Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 134 of 770
Found at i:39260335 original size:39 final size:40
Alignment explanation
Indices: 39260244--39260352 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
39260234 ATTGAATGAT
* * * * *
39260244 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
39260284 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTA-
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
39260323 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
39260353 AAATTGTGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 28 0.47
40 31 0.53
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:39260380 original size:40 final size:38
Alignment explanation
Indices: 39260284--39260392 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 38
39260274 TGGTAATTAC
*
39260284 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTA
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-A
* *
39260323 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACA
* *
39260363 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
39260393 GGGTTACCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 28 0.46
40 28 0.46
42 5 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACA
Found at i:39268393 original size:40 final size:40
Alignment explanation
Indices: 39268285--39268394 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
39268275 ATTGAATGAT
* * * * *
39268285 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
39268325 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
39268365 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
39268395 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:39268409 original size:40 final size:39
Alignment explanation
Indices: 39268285--39268434 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
39268275 ATTGAATGAT
* * * * * * *
39268285 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
39268325 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
39268365 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
39268405 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
39268435 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:39281233 original size:48 final size:47
Alignment explanation
Indices: 39281114--39281335 Score: 233
Period size: 47 Copynumber: 4.7 Consensus size: 47
39281104 TAGGGTATAA
* * * *
39281114 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-C-TTACG
* *
39281163 T--CGATGCCATGTCCCATACATGGTCTTACACTGACACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-TACG
* *
39281209 TGCTGATGCCATGTCCCAGGCATGGTCTTACACTGACACATC-T-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTACG
* * *
39281254 TAGCCGATG-TATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTTA-G
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTTACG
*
39281301 TGCCGATGCCATGTCCTAGACATGGTCTTACACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
39281336 GCTTTAGTAA
Statistics
Matches: 146, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 23 0.16
47 50 0.34
48 45 0.31
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTACG
Found at i:39281388 original size:140 final size:139
Alignment explanation
Indices: 39281115--39281380 Score: 321
Period size: 140 Copynumber: 1.9 Consensus size: 139
39281105 AGGGTATAAT
* *
39281115 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAG
* *
39281180 ACATGGTCTTACACTGACACCTCTATACGTGCTGATGCCATGTCCCAGGCATGGTCTTACACTGA
66 ACATGGTCTTACACTG--ACCTCTATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA
39281245 CACATCTCGTA
129 CACATCTCGTA
* *
39281256 GCCGATG-TATGTCCCAGACAT-GTCTTACACTAGCTC-T-CATCTTAGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATC-AAGT--CGATGCCATGTCC
* * * *
39281317 TAGACATGGTCTTACACTG-GCTTTAGTAATGTGGCCGATG-CATGTCCCAGACAT-GTCTTACA
63 CAGACATGGTCTTACACTGACCTCTA-T-ACGT-GCCGATGCCATGTCCCAGACATGGTCTTACA
39281379 CT
125 CT
39281381 AGCACACAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
137 8 0.07
138 15 0.14
139 30 0.28
140 49 0.45
141 7 0.06
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (139 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAG
ACATGGTCTTACACTGACCTCTATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACA
CATCTCGTA
Found at i:39291341 original size:27 final size:27
Alignment explanation
Indices: 39291269--39291359 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
39291259 CATAAGATTT
* *
39291269 CTTTATCATCAATTTCCACAAAGGCTTC
1 CTTT-TCATAAATTACCACAAAGGCTTC
* **
39291297 CTTTTCATAGACCACCACAAAGGCTTC
1 CTTTTCATAAATTACCACAAAGGCTTC
* *
39291324 CTTTTCATAAATTGCCACAAAGGATTTC
1 CTTTTCATAAATTACCACAAAGG-CTTC
39291352 C-TTTCATA
1 CTTTTCATA
39291360 GATCATTATG
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 44 0.85
28 8 0.15
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (27 bp):
CTTTTCATAAATTACCACAAAGGCTTC
Found at i:39297924 original size:29 final size:28
Alignment explanation
Indices: 39297890--39297992 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
39297880 TACTCAATCA
*
39297890 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
39297919 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
39297948 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
39297977 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
39297993 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:39306588 original size:28 final size:29
Alignment explanation
Indices: 39306490--39306588 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
39306480 TCACAAATTG
* *
39306490 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
39306519 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
39306547 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
39306575 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39306589 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:39308688 original size:41 final size:41
Alignment explanation
Indices: 39308641--39308748 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 41
39308631 TGAGATTACC
* * * *
39308641 TGTAAGACCATATTTGGGAATGGCATCGATATGAGA-CTTCG
1 TGTAAGACCATATCTGGGAATGGCATCAATATGAGATC-CCA
* *
39308682 TGTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATCCCA
1 TGTAAGACCATATCTGGG--AATGGCATCAATATGAGATCCCA
*
39308725 TGTAAGACCATATGTGGGATATGG
1 TGTAAGACCATATCTGGGA-ATGG
39308749 AATTGGTATG
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
41 17 0.31
42 3 0.06
43 33 0.61
44 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGAATGGCATCAATATGAGATCCCA
Found at i:39309884 original size:20 final size:20
Alignment explanation
Indices: 39309859--39309909 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
39309849 CAATGCCTGC
39309859 CCACACGGGCGACTCCCAAG
1 CCACACGGGCGACTCCCAAG
39309879 CCACACGGGCGACTCCCAAG
1 CCACACGGGCGACTCCCAAG
39309899 CCACACGGGCG
1 CCACACGGGCG
39309910 TGTGACCCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.45, G:0.27, T:0.04
Consensus pattern (20 bp):
CCACACGGGCGACTCCCAAG
Found at i:39317041 original size:43 final size:44
Alignment explanation
Indices: 39316848--39317049 Score: 257
Period size: 44 Copynumber: 4.7 Consensus size: 44
39316838 ATGTGTTTTT
*
39316848 ATGTAAGACCACGTCTGGGACATTGGCATCGATATTGAGATTAC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTAC
* *
39316892 GTGTAAGACCATGTTTGGGACATTGGCATCGATATTGAGATTAC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTAC
* * * * *
39316936 GTGTAAGACCATGTTTGGGACATTGGCATTG-TATT-TGATTTC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTAC
* * * *
39316978 ATGTAAGACCTTGTCGGGGACAGTGGCATCGATATT-TGATTAC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTAC
* *
39317021 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATGTAAGACCATGTCTGGGACATTGGCAT
39317050 TGTATGAACT
Statistics
Matches: 139, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 30 0.22
43 38 0.27
44 71 0.51
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (44 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTAC
Found at i:39317048 original size:85 final size:87
Alignment explanation
Indices: 39316848--39317054 Score: 274
Period size: 85 Copynumber: 2.4 Consensus size: 87
39316838 ATGTGTTTTT
* * **
39316848 ATGTAAGACCACGTCTGGGACATTGGCATCGATATTGAGATTACGTGTAAGACCATGTTTGGGAC
1 ATGTAAGACCACGTCTGGGACATTGGCATTG-TATTGAGATTACATGTAAGACCATGTCGGGGAC
*
39316913 ATTGGCATCGATATTGAGATTAC
65 AGTGGCATCGATATTGAGATTAC
* * * * * *
39316936 GTGTAAGACCATGTTTGGGACATTGGCATTGTATT-TGATTTCATGTAAGACCTTGTCGGGGACA
1 ATGTAAGACCACGTCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCGGGGACA
*
39317000 GTGGCATCGATATT-TGATTAC
66 GTGGCATCGATATTGAGATTAC
*
39317021 ATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 ATGTAAGACCACGTCTGGGACATTGGCATTGTAT
39317055 GAACTTTCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
85 36 0.35
86 36 0.35
87 4 0.04
88 27 0.26
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (87 bp):
ATGTAAGACCACGTCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCGGGGACA
GTGGCATCGATATTGAGATTAC
Found at i:39317819 original size:22 final size:24
Alignment explanation
Indices: 39317794--39317838 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
39317784 GTTTTTGGCT
39317794 TATGGAATG-ACATGA-ATTGGTA
1 TATGGAATGAACATGAGATTGGTA
**
39317816 TATGTTATGAACATGAGATTGGT
1 TATGGAATGAACATGAGATTGGT
39317839 TGATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGAATGAACATGAGATTGGTA
Found at i:39319646 original size:35 final size:35
Alignment explanation
Indices: 39319598--39319686 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
39319588 TACACGATTA
* * * *
39319598 ACCATCCAACACACTAGATG-TTCATAGGAGCCAGT
1 ACCATCTAGCACACTAGATGCTT-ATAAGAGCAAGT
39319633 ACCATCTAGCACACTAGATGCTTATAAGAGCAAGT
1 ACCATCTAGCACACTAGATGCTTATAAGAGCAAGT
*
39319668 ACCATCTAGAACACTAGAT
1 ACCATCTAGCACACTAGAT
39319687 AACATTGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 46 0.96
36 2 0.04
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (35 bp):
ACCATCTAGCACACTAGATGCTTATAAGAGCAAGT
Found at i:39324288 original size:23 final size:23
Alignment explanation
Indices: 39324262--39324307 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
39324252 GGGATATTAG
39324262 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
39324285 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
39324308 TCAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:39325060 original size:21 final size:21
Alignment explanation
Indices: 39325021--39325060 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39325011 TTTATTTAAA
*
39325021 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
39325042 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
39325061 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:39328049 original size:11 final size:12
Alignment explanation
Indices: 39328026--39328055 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
39328016 AATCTTATGG
39328026 CCAAAATCATAA
1 CCAAAATCATAA
39328038 CCAAAA-CATAA
1 CCAAAATCATAA
39328049 CCAAAAT
1 CCAAAAT
39328056 GACTCAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (12 bp):
CCAAAATCATAA
Found at i:39328642 original size:38 final size:38
Alignment explanation
Indices: 39328591--39328666 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
39328581 GGCCTGAAGG
* *
39328591 CAAATCGGTTTATCTTGCACCCGAAGTGATATATCAAA
1 CAAATCGGTTTATCTCGCACCCGAAATGATATATCAAA
* *
39328629 CAAATTGGTTTATCTCGCACCCGAAATGCTATATCAAA
1 CAAATCGGTTTATCTCGCACCCGAAATGATATATCAAA
39328667 GTATCCCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (38 bp):
CAAATCGGTTTATCTCGCACCCGAAATGATATATCAAA
Found at i:39334111 original size:40 final size:40
Alignment explanation
Indices: 39334010--39334154 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
39334000 TACTCGAATG
*
39334010 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
39334051 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
39334091 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
39334131 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
39334155 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:39335669 original size:48 final size:47
Alignment explanation
Indices: 39335600--39335921 Score: 211
Period size: 48 Copynumber: 6.9 Consensus size: 47
39335590 GTGAATTGTA
* * * * *
39335600 AATGCCATGTTCCAAATATGGTCTTACATTGGCTCACATGTCGAGGCG
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-AGGCG
* * * * * * * *
39335648 AATGCCATGTCCCAGACATGGTTTTGCACTAGCTCTCGTCTTAATGCCG
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCA-GGCG
* *
39335697 -ATGCCATG-CCCTAGACGTGGTCTTACACTGGCT--C---TCA---T
1 AATGCCATGTCCC-AGACATGGTCTTACACTGGCTCACATATCAGGCG
* * * * *
39335735 AATGTCATGTCCCAGCCATGGTCTTACACTAGCACACATATCAATGCTG
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-AGGC-G
* *
39335784 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATC-GCCG
1 AATGCCATGTCCCAGACATGGTCTTACACTGG--CTCAC-ATATCAGGCG
* * * * *
39335832 -ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-AGGCG
*
39335879 AATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
39335922 CCCGAATGGC
Statistics
Matches: 211, Mismatches: 42, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
39 24 0.11
40 3 0.01
41 1 0.00
42 2 0.01
44 2 0.01
45 5 0.02
46 5 0.02
47 5 0.02
48 151 0.72
49 5 0.02
50 4 0.02
51 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
AATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAGGCG
Found at i:39335805 original size:87 final size:87
Alignment explanation
Indices: 39335648--39335820 Score: 231
Period size: 87 Copynumber: 2.0 Consensus size: 87
39335638 TGTCGAGGCG
* * * * * * *
39335648 AATGCCATGTCCCAGACATGGTTTTGCACTAGCTCTCGTCTTAATGCCGATGCCATGCCCTAGAC
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGCCCTAGAC
*
39335713 GTGGTCTTACACTGGCTCTCAT
66 ATGGTCTTACACTGGCTCTCAT
* * *
39335735 AATGTCATGTCCCAGCCATGGTCTTACACTAGCACACATATCAATGCTGATGCCATGTCCC-AGA
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATG-CCCTAGA
39335799 CATGGTCTTACACTGGCTCTCA
65 CATGGTCTTACACTGGCTCTCA
39335821 CAACATCGCC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
87 71 0.96
88 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (87 bp):
AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGCCCTAGAC
ATGGTCTTACACTGGCTCTCAT
Found at i:39348053 original size:40 final size:40
Alignment explanation
Indices: 39347828--39348025 Score: 267
Period size: 40 Copynumber: 5.0 Consensus size: 40
39347818 TCGAATGATG
* * * *
39347828 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39347868 TCCAGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
39347908 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
39347948 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* **
39347988 TCTGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
39348026 TAACCGGGCT
Statistics
Matches: 144, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 136 0.94
41 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39348060 original size:40 final size:40
Alignment explanation
Indices: 39347828--39348053 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
39347818 TCGAATGATG
* * * *
39347828 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAATCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39347868 TCCAGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39347908 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39347948 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39347988 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTA-AA
**
39348029 -CCGGGCTATTTCCCGAAGGCATTTG
1 TCCGGGCTAAATCCCGAAGGCATTTG
39348054 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 155 0.94
41 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39355258 original size:27 final size:27
Alignment explanation
Indices: 39355228--39355306 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
39355218 CTCAACGAGT
39355228 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
* **
39355255 TCGGA---CTCA---AC-TC-AACGAGT
1 TCGGATGCCT-AGTTACATCTCACGAAC
39355275 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
39355302 TCGGA
1 TCGGA
39355307 CTCAACTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 3 0.08
23 2 0.05
24 2 0.05
25 3 0.08
26 2 0.05
27 14 0.38
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTAGTTACATCTCACGAAC
Found at i:39355261 original size:47 final size:47
Alignment explanation
Indices: 39355204--39355375 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
39355194 ATCCATAAGT
*
39355204 GAACTCGGACTGAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
39355251 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
39355298 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
39355344 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
39355376 TCAACCATCC
Statistics
Matches: 114, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 29 0.25
47 75 0.66
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39364949 original size:46 final size:44
Alignment explanation
Indices: 39364898--39365074 Score: 203
Period size: 46 Copynumber: 3.9 Consensus size: 44
39364888 ATGTTTGGGC
39364898 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
39364942 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
39364991 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
39365036 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39365075 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 70 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:39365054 original size:93 final size:93
Alignment explanation
Indices: 39364895--39365066 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39364885 AGGATGTTTG
***
39364895 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
39364960 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
39364988 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
39365053 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39365067 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:39369631 original size:40 final size:40
Alignment explanation
Indices: 39369553--39369733 Score: 242
Period size: 40 Copynumber: 4.5 Consensus size: 40
39369543 ACCCAAGTAT
* *
39369553 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
39369592 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
39369632 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* * * *
39369672 CTTCGGGACTTAGCCCGGGTATAGCAACTTGCCCAAATGA
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
39369712 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
39369734 CATCCGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:39377713 original size:40 final size:40
Alignment explanation
Indices: 39377635--39377857 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
39377625 ACCCAAGTAT
* *
39377635 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
39377674 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
39377714 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
39377754 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
39377797 CTTCGGGACTTAG-CCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
39377836 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
39377858 CATCCGAATA
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
39 35 0.21
40 93 0.57
41 1 0.01
42 12 0.07
43 23 0.14
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:39384620 original size:40 final size:40
Alignment explanation
Indices: 39384558--39384813 Score: 349
Period size: 40 Copynumber: 6.4 Consensus size: 40
39384548 AAACCAAGTA
* * *
39384558 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
** *
39384597 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39384637 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39384677 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39384717 CCTTCGAGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
39384757 CCTTCGGAACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
39384797 CCTTCGGGACATAGCCC
1 CCTTCGGGACTTAGCCC
39384814 CGTTATCATC
Statistics
Matches: 196, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
39 14 0.07
40 182 0.93
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39387060 original size:93 final size:93
Alignment explanation
Indices: 39386928--39387098 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
39386918 GCCCCTAAGT
* *
39386928 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
39386993 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
39387021 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
39387086 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39387099 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39387095 original size:46 final size:46
Alignment explanation
Indices: 39386923--39387095 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
39386913 AACCCGCCCC
* * * *
39386923 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
39386969 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * * *
39387017 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
39387062 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39387096 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:39387552 original size:30 final size:30
Alignment explanation
Indices: 39387518--39387577 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39387508 ATTTAATACG
*
39387518 AACTTTGGAAAAATTACACTTTTACCCCTA
1 AACTTTGCAAAAATTACACTTTTACCCCTA
* * * *
39387548 AACTTTTCCATAATTACACTTTTGCCCCTA
1 AACTTTGCAAAAATTACACTTTTACCCCTA
39387578 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTGCAAAAATTACACTTTTACCCCTA
Found at i:39390235 original size:39 final size:39
Alignment explanation
Indices: 39390155--39390305 Score: 239
Period size: 39 Copynumber: 3.8 Consensus size: 39
39390145 ATGGTAACCT
* * * *
39390155 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTC
*
39390195 GCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTC
*
39390234 GCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTC
39390273 GCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCA
39390306 CTCGAACATT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.85
40 16 0.15
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTC
Found at i:39401007 original size:80 final size:80
Alignment explanation
Indices: 39400923--39401071 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
39400913 TATGGTAACC
* * * *
39400923 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
39400987 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
39401003 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
39401068 CCGG
66 CCGG
39401072 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:39401013 original size:40 final size:38
Alignment explanation
Indices: 39400964--39401071 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
39400954 ATCACGATTT
*
39400964 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
39401004 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
39401044 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
39401072 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:39407374 original size:71 final size:71
Alignment explanation
Indices: 39407290--39407453 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
39407280 CGATTTGTCT
39407290 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
39407355 CTTTCA
66 CTTTCA
39407361 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
39407426 CTTTCA
66 CTTTCA
39407432 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
39407454 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:39407491 original size:71 final size:70
Alignment explanation
Indices: 39407290--39407487 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
39407280 CGATTTGTCT
* * * *
39407290 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
39407355 CTTTCA
65 CTTTCA
* * * *
39407361 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
39407426 CTTTCA
65 CTTTCA
* *
39407432 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
39407488 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:39408992 original size:30 final size:29
Alignment explanation
Indices: 39408937--39409096 Score: 207
Period size: 29 Copynumber: 5.5 Consensus size: 29
39408927 ATAGTGAATC
39408937 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
39408966 CACACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
39408996 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
39409025 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
39409053 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
39409083 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39409097 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.17
29 49 0.42
30 45 0.38
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:39409031 original size:59 final size:57
Alignment explanation
Indices: 39408937--39409096 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
39408927 ATAGTGAATC
* *
39408937 CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
39408996 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
39409053 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
39409097 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:39414016 original size:30 final size:29
Alignment explanation
Indices: 39413953--39414040 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
39413943 TGTGCTAAAT
* * *
39413953 GATGGTTGTAATCGTCCCTTTTTATATTC
1 GATGGTTGTAATCATCCCTTTTCATAATC
*
39413982 GATGGTTGAAATCATCCCTTTTCATTAATC
1 GATGGTTGTAATCATCCCTTTTCA-TAATC
* * *
39414012 GATGGTCGTCACCATCCCTTTTCATAATC
1 GATGGTTGTAATCATCCCTTTTCATAATC
39414041 AATAGCCTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
29 26 0.52
30 24 0.48
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (29 bp):
GATGGTTGTAATCATCCCTTTTCATAATC
Found at i:39426655 original size:2 final size:2
Alignment explanation
Indices: 39426648--39426675 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
39426638 TCCGACTTTA
39426648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39426676 CCCTATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39443873 original size:46 final size:45
Alignment explanation
Indices: 39443823--39444231 Score: 330
Period size: 46 Copynumber: 8.8 Consensus size: 45
39443813 ATTCGTGTGT
* *
39443823 GAGCTGGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-TGATGA
* *
39443869 GAGCTAGTGTAAGACCAAGTCTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT--GATGA
* * * *
39443917 GAGCTAGTGTAAGACATGTGTGGTACATGCATCTGCC-TCGA-GAA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATG-A
* * * * *
39443961 GTAAGCCAATGTAAGACATGTCTGGGACATGCATCGACTACA-AGGTGA
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC--CATTGATGA
* * *
39444009 TAGTTAGTGTAAGACCATGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCAT-TGATGA
* *
39444056 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGAGGCGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATTGA--TGA
* *
39444104 GAGCTAGTGTAAGACATGTCTGGTACATGCATCGGCC-TCGA-GAA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATG-A
* * *
39444148 GTAAGCCAATGTAAGACATGTCTGGGACATGCATCGGCTACA-AGATGA
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC--CATTGATGA
* *
39444196 TAGTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
39444232 ACTTGAGATG
Statistics
Matches: 294, Mismatches: 41, Indels: 54
0.76 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 6 0.02
45 2 0.01
46 114 0.39
47 108 0.37
48 60 0.20
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATGA
Found at i:39444085 original size:140 final size:139
Alignment explanation
Indices: 39443829--39444277 Score: 421
Period size: 140 Copynumber: 3.2 Consensus size: 139
39443819 GTGTGAGCTG
* * * * *
39443829 GTGTAAGACATGTCTGGGACATGCATCGGCCATATTA-TGAGAGCTAGTGTAAGACCAAGTCTGG
1 GTGTAAGACATGTCTGGGACATGCATCGACTACA-AAGTGA-AGCTAGTGTAAGACCATGTCTGG
* * *
39443893 GACATGGCATCGG-CAT-TGAGACGAGAGCTAGTGTAAGA-CATGTGTGGTACAT-GCATCTGCC
64 GACAT-GCATCGGCCATAT--GATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCC
*
39443954 TCGAGAAGTAAGCCA
125 TTGAGAAGTAAGCCA
* * *
39443969 ATGTAAGACATGTCTGGGACATGCATCGACTACAAGGTGATAGTTAGTGTAAGACCATGTCTGGG
1 GTGTAAGACATGTCTGGGACATGCATCGACTACAAAGTGA-AGCTAGTGTAAGACCATGTCTGGG
* * *
39444034 ACATGCATCGGCCATATTATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGA
65 ACATGCATCGGCCATATGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTTGA
** *
39444099 GGCG-AGAGCTA
129 GAAGTA-AGCCA
* * * *
39444110 GTGTAAGACATGTCTGGTACATGCATCGGCCT-CGAGAAGT-AAGCCAATGTAAGA-CATGTCTG
1 GTGTAAGACATGTCTGGGACATGCATC-GACTAC-A-AAGTGAAGCTAGTGTAAGACCATGTCTG
* * * * * *
39444172 GGACATGCATCGGCTACAAGATGATAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTG
63 GGACATGCATCGGCCATATGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCTTG
* *
39444237 AGATGTGAGCCA
128 AGAAGTAAGCCA
* *
39444249 GTGTAAGACCGTGTTTGGGACATGGCATC
1 GTGTAAGA-CATGTCTGGGACAT-GCATC
39444278 TGTACTTTAC
Statistics
Matches: 255, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
139 43 0.17
140 146 0.57
141 58 0.23
142 5 0.02
143 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (139 bp):
GTGTAAGACATGTCTGGGACATGCATCGACTACAAAGTGAAGCTAGTGTAAGACCATGTCTGGGA
CATGCATCGGCCATATGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCTTGAGA
AGTAAGCCA
Found at i:39444152 original size:187 final size:187
Alignment explanation
Indices: 39443829--39444277 Score: 742
Period size: 187 Copynumber: 2.4 Consensus size: 187
39443819 GTGTGAGCTG
* *
39443829 GTGTAAGA-CATGTCTGGGACATGCATCGGCCATATTATGAGAGCTAGTGTAAGACCAAGTCTGG
1 GTGTAAGACCATGTCTGGGACATGCATCGGCCATATTATGAGAGCTAGTGTAAGACCATGTTTGG
* *
39443893 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTGTGGTACATGCATCTGCCTCGA
66 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGTACATGCATCGGCCTCGA
*
39443958 GAAGTAAGCCAATGTAAGACATGTCTGGGACATGCATCGACTACAAGGTGATAGTTA
131 GAAGTAAGCCAATGTAAGACATGTCTGGGACATGCATCGACTACAAGATGATAGTTA
39444015 GTGTAAGACCATGTCTGGGACATGCATCGGCCATATTATGAGAGCTAGTGTAAGACCATGTTTGG
1 GTGTAAGACCATGTCTGGGACATGCATCGGCCATATTATGAGAGCTAGTGTAAGACCATGTTTGG
*
39444080 GACATGGCATCGGCATTGAGGCGAGAGCTAGTGTAAGACATGTCTGGTACATGCATCGGCCTCGA
66 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGTACATGCATCGGCCTCGA
*
39444145 GAAGTAAGCCAATGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGTTA
131 GAAGTAAGCCAATGTAAGACATGTCTGGGACATGCATCGACTACAAGATGATAGTTA
* * * * * *
39444202 GTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-GATGTGAGCCAGTGTAAGACCGTGTTT
1 GTGTAAGACCATGTCTGGGACAT-GCATCGGCCAT-ATTATGAGAGCTAGTGTAAGACCATGTTT
39444265 GGGACATGGCATC
64 GGGACATGGCATC
39444278 TGTACTTTAC
Statistics
Matches: 247, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
186 8 0.03
187 233 0.94
188 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (187 bp):
GTGTAAGACCATGTCTGGGACATGCATCGGCCATATTATGAGAGCTAGTGTAAGACCATGTTTGG
GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGTACATGCATCGGCCTCGA
GAAGTAAGCCAATGTAAGACATGTCTGGGACATGCATCGACTACAAGATGATAGTTA
Found at i:39444241 original size:47 final size:45
Alignment explanation
Indices: 39443824--39444277 Score: 315
Period size: 47 Copynumber: 9.7 Consensus size: 45
39443814 TTCGTGTGTG
* * * *
39443824 AGCTGGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTTGA-GATGAT
* * * *
39443870 AGCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGAGACGAG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTTGAGATGAT
* * * *
39443918 AGCTAGTGTAAGACATGTGTGGTACATGCATCTGCCTCGAGAAG-T
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTTGAGATGAT
* * * ** *
39443963 AAGCCAATGTAAGACATGTCTGGGACATGCATCGACTACAAGGTGAT
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCT-TGAGATGAT
* * * *
39444010 AGTTAGTGTAAGACCATGTCTGGGACATGCATCGGCCAT-ATTATGAG
1 AGCTAGTGTAAGA-CATGTCTGGGACATGCATC-GCCTTGA-GATGAT
* * ** *
39444057 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGGCGAG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTTGAGATGAT
* * *
39444105 AGCTAGTGTAAGACATGTCTGGTACATGCATCGGCCTCGAGAAG-T
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTTGAGATGAT
* * * **
39444150 AAGCCAATGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAT
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCT-TGAGATGAT
* *
39444197 AGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATG-T
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCTTGAGATGAT
* * *
39444243 GAGCCAGTGTAAGACCGTGTTTGGGACATGGCATC
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
39444278 TGTACTTTAC
Statistics
Matches: 330, Mismatches: 61, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
45 6 0.02
46 126 0.38
47 135 0.41
48 61 0.18
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCTTGAGATGAT
Found at i:39448633 original size:11 final size:11
Alignment explanation
Indices: 39448617--39448641 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39448607 AAGATTGTTA
39448617 AAACAACTTCT
1 AAACAACTTCT
39448628 AAACAACTTCT
1 AAACAACTTCT
39448639 AAA
1 AAA
39448642 AGAAACTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACAACTTCT
Found at i:39449579 original size:38 final size:35
Alignment explanation
Indices: 39449520--39449620 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
39449510 TCAATCATGC
*
39449520 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
39449559 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
39449590 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
39449621 ATGGGCCGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:39449628 original size:30 final size:31
Alignment explanation
Indices: 39449543--39449636 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
39449533 CCTTTTCATA
*
39449543 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39449574 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39449605 TTTCATATTTCATATTA-TGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39449635 TT
1 TT
39449637 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 15 0.24
31 47 0.76
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:39449886 original size:24 final size:24
Alignment explanation
Indices: 39449828--39449969 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
39449818 GCTTTATCAT
*
39449828 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39449853 ATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39449876 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39449899 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
39449923 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39449947 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39449970 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 37 0.34
24 66 0.61
25 6 0.06
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39449910 original size:47 final size:48
Alignment explanation
Indices: 39449828--39449968 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
39449818 GCTTTATCAT
* *
39449828 ATAACTGGAGGCCT-AGCCTCTTTTAATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
39449876 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
39449923 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
39449969 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
46 6 0.07
47 46 0.53
48 34 0.40
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:39449934 original size:71 final size:71
Alignment explanation
Indices: 39449827--39449969 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
39449817 TGCTTTATCA
*
39449827 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
39449892 CCCTTT
66 CCCTTT
* * **
39449898 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACT-GGGCAAAAGCCCTTTCAATAACTGGGGCATA
39449961 AGCCCTTT
64 AGCCCTTT
39449969 T
1 T
39449970 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 15 0.23
71 50 0.77
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:39450045 original size:20 final size:20
Alignment explanation
Indices: 39450020--39450079 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39450010 TATGATTACC
39450020 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39450040 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39450060 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39450080 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39450050 original size:11 final size:11
Alignment explanation
Indices: 39450020--39450074 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39450010 TATGATTACC
39450020 TCATGTGCATA
1 TCATGTGCATA
*
39450031 TCA--TACATA
1 TCATGTGCATA
39450040 TCATGTGCATA
1 TCATGTGCATA
* *
39450051 TCA--TACATT
1 TCATGTGCATA
39450060 TCATGTGCATA
1 TCATGTGCATA
39450071 TCAT
1 TCAT
39450075 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39450163 original size:24 final size:24
Alignment explanation
Indices: 39450122--39450168 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
39450112 ATACATAAAC
* * *
39450122 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
39450146 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39450169 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:39457385 original size:38 final size:35
Alignment explanation
Indices: 39457326--39457443 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
39457316 TCAATCATGC
*
39457326 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
39457365 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
39457396 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
39457427 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
39457444 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:39457387 original size:31 final size:31
Alignment explanation
Indices: 39457349--39457443 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
39457339 CCTTTTCATA
*
39457349 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39457380 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39457411 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39457442 TT
1 TT
39457444 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:39457692 original size:24 final size:24
Alignment explanation
Indices: 39457634--39457751 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
39457624 GCTTTATCAT
*
39457634 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39457659 ATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39457682 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39457705 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39457729 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39457752 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 37 0.44
24 42 0.49
25 6 0.07
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39457716 original size:47 final size:47
Alignment explanation
Indices: 39457634--39457751 Score: 159
Period size: 47 Copynumber: 2.5 Consensus size: 47
39457624 GCTTTATCAT
*
39457634 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGCAAAAGCCCTTTCA
* **
39457682 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCAAAAGCCCTTTCA
39457729 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39457752 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
46 6 0.09
47 46 0.72
48 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTCA
Found at i:39457827 original size:20 final size:20
Alignment explanation
Indices: 39457802--39457861 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39457792 TATGATTACC
39457802 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39457822 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39457842 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39457862 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39457832 original size:11 final size:11
Alignment explanation
Indices: 39457802--39457856 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39457792 TATGATTACC
39457802 TCATGTGCATA
1 TCATGTGCATA
*
39457813 TCA--TACATA
1 TCATGTGCATA
39457822 TCATGTGCATA
1 TCATGTGCATA
* *
39457833 TCA--TACATT
1 TCATGTGCATA
39457842 TCATGTGCATA
1 TCATGTGCATA
39457853 TCAT
1 TCAT
39457857 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39457945 original size:24 final size:24
Alignment explanation
Indices: 39457904--39457950 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
39457894 ATACATAAAC
* * *
39457904 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
39457928 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39457951 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:39462745 original size:48 final size:47
Alignment explanation
Indices: 39462530--39462891 Score: 237
Period size: 48 Copynumber: 7.6 Consensus size: 47
39462520 GGGTATAATA
* * * * *
39462530 CCGATGCCATGTCCAAGACATGGTCTTACACTGACTCATCCATCAAT-
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTATC-GTG
* * * * *
39462577 TCGATGCCATGTCCCAGACATGATCTTACATTGAC-TATCGAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGACACATC--TATCG-TG
* * * * *
39462626 CCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCA-CATATTCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACA-TTG-ACACATC-TA-TCGTG
* * *
39462676 CTGATGCCATGTCCCAAACATGGTCTTACATTGACAGATCTATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTAT-CGTG
*
39462724 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTATCGT-G
* *
39462770 CCGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACATCTCA-AG-G
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGAC--ACATCT-ATCGTG
* * * * *
39462816 CTGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTC-TCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGA-CACATC-TATC-GTG
* *
39462862 CCAATGCCATGTCCCATACATGGTCTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
39462892 CTGGCTTTCA
Statistics
Matches: 251, Mismatches: 41, Indels: 45
0.74 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 13 0.05
45 17 0.07
46 51 0.20
47 45 0.18
48 56 0.22
49 30 0.12
50 31 0.12
51 5 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTATCGTG
Found at i:39462809 original size:46 final size:47
Alignment explanation
Indices: 39462530--39462942 Score: 232
Period size: 46 Copynumber: 8.7 Consensus size: 47
39462520 GGGTATAATA
* * * *
39462530 CCGATGCCATGTCCAAGACATGGTCTTACACTGAC-T-CATCCATC-AAT
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGTAG
* * * **
39462577 TCGATGCCATGTCCCAGACATGATCTTACATTGAC-TATCGAAATCG-AGG
1 CCGATGCCATGTCCCAGACATG-TCTTACACTGGCTTA-C-ATCTCGTA-G
* * *
39462626 CCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACATATTCGT-G
1 CCGATGCCATGTCCCAGACATG-TCTTACACTGGCT-T-ACAT-CTCGTAG
* * * * *
39462676 CTGATGCCATGTCCCAAACATGGTCTTACATTGAC--AGATCTATACGT-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATC--T-CGTAG
*
39462724 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGTAG
* *
39462770 CCGATG-CATGTCCCAGACATGTCTTACATTGGCTTACATCTC-AAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTA-G
* * * *
39462816 CTGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTC-AATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGTA-G
* * * * *
39462862 CCAATGCCATGTCCCATACATGGTCTTACACTGGCTTTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCGTAG
**
39462910 CCGATG-CATGTCCTTGACATGTCTTACACTGGC
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGC
39462943 ACATAAATAA
Statistics
Matches: 295, Mismatches: 46, Indels: 51
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.04
45 18 0.06
46 76 0.26
47 58 0.20
48 64 0.22
49 31 0.11
50 30 0.10
51 6 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTAG
Found at i:39462916 original size:94 final size:94
Alignment explanation
Indices: 39462530--39462940 Score: 328
Period size: 94 Copynumber: 4.3 Consensus size: 94
39462520 GGGTATAATA
* * *
39462530 CCGATGCCATGTCCAAGACATGGTCTTACACTGACTCATCCATC-AAT-TCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTG-CTC-T-CATCTCATGCCGATGCCATGTCCCA
*
39462593 GACATGATCTTACATTGACTATCGA-AATCGAGG
62 GACATGGTCTTACATTGACTATC-ATAATCGAGG
* * * *
39462626 CCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACATATTCGTGCTGATGCCATGTCCC
1 CCGATGCCATGTCCCAGACATG-TCTTACACT-GCTCT--CAT-CTCATGCCGATGCCATGTCCC
* * *
39462691 AAACATGGTCTTACATTGACAGATC-T-ATACG-TG
61 AGACATGGTCTTACATTGAC-TATCATAAT-CGAGG
* * *
39462724 CCGATGCCATGTCCCAGACATGGTCTTACACTG-ACACATCTCGTAGCCGATG-CATGTCCCAGA
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGCTCTCATCTCAT-GCCGATGCCATGTCCCAGA
* * *
39462787 CAT-GTCTTACATTGGCT-TACAT-CTCAAGG
64 CATGGTCTTACATTGACTAT-CATAATCGAGG
* * * *
39462816 CTGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCATA
1 CCGATGCCATGTCCCAGACATGTCTTACACT-GCTCTCATCTC-ATGCCGATGCCATGTCCCAGA
* * * *
39462880 CATGGTCTTACACTGGCTTTCATAAT-GTGG
64 CATGGTCTTACATTGACTATCATAATCGAGG
**
39462910 CCGATG-CATGTCCTTGACATGTCTTACACTG
1 CCGATGCCATGTCCCAGACATGTCTTACACTG
39462941 GCACATAAAT
Statistics
Matches: 257, Mismatches: 37, Indels: 45
0.76 0.11 0.13
Matches are distributed among these distances:
90 11 0.04
91 17 0.07
92 32 0.12
93 32 0.12
94 54 0.21
95 4 0.02
96 35 0.14
97 2 0.01
98 33 0.13
99 34 0.13
100 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGCTCTCATCTCATGCCGATGCCATGTCCCAGACA
TGGTCTTACATTGACTATCATAATCGAGG
Found at i:39464390 original size:21 final size:22
Alignment explanation
Indices: 39464344--39464397 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
39464334 TACAAGGCTC
**
39464344 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
39464366 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
39464387 ACACGCCCGTG
1 ACACGCCCGTG
39464398 CTGCAGGCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.19, C:0.37, G:0.31, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:39467515 original size:96 final size:96
Alignment explanation
Indices: 39467351--39467538 Score: 268
Period size: 96 Copynumber: 2.0 Consensus size: 96
39467341 GTTACTTTCT
* * * * *
39467351 TCTCTAGTTGGATATTTAATTGGACATTGGATACCGTTATGATATTCTGCACTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGACATTGGAAACCCTTATGACATTCTGAACTACACCAACAACA
*
39467416 TTGCACAAAAGGTGATATCTCAATCGTCTTC
66 TTGCACAAAAGGTGATAACTCAATCGTCTTC
* * * * *
39467447 TCTCTATTTGGATATTTAATTGGGCATTGGAAACCCTTATGACCTTTTGAACTACACCAACAATA
1 TCTCTAGTTGGATATTTAATTGGACATTGGAAACCCTTATGACATTCTGAACTACACCAACAACA
*
39467512 TTGCACAAAATGTGATAACTCAATCGT
66 TTGCACAAAAGGTGATAACTCAATCGT
39467539 ATTTCTCCTT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTGGACATTGGAAACCCTTATGACATTCTGAACTACACCAACAACA
TTGCACAAAAGGTGATAACTCAATCGTCTTC
Found at i:39471612 original size:46 final size:46
Alignment explanation
Indices: 39471437--39471612 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
39471427 TGTAACCCGC
*
39471437 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* ** * *
39471483 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGACGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-ATTCGCAT
* *** * *
39471529 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
39471576 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
39471613 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:39475806 original size:17 final size:16
Alignment explanation
Indices: 39475775--39475808 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39475765 ATAAACAGGC
*
39475775 AGAAAGTAAAGAGCAA
1 AGAAAATAAAGAGCAA
39475791 AGAAAATAAGAGAGCAA
1 AGAAAATAA-AGAGCAA
39475808 A
1 A
39475809 AGAGAGAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.06, G:0.24, T:0.06
Consensus pattern (16 bp):
AGAAAATAAAGAGCAA
Found at i:39477490 original size:49 final size:49
Alignment explanation
Indices: 39477437--39477533 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 49
39477427 ACTCAATATC
* * * * *
39477437 CAGATAAGATGGGCCATTGGTAGGGCATGGTAGTTGCTAACTAGATTGA
1 CAGATAAGATAGACCACTGGAAGGGCATGGTAGTTGCTAACCAGATTGA
** * *
39477486 CAGATGTGATAGACCACTGGAATGGCATGGTTGTTGCTAACCAGATTG
1 CAGATAAGATAGACCACTGGAAGGGCATGGTAGTTGCTAACCAGATTG
39477534 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (49 bp):
CAGATAAGATAGACCACTGGAAGGGCATGGTAGTTGCTAACCAGATTGA
Found at i:39478441 original size:46 final size:46
Alignment explanation
Indices: 39478388--39478486 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
39478378 GTCTTAAATA
* *
39478388 TGTCTTAAGTCT-ATTAATGCATGT-TAATTAGTACAGCATTTTAATG
1 TGTCTTAAGTCTAATTAAT--ATGTATAATAAGTACAACATTTTAATG
* * *
39478434 TGTCTTAAGTTTAATTAATATTTATAATAAGTACAACTTTTTAATG
1 TGTCTTAAGTCTAATTAATATGTATAATAAGTACAACATTTTAATG
39478480 TGTCTTA
1 TGTCTTA
39478487 GATTAAGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 3 0.07
46 37 0.80
47 6 0.13
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (46 bp):
TGTCTTAAGTCTAATTAATATGTATAATAAGTACAACATTTTAATG
Found at i:39479411 original size:20 final size:20
Alignment explanation
Indices: 39479373--39479411 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39479363 AATACAAAGC
* * *
39479373 TGCCCATTCGGTTATCTTAG
1 TGCCCATTCAGCTAGCTTAG
39479393 TGCCCATTCAGCTAGCTTA
1 TGCCCATTCAGCTAGCTTA
39479412 TGTATTGAGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (20 bp):
TGCCCATTCAGCTAGCTTAG
Found at i:39481573 original size:42 final size:42
Alignment explanation
Indices: 39481512--39481725 Score: 166
Period size: 42 Copynumber: 5.1 Consensus size: 42
39481502 ATGACATCGG
** *
39481512 TATGTGATTTTGTATAAGACCATGTCAGGGGCATAGCATTGA
1 TATGTGATTTCATATAAGACCATGTCAGGGACATAGCATTGA
* * * *
39481554 TATGAT-ATTTCATGTAAGACCATATCTA-GGATAT-GACATTGG
1 TATG-TGATTTCATATAAGACCATGTC-AGGGACATAG-CATTGA
** * * * * *
39481596 TATGTGATTTTGTATAAGACCATGTCTGGGATATGGCATCGG
1 TATGTGATTTCATATAAGACCATGTCAGGGACATAGCATTGA
**
39481638 TATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATTGA
1 TATGTGATTTCATATAAGACCATGTCAGGGACATAGCATTGA
* * * * * *
39481680 TATGAT-ATTTCATGTAAGACCATATCCGAGATATGGCATTGA
1 TATG-TGATTTCATATAAGACCATGTCAGGGACATAGCATTGA
39481722 TATG
1 TATG
39481726 GTATTATGAG
Statistics
Matches: 139, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
41 2 0.01
42 133 0.96
43 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (42 bp):
TATGTGATTTCATATAAGACCATGTCAGGGACATAGCATTGA
Found at i:39481656 original size:84 final size:84
Alignment explanation
Indices: 39481494--39481660 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
39481484 AATACAAATG
* *
39481494 TCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGGCATAGCATTGATATGA
1 TCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATCGATATGA
*
39481559 TATTTCATGTAAGACCATA
66 TATTTCATATAAGACCATA
* * * * *
39481578 TCTAGGATATGACATTGGTATGTGATTTTGTATAAGACCATGTCTGGGATATGGCATCGGTATG-
1 TCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATCGATATGA
**
39481642 TGATTTTGTATAAGACCAT
66 T-ATTTCATATAAGACCAT
39481661 GTCAGGGACA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 1 0.01
84 71 0.99
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (84 bp):
TCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATCGATATGA
TATTTCATATAAGACCATA
Found at i:39481720 original size:126 final size:126
Alignment explanation
Indices: 39481491--39481725 Score: 400
Period size: 126 Copynumber: 1.9 Consensus size: 126
39481481 TAGAATACAA
*
39481491 ATGTCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGGCATAGCATTGATA
1 ATGTCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATTGATA
* *
39481556 TGATATTTCATGTAAGACCATATCTAGGATATGACATTGGTATGTGATTTTGTATAAGACC
66 TGATATTTCATGTAAGACCATATCGAGGATATGACATTGATATGTGATTTTGTATAAGACC
* *
39481617 ATGTCTGGGATATGGCATCGGTATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATTGATA
1 ATGTCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATTGATA
*
39481682 TGATATTTCATGTAAGACCATATCCGA-GATATGGCATTGATATG
66 TGATATTTCATGTAAGACCATAT-CGAGGATATGACATTGATATG
39481726 GTATTATGAG
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
126 100 0.98
127 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (126 bp):
ATGTCTAGGATATGACATCGGTATGTGATTTTGTATAAGACCATGTCAGGGACATAGCATTGATA
TGATATTTCATGTAAGACCATATCGAGGATATGACATTGATATGTGATTTTGTATAAGACC
Found at i:39482583 original size:7 final size:8
Alignment explanation
Indices: 39482565--39482593 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
39482555 GAATGAGTAG
39482565 AAATCTTA
1 AAATCTTA
39482573 AAATC-TA
1 AAATCTTA
39482580 AAATCTTA
1 AAATCTTA
39482588 AAATCT
1 AAATCT
39482594 AATTCCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATCTTA
Found at i:39482585 original size:15 final size:15
Alignment explanation
Indices: 39482565--39482595 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39482555 GAATGAGTAG
39482565 AAATCTTAAAATCTA
1 AAATCTTAAAATCTA
39482580 AAATCTTAAAATCTA
1 AAATCTTAAAATCTA
39482595 A
1 A
39482596 TTCCAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATCTTAAAATCTA
Found at i:39490850 original size:11 final size:11
Alignment explanation
Indices: 39490834--39490891 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
39490824 TATTGTTATT
39490834 TTTTTTAATAA
1 TTTTTTAATAA
*
39490845 TTTTTTAAT-T
1 TTTTTTAATAA
*
39490855 TTTTTTATAAAA
1 TTTTTTA-ATAA
39490867 TTTGTTT-ATAA
1 TTT-TTTAATAA
39490878 -TTTTT-ATAA
1 TTTTTTAATAA
39490887 TTTTT
1 TTTTT
39490892 AAATTTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.18
10 13 0.33
11 13 0.33
12 3 0.08
13 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTTTAATAA
Found at i:39490860 original size:22 final size:22
Alignment explanation
Indices: 39490832--39490898 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
39490822 AGTATTGTTA
39490832 TTTTTTTTAATAATTTTTTAAT
1 TTTTTTTTAATAATTTTTTAAT
39490854 TTTTTTTATAA-AATTTGTTT-A-
1 TTTTTTT-TAATAATTT-TTTAAT
** *
39490875 TAATTTTT-ATAATTTTTAAAT
1 TTTTTTTTAATAATTTTTTAAT
39490896 TTT
1 TTT
39490899 AAAGGGGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
19 3 0.09
20 7 0.20
21 6 0.17
22 13 0.37
23 6 0.17
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (22 bp):
TTTTTTTTAATAATTTTTTAAT
Found at i:39492719 original size:11 final size:11
Alignment explanation
Indices: 39492705--39492729 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39492695 TTTTTTGCCG
39492705 TTTTTCTTTTT
1 TTTTTCTTTTT
39492716 TTTTTCTTTTT
1 TTTTTCTTTTT
39492727 TTT
1 TTT
39492730 CTCCATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:39492830 original size:21 final size:21
Alignment explanation
Indices: 39492804--39492845 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39492794 ACAAATCGGA
39492804 TAGAAAGGAACTTT-GAATATC
1 TAGAAAGGAA-TTTCGAATATC
39492825 TAGAAAGGAATTTCGAATATC
1 TAGAAAGGAATTTCGAATATC
39492846 CTTTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
TAGAAAGGAATTTCGAATATC
Found at i:39493649 original size:42 final size:42
Alignment explanation
Indices: 39493584--39493693 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
39493574 TTATTAATTA
* * * *
39493584 AGATTTTATTTGCAAGTGAAGCATG-TCGACTATGATAAACTG
1 AGATTTGATCTGCACGTTAAGCATGCT-GACTATGATAAACTG
* * * * * *
39493626 ATATTTGATCTGCATGTTAAGCATGCTGACTATGTTGATCTT
1 AGATTTGATCTGCACGTTAAGCATGCTGACTATGATAAACTG
*
39493668 AGATTTGATTTGCACGTTAAGCATGC
1 AGATTTGATCTGCACGTTAAGCATGC
39493694 CTACTAAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (42 bp):
AGATTTGATCTGCACGTTAAGCATGCTGACTATGATAAACTG
Found at i:39495546 original size:24 final size:24
Alignment explanation
Indices: 39495513--39495610 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
39495503 AAGGTTGTCA
*
39495513 GGAGAAGATTTAGGAGCTAATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
39495537 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
39495561 GGAGAGGATTTAAGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
39495585 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
39495610 G
1 G
39495611 AGCAGGAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 63 0.95
25 3 0.05
ACGTcount: A:0.38, C:0.05, G:0.37, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:39506182 original size:40 final size:40
Alignment explanation
Indices: 39506089--39506345 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
39506079 AAGCCAAGTA
* * *
39506089 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
39506127 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39506167 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
39506207 CCTTCGGGACTTAGCTCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39506247 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
39506287 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39506327 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39506346 TTATCATCCG
Statistics
Matches: 198, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 169 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39510663 original size:24 final size:24
Alignment explanation
Indices: 39510636--39510733 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
39510626 AAGGCTGTCA
39510636 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
**
39510660 GGAGGGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
39510684 TGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
39510708 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
39510733 G
1 G
39510734 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 62 0.95
25 3 0.05
ACGTcount: A:0.35, C:0.05, G:0.39, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:39516949 original size:29 final size:30
Alignment explanation
Indices: 39516916--39516979 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
39516906 CAAGTAGCCG
* *
39516916 AAGCTAG-TTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAATGCCA
*
39516945 AAGCTAGTTTAAATCGCACATTTAATGCCA
1 AAGCTAGTTTAAATCGCACACTTAATGCCA
39516975 AAGCT
1 AAGCT
39516980 TTCGATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAATGCCA
Found at i:39518209 original size:25 final size:25
Alignment explanation
Indices: 39518176--39518223 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39518166 TTATAATATG
* * *
39518176 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39518201 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39518224 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39518285 original size:20 final size:20
Alignment explanation
Indices: 39518260--39518306 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
39518250 ATTTTGATAA
39518260 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39518280 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39518300 ACATGAT
1 ACATGAT
39518307 GTGTTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39518442 original size:47 final size:46
Alignment explanation
Indices: 39518357--39518474 Score: 150
Period size: 47 Copynumber: 2.5 Consensus size: 46
39518347 AGGAAGTGAA
* *
39518357 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATG-CCCAGTTACT
39518404 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAAGGGCTTATGCCCAGTTACT
*
39518450 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
39518475 TGATAAAGCA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
46 9 0.14
47 34 0.53
48 21 0.33
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCAGTTACT
Found at i:39518453 original size:23 final size:24
Alignment explanation
Indices: 39518355--39518474 Score: 142
Period size: 23 Copynumber: 5.0 Consensus size: 24
39518345 GGAGGAAGTG
39518355 AAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39518379 CAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39518403 -TAAAGGGCTTATGCCCCAGTTATT
1 AAAAAGGGCTTATGCCCCAGTTA-T
39518427 AAAAAGGGCTT-TG-CCCAGTTACT
1 AAAAAGGGCTTATGCCCCAGTTA-T
*
39518450 -AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
39518474 A
1 A
39518475 TGATAAAGCA
Statistics
Matches: 84, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
22 6 0.07
23 34 0.40
24 28 0.33
25 16 0.19
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:39518701 original size:31 final size:31
Alignment explanation
Indices: 39518666--39518729 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
39518656 CATTTACAGT
39518666 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
39518697 AAAGGCTTCGGTCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39518728 AA
1 AA
39518730 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39526271 original size:25 final size:25
Alignment explanation
Indices: 39526242--39526289 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39526232 TTATAATATG
* * *
39526242 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39526267 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39526290 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39526351 original size:20 final size:20
Alignment explanation
Indices: 39526326--39526372 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
39526316 ATTTTGATAA
39526326 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39526346 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39526366 ACATGAT
1 ACATGAT
39526373 GTGTTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39526478 original size:23 final size:24
Alignment explanation
Indices: 39526422--39526539 Score: 138
Period size: 23 Copynumber: 5.0 Consensus size: 24
39526412 GAGGAAGTGA
39526422 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
39526446 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
39526470 -AAAGAGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTA-TC
39526494 AAAAGGGCTT-TG-CCCAGTTA-C
1 AAAAGGGCTTATGCCCCAGTTATC
*
39526515 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAAG-GGCTTATGCC-CCAGTTAT
39526540 ATTATAAAGC
Statistics
Matches: 81, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.07
23 32 0.40
24 28 0.35
25 15 0.19
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:39526508 original size:47 final size:48
Alignment explanation
Indices: 39526422--39526539 Score: 145
Period size: 47 Copynumber: 2.5 Consensus size: 48
39526412 GAGGAAGTGA
* *
39526422 AAAAGGGCTTATGCCCCAGTTA-TCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGAGCTTATGCCCCAGTTATTAAAAAGGGCTTATG-CCCAGTTACT
*
39526469 CAAAGAGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCAGTTACT
1 AAAAGAGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCAGTTACT
*
39526516 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGA-GCTTATGCC-CCAGTTAT
39526540 ATTATAAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
46 8 0.13
47 33 0.53
48 21 0.34
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (48 bp):
AAAAGAGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCAGTTACT
Found at i:39526769 original size:31 final size:31
Alignment explanation
Indices: 39526732--39526795 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39526722 TGTTTACAGT
39526732 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
39526763 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39526794 AA
1 AA
39526796 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39531202 original size:22 final size:23
Alignment explanation
Indices: 39531167--39531209 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
39531157 TGAAAGAAGT
*
39531167 CTAAGAAAATAAAAAAAAAACAA
1 CTAAGAAAACAAAAAAAAAACAA
39531190 CTAA-AAAACAAAAAAAAAAC
1 CTAAGAAAACAAAAAAAAAAC
39531210 TGAAAAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.79, C:0.12, G:0.02, T:0.07
Consensus pattern (23 bp):
CTAAGAAAACAAAAAAAAAACAA
Found at i:39533033 original size:42 final size:42
Alignment explanation
Indices: 39532974--39533084 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
39532964 TGTGATATCA
* * * *
39532974 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCG
1 TGTAAGACCACATCTGGGATATGGCATTGAAATAAGATTTCG
* * *
39533016 TGTAAGACCACGTCTGGGACATGACATTGAAATAAGATTTCG
1 TGTAAGACCACATCTGGGATATGGCATTGAAATAAGATTTCG
**
39533058 TAG-AAGATGACATCTGGGATATGGCAT
1 T-GTAAGACCACATCTGGGATATGGCAT
39533085 CGATGTGAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGATATGGCATTGAAATAAGATTTCG
Found at i:39535631 original size:3 final size:3
Alignment explanation
Indices: 39535625--39535777 Score: 132
Period size: 3 Copynumber: 50.7 Consensus size: 3
39535615 AAAAAACAAC
39535625 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
39535673 AAT CAATT AGT AA- AACA AAT AAT AAG AAT AAT AAT AAT AAT GAT AGT
1 AAT -AA-T AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
39535720 AA- AACT AAT AAT AAG AAG AAA AAT CA- AAC AAA AAT AGT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
39535764 AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AA
39535778 CTAGAAAAAT
Statistics
Matches: 123, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
2 5 0.04
3 110 0.89
4 7 0.06
5 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:39536085 original size:15 final size:16
Alignment explanation
Indices: 39536057--39536087 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39536047 AAGGGGAAAA
39536057 GGGGTGGTTGGTGGTG
1 GGGGTGGTTGGTGGTG
39536073 GGGGTGGTT-GTGGTG
1 GGGGTGGTTGGTGGTG
39536088 AAGGGGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (16 bp):
GGGGTGGTTGGTGGTG
Found at i:39538596 original size:29 final size:29
Alignment explanation
Indices: 39538551--39538779 Score: 291
Period size: 29 Copynumber: 7.9 Consensus size: 29
39538541 GATAGTTGAA
*
39538551 ACCATCC-CTTTCTATATTCGATGGTCGTC
1 ACCATCCTTTTTC-ATATTCGATGGTCGTC
*
39538580 ACCGTCCTTTTTCATATTCGATGGTCGTC
1 ACCATCCTTTTTCATATTCGATGGTCGTC
* * * * **
39538609 ACCACCCCTTTTCGTATTCGATGGTAGAA
1 ACCATCCTTTTTCATATTCGATGGTCGTC
*
39538638 ACCATCCTTTTTCATATTTGATGGTCGTC
1 ACCATCCTTTTTCATATTCGATGGTCGTC
* * *
39538667 ACCATCCTTCTTCATATTCAATGGTCATC
1 ACCATCCTTTTTCATATTCGATGGTCGTC
* * *
39538696 ACCATCCCTTTTCATATTCAATGGTCATC
1 ACCATCCTTTTTCATATTCGATGGTCGTC
39538725 ACCATCCTTTTTCATATTCGATGGTCGTC
1 ACCATCCTTTTTCATATTCGATGGTCGTC
39538754 ACCAT-CTCTTTTCATATTCGATGGTC
1 ACCATCCT-TTTTCATATTCGATGGTC
39538780 TTCTTTAATG
Statistics
Matches: 173, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.01
29 167 0.97
30 4 0.02
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCATCCTTTTTCATATTCGATGGTCGTC
Found at i:39540877 original size:21 final size:22
Alignment explanation
Indices: 39540851--39540896 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
39540841 AACTGTTTGC
*
39540851 AAAAACAATAAAGAAAA-AAAG
1 AAAAACAAAAAAGAAAACAAAG
39540872 AAAAACAAAAAAGAAAACAAAG
1 AAAAACAAAAAAGAAAACAAAG
39540894 AAA
1 AAA
39540897 GGGGAAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.02
Consensus pattern (22 bp):
AAAAACAAAAAAGAAAACAAAG
Found at i:39544260 original size:21 final size:20
Alignment explanation
Indices: 39544216--39544262 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
39544206 CAACCATTTT
39544216 CAAA-AAAAAAAAAAGAAAA
1 CAAAGAAAAAAAAAAGAAAA
*
39544235 -TAAGAAAAACAAAAAGAAAA
1 CAAAGAAAAA-AAAAAGAAAA
39544255 CAAAGAAA
1 CAAAGAAA
39544263 GGGGTAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 5 0.22
20 10 0.43
21 6 0.26
ACGTcount: A:0.83, C:0.06, G:0.09, T:0.02
Consensus pattern (20 bp):
CAAAGAAAAAAAAAAGAAAA
Found at i:39548789 original size:44 final size:44
Alignment explanation
Indices: 39548725--39548822 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
39548715 CCTAGATGTA
* *
39548725 GTCTTACACGTAAATTATAAGTCGATGCCAACATCCCAGACGTG
1 GTCTTACATGTAAATCATAAGTCGATGCCAACATCCCAGACGTG
* * *
39548769 GTCTTACATGTAAATCATAAGTCGATGCCAACGTCCTAGATGTG
1 GTCTTACATGTAAATCATAAGTCGATGCCAACATCCCAGACGTG
39548813 GTCTTACATG
1 GTCTTACATG
39548823 ATAACACATA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
GTCTTACATGTAAATCATAAGTCGATGCCAACATCCCAGACGTG
Found at i:39550968 original size:29 final size:28
Alignment explanation
Indices: 39550934--39551009 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
39550924 ATAAATGTGA
39550934 ATTGGGCCTGATGGGCCATACAAATATC
1 ATTGGGCCTGATGGGCCATACAAATATC
* * * *
39550962 ATTTGGGCTTAATGGGCCATACAAATGTG
1 A-TTGGGCCTGATGGGCCATACAAATATC
39550991 ATTGGGCCTCG-TGGGCCAT
1 ATTGGGCCT-GATGGGCCAT
39551010 GTGACAACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 16 0.40
29 24 0.60
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (28 bp):
ATTGGGCCTGATGGGCCATACAAATATC
Found at i:39552378 original size:41 final size:41
Alignment explanation
Indices: 39552333--39552450 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
39552323 TGAAAGATAA
39552333 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
39552374 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
39552404 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
39552445 ATGTAG
1 ATGTAG
39552451 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:39552389 original size:71 final size:71
Alignment explanation
Indices: 39552301--39552464 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
39552291 GAGATGTATC
39552301 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
39552366 AGGACA
66 AGGACA
39552372 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
39552437 AGGACA
66 AGGACA
39552443 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
39552465 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:39557694 original size:28 final size:28
Alignment explanation
Indices: 39557610--39557699 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
39557600 TGAGCATGTC
39557610 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
39557639 TATAAATGTGATTTGGGCCTATTGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
39557668 TATAAATGTGATTGGGCCTAGTAGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
39557696 TATA
1 TATA
39557700 CAGGTATGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:39561629 original size:28 final size:27
Alignment explanation
Indices: 39561580--39561655 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 27
39561570 ATATATATGA
39561580 ATTGGGCCTGATGGGCCATATAAATGTG
1 ATTGGGCCT-ATGGGCCATATAAATGTG
39561608 ATTTGGGCCTATGGGCCATATAAATGTG
1 A-TTGGGCCTATGGGCCATATAAATGTG
39561636 ATTGGGCCTAGTGGGCCATA
1 ATTGGGCCTA-TGGGCCATA
39561656 AACAGGTATG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
27 9 0.20
28 29 0.63
29 8 0.17
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (27 bp):
ATTGGGCCTATGGGCCATATAAATGTG
Found at i:39563645 original size:49 final size:50
Alignment explanation
Indices: 39563563--39563808 Score: 309
Period size: 49 Copynumber: 4.9 Consensus size: 50
39563553 AGCTATTGTG
* *
39563563 AGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
39563613 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
39563663 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
39563713 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
* * *
39563763 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
39563809 GCTTCGACTA
Statistics
Matches: 168, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
49 82 0.49
50 48 0.29
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:39563700 original size:28 final size:28
Alignment explanation
Indices: 39563668--39563751 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
39563658 AACTTCGATC
39563668 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
39563696 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
39563718 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
39563746 ACGTGT
1 ACGTGT
39563752 ACCGAATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:39574838 original size:21 final size:21
Alignment explanation
Indices: 39574812--39574855 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
39574802 GAATCTTCTA
39574812 CCAAAGAAAAATAGAGTAATG
1 CCAAAGAAAAATAGAGTAATG
39574833 CCAAAGAAAAATAGAGTAATG
1 CCAAAGAAAAATAGAGTAATG
39574854 CC
1 CC
39574856 GATCATAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.14
Consensus pattern (21 bp):
CCAAAGAAAAATAGAGTAATG
Found at i:39578014 original size:29 final size:29
Alignment explanation
Indices: 39577963--39578234 Score: 201
Period size: 29 Copynumber: 9.3 Consensus size: 29
39577953 GTCGAAATTA
* **
39577963 ATATTCAATGGTCGTCACCATCCCTTTTC
1 ATATTCGATGGTCGAAACCATCCCTTTTC
* * *
39577992 ATATTTGATGGTCAAAACTATCCCTTTTC
1 ATATTCGATGGTCGAAACCATCCCTTTTC
* ** *
39578021 ATATTCCATGGTCGTCACCATCGCTTTTC
1 ATATTCGATGGTCGAAACCATCCCTTTTC
* * ** **
39578050 ATATTCCATGGTTGTCACCATAACTTTTC
1 ATATTCGATGGTCGAAACCATCCCTTTTC
**
39578079 ATATTCGATGGTCGTTACCATCCCTTTTC
1 ATATTCGATGGTCGAAACCATCCCTTTTC
* * **
39578108 ATATTTGAAGG-CTGTCACCATATCTCC-TTTC
1 ATATTCGATGGTC-GAAACC--ATC-CCTTTTC
* * *
39578139 ATATTCAATGGCCAAAACCATCCCTTTTC
1 ATATTCGATGGTCGAAACCATCCCTTTTC
*
39578168 ATATT-GAATGGT-GAAACCATCTCTTTTC
1 ATATTCG-ATGGTCGAAACCATCCCTTTTC
* * *
39578196 GTATTCAATGGTCGAAACCATCCCTTTTG
1 ATATTCGATGGTCGAAACCATCCCTTTTC
*
39578225 ATATTTGATG
1 ATATTCGATG
39578235 AACGTTGATA
Statistics
Matches: 193, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
28 26 0.13
29 146 0.76
31 18 0.09
32 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (29 bp):
ATATTCGATGGTCGAAACCATCCCTTTTC
Found at i:39578053 original size:58 final size:58
Alignment explanation
Indices: 39577963--39578234 Score: 228
Period size: 58 Copynumber: 4.7 Consensus size: 58
39577953 GTCGAAATTA
* *
39577963 ATATTCAATGGTCGTCACCATCCCTTTTCATATTTGATGGTCAAAACTATCCCTTTTC
1 ATATTCAATGGTCGTAACCATCCCTTTTCATATTTGATGGTCAAAACCATCCCTTTTC
* * * ** **** **
39578021 ATATTCCATGGTCGTCACCATCGCTTTTCATATTCCATGGTTGTCACCATAACTTTTC
1 ATATTCAATGGTCGTAACCATCCCTTTTCATATTTGATGGTCAAAACCATCCCTTTTC
* * * ** *
39578079 ATATTCGATGGTCGTTACCATCCCTTTTCATATTTGAAGGCTGTCACCA-TATCTCC-TTTC
1 ATATTCAATGGTCGTAACCATCCCTTTTCATATTTG-ATG--GTCAAAACCATC-CCTTTTC
* ** * *
39578139 ATATTCAATGGCCAAAACCATCCCTTTTCATA-TTGAATGGT-GAAACCATCTCTTTTC
1 ATATTCAATGGTCGTAACCATCCCTTTTCATATTTG-ATGGTCAAAACCATCCCTTTTC
* * *
39578196 GTATTCAATGGTCGAAACCATCCCTTTTGATATTTGATG
1 ATATTCAATGGTCGTAACCATCCCTTTTCATATTTGATG
39578235 AACGTTGATA
Statistics
Matches: 169, Mismatches: 38, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
56 2 0.01
57 40 0.24
58 81 0.48
59 8 0.05
60 33 0.20
61 5 0.03
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (58 bp):
ATATTCAATGGTCGTAACCATCCCTTTTCATATTTGATGGTCAAAACCATCCCTTTTC
Found at i:39585777 original size:40 final size:40
Alignment explanation
Indices: 39585732--39585861 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
39585722 CGGAATATAA
39585732 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39585772 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
39585812 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
39585852 CCGGATATAA
1 CCGGATATAA
39585862 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39593791 original size:40 final size:40
Alignment explanation
Indices: 39593746--39593875 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
39593736 CGGAATATAA
39593746 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39593786 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
39593826 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
39593866 CCGGATATAA
1 CCGGATATAA
39593876 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39598848 original size:40 final size:39
Alignment explanation
Indices: 39598811--39599033 Score: 197
Period size: 40 Copynumber: 5.6 Consensus size: 39
39598801 GCTACTCGTT
*
39598811 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCA
* *
39598851 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-TTATAGTAACTCGCA
* **
39598891 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGTTA-TAGTAACTCGCA
* *
39598930 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCG-TTATAGTAACTCGCA
* * * * *
39598970 CCAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGTTATAGTAAC-TCGCA
39599011 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
39599034 AACATCATTC
Statistics
Matches: 153, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
38 3 0.02
39 32 0.21
40 103 0.67
41 15 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGTTATAGTAACTCGCA
Found at i:39598922 original size:79 final size:79
Alignment explanation
Indices: 39598813--39599033 Score: 295
Period size: 79 Copynumber: 2.8 Consensus size: 79
39598803 TACTCGTTCA
* * * *
39598813 AATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
39598878 TTAGTGACTCGCACC
65 TTAGTGACTCGCACC
*
39598893 AATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA
39598956 TTTAGTGACTCGCACC
64 TTTAGTGACTCGCACC
* * * *
39598972 AATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 AATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
39599034 AACATCATTC
Statistics
Matches: 125, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 4 0.03
79 67 0.54
80 42 0.34
81 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT
TAGTGACTCGCACC
Found at i:39616705 original size:93 final size:93
Alignment explanation
Indices: 39616597--39616767 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
39616587 ACCCCTAAGT
* * *
39616597 GAACTCGGACTCAACTCAATGAGCTCGGGC-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAATT-GCATCCATAAGTGAACTCGGACTCAACTCA
39616661 ACGAGTTCGGATGCCTAGTTACATTTCAG
65 ACGAGTTCGGATGCCTAGTTACATTTCAG
*
39616690 GAACTCGGACTCAACTCAACGAGTTCGGACAATTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAATTGCATCCATAAGTGAACTCGGACTCAACTCAA
39616755 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39616768 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACAATTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAG
Done.