Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 91 of 292
Found at i:27947928 original size:78 final size:79
Alignment explanation
Indices: 27947763--27947914 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
27947753 TCGAATGATG
* * *
27947763 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
27947828 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
27947843 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
27947906 GTGCAAGTC
65 GTGCAAGTC
27947915 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:27950649 original size:11 final size:11
Alignment explanation
Indices: 27950635--27950684 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
27950625 CCACTTAACA
27950635 ACCACCATATC
1 ACCACCATATC
*
27950646 ACCACCATATA
1 ACCACCATATC
27950657 ACCACC-TAATC
1 ACCACCAT-ATC
27950668 ACCACCAT-TC
1 ACCACCATATC
27950678 AACCACC
1 -ACCACC
27950685 TTAACACTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 3 0.09
11 30 0.88
12 1 0.03
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.16
Consensus pattern (11 bp):
ACCACCATATC
Found at i:27950659 original size:22 final size:22
Alignment explanation
Indices: 27950633--27950685 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
27950623 CACCACTTAA
27950633 CAACCACC-ATATCACCACCATAT
1 CAACCACCTA-ATCACCACCAT-T
27950656 -AACCACCTAATCACCACCATT
1 CAACCACCTAATCACCACCATT
27950677 CAACCACCT
1 CAACCACCT
27950686 TAACACTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (22 bp):
CAACCACCTAATCACCACCATT
Found at i:27950696 original size:22 final size:22
Alignment explanation
Indices: 27950633--27950696 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
27950623 CACCACTTAA
*
27950633 CAACCACCATATCACCACCATAT
1 CAACCACC-TAACACCACCATAT
27950656 -AACCACCTAATCACCACCAT-T
1 CAACCACCTAA-CACCACCATAT
*
27950677 CAACCACCTTAACACTACCA
1 CAACCACC-TAACACCACCA
27950697 CCACATCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 3 0.08
22 30 0.83
23 3 0.08
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (22 bp):
CAACCACCTAACACCACCATAT
Found at i:27951737 original size:48 final size:48
Alignment explanation
Indices: 27951614--27951722 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
27951604 AAAATTTGCA
* * * ** *
27951614 AATTTGGTGG-TTTTTCCACAACCTAAATCTTTTGGTAGCTTGTCTGCG
1 AATTTGGTGGCTTTGTCCACAA-CTATATGTACTGGTAGCTTGCCTGCG
*
27951662 AATTTGGTGGCTTTGTCCACAACTATATGTACTGGTAGCTTGCCTGTG
1 AATTTGGTGGCTTTGTCCACAACTATATGTACTGGTAGCTTGCCTGCG
27951710 AATTTGGTGGCTT
1 AATTTGGTGGCTT
27951723 CTTCTTCATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 43 0.81
49 10 0.19
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.40
Consensus pattern (48 bp):
AATTTGGTGGCTTTGTCCACAACTATATGTACTGGTAGCTTGCCTGCG
Found at i:27958389 original size:42 final size:42
Alignment explanation
Indices: 27958343--27958427 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
27958333 TGGTATGAGT
27958343 AAGTTTATATCTATTGATGCATGAGATAATACCATATGATTG
1 AAGTTTATATCTATTGATGCATGAGATAATACCATATGATTG
27958385 AAGTTTATATCTATTGATGCATGAGATAATACCATATGATTG
1 AAGTTTATATCTATTGATGCATGAGATAATACCATATGATTG
27958427 A
1 A
27958428 TGGCTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (42 bp):
AAGTTTATATCTATTGATGCATGAGATAATACCATATGATTG
Found at i:27960553 original size:130 final size:130
Alignment explanation
Indices: 27960320--27960574 Score: 404
Period size: 130 Copynumber: 2.0 Consensus size: 130
27960310 TTGACGAAGT
* * *
27960320 TGCCTACTTGGCGGCTAATAAGGCTATACCTATTTTGTATTCTTTATCTAATCAAATTTTTTTTC
1 TGCCTACTTGGCGACTAATAAGGCTATACCTATTTTGTATTCTTTATCTAATAAAATTTTCTTTC
* * * *
27960385 TCTGTCAGTTGTACGTTTAATGTATGCACTTACTTTTCCTTTCTCTACATTTATCTACTCGCGAC
66 TCTATCAATTGTACGTTTAATCTATGCACTTACTTTTCCTTTCTCTAAATTTATCTACTCGCGAC
*
27960450 TGCCTACTTGGCGACTAATAAGGCTATACCTCTTTTGTATTCTTTATCTAATAAAATTTTCTTTC
1 TGCCTACTTGGCGACTAATAAGGCTATACCTATTTTGTATTCTTTATCTAATAAAATTTTCTTTC
* *
27960515 TCTATCAATTGTAC-TTTCAATCTCTGTACTTACTTTTCCTTTCTCTAAATTTATCTACTC
66 TCTATCAATTGTACGTTT-AATCTATGCACTTACTTTTCCTTTCTCTAAATTTATCTACTC
27960575 AAATTTTCTT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
129 3 0.03
130 111 0.97
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (130 bp):
TGCCTACTTGGCGACTAATAAGGCTATACCTATTTTGTATTCTTTATCTAATAAAATTTTCTTTC
TCTATCAATTGTACGTTTAATCTATGCACTTACTTTTCCTTTCTCTAAATTTATCTACTCGCGAC
Found at i:27963506 original size:13 final size:13
Alignment explanation
Indices: 27963488--27963512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27963478 ACTAAGCATA
27963488 TTTTCTTGCCACC
1 TTTTCTTGCCACC
27963501 TTTTCTTGCCAC
1 TTTTCTTGCCAC
27963513 TAATGCAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.36, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTTCTTGCCACC
Found at i:27969221 original size:2 final size:2
Alignment explanation
Indices: 27969214--27969245 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27969204 CAACATCTCA
27969214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27969246 TTTAATTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27969698 original size:26 final size:28
Alignment explanation
Indices: 27969663--27969716 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
27969653 TTGTTATTTT
27969663 TTATGTTTTAAATTTTA-TTTTAATAAA
1 TTATGTTTTAAATTTTATTTTTAATAAA
*
27969690 TTATG-TTTATATTTTATTTTTAATAAA
1 TTATGTTTTAAATTTTATTTTTAATAAA
27969717 AATATTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
TTATGTTTTAAATTTTATTTTTAATAAA
Found at i:27969724 original size:26 final size:26
Alignment explanation
Indices: 27969669--27969731 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
27969659 TTTTTTATGT
* * *
27969669 TTTAAATTTTATTTTAATAAATTATG
1 TTTATATTTTATTTTAATAAATAATA
27969695 TTTATATTTTATTTTTAATAAA-AATA
1 TTTATATTTTA-TTTTAATAAATAATA
*
27969721 TTTATGTTTTA
1 TTTATATTTTA
27969732 ATATTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTATATTTTATTTTAATAAATAATA
Found at i:27970254 original size:16 final size:16
Alignment explanation
Indices: 27970233--27970270 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27970223 TTTGGTTGGT
*
27970233 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAGC
*
27970249 TGTAATTGAATAGAGC
1 TGTAATGGAATAGAGC
27970265 TGTAAT
1 TGTAAT
27970271 AAGTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:27970534 original size:16 final size:16
Alignment explanation
Indices: 27970515--27970546 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27970505 AATTATTATT
27970515 AAATATAATTTAATAA
1 AAATATAATTTAATAA
27970531 AAATATAATTTAATAA
1 AAATATAATTTAATAA
27970547 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:27972396 original size:19 final size:18
Alignment explanation
Indices: 27972374--27972416 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
27972364 GCTATTTAAC
*
27972374 TTTTTTTAATTATTTTAGT
1 TTTTTTTAAAT-TTTTAGT
*
27972393 TTTTATTTAAATTTTTGGT
1 TTTT-TTTAAATTTTTAGT
27972412 TTTTT
1 TTTTT
27972417 CTAGCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 14 0.67
20 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTTTTAAATTTTTAGT
Found at i:27978938 original size:50 final size:49
Alignment explanation
Indices: 27978879--27979211 Score: 293
Period size: 50 Copynumber: 6.8 Consensus size: 49
27978869 GATGCTAGGG
* * *
27978879 AGATATGAGAGCTAGTGTAAGACTATGTCTAGGACATGACATCGGCCTT
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * * *
27978928 AAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATTGACCTCG
1 -AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-T
* * *
27978979 AGATAT-AGGATCTAGTGTAAGACTATGTCTGGGGCATGGCATCGG-CTT
1 AGATATGA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * * * *
27979027 -GATATGTG-TC-AATGTAAGACCATGTCTGGGACATGGCATCTGCACTG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTT
* * * * * *
27979074 ATAAATGAGAGCCAGTGTAAGACCATGTTTGGGACATGACATCGACC-T
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * * * *
27979122 CGATATACTAGAGTTAGTGTAAGACCATGTTTGGGACATGGCATC-GACTT
1 AGATAT--GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * * *
27979172 TGATGTGTGAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
27979212 GTCAGCACCT
Statistics
Matches: 228, Mismatches: 44, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
45 28 0.12
46 2 0.01
47 8 0.04
48 37 0.16
49 6 0.03
50 147 0.64
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (49 bp):
AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
Found at i:27979162 original size:145 final size:147
Alignment explanation
Indices: 27978894--27979211 Score: 387
Period size: 145 Copynumber: 2.2 Consensus size: 147
27978884 TGAGAGCTAG
* * * * *
27978894 TGTAAGACTATGTCTAGGACATGACATCGGCCTTAAGATATGAGAGCTAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTGAAGATATGAGAGCCAGTGTAAGACCATGTCT
* * * * *
27978959 AGGACATGGCATTGACCTCGAGATATAGGATCTAGTGTAAGACTATGTCTGGGGCATGGCATCGG
66 AGGACATGACATCGACCTCGAGATATAGGATCTAGTGTAAGACCATGTCTGGGACATGGCATCGA
*
27979024 C-TTGATATGT-GTCAA
131 CTTTGATATGTAGCCAA
*
27979039 TGTAAGACCATGTCTGGGACATGGCATCTGCACTGATA-A-ATGAGAGCCAGTGTAAGACCATGT
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-CTGA-AGATATGAGAGCCAGTGTAAGACCATGT
* * * *
27979102 TTGGGACATGACATCGACCTCGATATACTA-GAGT-TAGTGTAAGACCATGTTTGGGACATGGCA
64 CTAGGACATGACATCGACCTCGAGATA-TAGGA-TCTAGTGTAAGACCATGTCTGGGACATGGCA
* *
27979165 TCGACTTTGATGTGTGAGCCAG
127 TCGACTTTGATATGT-AGCCAA
27979187 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
27979212 GTCAGCACCT
Statistics
Matches: 148, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
145 104 0.70
146 15 0.10
147 1 0.01
148 28 0.19
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (147 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTGAAGATATGAGAGCCAGTGTAAGACCATGTCT
AGGACATGACATCGACCTCGAGATATAGGATCTAGTGTAAGACCATGTCTGGGACATGGCATCGA
CTTTGATATGTAGCCAA
Found at i:27986291 original size:46 final size:48
Alignment explanation
Indices: 27986234--27986364 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
27986224 ATGGTTGAGC
*
27986234 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * *
27986281 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
*
27986326 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27986365 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 29 0.41
47 28 0.40
48 2 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:27991797 original size:40 final size:40
Alignment explanation
Indices: 27991712--27991879 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
27991702 CAATTGAATG
* * *
27991712 ATATCTGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG--TT
*
27991753 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
* * *
27991792 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
* * *
27991832 ATATCCGGGCTAAGACTCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
27991872 ATATCCGG
1 ATATCCGG
27991880 TTGTATTCCG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 5 0.04
40 105 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
Found at i:27991845 original size:80 final size:79
Alignment explanation
Indices: 27991712--27991879 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 79
27991702 CAATTGAATG
* * *
27991712 ATATCTGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
27991777 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
27991792 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
27991856 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
27991872 ATATCCGG
1 ATATCCGG
27991880 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.03
80 74 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:27996283 original size:43 final size:43
Alignment explanation
Indices: 27996235--27996373 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
27996225 TCCTGGACGT
* *
27996235 GGTCTTACATGTAACTCAATATCGATGCCTCTGTCCCAGACAA
1 GGTCTTACACGTAACTCAATATCGATGCCTATGTCCCAGACAA
* * * * *
27996278 GGTCTTACACG-AAATTAGATA-CGATGTCGATGTCCCAGACAT
1 GGTCTTACACGTAACTCA-ATATCGATGCCTATGTCCCAGACAA
* * *
27996320 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACACA
1 GGTCTTACACGT-AA-CTCAATATCGATGCCTATGTCCCAGACA-A
27996364 -GTCTTACACG
1 GGTCTTACACG
27996374 ATGTCAAAGG
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
42 32 0.43
43 39 0.53
44 2 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAACTCAATATCGATGCCTATGTCCCAGACAA
Found at i:27998904 original size:144 final size:144
Alignment explanation
Indices: 27998643--27998915 Score: 393
Period size: 144 Copynumber: 1.9 Consensus size: 144
27998633 ATAAGGTCCC
* *
27998643 GTGTAAGACCATGTCTGGGACATGGCATTGACATAGATATGAGACCCCGTATAAGACCATATCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGAGACCCAGTATAAGACCATATCTG
* * *
27998708 GGATATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
66 GGACATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT
27998773 TGATATGTGAGCCA
131 TGATATGTGAGCCA
* * * * * * *
27998787 GTGTAAGACCATGTTTGGGACATGGCATCGACATGGATATGTGAGCCAGTGTAAGATCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGAGACCCAGTATAAGACCATATCTG
* ** * *
27998852 GGACATGGCGTCGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
66 GGACATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
27998916 CTAACATGAG
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
144 112 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (144 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGAGACCCAGTATAAGACCATATCTG
GGACATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT
TGATATGTGAGCCA
Found at i:27998914 original size:48 final size:48
Alignment explanation
Indices: 27998643--27998912 Score: 351
Period size: 48 Copynumber: 5.6 Consensus size: 48
27998633 ATAAGGTCCC
* * * * *
27998643 GTGTAAGACCATGTCTGGGACATGGCATTGACATAGATATGAGACCCC
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGAGCCA
* * * * *
27998691 GTATAAGACCATATCTGGGATATGGCATCAACGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGAGCCA
* *
27998739 GTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGAGCCA
* *
27998787 GTGTAAGACCATGTTTGGGACATGGCATCGACATGGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGAGCCA
* * * * * *
27998835 GTGTAAGATCATGTCTGGGACATGGCGTCGGCGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGAGCCA
*
27998883 GTGTAAGACCATGTCTAGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
27998913 GCACTAACAT
Statistics
Matches: 192, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 192 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGAGCCA
Found at i:27998938 original size:144 final size:144
Alignment explanation
Indices: 27998646--27998961 Score: 364
Period size: 144 Copynumber: 2.2 Consensus size: 144
27998636 AGGTCCCGTG
* *
27998646 TAAGACCATGTCTGGGACATGGCATTGACATAGATATGAGACCCCGTATAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGACATAGATATGAGACCCAGTATAAGACCATATCTGGGA
* * * * *
27998711 TATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGA
66 CATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTAA
* * *
27998776 TATGTGAGCCAGTG
131 CATGAGAGCCAGTA
* * * * * * *
27998790 TAAGACCATGTTTGGGACATGGCATCGACATGGATATGTGAGCCAGTGTAAGATCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGACATAGATATGAGACCCAGTATAAGACCATATCTGGGA
* ** * *
27998855 CATGGCGTCGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTAA
66 CATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTAA
**
27998920 CATGAGATTTCA-TA
131 CATGAGA-GCCAGTA
* * **
27998934 TAAGACCATATCCGGGATGTGGCATCGA
1 TAAGACCATGTCTGGGACATGGCATCGA
27998962 TATTGGGATC
Statistics
Matches: 142, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
144 140 0.99
145 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (144 bp):
TAAGACCATGTCTGGGACATGGCATCGACATAGATATGAGACCCAGTATAAGACCATATCTGGGA
CATGGCATCAACGTTGATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTAA
CATGAGAGCCAGTA
Found at i:27999734 original size:20 final size:19
Alignment explanation
Indices: 27999704--27999741 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27999694 CCCATGTCTT
*
27999704 AAATTTAAAAAATCATTAA
1 AAATTTAAAAAATAATTAA
27999723 AAATTGTAAAAAATAATTA
1 AAATT-TAAAAAATAATTA
27999742 TGGGTGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTTAAAAAATAATTAA
Found at i:28001512 original size:17 final size:17
Alignment explanation
Indices: 28001490--28001530 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
28001480 AGTAACATTT
*
28001490 TTATCATTTATCAGGCA
1 TTATCATTGATCAGGCA
*
28001507 TTATCATTGATCGGGCA
1 TTATCATTGATCAGGCA
*
28001524 TTGTCAT
1 TTATCAT
28001531 ATATGTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (17 bp):
TTATCATTGATCAGGCA
Found at i:28002312 original size:15 final size:17
Alignment explanation
Indices: 28002286--28002319 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
28002276 TATTTAATTA
28002286 TTTATCATCTTTT-AAT
1 TTTATCATCTTTTCAAT
28002302 TTTATCA-CTTTTCAAT
1 TTTATCATCTTTTCAAT
28002318 TT
1 TT
28002320 AGTCCTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTTCAAT
Found at i:28004007 original size:27 final size:28
Alignment explanation
Indices: 28003977--28004076 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
28003967 TTTAGTTTAC
28003977 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* ** *
28004004 TAAAAATACTAAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
28004031 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
28004058 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
28004077 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:28004036 original size:54 final size:54
Alignment explanation
Indices: 28003977--28004083 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
28003967 TTTAGTTTAC
* * *
28003977 TAAAATTACCGAAATACCCTTAG-TTTGTAAAAATACTAAAATACCCTCGATTTG
1 TAAAATTACCGAAATA-CCTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
* * * *
28004031 TAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTT
28004084 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 5 0.11
54 40 0.89
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
Found at i:28004119 original size:81 final size:80
Alignment explanation
Indices: 28004018--28004320 Score: 225
Period size: 81 Copynumber: 3.8 Consensus size: 80
28004008 AATACTAAAA
** * *
28004018 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
28004083 TACAGAATTATCGTTT
66 TACAGAATTA-CGTTT
* * *** * * * * *** *
28004099 TACCCTCGATTTACATAATTACCGTTTTACC-CCTAATT-TACATAATTATCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTA-A-AATTACCAAATTACCCCCGA
*
28004162 CTTACAGAATTACCGTTT
64 TTTACAGAATTA-CGTTT
* * *** * * * * ** **
28004180 TACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
28004245 TACAGAATTACTGTTT
66 TACAGAATTAC-GTTT
* * *
28004261 TACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCC
1 TACCCTCGATTTACAAAATTACTGAAATA-CCTTCGATTTGTAAAATTACCAAATTACCCC
28004321 TAATTTGTAA
Statistics
Matches: 172, Mismatches: 44, Indels: 12
0.75 0.19 0.05
Matches are distributed among these distances:
79 2 0.01
80 6 0.03
81 154 0.90
82 8 0.05
83 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
TACAGAATTACGTTT
Found at i:28004283 original size:27 final size:27
Alignment explanation
Indices: 28004072--28004283 Score: 268
Period size: 27 Copynumber: 7.9 Consensus size: 27
28004062 ATTACCAAAG
*
28004072 TACCCCCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
28004099 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
28004126 TACCC-CTAATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* *
28004153 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
28004180 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
28004207 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
28004234 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
28004261 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
28004284 AAAATACCCT
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 159 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:28004291 original size:27 final size:27
Alignment explanation
Indices: 28004180--28004484 Score: 95
Period size: 27 Copynumber: 11.2 Consensus size: 27
28004170 ATTACCGTTT
* ***
28004180 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
28004207 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
28004234 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
28004261 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
28004288 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* **
28004315 TACCC-CTAATTTGTAAAATTA-TCAAAA
1 TACCCTC-GATTTACAAAATTACT-AAAA
* * *** **
28004342 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
** ** *
28004369 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
28004396 TACCC-CTGATTTACAAAGTTA-AAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
28004423 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
28004452 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
28004479 TACCCT
1 TACCCT
28004485 TGGTTTGTAG
Statistics
Matches: 224, Mismatches: 39, Indels: 30
0.76 0.13 0.10
Matches are distributed among these distances:
26 2 0.01
27 194 0.87
28 9 0.04
29 19 0.08
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:28004423 original size:54 final size:53
Alignment explanation
Indices: 28004275--28004513 Score: 196
Period size: 54 Copynumber: 4.4 Consensus size: 53
28004265 CTCGATTTAC
* * *
28004275 AAAATTACTAAAATACCCTTAGTTTGTA-AAATTACCA-AAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTT-GGTT-TACAAATTA-CAGAAATACCCTTAATTTGT
* ** *
28004329 AAAATTATCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTGGTTT-ACAAATTACAGAAATACCCTTAATTTGT
* * * * *
28004383 AAAATTACCAAAATACCCCTGATTTACAAAGTTAAAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTACAAA-TTACAGAAATACCCTT-AATTTGT
* * * **
28004438 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTAC-AAATTACAGAAATACCCTTAATTTGT
* * *
28004493 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
28004514 TAGGATGAAA
Statistics
Matches: 147, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
52 1 0.01
53 7 0.05
54 90 0.61
55 11 0.07
56 35 0.24
57 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTGGTTTACAAATTACAGAAATACCCTTAATTTGT
Found at i:28004424 original size:81 final size:81
Alignment explanation
Indices: 28004276--28004430 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
28004266 TCGATTTACA
* * ** *
28004276 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTATAAAA
28004341 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* * *
28004357 AAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-AAGA
1 AAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTATAA-A
28004421 AATACCCTTG
65 AATACCCTTG
28004431 ACTTTCTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTATAAAA
ATACCCTTGGTTTGTG
Found at i:28004490 original size:27 final size:27
Alignment explanation
Indices: 28004234--28004486 Score: 145
Period size: 27 Copynumber: 9.3 Consensus size: 27
28004224 ATTACTATTT
* ***
28004234 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* *
28004261 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
** **
28004288 TACCCTT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
* * ** *
28004315 TACCCCTAATTTGTAAAATTA-TCAAAA
1 TACCCTTGATTTACAAAATTACT-GAAA
* *** *
28004342 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* ** **
28004369 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * **
28004396 TACCCCTGATTTACAAAGTTAAAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
28004423 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
28004452 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
28004479 TACCCTTG
1 TACCCTTG
28004487 GTTTGTAGAT
Statistics
Matches: 180, Mismatches: 36, Indels: 20
0.76 0.15 0.08
Matches are distributed among these distances:
26 1 0.01
27 153 0.85
28 8 0.04
29 18 0.10
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:28004608 original size:27 final size:27
Alignment explanation
Indices: 28004531--28004608 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
28004521 AAATGACTAA
* *
28004531 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
28004558 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
28004585 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
28004609 GAATATGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:28005795 original size:25 final size:25
Alignment explanation
Indices: 28005766--28005813 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28005756 TTATAATATG
* * *
28005766 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
28005791 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
28005814 GTTTATGTAT
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:28005882 original size:20 final size:20
Alignment explanation
Indices: 28005857--28005915 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
28005847 TAAATATGGT
28005857 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
28005877 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
28005897 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
28005916 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:28005897 original size:11 final size:11
Alignment explanation
Indices: 28005861--28005915 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
28005851 TATGGTATGT
28005861 ATGATATGCAC
1 ATGATATGCAC
* *
28005872 ATGAAATG--T
1 ATGATATGCAC
28005881 ATGATATGCAC
1 ATGATATGCAC
*
28005892 ATGATATG--T
1 ATGATATGCAC
28005901 ATGATATGCAC
1 ATGATATGCAC
28005912 ATGA
1 ATGA
28005916 GGTAATCATA
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:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:28005993 original size:24 final size:24
Alignment explanation
Indices: 28005966--28006084 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
28005956 GAGGAAGTGA
*
28005966 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
28005990 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
28006013 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
28006037 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
28006061 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
28006085 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:28006035 original size:47 final size:48
Alignment explanation
Indices: 28005966--28006084 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
28005956 GAGGAAGTGA
28005966 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
28006013 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
28006061 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
28006085 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:28006314 original size:31 final size:31
Alignment explanation
Indices: 28006276--28006370 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
28006266 CGTTTACAAT
28006276 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
28006307 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
28006338 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
28006369 AA
1 AA
28006371 TATGAAAAGG
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:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:28009567 original size:2 final size:2
Alignment explanation
Indices: 28009560--28009594 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
28009550 AATTCATACT
28009560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28009595 CATAGCCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28010539 original size:56 final size:56
Alignment explanation
Indices: 28010456--28010561 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
28010446 ATGTAATTAC
* *
28010456 ATATCGATGCCAACGTGTTAATCGTGGTCTTAC-TCGCACACACATATCAAAATCAT
1 ATATCGATGCCAACGTATTAATCGTGGTCTTACGT-ACACACACATATCAAAATCAT
*
28010512 ATATCGATGTCAACGTATTAAAT-GTGGTCTTACGTACACACACATATCAA
1 ATATCGATGCCAACGTATT-AATCGTGGTCTTACGTACACACACATATCAA
28010562 TGTCAACGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
56 41 0.91
57 4 0.09
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
ATATCGATGCCAACGTATTAATCGTGGTCTTACGTACACACACATATCAAAATCAT
Found at i:28010599 original size:43 final size:43
Alignment explanation
Indices: 28010552--28010732 Score: 211
Period size: 43 Copynumber: 4.2 Consensus size: 43
28010542 TACGTACACA
* * * *
28010552 CACATATCAATGTCAACGTACTAAACGTGGTCTTACTCATAAT
1 CACATATCAATGCCAACGTCCTAGACGTGGTCTTACTCGTAAT
* * * *
28010595 CACATATCGATGCCAATGTCCCAGGCGTGGTCTTACAT-GTAAT
1 CACATATCAATGCCAACGTCCTAGACGTGGTCTTAC-TCGTAAT
* * *
28010638 CATATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTAAT
1 CACATATCAATGCCAACGTCCTAGACGTGGTCTTACTCGTAAT
* * *
28010681 CACATATCGATGCCAATGTCCTAGACGTGGTCTTACACGTAAT
1 CACATATCAATGCCAACGTCCTAGACGTGGTCTTACTCGTAAT
*
28010724 TACATATCA
1 CACATATCA
28010733 TAAATCCTAT
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
43 116 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
CACATATCAATGCCAACGTCCTAGACGTGGTCTTACTCGTAAT
Found at i:28010655 original size:86 final size:86
Alignment explanation
Indices: 28010552--28010732 Score: 263
Period size: 86 Copynumber: 2.1 Consensus size: 86
28010542 TACGTACACA
* * *
28010552 CACATATCAATGTCAACGTACTAAACGTGGTCTTACTCATAATCACATATCGATGCCAATGTCCC
1 CACATATCAATGCCAACGTACCAAACGTGGTCTTACACATAATCACATATCGATGCCAATGTCCC
* *
28010617 AGGCGTGGTCTTACATGTAAT
66 AGACGTGGTCTTACACGTAAT
* * * * *
28010638 CATATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCT
1 CACATATCAATGCCAACGTACCAAACGTGGTCTTACACATAATCACATATCGATGCCAATGTCCC
28010703 AGACGTGGTCTTACACGTAAT
66 AGACGTGGTCTTACACGTAAT
*
28010724 TACATATCA
1 CACATATCA
28010733 TAAATCCTAT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (86 bp):
CACATATCAATGCCAACGTACCAAACGTGGTCTTACACATAATCACATATCGATGCCAATGTCCC
AGACGTGGTCTTACACGTAAT
Found at i:28015158 original size:27 final size:27
Alignment explanation
Indices: 28015119--28015176 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
28015109 ACAATTATAC
* *
28015119 ATCACATAGGGGCATAAGAGTCATTTT
1 ATCACATAAGGGCATAACAGTCATTTT
28015146 ATCACATAAGGGCATAACAGTCATTTT
1 ATCACATAAGGGCATAACAGTCATTTT
28015173 ATCA
1 ATCA
28015177 ATTAAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (27 bp):
ATCACATAAGGGCATAACAGTCATTTT
Found at i:28024706 original size:40 final size:40
Alignment explanation
Indices: 28024651--28024738 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
28024641 TATTCGGATG
*
28024651 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
28024691 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
28024731 ATAACCGG
1 ATATCCGG
28024739 GTTAACTCCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:28024751 original size:40 final size:40
Alignment explanation
Indices: 28024667--28024803 Score: 161
Period size: 40 Copynumber: 3.4 Consensus size: 40
28024657 GGACTAAGAT
* * * **
28024667 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGTTAA-ATC
*
28024707 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAACTC
1 CCGAAGGC-ATTCGTGCTAGTTATTATAACCGGGTTAAATC
** *
28024747 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAATC
28024787 CCGAAGGCATTCGTGCT
1 CCGAAGGCATTCGTGCT
28024804 GGTTGTTACA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.05
40 78 0.92
41 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAATC
Found at i:28027452 original size:15 final size:15
Alignment explanation
Indices: 28027432--28027461 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28027422 TATATACAAA
28027432 TATATATATATGTGT
1 TATATATATATGTGT
*
28027447 TATATATGTATGTGT
1 TATATATATATGTGT
28027462 AATTGAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TATATATATATGTGT
Found at i:28027937 original size:24 final size:24
Alignment explanation
Indices: 28027901--28027974 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
28027891 GGGTCAACAT
*
28027901 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
28027925 TGGCACTATGTGTGCGAAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
28027949 TGGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
28027973 TG
1 TG
28027975 TCAATACATG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:28029515 original size:38 final size:35
Alignment explanation
Indices: 28029456--28029572 Score: 126
Period size: 30 Copynumber: 3.5 Consensus size: 35
28029446 TCAATCATGC
*
28029456 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
28029495 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
28029526 ACT-GGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
28029556 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
28029573 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 1, Indels: 10
0.87 0.01 0.11
Matches are distributed among these distances:
30 30 0.39
31 17 0.22
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:0.16, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:28029535 original size:30 final size:31
Alignment explanation
Indices: 28029479--28029572 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
28029469 CCTTTTCATA
*
28029479 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
28029510 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
28029540 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
28029571 TT
1 TT
28029573 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 30 0.49
31 31 0.51
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:28029790 original size:24 final size:24
Alignment explanation
Indices: 28029763--28029880 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
28029753 GCTTTATCAT
* *
28029763 ATAACTGGAGGCCT-AGCCTTTTTA
1 ATAACTGG-GGCATAAGCCCTTTTA
* *
28029787 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
28029811 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
28029834 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
28029858 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28029881 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 26 0.30
24 60 0.70
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28029851 original size:47 final size:48
Alignment explanation
Indices: 28029763--28029880 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 48
28029753 GCTTTATCAT
* *
28029763 ATAACTGGAGGCCT-AGCCTTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
28029811 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
28029858 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28029881 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 48 0.75
48 16 0.25
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:28029956 original size:20 final size:20
Alignment explanation
Indices: 28029931--28029990 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
28029921 TATGATTACC
28029931 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
28029951 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
28029971 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
28029991 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:28029961 original size:11 final size:11
Alignment explanation
Indices: 28029931--28029985 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
28029921 TATGATTACC
28029931 TCATGTGCATA
1 TCATGTGCATA
*
28029942 TCA--TACATA
1 TCATGTGCATA
28029951 TCATGTGCATA
1 TCATGTGCATA
* *
28029962 TCA--TACATT
1 TCATGTGCATA
28029971 TCATGTGCATA
1 TCATGTGCATA
28029982 TCAT
1 TCAT
28029986 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:28030065 original size:25 final size:25
Alignment explanation
Indices: 28030033--28030080 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28030023 ATACATAAAC
* * *
28030033 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28030058 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28030081 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28037635 original size:38 final size:35
Alignment explanation
Indices: 28037576--28037693 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
28037566 TCAATCATGC
*
28037576 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
28037615 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
28037646 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
28037677 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
28037694 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:28037637 original size:31 final size:31
Alignment explanation
Indices: 28037599--28037693 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
28037589 CCTTTTCATA
*
28037599 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
28037630 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
28037661 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
28037692 TT
1 TT
28037694 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:28037912 original size:24 final size:24
Alignment explanation
Indices: 28037885--28038002 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
28037875 GCTTTATCAT
* *
28037885 ATAACTGGAGGCCT-AGCCTTTTTA
1 ATAACTGG-GGCATAAGCCCTTTTA
* *
28037909 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
28037933 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
28037956 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
28037980 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28038003 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 26 0.30
24 60 0.70
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28037973 original size:47 final size:48
Alignment explanation
Indices: 28037885--28038002 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 48
28037875 GCTTTATCAT
* *
28037885 ATAACTGGAGGCCT-AGCCTTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
28037933 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
28037980 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28038003 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 48 0.75
48 16 0.25
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:28038078 original size:20 final size:20
Alignment explanation
Indices: 28038053--28038112 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
28038043 TATGATTACC
28038053 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
28038073 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
28038093 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
28038113 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:28038083 original size:11 final size:11
Alignment explanation
Indices: 28038053--28038107 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
28038043 TATGATTACC
28038053 TCATGTGCATA
1 TCATGTGCATA
*
28038064 TCA--TACATA
1 TCATGTGCATA
28038073 TCATGTGCATA
1 TCATGTGCATA
* *
28038084 TCA--TACATT
1 TCATGTGCATA
28038093 TCATGTGCATA
1 TCATGTGCATA
28038104 TCAT
1 TCAT
28038108 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:28038187 original size:25 final size:25
Alignment explanation
Indices: 28038155--28038202 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28038145 ATACATAAAC
* * *
28038155 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28038180 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28038203 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28048854 original size:17 final size:18
Alignment explanation
Indices: 28048812--28048860 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
28048802 AGTTGAAAAG
28048812 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
28048831 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
28048848 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
28048861 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:28049749 original size:40 final size:40
Alignment explanation
Indices: 28049683--28049849 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
28049673 AAATTGAATG
* * *
28049683 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
28049722 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
28049762 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
28049802 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
28049842 ATATCCGG
1 ATATCCGG
28049850 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:28051646 original size:40 final size:39
Alignment explanation
Indices: 28051601--28051729 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
28051591 CGGAATACAA
28051601 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
28051641 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* ** *
28051681 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
28051721 CC-GATATAA
1 CCGGATATAA
28051730 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 8 0.11
40 68 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:28059397 original size:58 final size:58
Alignment explanation
Indices: 28059316--28059430 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
28059306 ACGTGAAGTA
* *
28059316 AAAGAACTATGAAATGAGAAAATCTAATTAGTGAAGGTACTGTGGCTTAAGCACGGGT
1 AAAGAACTACGAAATAAGAAAATCTAATTAGTGAAGGTACTGTGGCTTAAGCACGGGT
*
28059374 AAAGAACTACGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCACGGG
1 AAAGAACTACGAAATAAGAAAATCTAATTAGTGAAGGTACTGTGGCTTAAGCACGGG
28059431 GTCGAAGAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (58 bp):
AAAGAACTACGAAATAAGAAAATCTAATTAGTGAAGGTACTGTGGCTTAAGCACGGGT
Found at i:28070303 original size:2 final size:2
Alignment explanation
Indices: 28070245--28070292 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
28070235 GTATATACAA
*
28070245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28070287 AT AT AT
1 AT AT AT
28070293 GTGTTATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:28070787 original size:24 final size:24
Alignment explanation
Indices: 28070751--28070886 Score: 114
Period size: 24 Copynumber: 5.7 Consensus size: 24
28070741 GGGTCAACAT
*
28070751 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
28070775 TGGCACTATGTGTGCGAAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
28070799 TGGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * ** * * * *
28070823 TGTCAATACATGAGTGAATCTTCAA
1 TGGCACTATGTGTGCGGAT-TTGAA
* *
28070848 -GGCACTATGTGTGCGG-TGTAGCA
1 TGGCACTATGTGTGCGGAT-TTGAA
28070871 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
28070887 AACTTGTCTA
Statistics
Matches: 84, Mismatches: 26, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
23 3 0.04
24 77 0.92
25 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:28071524 original size:2 final size:2
Alignment explanation
Indices: 28071517--28071543 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
28071507 TTAATGAATG
28071517 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
28071544 AATCTATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28073355 original size:40 final size:40
Alignment explanation
Indices: 28073275--28073455 Score: 251
Period size: 40 Copynumber: 4.5 Consensus size: 40
28073265 ACCCAAGTTT
* * * *
28073275 CTTCGGG-CTTTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGGTC-TTAGCCCGGATATAACAACTCGCACAAATGC
* * *
28073314 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
28073354 CTTCGGGTCTTAGCCCGGATATAACAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
28073394 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
28073434 CTTCAGGG-CTTAGCCCGGATAT
1 CTTC-GGGTCTTAGCCCGGATAT
28073456 CATTCAAATG
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
39 10 0.08
40 114 0.90
41 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:28081556 original size:32 final size:34
Alignment explanation
Indices: 28081497--28081587 Score: 96
Period size: 32 Copynumber: 2.7 Consensus size: 34
28081487 TCTTGTTTTA
* * * * *
28081497 TATATAAAATATATACATACATATATGGTCCTAT
1 TATATATACTATATATATGCATCTATGGTCCTAT
* * *
28081531 TATATA-AC-ATATATATGCCTCTATGGTTCTGT
1 TATATATACTATATATATGCATCTATGGTCCTAT
28081563 TATATATACTATATATATGCATCTA
1 TATATATACTATATATATGCATCTA
28081588 GAGATTTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
32 24 0.51
33 3 0.06
34 20 0.43
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (34 bp):
TATATATACTATATATATGCATCTATGGTCCTAT
Found at i:28086907 original size:27 final size:27
Alignment explanation
Indices: 28086869--28086945 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
28086859 TCTGAGGAAG
*
28086869 TACTGTAT-TAGTGGCTTTGCCACGTTT
1 TACTGT-TCTAGTGTCTTTGCCACGTTT
* *
28086896 TACTGTTCTAGTGTCTTTGTCATGTTT
1 TACTGTTCTAGTGTCTTTGCCACGTTT
28086923 TACTGTTCTAGTGTCTTTGCCAC
1 TACTGTTCTAGTGTCTTTGCCAC
28086946 TTATCCTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (27 bp):
TACTGTTCTAGTGTCTTTGCCACGTTT
Found at i:28088010 original size:20 final size:20
Alignment explanation
Indices: 28087987--28088032 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
28087977 GTGTATATAG
*
28087987 GGGCACCGAAGTGCAAACAA
1 GGGCACAGAAGTGCAAACAA
** *
28088007 GGGCACAGTTGTGCAAACAG
1 GGGCACAGAAGTGCAAACAA
28088027 GGGCAC
1 GGGCAC
28088033 TTCTTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.35, T:0.09
Consensus pattern (20 bp):
GGGCACAGAAGTGCAAACAA
Found at i:28089794 original size:30 final size:29
Alignment explanation
Indices: 28089760--28089821 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
28089750 ACTTAATAAG
28089760 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAC-AAATTAA
* *
28089790 CAAATGTCTTTAAAATAATAACAAATTAA
1 CAAATGCCTCTAAAATAATAACAAATTAA
28089819 CAA
1 CAA
28089822 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (29 bp):
CAAATGCCTCTAAAATAATAACAAATTAA
Found at i:28089876 original size:22 final size:22
Alignment explanation
Indices: 28089851--28089892 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
28089841 TATCCAAATA
28089851 ATAACAATAAAATAGTAGCAGC
1 ATAACAATAAAATAGTAGCAGC
* * *
28089873 ATAATAGTAAAATGGTAGCA
1 ATAACAATAAAATAGTAGCA
28089893 AAAAAGGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAGC
Found at i:28095261 original size:40 final size:40
Alignment explanation
Indices: 28095187--28095340 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
28095177 CCGCACCAAG
* * * * * *
28095187 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
28095227 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
28095267 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
28095307 GTCC-TCGGGACTTAGCCCGGATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
28095341 TCATGCACAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:28097856 original size:44 final size:43
Alignment explanation
Indices: 28097791--28097945 Score: 153
Period size: 44 Copynumber: 3.6 Consensus size: 43
28097781 ACATAGGATC
* *
28097791 CGATATGTG-TTTTCGTGTAAGACCACATTTGGGACATTGGCAT
1 CGATATTTGATTTACGTGTAAGACCAC-TTTGGGACATTGGCAT
*
28097834 CGAT-TTATGATTTACATGTAAGACCA-TGTCTGGGACATTGGCAT
1 CGATATT-TGATTTACGTGTAAGACCACT-T-TGGGACATTGGCAT
* *
28097878 CG-TATTTGATTT-TGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTACGTGTAAGACCACT-T-TGGGACATTGGCAT
*
28097920 TGATATTTGA-TTACGTGTAAGACCAC
1 CGATATTTGATTTACGTGTAAGACCAC
28097946 GTCTGGAACG
Statistics
Matches: 95, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
42 31 0.33
43 31 0.33
44 33 0.35
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTTACGTGTAAGACCACTTTGGGACATTGGCAT
Found at i:28097908 original size:42 final size:42
Alignment explanation
Indices: 28097801--28097967 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 42
28097791 CGATATGTGT
28097801 TTTCGTGTAAGACCACAT-T-TGGGACATTGGCATCG-ATTTATGA
1 TTTCGTGTAAGACC-C-TGTCTGGGACATTGGCATCGTA-TT-TGA
* *
28097844 TTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
* * *
28097887 TTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTGATATTTGA
1 TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGA
* * * *
28097930 TTACGTGTAAGACCAC-GTCTGGAACGTTGGCATTGTAT
1 TTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCGTAT
28097968 GAGCTTTCTG
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
42 31 0.29
43 45 0.42
44 29 0.27
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
Found at i:28107253 original size:30 final size:30
Alignment explanation
Indices: 28107207--28107263 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
28107197 ATCCCAAGCC
28107207 TAGGGGAAAAAATGTAAATATGCAAAAGTT
1 TAGGGGAAAAAATGTAAATATGCAAAAGTT
* * * *
28107237 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGAAAAAATGTAAATATGCAAAA
28107264 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAAATATGCAAAAGTT
Found at i:28107732 original size:46 final size:46
Alignment explanation
Indices: 28107682--28107857 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
28107672 TGGTTGAGCA
28107682 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
28107728 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
28107773 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
28107821 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28107858 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:28107838 original size:93 final size:93
Alignment explanation
Indices: 28107679--28107850 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
28107669 GGATGGTTGA
* *
28107679 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
28107744 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
28107772 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
28107837 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
28107851 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:28115240 original size:46 final size:46
Alignment explanation
Indices: 28115190--28115364 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
28115180 TGGTTGAGCA
28115190 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
28115236 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
28115280 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
28115328 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28115365 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 7 0.06
46 76 0.70
47 7 0.06
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:28115344 original size:92 final size:93
Alignment explanation
Indices: 28115187--28115357 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
28115177 GGATGGTTGA
* *
28115187 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
28115252 TGAGT-CGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
28115279 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
28115344 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
28115358 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.89
93 8 0.11
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:28119836 original size:43 final size:42
Alignment explanation
Indices: 28119788--28119938 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 42
28119778 TCCTAAATGA
* * * * *
28119788 GGTCTTACATGTAATTAAATATCGGTGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACAG
* *
28119831 GGTCTTACACGAAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACAG
* **
28119873 GGTCTTACACATAAATCTCAAAT-CGATGCCAACATCCCAGAC-G
1 GGTCTTACAC-GAAA--TCAAATACGATGCCAATGTCCCAGACAG
* *
28119916 TGGTCTTACACAAAATCACATAC
1 -GGTCTTACACGAAATCAAATAC
28119939 CGGGATCCTA
Statistics
Matches: 89, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
41 5 0.06
42 29 0.33
43 23 0.26
44 27 0.30
45 5 0.06
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACAG
Found at i:28119865 original size:42 final size:42
Alignment explanation
Indices: 28119813--28119938 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
28119803 TAAATATCGG
* *
28119813 TGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATACGA
1 TGCCAATGTCCCAGACAGGGTCTTACACAAAATCATATACGA
* *
28119855 TGCCAATGTCCCAGACATGGTCTTACACATAAATC-TCAAATCGA
1 TGCCAATGTCCCAGACAGGGTCTTACACA-AAATCAT-ATA-CGA
** *
28119899 TGCCAACATCCCAGAC-GTGGTCTTACACAAAATCACATAC
1 TGCCAATGTCCCAGACAG-GGTCTTACACAAAATCATATAC
28119939 CGGGATCCTA
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 28 0.40
43 14 0.20
44 28 0.40
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (42 bp):
TGCCAATGTCCCAGACAGGGTCTTACACAAAATCATATACGA
Found at i:28119913 original size:44 final size:44
Alignment explanation
Indices: 28119821--28119932 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
28119811 GGTGCCACTG
* * * **
28119821 TCCCAGACAGGGTCTTACACGAAA--TCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACAAAATCTCAAATACGATGCCAACA
28119863 TCCCAGACATGGTCTTACACATAAATCTCAAAT-CGATGCCAACA
1 TCCCAGACATGGTCTTACACA-AAATCTCAAATACGATGCCAACA
*
28119907 TCCCAGACGTGGTCTTACACAAAATC
1 TCCCAGACATGGTCTTACACAAAATC
28119933 ACATACCGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 19 0.31
43 8 0.13
44 29 0.48
45 5 0.08
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACAAAATCTCAAATACGATGCCAACA
Found at i:28123144 original size:31 final size:31
Alignment explanation
Indices: 28123104--28123252 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
28123094 ACAAATGACA
*
28123104 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
28123135 AATGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
28123166 AGTGAAAAGTGGTAGCTCCGGCAACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
28123197 AGTGAAAAGTGGTAG-TACCGACTACCTGATC
1 AGTGAAAAGTGGTAGCT-TCGGCTACCTGATC
*
28123228 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
28123253 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 104 0.98
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:28123422 original size:49 final size:48
Alignment explanation
Indices: 28123275--28123492 Score: 206
Period size: 47 Copynumber: 4.7 Consensus size: 48
28123265 ATTTTCGTAC
* * * * * * *
28123275 AAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTAT
1 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTC-GTGT
* * * * *
28123322 AAGACCATATCTGGGATATGGTATC-A-GTGAGATATGTGATTCGTGT
1 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTGT
*
28123368 AAGACCATACCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGT
1 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTGT
*
28123417 AAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTGT
1 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTGT
28123459 AAGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 AAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
28123493 AGATGTGTAA
Statistics
Matches: 152, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 35 0.23
44 1 0.01
45 1 0.01
46 26 0.17
47 37 0.24
48 14 0.09
49 37 0.24
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
AAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTGT
Found at i:28123459 original size:42 final size:42
Alignment explanation
Indices: 28123413--28123526 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
28123403 ATGTGATTAC
*
28123413 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGAT
*
28123455 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
* **
28123497 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGCTGGGCTATGGCATCA
28123527 AGAAAACGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
Found at i:28126522 original size:19 final size:20
Alignment explanation
Indices: 28126498--28126535 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
28126488 GGTACCACCA
28126498 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
28126517 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
28126536 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:28126880 original size:93 final size:93
Alignment explanation
Indices: 28126765--28126935 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
28126755 GCTCCTAAGT
** *
28126765 GAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCATAATTGAACTCGGACTCAACACA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACACA
28126829 ACGAGTTCGGATGCCTTGTTACATCTCAC
65 ACGAGTTCGGATGCCTTGTTACATCTCAC
* * *
28126858 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
*
28126923 CGAGTTTGGATGC
66 CGAGTTCGGATGC
28126936 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
CGAGTTCGGATGCCTTGTTACATCTCAC
Found at i:28126919 original size:46 final size:46
Alignment explanation
Indices: 28126760--28126928 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
28126750 AATCTGCTCC
* ** *
28126760 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
28126806 TAATTGAACTCGGACTCAACACAACGAGTTCGGATGCCTTGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---CAT-TTGCATCCA
* *
28126854 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
28126899 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
28126929 TGGATGCTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 4 0.04
46 53 0.52
47 28 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:28131367 original size:38 final size:39
Alignment explanation
Indices: 28131316--28131529 Score: 262
Period size: 38 Copynumber: 5.5 Consensus size: 39
28131306 TATTCGGATG
*
28131316 ATATCCGGGCTAAGT-CGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACT
*
28131354 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACT
*
28131393 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACT
*
28131432 -TATCCGGGCTAAGTCCCGAAGGCA-TT-TGCTAGTGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACT
* * *
28131469 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTTACT
*
28131509 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGT-CCGAAG
28131530 ATACTTGGGT
Statistics
Matches: 157, Mismatches: 10, Indels: 17
0.85 0.05 0.09
Matches are distributed among these distances:
36 10 0.06
37 2 0.01
38 61 0.39
39 52 0.33
40 32 0.20
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACT
Found at i:28131443 original size:77 final size:77
Alignment explanation
Indices: 28131316--28131529 Score: 305
Period size: 77 Copynumber: 2.8 Consensus size: 77
28131306 TATTCGGATG
*
28131316 ATATCCGGGCTAAGT--CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGAC-ATATCCGGGCTAAGTCCCGAAGGCA
28131379 TTTGTGCTAGTG-CT
65 -TT-TGCTAGTGACT
*
28131393 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-TATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACATATCCGGGCTAAGTCCCGAAGGCAT
28131457 TTGCTAGTGACT
66 TTGCTAGTGACT
* *
28131469 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGAC-ATATCCGGGCTAAGTCCCGAAG
28131530 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
75 8 0.06
76 38 0.30
77 55 0.44
78 5 0.04
79 20 0.16
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (77 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACATATCCGGGCTAAGTCCCGAAGGCAT
TTGCTAGTGACT
Found at i:28131519 original size:115 final size:115
Alignment explanation
Indices: 28131317--28131529 Score: 333
Period size: 115 Copynumber: 1.9 Consensus size: 115
28131307 ATTCGGATGA
* *
28131317 TATCCGGGCTAAGTCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 TATCCGGGCTAAGTCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCATTT
* *
28131382 GTGCTAGTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
66 GTGCGAGTGCTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGAC
*
28131432 TATCCGGGCTAAGTCCCGAAGGCA-TT-TGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGT--CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
28131495 TTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAG
64 TTGTGCGAG-TGCTATATCCGGGCTAAATCCCGAAG
28131530 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
115 70 0.78
116 12 0.13
117 8 0.09
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (115 bp):
TATCCGGGCTAAGTCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGTGCTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGAC
Found at i:28135991 original size:40 final size:40
Alignment explanation
Indices: 28135934--28136038 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
28135924 ATTAAATGAT
* * * *
28135934 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGT-AGTTAA
1 ATCCGAGCTAAGACCCGAAGGCATTTATGCTAGTGA-CTAA
* *
28135974 ATCCGAGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGAGCTAAGACCCGAAGGCATTTATGCTAGTGACTAA
*
28136014 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGAGCTAAGACCCGAAGGCATT
28136039 CGTGCGTGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (40 bp):
ATCCGAGCTAAGACCCGAAGGCATTTATGCTAGTGACTAA
Found at i:28142692 original size:40 final size:40
Alignment explanation
Indices: 28142623--28142845 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
28142613 TATTCTGATG
*
28142623 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* ** * *
28142662 ATATCTGGGCTAAGTCTTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
28142702 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCTAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
** * * *
28142745 ATCCCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
28142785 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
28142825 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
28142846 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 29, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
39 26 0.17
40 92 0.61
43 33 0.22
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:28142774 original size:83 final size:79
Alignment explanation
Indices: 28142623--28142845 Score: 313
Period size: 83 Copynumber: 2.8 Consensus size: 79
28142613 TATTCTGATG
* * **
28142623 ATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTCCTATATCTGGGCTAAGTCTTGAAGGCAT
1 ATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAT
28142688 TTGTGCTAGTGACT
66 TTGTGCTAGTGACT
* **
28142702 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCTAGTAGTTGCTATCCCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
*
28142767 GCGTTTGTGCTAGTGACT
62 GCATTTGTGCTAGTGACT
*
28142785 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAG
28142846 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 27 0.21
80 28 0.22
81 1 0.01
82 1 0.01
83 70 0.55
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTGACT
Found at i:28147768 original size:40 final size:39
Alignment explanation
Indices: 28147723--28147930 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
28147713 CGGAATACAA
*
28147723 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
28147763 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
28147803 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
28147843 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
28147883 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
28147923 CCGGATAT
1 CCGGATAT
28147931 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:28147863 original size:80 final size:80
Alignment explanation
Indices: 28147723--28147930 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
28147713 CGGAATACAA
* * *
28147723 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
28147788 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
28147803 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
28147867 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
28147883 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
28147931 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:28155830 original size:40 final size:39
Alignment explanation
Indices: 28155735--28155941 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
28155725 CGGAATACAA
* *
28155735 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
*
28155774 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
28155814 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
28155854 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
28155894 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
28155934 CCGGATAT
1 CCGGATAT
28155942 CATTCAATTG
Statistics
Matches: 143, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 26 0.18
40 115 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:28159241 original size:19 final size:20
Alignment explanation
Indices: 28159217--28159254 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
28159207 GGTACCACCA
28159217 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
28159236 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
28159255 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:28159550 original size:46 final size:46
Alignment explanation
Indices: 28159483--28159651 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 46
28159473 CGCCCCTAAG
* * *
28159483 TGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAA
* * * * **
28159529 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACG-TTAGCATCCAT-AAA
* * * *
28159576 CGAACTCGGACTCAACTCAATGAGTTCGGACATTTA-CATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTAGCATCCATAAA
28159622 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
28159652 TGATCAACCA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 61 0.62
47 37 0.38
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAA
Found at i:28159594 original size:93 final size:93
Alignment explanation
Indices: 28159484--28159653 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
28159474 GCCCCTAAGT
* *
28159484 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
28159549 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
28159577 GAACTCGGACTCAACTCAATGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
28159642 CGAGTTCGGATG
66 CGAGTTCGGATG
28159654 ATCAACCATC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28165323 original size:21 final size:22
Alignment explanation
Indices: 28165297--28165350 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
28165287 CGACCTACAG
*
28165297 CACGGGTGTGTCCCAAGG-TCA
1 CACGGGTGTGTCCCAAGGACCA
* **
28165318 CACGGGCGTGTCCCTCGGACCA
1 CACGGGTGTGTCCCAAGGACCA
28165340 CACGGGTGTGT
1 CACGGGTGTGT
28165351 GAGCCCTACA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (22 bp):
CACGGGTGTGTCCCAAGGACCA
Found at i:28175217 original size:46 final size:46
Alignment explanation
Indices: 28175150--28175324 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
28175140 TATTTGGGCA
28175150 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
28175196 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
28175243 TCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
28175288 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28175325 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 4 0.04
45 23 0.21
46 54 0.50
47 24 0.22
49 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:28175304 original size:92 final size:93
Alignment explanation
Indices: 28175146--28175317 Score: 301
Period size: 92 Copynumber: 1.9 Consensus size: 93
28175136 GGGATATTTG
* *
28175146 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
28175211 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
28175239 GGCATCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
28175303 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
28175318 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 51 0.68
93 24 0.32
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:28179772 original size:25 final size:25
Alignment explanation
Indices: 28179742--28179808 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
28179732 AATCAAAATG
* * *
28179742 AGAATCAAAATCAAAATCAGGTGAC
1 AGAATCAGAATCAAAATCAGATAAC
**
28179767 AGAATCAGAATCAGTATCAGATAAC
1 AGAATCAGAATCAAAATCAGATAAC
28179792 AGAATCAGAATCAAAAT
1 AGAATCAGAATCAAAAT
28179809 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAAAATCAGATAAC
Found at i:28179775 original size:6 final size:6
Alignment explanation
Indices: 28179721--28179804 Score: 55
Period size: 6 Copynumber: 13.7 Consensus size: 6
28179711 AAGAAGCATT
* * * * *
28179721 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
28179770 ATCAGA ATCAGT ATCAGA TAACAGA ATCAGA ATCA
1 ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA ATCA
28179805 AAATGTGAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
5 2 0.03
6 48 0.80
7 9 0.15
8 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:28179979 original size:27 final size:27
Alignment explanation
Indices: 28179929--28180032 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
28179919 TGGCTGCTAG
* * *
28179929 AACAGATATTGTGACAAAGTCACCAGA
1 AACAGATACTGTGGCAAAGCCACCAGA
*
28179956 TAA-AGATACTGTGGCAGAGCCACCA-A
1 -AACAGATACTGTGGCAAAGCCACCAGA
* * *
28179982 AACAGATATTTGTGGCATAGCCACTAGA
1 AACAGATA-CTGTGGCAAAGCCACCAGA
28180010 AACAGATAAC-GTGGCAAAGCCAC
1 AACAGAT-ACTGTGGCAAAGCCAC
28180033 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.03
26 6 0.10
27 44 0.70
28 10 0.16
29 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (27 bp):
AACAGATACTGTGGCAAAGCCACCAGA
Found at i:28180017 original size:54 final size:53
Alignment explanation
Indices: 28179929--28180032 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 53
28179919 TGGCTGCTAG
* *
28179929 AACAGATATTGTGACAAAGTCACCAGATAAAGAT-ACTGTGGCAGAGCCACCAA
1 AACAGATATTGTGACAAAGCCACCAGATAAAGATAAC-GTGGCAAAGCCACCAA
* * *
28179982 AACAGATATTTGTGGCATAGCCACTAGA-AACAGATAACGTGGCAAAGCCAC
1 AACAGATA-TTGTGACAAAGCCACCAGATAA-AGATAACGTGGCAAAGCCAC
28180033 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 10 0.23
54 31 0.72
55 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (53 bp):
AACAGATATTGTGACAAAGCCACCAGATAAAGATAACGTGGCAAAGCCACCAA
Found at i:28180033 original size:27 final size:27
Alignment explanation
Indices: 28179961--28180050 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
28179951 CCAGATAAAG
* *
28179961 ATACTGTGGCAGAGCCACCAAAACAGAT
1 ATAC-GTGGCAAAGCCACTAAAACAGAT
** *
28179989 ATTTGTGGCATAGCCACTAGAAACAGAT
1 ATACGTGGCAAAGCCACTA-AAACAGAT
*
28180017 A-ACGTGGCAAAGCCACT-TAACAGA-
1 ATACGTGGCAAAGCCACTAAAACAGAT
28180041 ATACGTGGCA
1 ATACGTGGCA
28180051 CAAAGCCATC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.02
25 14 0.27
27 26 0.50
28 11 0.21
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
ATACGTGGCAAAGCCACTAAAACAGAT
Found at i:28180656 original size:27 final size:27
Alignment explanation
Indices: 28180612--28180924 Score: 396
Period size: 27 Copynumber: 11.6 Consensus size: 27
28180602 TTTACCCCGA
* *
28180612 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
28180639 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
28180666 GGGTATTTTAGTAAATCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
28180693 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
28180720 GGGTATTTC-GATAATTCTATCTTACAA
1 GGGTATTTCAG-TAATTCTACCCTACAG
*
28180747 GGGTATTTC-GATAATTCTACCTTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
* *
28180774 AGGTATTTCAGTAATTCTACCCTAAAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
28180801 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
28180828 AGGTATTTCAGTAATTCTACCCTAAAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
28180855 GGGTATTTCGGTAATTCTAACTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
28180882 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
28180909 AGGTATTTCAGAAATT
1 GGGTATTTCAGTAATT
28180925 TTATAATCGA
Statistics
Matches: 248, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 246 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:28180968 original size:27 final size:27
Alignment explanation
Indices: 28180921--28180985 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
28180911 GTATTTCAGA
*
28180921 AATTTTAT-AATCGACGGTATTTTGAT
1 AATTTTATAAATCGACGGTATTTGGAT
*
28180947 AATTTTATAAATCGA-GGATATTTGGGT
1 AATTTTATAAATCGACGG-TATTTGGAT
28180974 AATTTTATAAAT
1 AATTTTATAAAT
28180986 TTACACTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 10 0.29
27 25 0.71
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (27 bp):
AATTTTATAAATCGACGGTATTTGGAT
Found at i:28182993 original size:6 final size:6
Alignment explanation
Indices: 28182963--28183050 Score: 72
Period size: 6 Copynumber: 14.3 Consensus size: 6
28182953 AAGAAGCATT
* * * *
28182963 ATCAGA A-CTAGA ATCAAA ATAAGA ATTAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
28183012 ATCAGA ATCAGT ATCAGA TAACAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA ATCAGA AT
28183051 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 2 0.03
6 53 0.82
7 9 0.14
8 1 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:28183018 original size:25 final size:25
Alignment explanation
Indices: 28182984--28183050 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
28182974 AATCAAAATA
* * *
28182984 AGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGATAAC
*
28183009 AGAATCAGAATCAGTATCAGATAAC
1 AGAATCAGAATCAGAATCAGATAAC
28183034 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
28183051 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGATAAC
Found at i:28184947 original size:40 final size:39
Alignment explanation
Indices: 28184779--28184949 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
28184769 AGAAATTGAA
* *
28184779 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
28184819 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
28184859 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
28184899 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
28184939 TGATATCCGGG
1 TGATATCCGGG
28184950 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:28192954 original size:40 final size:39
Alignment explanation
Indices: 28192786--28192956 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
28192776 AGAAATTGAA
* *
28192786 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
28192826 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
28192866 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
28192906 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
28192946 TGATATCCGGG
1 TGATATCCGGG
28192957 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Done.