Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 139 of 318
Found at i:42539337 original size:11 final size:11
Alignment explanation
Indices: 42539321--42539353 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
42539311 ATAAAAAGGC
42539321 ATTCAATACCA
1 ATTCAATACCA
42539332 ATTCAATACCA
1 ATTCAATACCA
*
42539343 A-CCAATACCA
1 ATTCAATACCA
42539353 A
1 A
42539354 ACATATCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (11 bp):
ATTCAATACCA
Found at i:42544733 original size:40 final size:40
Alignment explanation
Indices: 42544675--42544838 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
42544665 TGAATAATAC
* *
42544675 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
42544715 CCGGGCTAAGACCTGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * **
42544755 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
42544795 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
42544835 CCGG
1 CCGG
42544839 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:42552584 original size:29 final size:29
Alignment explanation
Indices: 42552551--42552623 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
42552541 GTGACGAGAT
*
42552551 TGGCACTAAGTGTGCATGCTGGAAATATG
1 TGGCACTAAGTGTGCATGCTGGAAATATA
42552580 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
42552609 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
42552624 GAGCTCGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:42552639 original size:29 final size:30
Alignment explanation
Indices: 42552547--42552653 Score: 114
Period size: 29 Copynumber: 3.7 Consensus size: 30
42552537 TACGGTGACG
*
42552547 AGAT-TGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
* * *
42552575 ATATGTGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
*
42552604 ATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
* * *
42552633 GGGTATGGCACTATGTGTGCG
1 AGATATGGCACTAAGTGTGCG
42552654 GGCTTAAATC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
28 3 0.04
29 66 0.94
30 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (30 bp):
AGATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:42552719 original size:2 final size:2
Alignment explanation
Indices: 42552714--42552742 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42552704 GTGTGCGTAC
42552714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42552743 CTCGATCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42558221 original size:28 final size:28
Alignment explanation
Indices: 42558152--42558252 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42558142 GACAAGATTG
* * * *
42558152 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
42558182 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42558210 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
42558239 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42558253 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42565458 original size:40 final size:40
Alignment explanation
Indices: 42565403--42565566 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
42565393 TGAATAATAC
* *
42565403 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
42565443 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
42565483 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
42565523 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
42565563 CCGG
1 CCGG
42565567 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:42573073 original size:40 final size:40
Alignment explanation
Indices: 42573014--42573200 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
42573004 CATTGGAATG
* * * *
42573014 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
42573054 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
42573094 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * * *
42573134 AAATCCGGGTTAAGACCCAAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
42573174 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
42573201 CGAGCGAGTC
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 113 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:42573116 original size:80 final size:80
Alignment explanation
Indices: 42573014--42573167 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
42573004 CATTGGAATG
* * ** * *
42573014 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCA
*
42573079 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
42573094 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCA
42573159 ATCGTGCGA
66 ATCGTGCGA
42573168 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCA
ATCGTGCGAGTTGTT
Found at i:42573182 original size:80 final size:80
Alignment explanation
Indices: 42573018--42573200 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
42573008 GGAATGATAT
* ** * * *
42573018 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCAATCG
* *** *
42573083 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
42573098 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCAAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCAATCG
42573163 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
42573178 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
42573201 CGAGCGAGTC
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCAATCG
TGCGAATCACTATAA
Found at i:42575919 original size:27 final size:27
Alignment explanation
Indices: 42575811--42575921 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
42575801 AATCTCATAT
* * *
42575811 TTGTAGGCTAGTATTACTGAAAT-ACC
1 TTGTAGGGTAGAATTACTGAAATGCCC
42575837 TCTGTAGGGTAGAATTACTGAAATGCCC
1 T-TGTAGGGTAGAATTACTGAAATGCCC
* * ***
42575865 CTATACCTTAGAATTACTGAAATGCCC
1 TTGTAGGGTAGAATTACTGAAATGCCC
*
42575892 TTGTAGGGTAGAATTACTAAAATGCCC
1 TTGTAGGGTAGAATTACTGAAATGCCC
42575919 TTG
1 TTG
42575922 GTTTACAAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 66 0.96
28 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (27 bp):
TTGTAGGGTAGAATTACTGAAATGCCC
Found at i:42575933 original size:27 final size:27
Alignment explanation
Indices: 42575903--42576297 Score: 122
Period size: 27 Copynumber: 14.7 Consensus size: 27
42575893 TGTAGGGTAG
*
42575903 AATTACTAAAATGCCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGGTTTACAA
*
42575930 AATTACT-GAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGGTTTACAA
* * *
42575956 AATTACCAAAATACCC-TCGATTAGCAA
1 AATTACTAAAATACCCTTGGTTTA-CAA
* * * * * **
42575983 AATTACCAAACTACCCCTAGCTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* * ** ***
42576010 AATTACCAAAATACCCCTATTTTGTGA
1 AATTACTAAAATACCCTTGGTTTACAA
** * *** **
42576037 AATTACCGAAATACCCTCGACCTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* ** **
42576064 AATTA-TCAAAATACCCTCGACTTGTAA
1 AATTACT-AAAATACCCTTGGTTTACAA
* * * **
42576091 AATTACCAAAATACCCTCGATTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* * * **
42576118 AATTACCAAAATACCCTCGATTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* ** *
42576145 AATTACCAAAATACCCTTAATTTAGAA
1 AATTACTAAAATACCCTTGGTTTACAA
** * *
42576172 AATTAAAAAAAAACCAC-TGATTTAC--
1 AATTACTAAAATACC-CTTGGTTTACAA
* *
42576197 AATTACAAAAATACCCTTGACTTT-CAAA
1 AATTACTAAAATACCCTTG-GTTTAC-AA
* * * *
42576225 AAATAC-AGAAATACCATTAGTTTGCAA
1 AATTACTA-AAATACCCTTGGTTTACAA
* * *
42576252 AATTACCAAAATACCCTTGGTTTGCAG
1 AATTACTAAAATACCCTTGGTTTACAA
* * *
42576279 ATTTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
42576298 TAGGGTGAAA
Statistics
Matches: 304, Mismatches: 50, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.00
25 16 0.05
26 31 0.10
27 235 0.77
28 21 0.07
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTACAA
Found at i:42576016 original size:54 final size:55
Alignment explanation
Indices: 42575954--42576161 Score: 273
Period size: 54 Copynumber: 3.9 Consensus size: 55
42575944 CTTGGTTTAC
* * * *
42575954 AAAATTACCAAAATACCCTCGA-TTAGCAAAATTACCAAACTACCC-CTAGCTTGT
1 AAAATTACCAAAATACCCTCGACTTTGTAAAATTACCAAAATACCCTCGA-CTTGT
* * * * *
42576008 AAAATTACCAAAATACCC-CTATTTTGTGAAATTACCGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGACTTTGTAAAATTACCAAAATACCCTCGACTTGT
* *
42576062 AAAATTATCAAAATACCCTCGAC-TTGTAAAATTACCAAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGACTTTGTAAAATTACCAAAATACCCTCGACTTGT
42576116 AAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCTCGACTTTGTAAAATTACCAAAATACCCT
42576162 TAATTTAGAA
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.01
54 128 0.96
55 4 0.03
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTCGACTTTGTAAAATTACCAAAATACCCTCGACTTGT
Found at i:42576174 original size:54 final size:54
Alignment explanation
Indices: 42575954--42576269 Score: 268
Period size: 54 Copynumber: 5.9 Consensus size: 54
42575944 CTTGGTTTAC
* * * * **
42575954 AAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAACTACCCCTAGCTTGT
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAATTTGT
* * * ** **
42576008 AAAATTACCAAAATACCC-CTATTTTGTGAAATTACCGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCTTAATTTGT
* * **
42576062 AAAATTATCAAAATACCCTCGACTTGTAAAATTACCAAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAATTTGT
42576116 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAATTTAG-
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAATTT-GT
** * * * * **
42576170 AAAATTAAAAAAAAACCACT-GA-TT-TACAATTACAAAAATACCCTTGACTTTCA
1 AAAATTACCAAAATACC-CTCGATTTGTAAAATTACCAAAATACCCTT-AATTTGT
* * * *
42576223 AAAAATA-CAGAAATACCAT-TAGTTTGCAAAATTACCAAAATACCCTT
1 AAAATTACCA-AAATACCCTCGA-TTTGTAAAATTACCAAAATACCCTT
42576270 GGTTTGCAGA
Statistics
Matches: 215, Mismatches: 37, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
52 22 0.10
53 20 0.09
54 150 0.70
55 23 0.11
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAATTTGT
Found at i:42576174 original size:81 final size:81
Alignment explanation
Indices: 42575954--42576295 Score: 300
Period size: 81 Copynumber: 4.2 Consensus size: 81
42575944 CTTGGTTTAC
* * * * *
42575954 AAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAACTACCCCTAGCTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAACTTGTAAAATTACCAA
*
42576019 AATACCC-CTATTTTGT
66 AATACCCTCGA-TTTGT
* * ** * **
42576035 GAAATTACCGAAATACCCTCGACCTGTAAAATTATCAAAATACCCTCGACTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAACTTGTAAAATTACCAA
42576100 AATACCCTCGATTTGT
66 AATACCCTCGATTTGT
* **
42576116 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAATTTAG-AAAATTAAAA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAACTT-GTAAAATTACCA
*
42576180 AAAAACCACT-GA-TT-T
65 AAATACC-CTCGATTTGT
* * * ** * * ** *
42576195 ACAATTACAAAAATACCCTTGACTTTCAAAAAATA-CAGAAATACCATTAGTTTGCAAAATTACC
1 AAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCA-AAATACCCTTAACTTGTAAAATTACC
* * *
42576259 AAAATACCCTTGGTTTGC
64 AAAATACCCTCGATTTGT
* * *
42576277 AGATTTACCAAAACACCCT
1 AAAATTACCAAAATACCCT
42576296 TGTAGGGTGA
Statistics
Matches: 211, Mismatches: 41, Indels: 17
0.78 0.15 0.06
Matches are distributed among these distances:
79 25 0.12
80 39 0.18
81 127 0.60
82 20 0.09
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTAACTTGTAAAATTACCAA
AATACCCTCGATTTGT
Found at i:42576589 original size:41 final size:41
Alignment explanation
Indices: 42576532--42576650 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
42576522 GAAGAAATTG
* * *
42576532 AGGATCACATGGTTGCTTGACGACCGTGGACCCACCGATTC
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* * *
42576573 AGGATCGCATGGTTGCTTGACAACTGTAGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
42576614 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
42576651 GTGGCTTTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.24
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:42578221 original size:93 final size:93
Alignment explanation
Indices: 42578092--42578263 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
42578082 CATCCATAAG
* *
42578092 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42578157 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
42578185 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
42578249 AACGAGTTCGGATGC
65 AACGAGCTCGGATGC
42578264 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:42578260 original size:46 final size:45
Alignment explanation
Indices: 42578055--42578259 Score: 234
Period size: 46 Copynumber: 4.4 Consensus size: 45
42578045 CCGCCCATAA
* *
42578055 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
1 ACTCAACTCAACGAGCTC-GGCATTCGCATCCATAAGTGAACTCGG
* *
42578101 ACTCAACTCAACGAGCTCAGGCGTTCGCATCCGTAAGTGAACTCGG
1 ACTCAACTCAACGAGCTC-GGCATTCGCATCCATAAGTGAACTCGG
* * ***
42578147 ACTCAACTCAACGAGCTCGG-ATGC-CTAGTTACATCTCTCGAACTCGG
1 ACTCAACTCAACGAGCTCGGCATTCGC-A--TCCATAAGT-GAACTCGG
*
42578194 ACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
1 ACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGG
*
42578240 ACTCAACTCAACGAGTTCGG
1 ACTCAACTCAACGAGCTCGG
42578260 ATGCTCAACC
Statistics
Matches: 136, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 2 0.01
46 93 0.68
47 32 0.24
49 4 0.03
50 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (45 bp):
ACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGG
Found at i:42578279 original size:46 final size:46
Alignment explanation
Indices: 42578093--42578279 Score: 131
Period size: 46 Copynumber: 4.0 Consensus size: 46
42578083 ATCCATAAGC
* * *
42578093 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC--GCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GGATGCTCAACCATCC-T-AGT
*
42578139 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
42578186 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
42578232 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
42578278 GA
1 GA
42578280 CATGTCACTT
Statistics
Matches: 113, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 9 0.08
45 3 0.03
46 60 0.53
47 30 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:42580697 original size:14 final size:15
Alignment explanation
Indices: 42580640--42580717 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 15
42580630 CAAAGATAAC
*
42580640 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
42580654 AA-AAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
42580668 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
42580683 AAGAAAT-CAGAATA
1 AAGAAATCCAGAATA
* *
42580697 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
42580712 AAGAAA
1 AAGAAA
42580718 CCCAAGATAC
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
13 6 0.12
14 18 0.37
15 24 0.49
16 1 0.02
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:42580714 original size:15 final size:14
Alignment explanation
Indices: 42580678--42580717 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
42580668 GAGAAACCCG
42580678 GAATAAAGAAATCA
1 GAATAAAGAAATCA
*
42580692 GAATAAAGAGATCCA
1 GAATAAAGAAAT-CA
*
42580707 GGATAAAGAAA
1 GAATAAAGAAA
42580718 CCCAAGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.12
Consensus pattern (14 bp):
GAATAAAGAAATCA
Found at i:42583716 original size:45 final size:45
Alignment explanation
Indices: 42583652--42583825 Score: 208
Period size: 45 Copynumber: 3.8 Consensus size: 45
42583642 TGTAACCCGC
* *
42583652 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
42583697 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
42583743 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
42583790 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
42583826 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 35 0.32
46 33 0.30
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 (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:42583817 original size:93 final size:92
Alignment explanation
Indices: 42583659--42583829 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
42583649 CGCCCATAAG
*
42583659 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42583724 CGAGCTCGGATGCCTAGTTACATCTCT
66 CGAGCTCGGATGCCTAGTTACATCTCT
*
42583751 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
42583816 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
42583830 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 28 0.37
93 47 0.63
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCT
Found at i:42583845 original size:46 final size:46
Alignment explanation
Indices: 42583660--42583845 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
42583650 GCCCATAAGC
* * *
42583660 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
*
42583705 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
42583752 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
42583798 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
42583844 GA
1 GA
42583846 CATGTCACTT
Statistics
Matches: 113, Mismatches: 12, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
44 9 0.08
45 29 0.26
46 34 0.30
47 30 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:42588186 original size:27 final size:26
Alignment explanation
Indices: 42588154--42588212 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 26
42588144 GTATTACGGC
*
42588154 AATTACTGAAATAGCCTTGGTTTACAA
1 AATTACTG-AATACCCTTGGTTTACAA
42588181 AATTACTGAATACCCTTGGTTTACAA
1 AATTACTGAATACCCTTGGTTTACAA
42588207 AATTAC
1 AATTAC
42588213 CAAAATACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (26 bp):
AATTACTGAATACCCTTGGTTTACAA
Found at i:42588391 original size:107 final size:107
Alignment explanation
Indices: 42588206--42588405 Score: 285
Period size: 107 Copynumber: 1.9 Consensus size: 107
42588196 TTGGTTTACA
*
42588206 AAATTACCAAAATACCCTCTATTAGCAAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAA
* ** *
42588271 ACACCCTTAATTTGTGAAATTATCGAAAAACCCTCGACCTGT
66 ACACCCCTAATTTGAAAAATTACCGAAAAACCCTCGACCTGT
* * * *
42588313 AAATTACCGAAATACCCTCGACTT-GTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTCGA-TTAGCAAAATTACCAAAATACCCCTGACTTGTAAAATTACCAA
* *
42588377 AATACCCCTGATTTGAAAAATTACCGAAA
65 AACACCCCTAATTTGAAAAATTACCGAAA
42588406 TACCTTTGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 79 0.98
108 2 0.02
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (107 bp):
AAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAA
ACACCCCTAATTTGAAAAATTACCGAAAAACCCTCGACCTGT
Found at i:42588523 original size:27 final size:27
Alignment explanation
Indices: 42588154--42588537 Score: 267
Period size: 27 Copynumber: 14.3 Consensus size: 27
42588144 GTATTACGGC
* * *
42588154 AATTACTGAAATAGCCTTGGTTT-ACAA
1 AATTACCGAAATACCCTTGATTTGA-AA
* *
42588181 AATTACTG-AATACCCTTGGTTT-ACAA
1 AATTACCGAAATACCCTTGATTTGA-AA
* * *
42588207 AATTACCAAAATACCCTCT-ATTAGCAA
1 AATTACCGAAATACCCT-TGATTTGAAA
* * * *
42588234 AATTACCAAAATACCCCTGACTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
* * * **
42588261 AATTACCAAAACACCCTTAATTTGTGA
1 AATTACCGAAATACCCTTGATTTGAAA
* * * ** *
42588288 AATTATCGAAAAACCCTCGACCTG-TA
1 AATTACCGAAATACCCTTGATTTGAAA
* * *
42588314 AATTACCGAAATACCCTCGACTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
* *
42588341 AATTACCAAAATACCCTTGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
* *
42588368 AATTACCAAAATACCCCTGATTTGAAA
1 AATTACCGAAATACCCTTGATTTGAAA
* *
42588395 AATTACCGAAATACCTTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGAAA
* *
42588422 AATTACAGAAATACCCTTAATTT-ACAA
1 AATTACCGAAATACCCTTGATTTGA-AA
* * *
42588449 AATTACAGAAATACCCTTAACTTTCAAA
1 AATTACCGAAATACCCTTGA-TTTGAAA
* * ** *
42588477 ACTTACAGAAATACGATTGGTTTGAAA
1 AATTACCGAAATACCCTTGATTTGAAA
* * *
42588504 AATTATCGAAATACCCTTGGTTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
*
42588531 ATTTACC
1 AATTACC
42588538 AAAGCACCCT
Statistics
Matches: 295, Mismatches: 54, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
26 46 0.16
27 227 0.77
28 21 0.07
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGAAA
Found at i:42588861 original size:41 final size:40
Alignment explanation
Indices: 42588793--42588906 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 40
42588783 AGAAATTGAT
* *
42588793 GATCACATGGTTGCTTGATGAGCGTGGATCCACCGATTAAG
1 GATCGCATGGTTGCTTGATGA-CGTGGATCCACCAATTAAG
*
42588834 GATCGCATGGTTGCTTGACGACTGTGGATCCACCAATTAAG
1 GATCGCATGGTTGCTTGATGAC-GTGGATCCACCAATTAAG
42588875 GATCGCATGGTTGCTTGATGACCGTGGATCCA
1 GATCGCATGGTTGCTTGATGA-CGTGGATCCA
42588907 TCGGTGGCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
40 1 0.01
41 65 0.97
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GATCGCATGGTTGCTTGATGACGTGGATCCACCAATTAAG
Found at i:42589350 original size:158 final size:158
Alignment explanation
Indices: 42589050--42589378 Score: 606
Period size: 158 Copynumber: 2.1 Consensus size: 158
42589040 AGCCAATTAT
42589050 TCTAGTT-ATGGCTTTGCGCCAACCTACATATGGCTCTATGCCAACCTGATTATGGTTGTGTGCC
1 TCTAGTTGATGGCTTTGCGCCAACCTACATATGGCTCTATGCCAACCTGATTATGGTTGTGTGCC
* *
42589114 AAATGTATTTGCCTAAAGCTATCTGCCAATTTATGATTATTGACGACTCTGTGTCGATCACATTT
66 AAACGTATTTGCCTAAAGCTATCTGCCAATATATGATTATTGACGACTCTGTGTCGATCACATTT
42589179 ACCTTGGGCTGTGTGCCGGTTATGTTAC
131 ACCTTGGGCTGTGTGCCGGTTATGTTAC
*
42589207 TCTAGTTGATGGCTTTGCGCCAACCTACATATGGCTCTGTGCCAACCTGATTATGGTTGTGTGCC
1 TCTAGTTGATGGCTTTGCGCCAACCTACATATGGCTCTATGCCAACCTGATTATGGTTGTGTGCC
42589272 AAACGTATTTGCCTAAAGCTATCTGCCAATATATGATTATTGACGACTCTGTGTCGATCACATTT
66 AAACGTATTTGCCTAAAGCTATCTGCCAATATATGATTATTGACGACTCTGTGTCGATCACATTT
* *
42589337 ACCTTGGGTTGTGTGCCGGTTATGTTAT
131 ACCTTGGGCTGTGTGCCGGTTATGTTAC
42589365 TCTAGTTGATGGCT
1 TCTAGTTGATGGCT
42589379 ATGTGCCTAA
Statistics
Matches: 166, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
157 7 0.04
158 159 0.96
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (158 bp):
TCTAGTTGATGGCTTTGCGCCAACCTACATATGGCTCTATGCCAACCTGATTATGGTTGTGTGCC
AAACGTATTTGCCTAAAGCTATCTGCCAATATATGATTATTGACGACTCTGTGTCGATCACATTT
ACCTTGGGCTGTGTGCCGGTTATGTTAC
Found at i:42599531 original size:13 final size:13
Alignment explanation
Indices: 42599513--42599537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42599503 TCGAACATAG
42599513 ATAGCCAAACATC
1 ATAGCCAAACATC
42599526 ATAGCCAAACAT
1 ATAGCCAAACAT
42599538 TTGGTCATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAGCCAAACATC
Found at i:42602029 original size:94 final size:94
Alignment explanation
Indices: 42601860--42602031 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
42601850 GTTGTTGTTG
*
42601860 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACATGATGAGAGCCAGTGTAAGACCATGTC
*
42601925 TAGGATATGGCATCGGCATTGAGACGAGA
66 TAGGACATGGCATCGGCATTGAGACGAGA
* * * **
42601954 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTAC-ATGATGAGAGCCAGTGTAAGACCATGT
*
42602018 CTGGGACATGGCAT
65 CTAGGACATGGCAT
42602032 TGACTTGAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACATGATGAGAGCCAGTGTAAGACCATGTC
TAGGACATGGCATCGGCATTGAGACGAGA
Found at i:42602042 original size:47 final size:47
Alignment explanation
Indices: 42601860--42602043 Score: 187
Period size: 47 Copynumber: 3.9 Consensus size: 47
42601850 GTTGTTGTTG
* ** *
42601860 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GATGAGA
* * * *
42601906 GCCAGTGTAAGACCATGTCTAGGATATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGAGA
* * *
42601954 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGAGA
* * *
42602000 GTTAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGAGATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATG
42602044 TGGCATTGAC
Statistics
Matches: 114, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 37 0.32
47 43 0.38
48 31 0.27
49 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAGA
Found at i:42602777 original size:42 final size:42
Alignment explanation
Indices: 42602730--42602824 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
42602720 GTAGGCACAC
*
42602730 GGGCGTGT-GTCTAGGCTGTGTGTGACACACGGTCTACCCCAT
1 GGGCGTGTAGT-TAGGCCGTGTGTGACACACGGTCTACCCCAT
* *
42602772 GGGCGTGTAGTTCGGCCGTGTGTGACACACGGTCTGCCCCAT
1 GGGCGTGTAGTTAGGCCGTGTGTGACACACGGTCTACCCCAT
42602814 -GGCGTGTAGTT
1 GGGCGTGTAGTT
42602825 CGACCTTGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 11 0.22
42 36 0.73
43 2 0.04
ACGTcount: A:0.13, C:0.25, G:0.36, T:0.26
Consensus pattern (42 bp):
GGGCGTGTAGTTAGGCCGTGTGTGACACACGGTCTACCCCAT
Found at i:42602835 original size:41 final size:42
Alignment explanation
Indices: 42602747--42602835 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
42602737 TGTCTAGGCT
*
42602747 GTGTGTGACACACGGTCTACCCCATGGGCGTGTAGTTCGGCC
1 GTGTGTGACACACGGTCTACCCCATGGGCGTGTAGTTCGACC
*
42602789 GTGTGTGACACACGGTCTGCCCCAT-GGCGTGTAGTTCGACC
1 GTGTGTGACACACGGTCTACCCCATGGGCGTGTAGTTCGACC
*
42602830 TTGTGT
1 GTGTGT
42602836 CCCCTACACG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (42 bp):
GTGTGTGACACACGGTCTACCCCATGGGCGTGTAGTTCGACC
Found at i:42608587 original size:79 final size:81
Alignment explanation
Indices: 42608478--42608660 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
42608468 TACTCGTTCA
* * *
42608478 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-AGATCTTAACCCGG
* *
42608541 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
42608558 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGA
*
42608621 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
42608637 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42608661 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:42608660 original size:40 final size:40
Alignment explanation
Indices: 42608457--42608660 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
42608447 CGGAATTTAA
** *
42608457 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42608497 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42608537 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42608576 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
42608616 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42608656 CCGGA
1 CCGGA
42608661 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 95 0.68
41 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42609907 original size:10 final size:10
Alignment explanation
Indices: 42609892--42609925 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
42609882 AACATGAGAG
42609892 CTTTTTTTTT
1 CTTTTTTTTT
42609902 CTTTTTTTTT
1 CTTTTTTTTT
*
42609912 CTTTCTTTTT
1 CTTTTTTTTT
42609922 CTTT
1 CTTT
42609926 CTTCTATTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:42609916 original size:14 final size:14
Alignment explanation
Indices: 42609893--42609928 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
42609883 ACATGAGAGC
42609893 TTTTTT-TTTCTTT
1 TTTTTTCTTTCTTT
42609906 TTTTTTCTTTCTTT
1 TTTTTTCTTTCTTT
*
42609920 TTCTTTCTT
1 TTTTTTCTT
42609929 CTATTCGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTCTTTCTTT
Found at i:42609970 original size:63 final size:63
Alignment explanation
Indices: 42609844--42609976 Score: 151
Period size: 63 Copynumber: 2.1 Consensus size: 63
42609834 CTCAAAGCTC
* ** * *
42609844 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTTTCTTTT
1 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGATGATCTCTTCTTTT
* * * * *
42609907 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCTAGGAAGAAGCATGA-ATGATGATCTCTTTTTTT
1 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAA-CATGAGA-GATGATCTCTTCTTTT
42609971 TTTTTC
1 TTTTTC
42609977 TCTTTCACCA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 37 0.64
64 21 0.36
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.55
Consensus pattern (63 bp):
TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGATGATCTCTTCTTTT
Found at i:42612802 original size:29 final size:29
Alignment explanation
Indices: 42612769--42612899 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
42612759 GTGACGAGAT
*
42612769 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
42612798 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
42612827 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
42612856 -GACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
42612884 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
42612900 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 25 0.27
29 66 0.73
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:42612898 original size:57 final size:58
Alignment explanation
Indices: 42612770--42612890 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 58
42612760 TGACGAGATT
* * * ** *
42612770 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAA
* *
42612828 GGCACTAAGTGTGCATGCTGGAAAAATA-GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAA
42612885 GGCACT
1 GGCACT
42612891 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 29 0.53
58 26 0.47
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:42620424 original size:28 final size:28
Alignment explanation
Indices: 42620355--42620455 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42620345 GACAAGATTG
* * * *
42620355 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
42620385 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42620413 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
42620442 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42620456 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42623748 original size:29 final size:29
Alignment explanation
Indices: 42623716--42623846 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
42623706 TGACGAGATT
* *
42623716 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
* *
42623745 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
*
42623774 GGCACTAAGTGTGCATGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
* * **
42623803 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
**
42623832 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
42623847 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAC
Found at i:42628671 original size:32 final size:33
Alignment explanation
Indices: 42628629--42628690 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
42628619 AAATAGACTA
42628629 GGCCTGAGCCCATCAA-AGAAAT-AGTATCAAGT
1 GGCCTGAGCCCATCAACAG-AATCAGTATCAAGT
* *
42628661 GGCCTTAGCCCATTAACAGAATCAGTATCA
1 GGCCTGAGCCCATCAACAGAATCAGTATCA
42628691 GATGAAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (33 bp):
GGCCTGAGCCCATCAACAGAATCAGTATCAAGT
Found at i:42632745 original size:164 final size:164
Alignment explanation
Indices: 42632559--42632886 Score: 566
Period size: 164 Copynumber: 2.0 Consensus size: 164
42632549 AATTATAGTT
* *
42632559 TCAAGGGTCGAATATCATAAGGTGGGCTTGAAAAGGCTCAAACGATACAAAGAAATAGTGCTTAT
1 TCAAGGGTCGAATATCATAAGGTGGGCTTGAAAAGGCTCAAACAATACAAAGAAATAGTGCCTAT
*
42632624 ATCATTTTAGATATTTATGTCTCATAAGATTTTGCCTCAAGAAAGTTACTAAGTCAATTCTAAAG
66 ATCATTTTAGATATTTATGTCTCATAAGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAG
42632689 ATATAAACCTTCATGCATGTTTAATCTCAAAAGA
131 ATATAAACCTTCATGCATGTTTAATCTCAAAAGA
* *
42632723 TCAAGGGTCTAATATCATAAGGTGGGCTTGAAAAGGCTCAAACAATCCAAAGAAATAGTGCCTAT
1 TCAAGGGTCGAATATCATAAGGTGGGCTTGAAAAGGCTCAAACAATACAAAGAAATAGTGCCTAT
* * * *
42632788 ATCATTTTAGATTTTTATGTCTCCTAGGATTTCGCCTCTAGAAAGTTACTAAGTCAATTCTAAAG
66 ATCATTTTAGATATTTATGTCTCATAAGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAG
*
42632853 ATATAAATCTTCATGCATGTTTAATCTCAAAAGA
131 ATATAAACCTTCATGCATGTTTAATCTCAAAAGA
42632887 AACTAAGTTT
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 154 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (164 bp):
TCAAGGGTCGAATATCATAAGGTGGGCTTGAAAAGGCTCAAACAATACAAAGAAATAGTGCCTAT
ATCATTTTAGATATTTATGTCTCATAAGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAG
ATATAAACCTTCATGCATGTTTAATCTCAAAAGA
Found at i:42633442 original size:27 final size:28
Alignment explanation
Indices: 42633390--42633446 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
42633380 ATAAATAAAA
42633390 AGACAAGAATCCCCCCTTTTATTTTTCT
1 AGACAAGAATCCCCCCTTTTATTTTTCT
42633418 AGACAAGAATCCCCCCTTTTATTTTTCT
1 AGACAAGAATCCCCCCTTTTATTTTTCT
42633446 A
1 A
42633447 ACTTATTCCT
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:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (28 bp):
AGACAAGAATCCCCCCTTTTATTTTTCT
Found at i:42636354 original size:28 final size:28
Alignment explanation
Indices: 42636314--42636371 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
42636304 GCCTAAAAAG
*
42636314 TCAATGCCCCATATGTTGAGTAATTCAA
1 TCAATGCCCCATATGTTGAATAATTCAA
42636342 TCAATGCCCCATATGTTGAATAATTCAA
1 TCAATGCCCCATATGTTGAATAATTCAA
42636370 TC
1 TC
42636372 TCCAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (28 bp):
TCAATGCCCCATATGTTGAATAATTCAA
Found at i:42646213 original size:40 final size:40
Alignment explanation
Indices: 42646184--42646305 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 40
42646174 TGTATCCGAA
* *
42646184 CTTAAAGACCTGTAGGCTATATGCTGGAATGTTATCTGGG
1 CTTAAAGACCAGTAGGCTATATGCTGGAATGTTATCCGGG
* *
42646224 CTTAAAGACCAGCAAGCTATATGCTGGAATGTTATCCGGG
1 CTTAAAGACCAGTAGGCTATATGCTGGAATGTTATCCGGG
* * * *
42646264 CTTAAAGACCCGTAGGCT-TCGTGCTAGAATGCTATCCGGG
1 CTTAAAGACCAGTAGGCTAT-ATGCTGGAATGTTATCCGGG
42646304 CT
1 CT
42646306 AGAGACCCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 70 0.99
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
CTTAAAGACCAGTAGGCTATATGCTGGAATGTTATCCGGG
Found at i:42650215 original size:27 final size:24
Alignment explanation
Indices: 42650185--42650266 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 24
42650175 GGAATGCTTA
42650185 ATTTTTATTACTTTAGCCATTTTTTTT
1 ATTTTTATTACTTTA---ATTTTTTTT
*
42650212 ATTTTTATTGCAATTTAATTTTTTTT
1 ATTTTTATT--ACTTTAATTTTTTTT
*
42650238 ATTTTTAATTAC-TAAATTTTCTTTT
1 ATTTTT-ATTACTTTAATTTT-TTTT
42650263 ATTT
1 ATTT
42650267 ACTTCTGGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
24 7 0.15
25 9 0.19
26 15 0.31
27 12 0.25
29 5 0.10
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTTTATTACTTTAATTTTTTTT
Found at i:42654146 original size:14 final size:16
Alignment explanation
Indices: 42654122--42654153 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
42654112 TGCTGAATTA
42654122 TTTCTTATTA-TGTAC
1 TTTCTTATTATTGTAC
42654137 TTTC-TATTATTGTAC
1 TTTCTTATTATTGTAC
42654152 TT
1 TT
42654154 GTTCTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTCTTATTATTGTAC
Found at i:42658650 original size:113 final size:113
Alignment explanation
Indices: 42658433--42658678 Score: 388
Period size: 113 Copynumber: 2.2 Consensus size: 113
42658423 AACAATGTGT
* ** *
42658433 GTGGGCCTAAGCCCAGTACAATTTCACTTGGGTCTCAACCCTTGTCGAAATCAATTGGGCCAGCC
1 GTGGGCCTAAGCCCAGTACAATTTCAATTGGGTCTCAACCCTCATCGAAATCAATTGAGCCAGCC
* *
42658498 CATTCTCAATATCAGTAATAGTTGGGCCTAGCCTATTAACAGAATTAG
66 CATTCTCAATATCAGTAATAGTTGAGCCTAGCCCATTAACAGAATTAG
*
42658546 GT-GGCCTAAGCCCAGTACAATTTCAATTGGGTCTCAGCCCTCATC-AGAATCAATTGAGCCTAG
1 GTGGGCCTAAGCCCAGTACAATTTCAATTGGGTCTCAACCCTCATCGA-AATCAATTGAGCC-AG
42658609 CCCATTCTCAATATCAGTAATAGTTGAGCCTAGCCCATTAACAGAATTAG
64 CCCATTCTCAATATCAGTAATAGTTGAGCCTAGCCCATTAACAGAATTAG
*
42658659 GTGGGCCTAAGCCTAGTACA
1 GTGGGCCTAAGCCCAGTACA
42658679 GAATCAGTAT
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
111 1 0.01
112 51 0.42
113 54 0.44
114 16 0.13
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (113 bp):
GTGGGCCTAAGCCCAGTACAATTTCAATTGGGTCTCAACCCTCATCGAAATCAATTGAGCCAGCC
CATTCTCAATATCAGTAATAGTTGAGCCTAGCCCATTAACAGAATTAG
Found at i:42658860 original size:22 final size:22
Alignment explanation
Indices: 42658835--42658883 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
42658825 AACAGGATAG
*
42658835 CTCAACGCCGTACATAGGACGA
1 CTCAACACCGTACATAGGACGA
*
42658857 CTCAACACCGTAGATAGGACGA
1 CTCAACACCGTACATAGGACGA
42658879 CTCAA
1 CTCAA
42658884 AGCTATAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.31, G:0.20, T:0.14
Consensus pattern (22 bp):
CTCAACACCGTACATAGGACGA
Found at i:42658897 original size:22 final size:22
Alignment explanation
Indices: 42658850--42658897 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
42658840 CGCCGTACAT
* *
42658850 AGGACGACTCAACACCGTAGAT
1 AGGACGACTCAACACCATAGAC
*
42658872 AGGACGACTCAA-AGCTATAGAC
1 AGGACGACTCAACA-CCATAGAC
42658894 AGGA
1 AGGA
42658898 TGGCTAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (22 bp):
AGGACGACTCAACACCATAGAC
Found at i:42659452 original size:17 final size:19
Alignment explanation
Indices: 42659430--42659471 Score: 70
Period size: 17 Copynumber: 2.3 Consensus size: 19
42659420 ATCCGTGTAG
42659430 GGCCCACA-AGCCCAT-TA
1 GGCCCACACAGCCCATCTA
42659447 GGCCCACACAGCCCATCTA
1 GGCCCACACAGCCCATCTA
42659466 GGCCCA
1 GGCCCA
42659472 ACGTGGCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.26, C:0.45, G:0.19, T:0.10
Consensus pattern (19 bp):
GGCCCACACAGCCCATCTA
Found at i:42663663 original size:24 final size:24
Alignment explanation
Indices: 42663636--42663746 Score: 152
Period size: 24 Copynumber: 4.6 Consensus size: 24
42663626 CTTATTATGT
**
42663636 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAATAAA
*
42663660 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
*
42663684 TCGCACACATAGTGCTATAATAAA
1 TCGCACACATAGTGCCATAATAAA
*
42663708 TTGCACACATAGTG-CATTAATAAA
1 TCGCACACATAGTGCCA-TAATAAA
*
42663732 TTGCACACATAGTGC
1 TCGCACACATAGTGC
42663747 ATTTGAGATA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
23 1 0.01
24 79 0.99
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:42663747 original size:24 final size:24
Alignment explanation
Indices: 42663614--42663749 Score: 136
Period size: 24 Copynumber: 5.7 Consensus size: 24
42663604 ACCAAATGTG
* **
42663614 GCACACATAGTGC-TTATTATGTT
1 GCACACATAGTGCATTAATAAATT
** *
42663637 CGCACACATAGTGCCA-TAGCAAATC
1 -GCACACATAGTG-CATTAATAAATT
* *
42663662 GCACACATAGTGCCA-TAGTAAATC
1 GCACACATAGTG-CATTAATAAATT
42663686 GCACACATAGTGC-TATAATAAATT
1 GCACACATAGTGCAT-TAATAAATT
42663710 GCACACATAGTGCATTAATAAATT
1 GCACACATAGTGCATTAATAAATT
42663734 GCACACATAGTGCATT
1 GCACACATAGTGCATT
42663750 TGAGATAGCC
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
23 1 0.01
24 92 0.93
25 6 0.06
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCATTAATAAATT
Found at i:42669781 original size:40 final size:39
Alignment explanation
Indices: 42669732--42669914 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
42669722 GCTACTAGTT
* *
42669732 CAAACGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
*
42669772 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGG-TTATAGTAACTCGCA
* *
42669812 CAAATGCCTTCGGCCTTAG-CCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
42669850 CGAATGCCTTCGGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
42669891 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
42669915 ACATCATTCG
Statistics
Matches: 119, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 28 0.24
39 11 0.09
40 67 0.56
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42669844 original size:38 final size:39
Alignment explanation
Indices: 42669760--42669868 Score: 157
Period size: 38 Copynumber: 2.8 Consensus size: 39
42669750 AGCCCGGTTA
*
42669760 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGGAAT
* *
42669800 TAGTAACTCGCACAAATGCCTTCGGCCTT-AGCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAAT
*
42669838 TAGTAACTCGCACGAATGCCTTCGGATCTTA
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTA
42669869 GTCTGGATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 31 0.50
39 8 0.13
40 23 0.37
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAAT
Found at i:42669899 original size:78 final size:79
Alignment explanation
Indices: 42669709--42669911 Score: 193
Period size: 78 Copynumber: 2.6 Consensus size: 79
42669699 CCTTCGGAGT
** * * * *
42669709 TTAA-CCGGATATAGCT-ACTAGTTCAAACGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGC
1 TTAACCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAG-CCGGAAT-TAGTAACTCGC
42669771 ACAAATGCCTTCGGGAC
63 ACAAATGCCTTCGGGAC
* * * *
42669788 TTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GGCCTTAGCCGGAATTAGTAACTCGCACG
1 TTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGAATTAGTAACTCGCACA
42669852 AATGCCTTC-GGATC
66 AATGCCTTCGGGA-C
** * *
42669866 TTAGTCTGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 TTAACCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCC
42669912 CGGACATCAT
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
77 3 0.03
78 47 0.46
79 29 0.28
80 23 0.23
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
TTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGAATTAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:42678240 original size:39 final size:39
Alignment explanation
Indices: 42678159--42678321 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42678149 TATGGTAACC
* *
42678159 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
42678199 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42678238 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42678277 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42678316 CGCACA
1 CGCACA
42678322 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42689252 original size:39 final size:39
Alignment explanation
Indices: 42689171--42689333 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
42689161 TATGGTAACC
* * *
42689171 CGCACAAATGCCTTAGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
***
42689211 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATGGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42689250 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42689289 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42689328 CGCACA
1 CGCACA
42689334 TTCATACACA
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 95 0.86
40 16 0.14
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42692699 original size:39 final size:40
Alignment explanation
Indices: 42692613--42692714 Score: 170
Period size: 39 Copynumber: 2.6 Consensus size: 40
42692603 AGCCCAGTTA
*
42692613 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
42692653 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
42692692 TAGTAACTCGCACGAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC
42692715 AGATCTTAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 33 0.56
40 26 0.44
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:42692753 original size:79 final size:80
Alignment explanation
Indices: 42692585--42692765 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
42692575 GCTACTCGTT
* * * * *
42692585 CAAACGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCG
* *
42692649 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* ** *
42692665 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACGAATGCCTTC-AGATCTTAGTCTG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCG
*
42692728 GATATAGTCACTTAGCA
65 GATATAGTAAC-TAGCA
42692745 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
42692766 TGGACATCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 54 0.64
80 29 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:42692769 original size:40 final size:40
Alignment explanation
Indices: 42692566--42692765 Score: 203
Period size: 40 Copynumber: 5.0 Consensus size: 40
42692556 CGGAGTTTAA
** * *
42692566 CCGGATATAGCT-ACTCGTTCAAACGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42692606 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42692646 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42692685 CCGGA-ATTAGTAACTCGCACGAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
42692725 CTGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42692765 C
1 C
42692766 TGGACATCAT
Statistics
Matches: 132, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.25
40 88 0.67
41 10 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42695108 original size:18 final size:17
Alignment explanation
Indices: 42695075--42695108 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42695065 TTACCCGTGT
*
42695075 AGGGCCCATAAGCCCAC
1 AGGGCCCACAAGCCCAC
42695092 AGGGCCCACATAGCCCA
1 AGGGCCCACA-AGCCCA
42695109 TTTCGGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.41, G:0.24, T:0.06
Consensus pattern (17 bp):
AGGGCCCACAAGCCCAC
Found at i:42695720 original size:23 final size:23
Alignment explanation
Indices: 42695692--42695738 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
42695682 ACAAAGAGAG
*
42695692 AAAGAGGGCAAAACTAGCCGTGA
1 AAAGAGGGCAAAAATAGCCGTGA
42695715 AAAGAGGGCAAAAATAGCCGTGA
1 AAAGAGGGCAAAAATAGCCGTGA
42695738 A
1 A
42695739 CCCTAACAAC
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:0.47, C:0.15, G:0.30, T:0.09
Consensus pattern (23 bp):
AAAGAGGGCAAAAATAGCCGTGA
Found at i:42698338 original size:91 final size:91
Alignment explanation
Indices: 42698178--42698359 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
42698168 CCATACAGGT
42698178 AATGCCTCCAAATCTTCAGTGCGAATATCACCGCTGCCGACTCCAAGTCATGCGCCCAGTAGTTC
1 AATGCCTCCAAATCTTCAGTGCGAATATCACCGCTGCCGACTCCAAGTCATGCGCCCAGTAGTTC
42698243 ACTTCATGCGTCTTAAGCTAACGAGA
66 ACTTCATGCGTCTTAAGCTAACGAGA
* *
42698269 AATGTCTCCAAATCTTCAGTGCGAATATCACCGCTGTCGACTCCAAGTCATGCGCCCAGTAGTTC
1 AATGCCTCCAAATCTTCAGTGCGAATATCACCGCTGCCGACTCCAAGTCATGCGCCCAGTAGTTC
42698334 ACTTCATGCGTCTTAAGCTAACGAGA
66 ACTTCATGCGTCTTAAGCTAACGAGA
42698360 TGCATATGCT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (91 bp):
AATGCCTCCAAATCTTCAGTGCGAATATCACCGCTGCCGACTCCAAGTCATGCGCCCAGTAGTTC
ACTTCATGCGTCTTAAGCTAACGAGA
Found at i:42702213 original size:22 final size:23
Alignment explanation
Indices: 42702174--42702216 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
42702164 GAGATCTTAC
*
42702174 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
42702197 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
42702217 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:42714112 original size:39 final size:40
Alignment explanation
Indices: 42713959--42714129 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
42713949 AAACCAAGTA
* * * *
42713959 CCTTCGGAATTTA-CCCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
42713998 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42714038 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
42714078 CCTTCGGG-CTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42714117 CCTTCGGGACTTA
1 CCTTCGGGACTTA
42714130 TCCCAGTTAT
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 46 0.39
40 72 0.61
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42714118 original size:79 final size:79
Alignment explanation
Indices: 42713959--42714129 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 79
42713949 AAACCAAGTA
* * * * *
42713959 CCTTCGGAATTTACCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
42714024 AACTCGCACAAATG
66 AACTAGCACAAATG
*
42714038 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCTGGA-ATT
1 CCTTCGGGACTTA-CCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
42714100 AGTCACTAGCACAAATG
63 AGTAACTAGCACAAATG
42714117 CCTTCGGGACTTA
1 CCTTCGGGACTTA
42714130 TCCCAGTTAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 50 0.62
80 30 0.37
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATG
Found at i:42720694 original size:40 final size:40
Alignment explanation
Indices: 42720610--42720759 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
42720600 AAATTGAATG
* * *
42720610 ATATCCGGGCTAAG-CCCGAAGACAATATGCTG-GA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGTGACT
* * *
42720648 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
42720688 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
42720728 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
42720760 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 14 0.15
40 57 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:42725275 original size:40 final size:40
Alignment explanation
Indices: 42725231--42725458 Score: 388
Period size: 40 Copynumber: 5.7 Consensus size: 40
42725221 GCTACTTGCT
42725231 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42725271 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
42725311 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42725351 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
42725391 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
42725430 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
42725459 CATCCGAATA
Statistics
Matches: 178, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.19
40 142 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42725330 original size:80 final size:80
Alignment explanation
Indices: 42725198--42725454 Score: 405
Period size: 80 Copynumber: 3.2 Consensus size: 80
42725188 AAACCAAGTA
* * * *
42725198 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
42725261 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
42725277 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
42725342 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
42725357 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG-AATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TA
* *
42725420 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
42725436 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42725455 TTATCATCCG
Statistics
Matches: 168, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
78 1 0.01
79 58 0.35
80 109 0.65
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:42732148 original size:39 final size:39
Alignment explanation
Indices: 42732101--42732283 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
42732091 AATGTTCGAG
42732101 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42732140 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42732179 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
42732218 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
42732258 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42732284 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42739581 original size:39 final size:39
Alignment explanation
Indices: 42739534--42739716 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
42739524 AATGTTCGAG
42739534 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42739573 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42739612 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
42739651 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
42739691 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42739717 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42742466 original size:53 final size:53
Alignment explanation
Indices: 42742285--42742493 Score: 211
Period size: 53 Copynumber: 3.9 Consensus size: 53
42742275 ATTAGGGTTT
* * * * *
42742285 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT-TATAAGGC
* * * * * * *
42742339 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * * *
42742394 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
* ** *
42742447 AAGGATACCACGTAAGACCATGTGAAGACATGGAAATGGTAAGTTTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTA
42742494 AAAAGGAAAG
Statistics
Matches: 124, Mismatches: 29, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
53 47 0.38
54 36 0.29
55 41 0.33
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:42746646 original size:26 final size:26
Alignment explanation
Indices: 42746617--42746670 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
42746607 TCAGTGTGTA
*
42746617 AGGAAAATCCATCCAAAGCCTAAGTC
1 AGGAAAATCCATCCAAAGCCCAAGTC
42746643 AGGAAAATCCATCCAAAGCCCAAGTC
1 AGGAAAATCCATCCAAAGCCCAAGTC
42746669 AG
1 AG
42746671 CTCAAGCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.28, G:0.17, T:0.13
Consensus pattern (26 bp):
AGGAAAATCCATCCAAAGCCCAAGTC
Found at i:42749722 original size:24 final size:24
Alignment explanation
Indices: 42749691--42749737 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
42749681 TAGATTGAAT
42749691 AATTGAAATCTCTTTCTAATTAAG
1 AATTGAAATCTCTTTCTAATTAAG
42749715 AATTGAAATCTCTTTCTAATTAA
1 AATTGAAATCTCTTTCTAATTAA
42749738 CACCCTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (24 bp):
AATTGAAATCTCTTTCTAATTAAG
Found at i:42759015 original size:40 final size:39
Alignment explanation
Indices: 42758865--42759017 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
42758855 GAATGTTCGA
* *
42758865 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
42758904 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
42758943 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
42758982 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
42759018 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:42759033 original size:40 final size:39
Alignment explanation
Indices: 42758866--42759048 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
42758856 AATGTTCGAG
* * *
42758866 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42758905 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42758944 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42758983 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
42759023 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42759049 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42759084 original size:79 final size:79
Alignment explanation
Indices: 42758872--42759086 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
42758862 CGAGTGATAT
** * * * * * *
42758872 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
42758935 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
42758950 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
42759015 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
42759029 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
42759087 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:42773851 original size:38 final size:38
Alignment explanation
Indices: 42773800--42773949 Score: 246
Period size: 38 Copynumber: 3.9 Consensus size: 38
42773790 GAATGTTCGA
*
42773800 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAGTT
42773838 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AGTT
*
42773877 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAGTT
* *
42773915 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGC
42773950 GGGTTACCAT
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
38 53 0.50
39 52 0.50
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (38 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAGTT
Found at i:42773888 original size:77 final size:78
Alignment explanation
Indices: 42773801--42773981 Score: 274
Period size: 77 Copynumber: 2.3 Consensus size: 78
42773791 AATGTTCGAG
42773801 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
42773865 ATTGTGCGAGTTA
66 ATTGTGCGAGTTA
* *
42773878 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
* *
42773943 TTTGTGCGGGTTA
66 ATTGTGCGAGTTA
** * *
42773956 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42773982 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
77 52 0.55
78 33 0.35
79 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTA
Found at i:42773977 original size:40 final size:39
Alignment explanation
Indices: 42773801--42773981 Score: 240
Period size: 38 Copynumber: 4.6 Consensus size: 39
42773791 AATGTTCGAG
* *
42773801 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
42773839 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42773878 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42773916 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
42773956 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42773982 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 52 0.41
39 52 0.41
40 24 0.19
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42780411 original size:40 final size:39
Alignment explanation
Indices: 42780261--42780413 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
42780251 GAATGTTCGA
* *
42780261 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
42780300 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
42780339 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
42780378 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
42780414 GGTTACCATA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:42780429 original size:40 final size:39
Alignment explanation
Indices: 42780262--42780444 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
42780252 AATGTTCGAG
* * *
42780262 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
42780301 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42780340 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42780379 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
42780419 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42780445 GTTTGAACGA
Statistics
Matches: 130, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42780480 original size:79 final size:79
Alignment explanation
Indices: 42780268--42780482 Score: 186
Period size: 78 Copynumber: 2.7 Consensus size: 79
42780258 CGAGTGATAT
** * * * * *
42780268 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
42780331 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
42780346 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
42780411 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
42780425 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
42780483 TATGTGATTC
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
77 3 0.03
78 41 0.36
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:42788296 original size:77 final size:78
Alignment explanation
Indices: 42788209--42788389 Score: 258
Period size: 77 Copynumber: 2.3 Consensus size: 78
42788199 AATGTTCGAG
42788209 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATTGTGATATCCGGGCTAAGTCCCGAAGGC
42788273 AATT-TGCGAGTTA
65 AATTGTGCGAGTTA
* *
42788286 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
* *
42788351 TTTGTGCGGGTTA
66 ATTGTGCGAGTTA
** * *
42788364 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42788390 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
76 19 0.20
77 45 0.48
78 20 0.22
79 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTA
Found at i:42788385 original size:40 final size:39
Alignment explanation
Indices: 42788209--42788389 Score: 231
Period size: 38 Copynumber: 4.6 Consensus size: 39
42788199 AATGTTCGAG
* * *
42788209 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
42788248 TGATATCCGGGCTAAGCCCGAAGGCAATT-TGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42788286 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42788324 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
42788364 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42788390 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
38 54 0.43
39 48 0.38
40 24 0.19
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42796250 original size:40 final size:39
Alignment explanation
Indices: 42796139--42796252 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
42796129 TAATGTTCGA
* *
42796139 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
42796178 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
42796217 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
42796253 GGTTACCATA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
39 53 0.76
40 17 0.24
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:42796268 original size:40 final size:40
Alignment explanation
Indices: 42796146--42796288 Score: 128
Period size: 39 Copynumber: 3.6 Consensus size: 40
42796136 CGAGTGATAT
* * * *** *
42796146 CCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
42796185 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
42796224 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
42796264 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42796289 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 12, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 46 0.51
40 45 0.49
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:42803130 original size:39 final size:39
Alignment explanation
Indices: 42803086--42803212 Score: 182
Period size: 39 Copynumber: 3.2 Consensus size: 39
42803076 TCCTTGTGCA
* * * *
42803086 AATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGT
1 AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
*
42803125 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
*
42803164 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
*
42803204 ATTTGTGCG
1 AATTGTGCG
42803213 GGTTACCATA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 62 0.78
40 17 0.22
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (39 bp):
AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:42803210 original size:40 final size:39
Alignment explanation
Indices: 42803086--42803243 Score: 181
Period size: 39 Copynumber: 4.0 Consensus size: 39
42803076 TCCTTGTGCA
* * * * *
42803086 AATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGT
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
42803125 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
* *
42803164 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
* * ** * *
42803204 ATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42803244 GTTTGAACGA
Statistics
Matches: 103, Mismatches: 15, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 62 0.60
40 41 0.40
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
Found at i:42803229 original size:79 final size:79
Alignment explanation
Indices: 42803086--42803243 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 79
42803076 TCCTTGTGCA
* ** *
42803086 AATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGTAATTGTGCGAGTTATGATATCCGGGC
1 AATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGC
42803151 TAAG-CCCGAAGGC
66 TAAGTCCCGAAGGC
* * * * * *
42803164 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGG
1 AATTGTGCAAATTGTGACATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACCATAACCGGG
*
42803229 CTATGTCCCGAAGGC
65 CTAAGTCCCGAAGGC
42803244 GTTTGAACGA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
78 26 0.39
79 32 0.48
80 9 0.13
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (79 bp):
AATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGC
TAAGTCCCGAAGGC
Found at i:42816818 original size:28 final size:28
Alignment explanation
Indices: 42816775--42816831 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
42816765 AGATAGTTTG
42816775 AAAGTAGCTTCCGATAGTCAGAAATCTT
1 AAAGTAGCTTCCGATAGTCAGAAATCTT
*
42816803 AAAGTAGCTTCTGATAGTCAGAAATCTT
1 AAAGTAGCTTCCGATAGTCAGAAATCTT
42816831 A
1 A
42816832 TGCAGACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (28 bp):
AAAGTAGCTTCCGATAGTCAGAAATCTT
Found at i:42825507 original size:23 final size:23
Alignment explanation
Indices: 42825481--42825559 Score: 158
Period size: 23 Copynumber: 3.4 Consensus size: 23
42825471 TATCCCCACA
42825481 TGGAGTGTAGGGTTCGACGGAGT
1 TGGAGTGTAGGGTTCGACGGAGT
42825504 TGGAGTGTAGGGTTCGACGGAGT
1 TGGAGTGTAGGGTTCGACGGAGT
42825527 TGGAGTGTAGGGTTCGACGGAGT
1 TGGAGTGTAGGGTTCGACGGAGT
42825550 TGGAGTGTAG
1 TGGAGTGTAG
42825560 AGGATGGATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.18, C:0.08, G:0.48, T:0.27
Consensus pattern (23 bp):
TGGAGTGTAGGGTTCGACGGAGT
Found at i:42829799 original size:43 final size:43
Alignment explanation
Indices: 42829751--42829991 Score: 446
Period size: 43 Copynumber: 5.6 Consensus size: 43
42829741 CCGGCATTAC
*
42829751 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
42829794 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
42829837 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
42829880 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
42829923 GCCTGCTATGCACAAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
42829966 GCCTACTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
42829992 TAATACCAGT
Statistics
Matches: 192, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 192 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:42830054 original size:38 final size:38
Alignment explanation
Indices: 42829984--42830107 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
42829974 GGCACGAAGG
* * * * *
42829984 CCCGAATATAATACCAGTACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
42830022 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** *
42830060 CTCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
42830099 GCCCGGATA
1 -CCCGGATA
42830108 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 60 0.83
39 5 0.07
40 7 0.10
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:42833854 original size:45 final size:45
Alignment explanation
Indices: 42833760--42833873 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
42833750 CTGGCATTTC
* *
42833760 GCCTGCTAGGCTCG-AGGCCCG-ATATCATTTCACCGACTTTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATATCATTTCACCGACATTATA
42833803 GCCTGCTAGGCTCGAAAGCCCGAATAGT-ATCTT-ACCGACATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATA-TCAT-TTCACCGACATTATA
* * *
42833848 GTCTGCTAAGCTC-AAAGGCCTGAATA
1 GCCTGCTAGGCTCGAAA-GCCCGAATA
42833874 ATCAAATCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
43 14 0.23
44 9 0.15
45 35 0.57
46 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAAGCCCGAATATCATTTCACCGACATTATA
Found at i:42834262 original size:16 final size:16
Alignment explanation
Indices: 42834241--42834280 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
42834231 CATATCACCA
42834241 GCACGAAGCCTGCTTG
1 GCACGAAGCCTGCTTG
42834257 GCACGAAGCCTGCTTG
1 GCACGAAGCCTGCTTG
*
42834273 GTACGAAG
1 GCACGAAG
42834281 GCCCGAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.17
Consensus pattern (16 bp):
GCACGAAGCCTGCTTG
Found at i:42834280 original size:59 final size:59
Alignment explanation
Indices: 42834205--42834322 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
42834195 TCGGCATTAC
* *
42834205 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCAGCACGAAGCCTGCTTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAA
* * ** *
42834264 GCCTGCTTGGTACGAAGGCCCGAATACACATCACTGGCACTAAGCCTGCTAGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAA
42834323 AGCCCGAGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.28, C:0.31, G:0.25, T:0.15
Consensus pattern (59 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAA
Found at i:42834302 original size:43 final size:43
Alignment explanation
Indices: 42834255--42834361 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
42834245 GAAGCCTGCT
* * *
42834255 TGGCACGAAGCCTGCTTGGTACGAAGGCCCGAATACACATCAC
1 TGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATACACATCAC
* *
42834298 TGGCACTAAGCCTGCTAGGCACGAAAGCCCGAGTACACATCAC
1 TGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATACACATCAC
*
42834341 CGGCACGAAGCCTGCTAGGCA
1 TGGCACGAAGCCTGCTAGGCA
42834362 AGAAGCCTGC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (43 bp):
TGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATACACATCAC
Found at i:42834366 original size:16 final size:16
Alignment explanation
Indices: 42834342--42834382 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
42834332 ACACATCACC
42834342 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
*
42834358 GGCAAGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
42834374 GGCACGAAG
1 GGCACGAAG
42834383 GCCCGAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.34, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTGCTA
Found at i:42834368 original size:59 final size:59
Alignment explanation
Indices: 42834305--42834425 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
42834295 CACTGGCACT
* *
42834305 AAGCCTGCTAGGCACGAAAGCCCGAGTACACATCACCGGCACGAAGCCTGCTAGGCAAG
1 AAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTACTAGGCAAG
* * * *
42834364 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCATGAAGCCTACTAGGCACG
1 AAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTACTAGGCAAG
42834423 AAG
1 AAG
42834426 GCCCGAATAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.31, C:0.31, G:0.26, T:0.12
Consensus pattern (59 bp):
AAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTACTAGGCAAG
Found at i:42834381 original size:102 final size:102
Alignment explanation
Indices: 42834196--42834468 Score: 404
Period size: 102 Copynumber: 2.7 Consensus size: 102
42834186 ATCATTTCAT
* * * * *
42834196 CGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACATATCACCAGCACGAAGCCTGCTTGGCAC
1 CGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCAC
* *
42834261 GAAGCCTGCTTGGTACGAAGGCCCGAATACACATCAC
66 GAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
* * *
42834298 TGGCACT-AAGCCTGCTAGGCACGAAAGCCCGAGTACACATCACCGGCACGAAGCCTGCTAGGCA
1 CGGCA-TGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCA
* *
42834362 AGAAGCCTGCTAGGCACGAAGGCCCGAATACATATCAC
65 CGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
* *
42834400 CGGCATGAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGCTAGGCAC
1 CGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCAC
42834465 GAAG
66 GAAG
42834469 GCCCGAATAT
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 150 0.99
103 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.14
Consensus pattern (102 bp):
CGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCAC
GAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
Found at i:42834424 original size:43 final size:43
Alignment explanation
Indices: 42834358--42834477 Score: 213
Period size: 43 Copynumber: 2.8 Consensus size: 43
42834348 AAGCCTGCTA
* *
42834358 GGCAAGAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACC
1 GGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
*
42834401 GGCATGAAGCCTACTAGGCACGAAGGCCCGAATACACATCACC
1 GGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
42834444 GGCATGAAGCCTGCTAGGCACGAAGGCCCGAATA
1 GGCATGAAGCCTGCTAGGCACGAAGGCCCGAATA
42834478 TAATACCAGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.32, C:0.30, G:0.27, T:0.12
Consensus pattern (43 bp):
GGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
Found at i:42837547 original size:40 final size:40
Alignment explanation
Indices: 42837451--42837604 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 40
42837441 TATTCGGATG
42837451 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
42837494 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
42837534 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
42837574 ATATCCGGGCTAAGACTCGAAGGCATTTGTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG
42837605 ACAGCCTTAA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.02
40 67 0.67
43 31 0.31
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:42839452 original size:40 final size:40
Alignment explanation
Indices: 42839397--42839523 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
42839387 TATTTGGATG
42839397 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
42839437 ATATCCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
42839477 ATATCCAAGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
42839516 ATATCCGG
1 ATATCCGG
42839524 TTAAATCCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
38 2 0.03
39 15 0.20
40 59 0.78
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:42842638 original size:30 final size:30
Alignment explanation
Indices: 42842599--42842658 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42842589 TCCCGAGCCA
42842599 AGGGACAAAAGTG-TAATTATGCAAAAGTTC
1 AGGGACAAAAG-GATAATTATGCAAAAGTTC
* * *
42842629 AGGGGCAAAAGGATAATTTTGCCAAAGTTC
1 AGGGACAAAAGGATAATTATGCAAAAGTTC
42842659 GTATTAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (30 bp):
AGGGACAAAAGGATAATTATGCAAAAGTTC
Found at i:42843477 original size:100 final size:100
Alignment explanation
Indices: 42843304--42843501 Score: 342
Period size: 100 Copynumber: 2.0 Consensus size: 100
42843294 ATTGTGAGGT
* *
42843304 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGACGCATGTGTAGTACTA
*
42843369 AGTGCAGGCTACTATGCGTACCTGATAACTTCGAA
66 AGTGCAGGCTACTATGCGTACCAGATAACTTCGAA
* *
42843404 CACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATTGGACGCATGTGTAGTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGACGCATGTGTAGTACTA
*
42843469 AGTGCAGGCTACTATGCGTACCAGATAGCTTCG
66 AGTGCAGGCTACTATGCGTACCAGATAACTTCG
42843502 GCTACAAGTG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGACGCATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACCAGATAACTTCGAA
Found at i:42843490 original size:49 final size:49
Alignment explanation
Indices: 42843308--42843495 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
42843298 TGAGGTCACG
* * *
42843308 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGACGCA
* * * * *
42843357 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGAACACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GGACGCA
* * *
42843408 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATTGGACGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGACGCA
*
42843457 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
42843496 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 75 0.64
50 4 0.03
51 39 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGACGCA
Found at i:42849991 original size:80 final size:80
Alignment explanation
Indices: 42849853--42850059 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
42849843 AATTAAATGA
* * * ** * *
42849853 TATCTGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAACGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAACGCAA
*
42849918 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* * * *
42849931 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATTCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAACGC
* * *
42849996 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
42850013 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
42850060 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
80 102 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAACGCAA
TTATGCAAGTCGTAC
Found at i:42850037 original size:40 final size:39
Alignment explanation
Indices: 42849852--42850059 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 39
42849842 CAATTAAATG
* * * * *
42849852 ATATCTGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * * * * * *
42849892 AAATCCGGGTTAAGACCCGAACGCAATTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTG-TT
* *
42849932 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGTT
* * *
42849972 AAATTCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * *
42850012 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
42850052 ATATCCGG
1 ATATCCGG
42850060 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.01
40 135 0.97
41 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGTT
Found at i:42855818 original size:15 final size:15
Alignment explanation
Indices: 42855798--42855866 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
42855788 GTATCTTGGG
42855798 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
42855813 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
42855828 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
42855843 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
42855858 TTTCTTTAT
1 TTTCTTTAT
42855867 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:42855867 original size:30 final size:30
Alignment explanation
Indices: 42855789--42855876 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
42855779 CATAGTATCG
* * * *
42855789 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
42855819 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
42855849 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
42855877 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:42859748 original size:40 final size:40
Alignment explanation
Indices: 42859695--42859840 Score: 197
Period size: 40 Copynumber: 3.7 Consensus size: 40
42859685 GGGTGTTACA
*
42859695 TACTATATCTGGGCTAAGTCCCGAACGCATTTGTGCGAGT
1 TACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
42859735 TACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
1 TACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* * * *
42859775 TACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAG-
1 TACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* * *
42859814 TAGCTATATC-CGGTTAAATCCCGAAGG
1 TA-CTATATCTGGGCTAAGTCCCGAAGG
42859841 TACTTGGCTT
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.16
40 81 0.84
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
TACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
Found at i:42868192 original size:40 final size:40
Alignment explanation
Indices: 42868137--42868314 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
42868127 TGGATGATAA
* * **
42868137 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGGCTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
42868177 CCGGGCTAAGTCCCGAGGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
42868217 CCGGGCTAAGTTTCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
42868257 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
42868297 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42868315 TACTTGGCTT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 17 0.15
40 100 0.85
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42873077 original size:16 final size:16
Alignment explanation
Indices: 42873056--42873088 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42873046 CGGAAAATCC
*
42873056 CGAAATGCCGAAAAGT
1 CGAAATGCCAAAAAGT
42873072 CGAAATGCCAAAAAGT
1 CGAAATGCCAAAAAGT
42873088 C
1 C
42873089 AGAAGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (16 bp):
CGAAATGCCAAAAAGT
Found at i:42877504 original size:40 final size:41
Alignment explanation
Indices: 42877458--42877657 Score: 237
Period size: 41 Copynumber: 4.9 Consensus size: 41
42877448 TCAAAAACAT
* ** *
42877458 CGCAAAAGGTAAAGCATTAAAGGCGTTTTTAT-ATAAACGC
1 CGCAAAAGGTAAAGCAATAGCGGCGTTTTTCTCATAAACGC
*
42877498 CGCAAAAGGTAAAGCAATATTG-GGC-TTTTTCTCATAAAGGC
1 CGCAAAAGGTAAAGCAATA--GCGGCGTTTTTCTCATAAACGC
* * * *
42877539 TGCAAAAGGTAAAGCAATAGTGACGTTTGTCTCATAAACGC
1 CGCAAAAGGTAAAGCAATAGCGGCGTTTTTCTCATAAACGC
* *
42877580 CACAAAAGGTAAAGCAATAGCGGCGTTTTT-TTATAAACGC
1 CGCAAAAGGTAAAGCAATAGCGGCGTTTTTCTCATAAACGC
* *
42877620 CGCTAAAGGTAAAGCAATAGCGGCGTTTTTCCCATAAA
1 CGCAAAAGGTAAAGCAATAGCGGCGTTTTTCTCATAAA
42877658 TGCCTTAATT
Statistics
Matches: 136, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 63 0.46
41 72 0.53
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (41 bp):
CGCAAAAGGTAAAGCAATAGCGGCGTTTTTCTCATAAACGC
Found at i:42877628 original size:81 final size:81
Alignment explanation
Indices: 42877490--42877657 Score: 214
Period size: 81 Copynumber: 2.1 Consensus size: 81
42877480 GCGTTTTTAT
* * *
42877490 ATAAACGCCGCAAAAGGTAAAGCAATATTGGGCTTTTTCTCATAAAGGCTGCAAAAGGTAAAGCA
1 ATAAACGCCACAAAAGGTAAAGCAATA-TGGGCTTTTTCTCATAAACGCCGCAAAAGGTAAAGCA
* *
42877555 ATAGTGACGTTTGTCTC
65 ATAGCGACGTTTGTCCC
* *
42877572 ATAAACGCCACAAAAGGTAAAGCAATA-GCGGCGTTTTT-TTATAAACGCCGCTAAAGGTAAAGC
1 ATAAACGCCACAAAAGGTAAAGCAATATG-GGC-TTTTTCTCATAAACGCCGCAAAAGGTAAAGC
* *
42877635 AATAGCGGCGTTTTTCCC
64 AATAGCGACGTTTGTCCC
42877653 ATAAA
1 ATAAA
42877658 TGCCTTAATT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 1 0.01
81 43 0.57
82 31 0.41
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (81 bp):
ATAAACGCCACAAAAGGTAAAGCAATATGGGCTTTTTCTCATAAACGCCGCAAAAGGTAAAGCAA
TAGCGACGTTTGTCCC
Done.