAA
*
33100239 GACATGGCAATGGTAAGTT--TCAA---AAGGATACCACGTAAGACCATGACAA
1 GACATGGCAATGGTAAGTTCAT-AAGGCAAGGATACCATGTAAGACCATGACAA
*
33100288 GTCATGGCAATGGTAAG
1 GACATGGCAATGGTAAG
33100305 GTACCTGTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
49 40 0.38
51 1 0.01
52 6 0.06
53 42 0.40
54 1 0.01
55 16 0.15
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
GACATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAA
Found at i:33102050 original size:20 final size:21
Alignment explanation
Indices: 33102027--33102068 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33102017 TATGTATGAG
33102027 TTTTGAA-GCTTCTTAATAGA
1 TTTTGAATGCTTCTTAATAGA
* *
33102047 TTTTGAATGCTTGTTGATAGA
1 TTTTGAATGCTTCTTAATAGA
33102068 T
1 T
33102069 ATACAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (21 bp):
TTTTGAATGCTTCTTAATAGA
Found at i:33106515 original size:13 final size:13
Alignment explanation
Indices: 33106499--33106530 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
33106489 ATCACACGGG
33106499 CGTGTGTGTTGGC
1 CGTGTGTGTTGGC
33106512 CGTGTGTGTTGGC
1 CGTGTGTGTTGGC
33106525 CGTGTG
1 CGTGTG
33106531 ACCCAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.47, T:0.38
Consensus pattern (13 bp):
CGTGTGTGTTGGC
Found at i:33107307 original size:9 final size:9
Alignment explanation
Indices: 33107295--33107479 Score: 63
Period size: 9 Copynumber: 19.4 Consensus size: 9
33107285 TTTATGATTT
33107295 TTTTAATAA
1 TTTTAATAA
*
33107304 TTTTTATAA
1 TTTTAATAA
*
33107313 GTTTATATCAA
1 TTTTA-AT-AA
*
33107324 TTTT-ATTA
1 TTTTAATAA
33107332 TTTTAATTATTA
1 TTTTAA-TA--A
* *
33107344 TTTTATTATT
1 TTTTAATA-A
*
33107354 TTTTAAGAA
1 TTTTAATAA
* *
33107363 TTCTAATTAG
1 TTTTAA-TAA
**
33107373 TTTTTTTAAA
1 TTTTAAT-AA
33107383 TTTTAAATAA
1 TTTT-AATAA
* *
33107393 GTTTTATTAG
1 -TTTTAATAA
*
33107403 TTTTAGA-AT
1 TTTTA-ATAA
33107412 TTTTTAATAA
1 TT-TTAATAA
*
33107422 GTTTATATAA
1 TTTTA-ATAA
33107432 TTTTAATAA
1 TTTTAATAA
33107441 TTTTAAT-A
1 TTTTAATAA
*
33107449 TTTT-CTAA
1 TTTTAATAA
*
33107457 TATTTAATAT
1 T-TTTAATAA
*
33107467 TTTTTATAA
1 TTTTAATAA
33107476 TTTT
1 TTTT
33107480 TCAAATTGTT
Statistics
Matches: 127, Mismatches: 32, Indels: 34
0.66 0.17 0.18
Matches are distributed among these distances:
7 1 0.01
8 12 0.09
9 56 0.44
10 40 0.31
11 12 0.09
12 6 0.05
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:33107343 original size:12 final size:12
Alignment explanation
Indices: 33107326--33107359 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
33107316 TATATCAATT
33107326 TTATTATTTTAA
1 TTATTATTTTAA
33107338 TTATTATTTT-A
1 TTATTATTTTAA
33107349 TTATT-TTTTAA
1 TTATTATTTTAA
33107360 GAATTCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 7 0.33
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTATTTTAA
Found at i:33107406 original size:29 final size:30
Alignment explanation
Indices: 33107368--33107425 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
33107358 AAGAATTCTA
**
33107368 ATTAGTTTTTTTAAATTTTAAATAAGTTTT
1 ATTAGTTTTTAGAAATTTTAAATAAGTTTT
* *
33107398 ATTAG-TTTTAGAATTTTTTAATAAGTTT
1 ATTAGTTTTTAGAAATTTTAAATAAGTTT
33107426 ATATAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (30 bp):
ATTAGTTTTTAGAAATTTTAAATAAGTTTT
Found at i:33107431 original size:10 final size:9
Alignment explanation
Indices: 33107413--33107479 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
33107403 TTTTAGAATT
33107413 TTTTAATAA
1 TTTTAATAA
*
33107422 GTTTATATAA
1 TTTTA-ATAA
33107432 TTTTAATAA
1 TTTTAATAA
33107441 TTTTAAT-A
1 TTTTAATAA
*
33107449 TTTT-CTAA
1 TTTTAATAA
*
33107457 TATTTAATAT
1 T-TTTAATAA
*
33107467 TTTTTATAA
1 TTTTAATAA
33107476 TTTT
1 TTTT
33107480 TCAAATTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
7 1 0.02
8 7 0.15
9 28 0.60
10 11 0.23
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:33107435 original size:29 final size:27
Alignment explanation
Indices: 33107376--33107446 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
33107366 TAATTAGTTT
*
33107376 TTTTAAATTTTAAATAAGTTTTATTAG
1 TTTTAAATTTTAAATAAGTTTTATTAA
*
33107403 TTTTAGAATTTTTTAATAAG-TTTATATAA
1 TTTTA-AA-TTTTAAATAAGTTTTAT-TAA
33107432 TTTTAATAATTTTAA
1 TTTT-A-AATTTTAA
33107447 TATTTTCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 5 0.14
28 7 0.19
29 21 0.58
30 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (27 bp):
TTTTAAATTTTAAATAAGTTTTATTAA
Found at i:33107462 original size:17 final size:16
Alignment explanation
Indices: 33107438--33107469 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33107428 ATAATTTTAA
33107438 TAATTTTAATATTTTC
1 TAATTTTAATATTTTC
33107454 TAATATTTAATATTTT
1 TAAT-TTTAATATTTT
33107470 TTATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTAATATTTTC
Found at i:33107476 original size:19 final size:19
Alignment explanation
Indices: 33107374--33107516 Score: 75
Period size: 19 Copynumber: 7.5 Consensus size: 19
33107364 TCTAATTAGT
*
33107374 TTTTTTA-AATTTTAAATA
1 TTTTTTATAATTTTTAATA
** * *
33107392 AGTTTTATTAGTTTTAGA-A
1 TTTTTTATAATTTTTA-ATA
*
33107411 TTTTTTAATAA-GTTTATATA
1 TTTTTT-ATAATTTTTA-ATA
* *
33107431 ATTTTAATAA-TTTTAATA
1 TTTTTTATAATTTTTAATA
* *
33107449 --TTTTCTAATATTTAATA
1 TTTTTTATAATTTTTAATA
33107466 TTTTTTATAATTTTTCAA-A
1 TTTTTTATAATTTTT-AATA
*
33107485 TTGTTTTATAATTTTTTATAA
1 TT-TTTTATAATTTTTAAT-A
33107506 TTTTTTTATAA
1 -TTTTTTATAA
33107517 AAAAAGTATT
Statistics
Matches: 94, Mismatches: 19, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
16 6 0.06
17 7 0.07
18 8 0.09
19 38 0.40
20 24 0.26
21 9 0.10
22 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTTATAATTTTTAATA
Found at i:33107497 original size:11 final size:10
Alignment explanation
Indices: 33107403--33107516 Score: 71
Period size: 10 Copynumber: 11.8 Consensus size: 10
33107393 GTTTTATTAG
*
33107403 TTTTAGAATT
1 TTTTATAATT
*
33107413 TTTTAATAAGT
1 TTTT-ATAATT
*
33107424 TTATATAA-T
1 TTTTATAATT
*
33107433 TTTAATAA--
1 TTTTATAATT
*
33107441 -TTT-TAATA
1 TTTTATAATT
* *
33107449 TTTTCTAATA
1 TTTTATAATT
*
33107459 TTTAAT-ATT
1 TTTTATAATT
33107468 TTTTATAATT
1 TTTTATAATT
*
33107478 TTTCA-AATT
1 TTTTATAATT
33107487 GTTTTATAATT
1 -TTTTATAATT
33107498 TTTTATAATTT
1 TTTTATAA-TT
33107509 TTTTATAA
1 TTTTATAA
33107517 AAAAAGTATT
Statistics
Matches: 83, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
6 3 0.04
7 2 0.02
9 21 0.25
10 36 0.43
11 21 0.25
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:33107509 original size:8 final size:9
Alignment explanation
Indices: 33107375--33107510 Score: 64
Period size: 9 Copynumber: 14.6 Consensus size: 9
33107365 CTAATTAGTT
33107375 TTTTTA-AA
1 TTTTTATAA
*
33107383 TTTTAAATAA
1 TTTT-TATAA
* *
33107393 GTTTTATTA
1 TTTTTATAA
* *
33107402 GTTTTAGAA
1 TTTTTATAA
33107411 TTTTTTAATAA
1 -TTTTT-ATAA
*
33107422 GTTTATATAA
1 -TTTTTATAA
*
33107432 TTTTAATAA
1 TTTTTATAA
*
33107441 TTTTAAT-A
1 TTTTTATAA
*
33107449 -TTTTCTAA
1 TTTTTATAA
* *
33107457 TATTTAATAT
1 T-TTTTATAA
33107467 TTTTTATAA
1 TTTTTATAA
33107476 TTTTTCA-AA
1 TTTTT-ATAA
33107485 TTGTTTTATAA
1 -T-TTTTATAA
33107496 TTTTTTATAA
1 -TTTTTATAA
33107506 TTTTT
1 TTTTT
33107511 TTATAAAAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
7 4 0.04
8 6 0.06
9 43 0.44
10 30 0.31
11 15 0.15
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:33114357 original size:9 final size:9
Alignment explanation
Indices: 33114343--33114419 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
33114333 ATAAGTATAA
33114343 AATTAACCG
1 AATTAACCG
*
33114352 AATTAATCG
1 AATTAACCG
33114361 AATTAACCG
1 AATTAACCG
*
33114370 AATTACCCG
1 AATTAACCG
*
33114379 AATTACCCG
1 AATTAACCG
**
33114388 AATTGCCCG
1 AATTAACCG
*
33114397 AATTACCCG
1 AATTAACCG
*
33114406 AATTAACCA
1 AATTAACCG
33114415 AATTA
1 AATTA
33114420 TTTATATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:33114454 original size:5 final size:6
Alignment explanation
Indices: 33114439--33114479 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
33114429 AATTATATGG
*
33114439 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
33114480 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:33121246 original size:46 final size:46
Alignment explanation
Indices: 33121158--33121378 Score: 223
Period size: 46 Copynumber: 4.7 Consensus size: 46
33121148 GTAAAGAGCT
* * * * *
33121158 GATGCCATGTGCCAGACATGGTTTTACACTGACTATCATCTCGTAGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATCTCGTAGCC
* *
33121206 GATGCATGTCCCAAACATGTCTTACATTGGCT-TACGTCTCG-AGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATCTCGTA-GCC
* **
33121252 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAAAGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGTAGCC
* * *
33121298 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCAT-CTCGTAGCC
* *
33121346 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTC
33121379 ACACACAAAT
Statistics
Matches: 149, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.01
46 76 0.51
47 41 0.28
48 29 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGTAGCC
Found at i:33121347 original size:94 final size:92
Alignment explanation
Indices: 33121158--33121378 Score: 259
Period size: 94 Copynumber: 2.4 Consensus size: 92
33121148 GTAAAGAGCT
* * * **
33121158 GATGCCATGTGCCAGACATGGTTTTACACT-GACTATCATCTCGTAGCCGATGCATGTCCCAAAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCAAAGCCGATGCATGTCCCAAAC
* * *
33121222 ATGTCTTACATTGGCTTACGTCTCGAGGCC
63 ATGTCTTACACTGGCTTACATATCGAGGCC
* *
33121252 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAAAGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCCGATG-CATGTCCCAAACAT
*
33121317 GGTCTTACACTGGCTCT-CATAAT-GTGGCC
65 -GTCTTACACTGGCT-TACAT-ATCGAGGCC
33121346 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
33121379 ACACACAAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
92 26 0.24
93 26 0.24
94 56 0.51
95 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCCGATGCATGTCCCAAACATG
TCTTACACTGGCTTACATATCGAGGCC
Found at i:33127260 original size:80 final size:80
Alignment explanation
Indices: 33127176--33127324 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33127166 TATGGTAACC
* * * *
33127176 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33127240 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33127256 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33127321 CCGG
66 CCGG
33127325 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33127266 original size:40 final size:38
Alignment explanation
Indices: 33127217--33127324 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33127207 ATCACGATTT
*
33127217 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33127257 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33127297 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33127325 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33134670 original size:43 final size:42
Alignment explanation
Indices: 33134605--33134734 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 42
33134595 AGCTCGCACA
* *
33134605 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATATCCCAGAAATGGTCTTACATGTAATCACATATCG
* * * *
33134647 ATGCCACTATCCCAGAAAAGGTCTTACACGAAATCATA-ATACG
1 ATGCCA-TATCCCAGAAATGGTCTTACATGTAATCACATAT-CG
* * *
33134690 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCC-ATATCCCAGAAATGGTCTTACATGTAATCACATATCG
33134733 AT
1 AT
33134735 AACCTAATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
42 8 0.11
43 61 0.86
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGAAATGGTCTTACATGTAATCACATATCG
Found at i:33136488 original size:21 final size:20
Alignment explanation
Indices: 33136462--33136504 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
33136452 GGAATTTGAA
33136462 TTGAGT-AGTTGAGAGAGTGGT
1 TTGAGTGAGTTGAG-GAG-GGT
*
33136483 TTGAGTGATTTGAGGAGGGT
1 TTGAGTGAGTTGAGGAGGGT
33136503 TT
1 TT
33136505 TTAGGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (20 bp):
TTGAGTGAGTTGAGGAGGGT
Found at i:33138011 original size:27 final size:27
Alignment explanation
Indices: 33137973--33138164 Score: 269
Period size: 27 Copynumber: 7.1 Consensus size: 27
33137963 CGTACATGAA
*
33137973 CCCTCATGTGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
33138000 CCCTCATGTGATAAAATTACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
33138027 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
33138054 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
33138081 CCCTCATGTGGTAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * *
33138108 CCATTATGTGGTAAAATGACGA-TTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * *
33138134 CCCTTATGTGATAAAATGAGGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
33138161 CCCT
1 CCCT
33138165 TATAGGGTAA
Statistics
Matches: 150, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
26 23 0.15
27 127 0.85
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:33138201 original size:80 final size:81
Alignment explanation
Indices: 33137973--33138207 Score: 219
Period size: 81 Copynumber: 2.9 Consensus size: 81
33137963 CGTACATGAA
* * * * *** * *
33137973 CCCTCATGTGATAAAATGACGATTTTTCCCTCATGTGATAAAATTACGATTTTGCCC-TCATGTG
1 CCCTCATGTGATAAAATGAGGATTTTACCCTCATGTGGTAAAATGAC-AAAATACCCATTATGTG
* *
33138037 ATAAAATGATGATTTTG
65 GTAAAATGACGATTTTG
* * ** **
33138054 CCCTCATGTGATAAAATGATGATTTTGCCCTCATGTGGTAAAATGACAATTTTGCCATTATGTGG
1 CCCTCATGTGATAAAATGAGGATTTTACCCTCATGTGGTAAAATGACAAAATACCCATTATGTGG
33138119 TAAAATGACGA-TTTG
66 TAAAATGACGATTTTG
* * *
33138134 CCCTTATGTGATAAAATGAGGATTTTACCCTTATAG-GGTAAAATGACCAAAATACCCCTGTA-G
1 CCCTCATGTGATAAAATGAGGATTTTACCCTCAT-GTGGTAAAATGA-CAAAATACCCAT-TATG
33138197 -GGTAAAATGAC
63 TGGTAAAATGAC
33138208 TGTAATAACC
Statistics
Matches: 131, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
80 61 0.47
81 68 0.52
82 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (81 bp):
CCCTCATGTGATAAAATGAGGATTTTACCCTCATGTGGTAAAATGACAAAATACCCATTATGTGG
TAAAATGACGATTTTG
Found at i:33138214 original size:27 final size:27
Alignment explanation
Indices: 33138167--33138234 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
33138157 TTTACCCTTA
* *
33138167 TAGGGTAAAATGACCAAAATACCCCTG
1 TAGGGTAAAATGACCAAAATAACCCGG
***
33138194 TAGGGTAAAATGACTGTAATAACCCGG
1 TAGGGTAAAATGACCAAAATAACCCGG
*
33138221 TAAGGTAAAATGAC
1 TAGGGTAAAATGAC
33138235 AGATTTGTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (27 bp):
TAGGGTAAAATGACCAAAATAACCCGG
Found at i:33138481 original size:17 final size:18
Alignment explanation
Indices: 33138459--33138492 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33138449 CACATTGAAG
33138459 TGTTTT-AATGAAAACCT
1 TGTTTTCAATGAAAACCT
*
33138476 TGTTTTCATTGAAAACC
1 TGTTTTCAATGAAAACC
33138493 CTTCTTAAAA
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:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCAATGAAAACCT
Found at i:33139675 original size:29 final size:29
Alignment explanation
Indices: 33139608--33139732 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
33139598 AAGTCTACAT
*
33139608 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
33139636 TCATTCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
33139665 ACATTCGTATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* **
33139694 ACATTCCTATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
33139723 ACATTCATAT
1 ACATTCATAT
33139733 ACATGCTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 22 0.26
29 64 0.74
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:33139966 original size:16 final size:16
Alignment explanation
Indices: 33139942--33139976 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33139932 GTAGCCAAAC
33139942 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
33139958 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
33139974 TTT
1 TTT
33139977 TAGGATTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:33142896 original size:10 final size:11
Alignment explanation
Indices: 33142857--33142898 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
33142847 TATTTACGAA
*
33142857 GTTAATTTAGTG
1 GTTAA-TTAGAG
33142869 GTTAATTAGAG
1 GTTAATTAGAG
*
33142880 TTTAATTA-AG
1 GTTAATTAGAG
33142890 GTTAATTAG
1 GTTAATTAG
33142899 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:33143368 original size:24 final size:23
Alignment explanation
Indices: 33143341--33143393 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
33143331 TATGTATTTG
33143341 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
33143365 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
33143386 TTATTAAA
1 TTATTAAA
33143394 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:33143520 original size:3 final size:3
Alignment explanation
Indices: 33143512--33143560 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
33143502 ATGAATTAAA
* *
33143512 TAT TAT TA- TAT TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
33143556 TAT TA
1 TAT TA
33143561 ACTAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:33143529 original size:13 final size:13
Alignment explanation
Indices: 33143511--33143560 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
33143501 TATGAATTAA
33143511 ATATTATTATATT
1 ATATTATTATATT
33143524 ATATTA-T-TATT
1 ATATTATTATATT
33143535 ATAATGTATTATTATT
1 AT-AT-TATTA-TATT
33143551 AATATTATTA
1 -ATATTATTA
33143561 ACTAATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.19
12 3 0.10
13 8 0.26
14 1 0.03
15 5 0.16
16 6 0.19
17 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:33143533 original size:16 final size:16
Alignment explanation
Indices: 33143512--33143558 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
33143502 ATGAATTAAA
33143512 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
33143528 TATTATTATAATGTAT
1 TATTATTATATTATAT
33143544 TATTATTAATATTAT
1 TATTATT-ATATTAT
33143559 TAACTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:33143536 original size:19 final size:21
Alignment explanation
Indices: 33143512--33143558 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
33143502 ATGAATTAAA
33143512 TATTATTATAT-TA-TATTAT
1 TATTATTATATGTATTATTAT
33143531 TATTA-TA-ATGTATTATTAT
1 TATTATTATATGTATTATTAT
*
33143550 TAATATTAT
1 TATTATTAT
33143559 TAACTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.09
18 4 0.17
19 15 0.65
20 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATTATATGTATTATTAT
Found at i:33143572 original size:2 final size:2
Alignment explanation
Indices: 33143565--33143590 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33143555 TTATTAACTA
33143565 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
33143591 GAAATAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33150201 original size:3 final size:3
Alignment explanation
Indices: 33150193--33150244 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
33150183 ATGAATTAAA
*
33150193 TAT TAT TA- TAT TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
33150237 TAT TAT TA
1 TAT TAT TA
33150245 ACTAATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:33150214 original size:16 final size:16
Alignment explanation
Indices: 33150193--33150244 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
33150183 ATGAATTAAA
33150193 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
33150209 TATTATTATAATGTAT
1 TATTATTATATTATAT
33150225 TATTATTATTATTATTAT
1 TATTATTA-TATTA-TAT
33150243 TA
1 TA
33150245 ACTAATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 22 0.73
17 3 0.10
18 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:33152166 original size:50 final size:50
Alignment explanation
Indices: 33152031--33152272 Score: 238
Period size: 50 Copynumber: 4.8 Consensus size: 50
33152021 AGCCGAAGCT
* * * * * *
33152031 ATCTGATACGCATTGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
33152080 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * *
33152130 ATCTGATATACGTAGTAGCCTGCACTTAGTAATACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * ** * *
33152181 AT-TGAATACGCATAGTAGCCTGCACTTAGTACTACACGTGCGACTTAA-C
1 ATCTG-ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
33152230 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
33152273 TACTCACAAT
Statistics
Matches: 155, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
49 40 0.26
50 77 0.50
51 38 0.25
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:33159611 original size:50 final size:49
Alignment explanation
Indices: 33159477--33159723 Score: 248
Period size: 50 Copynumber: 5.0 Consensus size: 49
33159467 AGCCGAAGCT
* * ** *
33159477 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCAAC-CAAA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTCAAC
* * *
33159525 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CTCAAC
* * *
33159575 ATCTGATATACGTAGTAGCCTGCACTTAGTAATACACACGTGA-TCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTC-AA--C
* * * *
33159626 AT-TGAATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTG-ATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTCAAC
* * *
33159675 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGTACTCA
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTG-ACTCA
33159724 CAATGGGTCA
Statistics
Matches: 162, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
48 39 0.24
49 4 0.02
50 75 0.46
51 43 0.27
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTCAAC
Found at i:33182843 original size:30 final size:29
Alignment explanation
Indices: 33182777--33182844 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
33182767 ATAGTTGTGT
33182777 TTTAATTAATTTTCAGTAAGTTTAGTTAAG
1 TTTAA-TAATTTTCAGTAAGTTTAGTTAAG
33182807 TTTAATAACTTTTCAGTAAGTTTAGTTAAG
1 TTTAATAA-TTTTCAGTAAGTTTAGTTAAG
33182837 TTTAATAA
1 TTTAATAA
33182845 ATGTGTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 3 0.08
30 34 0.92
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTAATAATTTTCAGTAAGTTTAGTTAAG
Found at i:33188817 original size:43 final size:42
Alignment explanation
Indices: 33188660--33188818 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
33188650 TATGTGTTAT
* * ** * *
33188660 CGTGTAAGACCATGTCTGGGATGTTGGCATCGACTTTTGCTTTG
1 CGTGTAAGACCACGTCTGAGACATTGGCATCGA-TTTTG-ATTA
* *
33188704 CGTGTAAGACCATGTCT-AGGACATTGGCATC-ATATTTGATTT
1 CGTGTAAGACCACGTCTGA-GACATTGGCATCGAT-TTTGATTA
* * * *
33188746 CGTGTAAAACC-CTATCTGGGACAATGGCATCGATGTTTGATTA
1 CGTGTAAGACCAC-GTCTGAGACATTGGCATCGAT-TTTGATTA
*
33188789 CATGTAAGACCACGTCTGAGACATTGGCAT
1 CGTGTAAGACCACGTCTGAGACATTGGCAT
33188819 TGTATATGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 27 0.29
43 37 0.40
44 28 0.30
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGAGACATTGGCATCGATTTTGATTA
Found at i:33199683 original size:13 final size:13
Alignment explanation
Indices: 33199665--33199691 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33199655 GCTCGGCAGG
33199665 GACACGCCCGTGT
1 GACACGCCCGTGT
33199678 GACACGCCCGTGT
1 GACACGCCCGTGT
33199691 G
1 G
33199692 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:33200934 original size:34 final size:34
Alignment explanation
Indices: 33200891--33200957 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
33200881 GATCTCATCA
* *
33200891 ATAAATACTATATGTCTGGGTAAGTAATCTGACG
1 ATAAATACTATATGTCTAGGCAAGTAATCTGACG
33200925 ATAAATACTATATGTCTAGGCAAGTAATCTGAC
1 ATAAATACTATATGTCTAGGCAAGTAATCTGAC
33200958 TCTGCATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (34 bp):
ATAAATACTATATGTCTAGGCAAGTAATCTGACG
Found at i:33202844 original size:40 final size:40
Alignment explanation
Indices: 33202762--33202982 Score: 302
Period size: 40 Copynumber: 5.5 Consensus size: 40
33202752 ACCCAAGTTT
* * * * *
33202762 CTTCGGGAT-TTAG-CCAGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
33202801 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
33202841 CTTCAGGTCTTAGCCCGGATATAACAACTCGTACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
33202881 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATTC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
33202921 CTTCGGGTCTTAGCCTGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
33202961 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
33202983 CATTCAAATG
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 149 0.93
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:33205023 original size:27 final size:27
Alignment explanation
Indices: 33204985--33205048 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
33204975 TTTTGTGAGA
*
33204985 CTTTGTGGCAAACTTTGAA-AAAATAGC
1 CTTTGTGGCAAACTCTGAATAAAAT-GC
* *
33205012 CTTTGTGGCAAACTCTGAATGAACTGC
1 CTTTGTGGCAAACTCTGAATAAAATGC
33205039 CTTTGTGGCA
1 CTTTGTGGCA
33205049 TACCCTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 30 0.91
28 3 0.09
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (27 bp):
CTTTGTGGCAAACTCTGAATAAAATGC
Found at i:33208970 original size:40 final size:40
Alignment explanation
Indices: 33208885--33209035 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
33208875 AATTGAATGA
* * * **
33208885 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
33208925 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
33208966 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
33209005 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
33209036 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:33209049 original size:40 final size:40
Alignment explanation
Indices: 33208925--33209051 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
33208915 CTGGAAATTT
* * * * *
33208925 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
33208965 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
33209005 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
33209045 TATCCGG
1 TATCCGG
33209052 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:33215772 original size:39 final size:39
Alignment explanation
Indices: 33215715--33215912 Score: 324
Period size: 39 Copynumber: 5.1 Consensus size: 39
33215705 ATTATATTAT
*
33215715 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
33215754 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
33215793 CAGCACGAAGCCTGCAGGACTTTAGCTCGGATACAATTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
33215832 CAGCACGAAGCCTGCGGGACATTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
33215871 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
33215910 CAG
1 CAG
33215913 TGTCTTGCAT
Statistics
Matches: 145, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 145 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:33219557 original size:79 final size:81
Alignment explanation
Indices: 33219456--33219640 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
33219446 ACGACTCGCT
** *
33219456 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGCGA-CTCGCACGAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TA-CGATCTCGCACGAATGCCTTC-GGATCCTAACC
* *
33219518 CGGGTTTAGTAACTT-GCA
63 CGGATATAGTAACTTAGCA
** **
33219536 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTATCTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTACGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
*
33219600 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
33219616 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33219641 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.04
79 52 0.58
80 34 0.38
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTACGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:33219581 original size:39 final size:40
Alignment explanation
Indices: 33219449--33219640 Score: 142
Period size: 40 Copynumber: 4.8 Consensus size: 40
33219439 GGATATAACG
* * * **
33219449 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
33219489 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
33219529 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * ** * *
33219568 TCTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
* * *
33219608 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAACCCGGA
33219641 CATCATTCGA
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 79 0.64
41 12 0.10
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:33224816 original size:39 final size:39
Alignment explanation
Indices: 33224757--33224915 Score: 282
Period size: 39 Copynumber: 4.1 Consensus size: 39
33224747 ATTATATTAT
* *
33224757 CAGCACAAAGCCTGCAGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
33224796 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
*
33224835 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTT
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
*
33224874 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
33224913 CAG
1 CAG
33224916 TGTCTTGCAT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
Found at i:33226699 original size:12 final size:12
Alignment explanation
Indices: 33226682--33226707 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33226672 GTTACACGAG
33226682 ATATTCTAATCT
1 ATATTCTAATCT
33226694 ATATTCTAATCT
1 ATATTCTAATCT
33226706 AT
1 AT
33226708 CTATTTGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTCTAATCT
Found at i:33236445 original size:44 final size:44
Alignment explanation
Indices: 33236388--33236473 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
33236378 TATATATGAG
* * * *
33236388 GCATCTGAGCTCGTT-AAGTTGGTCCGAGTTCATTATGGATGCTA
1 GCATCCGAACTCGTTGAA-TTGGTCCGAGTGCATAATGGATGCTA
33236432 GCATCCGAACTCGTTGAATTGGTCCGAGTGCATAATGGATGC
1 GCATCCGAACTCGTTGAATTGGTCCGAGTGCATAATGGATGC
33236474 GATACATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
GCATCCGAACTCGTTGAATTGGTCCGAGTGCATAATGGATGCTA
Found at i:33240454 original size:61 final size:61
Alignment explanation
Indices: 33240356--33240527 Score: 178
Period size: 60 Copynumber: 2.8 Consensus size: 61
33240346 TCAAGCTTTA
*
33240356 CTGGGCC-TAAGCCCTATT-CAGGAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACA--AATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAAT
* *
33240418 CTGGGCCATAGCCC-CTTACAATATCAGAGTATACTGGGCC-TAGCCCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAA-ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
* * * *
33240478 CTGGGTCGTAGCCCTATTACAAGTC-GAGATATATTGGGCCTT-GCCCATAT
1 CTGGGCCATAGCCCTATTACAAATCAGAG-TATACTGGGCCTTAGCCCATAT
33240528 TAACACAGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
59 3 0.03
60 51 0.54
61 25 0.26
62 15 0.16
63 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAAATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:33240545 original size:20 final size:20
Alignment explanation
Indices: 33240520--33240565 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33240510 ATTGGGCCTT
33240520 GCCCATATT-AACACAGTTAG
1 GCCCATATTCAACACAGTT-G
*
33240540 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
33240559 GCCCATA
1 GCCCATA
33240566 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:33242040 original size:18 final size:17
Alignment explanation
Indices: 33241993--33242041 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
33241983 GACTATAGAG
33241993 GAAAAGAAGAAG-AAGA
1 GAAAAGAAGAAGAAAGA
*
33242009 GAAAATAGATGAAGAAAGGA
1 G-AAA-AGAAGAAGAAA-GA
33242029 GAAAAGAAGAAGA
1 GAAAAGAAGAAGA
33242042 GAAAAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.04
17 3 0.11
18 15 0.56
19 5 0.19
20 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (17 bp):
GAAAAGAAGAAGAAAGA
Found at i:33247757 original size:60 final size:62
Alignment explanation
Indices: 33247641--33247806 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 62
33247631 ACTGGTCCTA
* * * *
33247641 AGCCCTATT-CAGGAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCAT
1 AGCCCTATTACAAGTATCAGAGTAT-ACTGGGCC-TAGCCCATATTAATATCAATCTGGGCCAT
* * * *
33247703 AGCCC-CTTACAA-TATCAGAGTATACTGGGCCTAGCCCATATTAGTATCAATCTGGGTCGT
1 AGCCCTATTACAAGTATCAGAGTATACTGGGCCTAGCCCATATTAATATCAATCTGGGCCAT
* * *
33247763 AGCCCTATTACAAGT-TAAGA-TATATTGGGCCTTGCCCATATTAA
1 AGCCCTATTACAAGTATCAGAGTATACTGGGCCTAGCCCATATTAA
33247807 CACAGTTAGG
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
60 50 0.57
61 28 0.32
62 9 0.10
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (62 bp):
AGCCCTATTACAAGTATCAGAGTATACTGGGCCTAGCCCATATTAATATCAATCTGGGCCAT
Found at i:33247821 original size:20 final size:20
Alignment explanation
Indices: 33247796--33247841 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33247786 ATTGGGCCTT
33247796 GCCCATATT-AACACAGTTAG
1 GCCCATATTCAACACAGTT-G
*
33247816 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
33247835 GCCCATA
1 GCCCATA
33247842 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:33249315 original size:18 final size:18
Alignment explanation
Indices: 33249268--33249316 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
33249258 GACTATAGAG
33249268 GAAAAGAAGAAGAAAAGA
1 GAAAAGAAGAAGAAAAGA
* *
33249286 -AAATAGATGAAGAAAGGA
1 GAAA-AGAAGAAGAAAAGA
33249304 GAAAAGAAGAAGA
1 GAAAAGAAGAAGA
33249317 GAAAAGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAAAAGA
Found at i:33249318 original size:13 final size:12
Alignment explanation
Indices: 33249268--33249324 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 12
33249258 GACTATAGAG
*
33249268 GAAAAGAAGA-A
1 GAAAAGAAAAGA
*
33249279 GAAAAGAAAATA
1 GAAAAGAAAAGA
* *
33249291 GATGAAGAAAGGA
1 GA-AAAGAAAAGA
33249304 GAAAAGAAGAAGA
1 GAAAAGAA-AAGA
33249317 GAAAAGAA
1 GAAAAGAA
33249325 TTGTCAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 9 0.24
12 8 0.22
13 20 0.54
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (12 bp):
GAAAAGAAAAGA
Found at i:33252010 original size:15 final size:15
Alignment explanation
Indices: 33251990--33252019 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33251980 TGAATCCAAA
33251990 CTAGTTAGATTCCTT
1 CTAGTTAGATTCCTT
33252005 CTAGTTAGATTCCTT
1 CTAGTTAGATTCCTT
33252020 ACACTGTATC
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:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
CTAGTTAGATTCCTT
Done.