Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 305 of 328
Found at i:90757317 original size:43 final size:43
Alignment explanation
Indices: 90757257--90757420 Score: 144
Period size: 41 Copynumber: 3.8 Consensus size: 43
90757247 CACACATATC
* * * *
90757257 ATACAATGCCAAC-GTCCCAGACGTGATCTTACATGTAATCAC
1 ATACGATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCAA
*
90757299 ATATCGATGCC-ACTGTCCCAGACAG-GGTCTCACACG-AATCAA
1 ATA-CGATGCCAACTGTCCCAGAC-GTGGTCTTACACGTAATCAA
* * *
90757341 ATACGATGCCGA-TGTCCCAGACATGGTCTTACACGTAACCATA
1 ATACGATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCA-A
*
90757384 TATATCGATACCAAC-GTCCCA-AGCGTGGTCTTACACG
1 -ATA-CGATGCCAACTGTCCCAGA-CGTGGTCTTACACG
90757421 AGACCACATA
Statistics
Matches: 100, Mismatches: 11, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
41 27 0.27
42 18 0.18
43 24 0.24
44 5 0.05
45 26 0.26
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATACGATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCAA
Found at i:90758908 original size:2 final size:2
Alignment explanation
Indices: 90758901--90758944 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
90758891 ACAATTTAGT
90758901 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
90758943 CA
1 CA
90758945 TATTTTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:90764244 original size:35 final size:38
Alignment explanation
Indices: 90764200--90764272 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 38
90764190 GAGGGTTTAT
*
90764200 TCTTGAGA-TTTGGGTAGAAACCTTAAG-GAG-TTGTA
1 TCTTAAGATTTTGGGTAGAAACCTTAAGAGAGATTGTA
* * *
90764235 TCTTAAGATTTTTGGTATAAATCTTAAGAGAGATTGTA
1 TCTTAAGATTTTGGGTAGAAACCTTAAGAGAGATTGTA
90764273 AAGTTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 7 0.23
36 16 0.52
37 3 0.10
38 5 0.16
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (38 bp):
TCTTAAGATTTTGGGTAGAAACCTTAAGAGAGATTGTA
Found at i:90770546 original size:26 final size:26
Alignment explanation
Indices: 90770517--90770650 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
90770507 TGGTACAAAT
90770517 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
90770543 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90770569 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90770595 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90770621 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90770647 TGAT
1 TGAT
90770651 GGGCATTTCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90777065 original size:46 final size:47
Alignment explanation
Indices: 90776989--90777207 Score: 143
Period size: 46 Copynumber: 4.7 Consensus size: 47
90776979 GGGGTAGGGT
* *
90776989 GCCGATGCCATATCCCAGATATAGTCTTACACTGACTATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGTAG
* * *
90777037 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-T-ATGTCTTAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGT-AG
* * * *
90777083 GCTGACGCATGTCCC-GAACATGTCTTACACT-AGC-ACTCGTCTCG-AT
1 GCCGATGCATGTCCCAG-ACATGTCTTACACTGA-CTA-TCATCTCGTAG
* * * *
90777129 GCCGATTCCATGTCCCAGACATGGTCTTACA-TAGGCTCTCATAAT-GT-G
1 GCCGA-TGCATGTCCCAGACAT-GTCTTACACT-GACTATCAT-CTCGTAG
* *
90777177 ACCGATGCATGACCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
90777208 AGCCCACAAT
Statistics
Matches: 132, Mismatches: 23, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
44 5 0.04
45 3 0.02
46 54 0.41
47 41 0.31
48 28 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGTAG
Found at i:90781138 original size:16 final size:17
Alignment explanation
Indices: 90781088--90781144 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
90781078 AGGTGAGGAG
*
90781088 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-TGGGG-AAA
90781107 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTTGGGGAAA
90781124 TAAAAG-TTTGAGGGAAA
1 TAAAAGTTTTG-GGGAAA
90781141 TAAA
1 TAAA
90781145 TAGGGGGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 4 0.12
16 8 0.24
17 9 0.26
19 5 0.15
20 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (17 bp):
TAAAAGTTTTGGGGAAA
Found at i:90781573 original size:9 final size:9
Alignment explanation
Indices: 90781559--90781591 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
90781549 AATCGAGTTG
90781559 ACTCGAATA
1 ACTCGAATA
*
90781568 ACTCGATTA
1 ACTCGAATA
90781577 ACTCGAATA
1 ACTCGAATA
90781586 ACTCGA
1 ACTCGA
90781592 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:90781582 original size:18 final size:18
Alignment explanation
Indices: 90781559--90781593 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
90781549 AATCGAGTTG
90781559 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
90781577 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
90781594 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:90783879 original size:64 final size:64
Alignment explanation
Indices: 90783799--90783949 Score: 185
Period size: 64 Copynumber: 2.4 Consensus size: 64
90783789 ATCCAAGTCG
* * * * * *
90783799 TGTGACTCACTTTTTGTGATTTAGAAATCATATAGGCCAAAGACACGGGCATTTGTCTAGGCTA
1 TGTGACTCACTATTTGTGATTTAGAAATCACACAGGCCAAAGACACAGGCATGTGTCCAGGCTA
* * * * * *
90783863 TGTGACTCACTGTTTGTGATTTAGAGATCACACAGGCCAGAGACACAGGTATGTGTCCAGGTTG
1 TGTGACTCACTATTTGTGATTTAGAAATCACACAGGCCAAAGACACAGGCATGTGTCCAGGCTA
*
90783927 TATGACTCACTATTTGTGATTTA
1 TGTGACTCACTATTTGTGATTTA
90783950 AGACCACATG
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (64 bp):
TGTGACTCACTATTTGTGATTTAGAAATCACACAGGCCAAAGACACAGGCATGTGTCCAGGCTA
Found at i:90784400 original size:22 final size:23
Alignment explanation
Indices: 90784363--90784422 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
90784353 ACCCTAAATA
90784363 GTGTGTTGCGATGGTCGAAGATG
1 GTGTGTTGCGATGGTCGAAGATG
*
90784386 GTGTGTTG-GATGGTCGGAGATG
1 GTGTGTTGCGATGGTCGAAGATG
*
90784408 GTGTGTAGCGGATGG
1 GTGTGTTGC-GATGG
90784423 GGGTAGGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 20 0.61
23 8 0.24
24 5 0.15
ACGTcount: A:0.15, C:0.07, G:0.48, T:0.30
Consensus pattern (23 bp):
GTGTGTTGCGATGGTCGAAGATG
Found at i:90785951 original size:19 final size:19
Alignment explanation
Indices: 90785927--90786013 Score: 151
Period size: 19 Copynumber: 4.7 Consensus size: 19
90785917 AATATTTAAG
90785927 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
90785946 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
90785965 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90785982 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90786001 GATATGCAATCTT
1 GATATGCAATCTT
90786014 GAAGATATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.25
19 48 0.75
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:90786003 original size:36 final size:37
Alignment explanation
Indices: 90785927--90786013 Score: 140
Period size: 36 Copynumber: 2.3 Consensus size: 37
90785917 AATATTTAAG
90785927 GATATGCAATCTTAGATATGATATGCAATATTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATATTAGATAT
*
90785965 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATATTAGATAT
90786001 GATATGCAATCTT
1 GATA-GCAATCTT
90786014 GAAGATATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 35 0.76
38 11 0.24
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATATTAGATAT
Found at i:90793009 original size:11 final size:12
Alignment explanation
Indices: 90792990--90793046 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
90792980 CTTCTATTTC
90792990 AAAGAAAAAA-A
1 AAAGAAAAAAGA
*
90793001 AAGGAAAAAAGA
1 AAAGAAAAAAGA
*
90793013 AAAGAAAAAGGA
1 AAAGAAAAAAGA
*
90793025 AAA-AAATAAAAA
1 AAAGAAA-AAAGA
*
90793037 AAATAAAAAA
1 AAAGAAAAAA
90793047 ATGGAGAGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 12 0.32
12 23 0.61
13 3 0.08
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:90793022 original size:19 final size:18
Alignment explanation
Indices: 90792990--90793039 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
90792980 CTTCTATTTC
90792990 AAAGAAAAAAAAAGGAAA
1 AAAGAAAAAAAAAGGAAA
90793008 AAAGAAAAGAAAAAGGAAA
1 AAAGAAAA-AAAAAGGAAA
90793027 AAA-ATAAAAAAAA
1 AAAGA-AAAAAAAA
90793040 TAAAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAGAAAAAAAAAGGAAA
Found at i:90794130 original size:84 final size:84
Alignment explanation
Indices: 90793989--90795102 Score: 1653
Period size: 84 Copynumber: 13.3 Consensus size: 84
90793979 CAGAATTCAG
*
90793989 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
90794054 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
90794073 CGCCTTAATCCCCTAAGCAGTGGGGTAACAGGTTAAATTTGCAGATTTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794138 GTGGAGCAGATCAAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
90794157 CGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCTTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
90794222 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * * *
90794241 CGCCTTAATCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
90794306 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
90794325 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794385 GCGGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
90794407 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794472 GTGGAGCAAATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
90794491 CGCCTTAATCCCCTAAGGAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794556 ATGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* **
90794575 CGCCTTAAT-CCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAATAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794639 GTGGAGCAAATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
90794658 CGTCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794723 GTGAAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* ** *
90794742 CACCTTAATCCCCTAAGTGGTAGGGTAACAGGTTAAATTTGGAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
90794807 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
90794826 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
90794886 GCGGAGCAGATTGACGATGACT
66 GTGGAGCAGA-T--CGAAGACT
* * *
90794908 CGCCTTAATCCCCTAAACAGTAGGGTAACAAGTTAAATTTGCAGATCTTATCTCCCTGAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794973 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
* * *
90794992 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAACTTGTAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
90795055 GCGGAGCAAATCGAAGACGAT
66 GTGGAGCAGATCGAAGAC--T
*
90795076 -GCATCTTAACCCCCTAAGCAGTAGGGT
1 CGC--CTTAATCCCCTAAGCAGTAGGGT
90795103 CCAAGATGAT
Statistics
Matches: 935, Mismatches: 74, Indels: 41
0.89 0.07 0.04
Matches are distributed among these distances:
79 72 0.08
80 1 0.00
81 1 0.00
82 101 0.11
83 80 0.09
84 584 0.62
85 22 0.02
86 1 0.00
87 73 0.08
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:90794932 original size:501 final size:502
Alignment explanation
Indices: 90793989--90795102 Score: 1840
Period size: 501 Copynumber: 2.2 Consensus size: 502
90793979 CAGAATTCAG
*
90793989 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
90794054 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTGGGGTAACAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
* * *
90794119 TTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
131 CTTATCTCCCTAAACAGTAGTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
* * * *
90794184 ATAGGTTAAATTTGCAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACTCGCCTTAA
196 ATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACTCACCTTAA
90794249 TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
261 TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
90794314 GATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAA
326 GATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAA
* *
90794379 GCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
391 GCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAACAGTAGGGTAACAAGTTAAA
*
90794444 TTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACT
456 TTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACC
* * *
90794491 CGCCTTAATCCCCTAAGGAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
90794556 ATGGAGCAGATCGAAGACTCGCCTTAAT-CCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
* * *
90794620 CTTATCTCCCTAAATAGTAGTGGAGCAAATCGAAGACTCGTCTTAATCCCCTAAGCAGTAGGGTA
131 CTTATCTCCCTAAACAGTAGTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
90794685 ATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACTCACCTTAA
196 ATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACTCACCTTAA
* * ** *
90794750 TCCCCTAAGTGGTAGGGTAACAGGTTAAATTTGGAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
261 TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
90794815 GATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAA
326 GATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAA
* * *
90794880 GTAGTAGCGGAGCAGATTGACGATGACTCGCCTTAATCCCCTAAACAGTAGGGTAACAAGTTAAA
391 GCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAACAGTAGGGTAACAAGTTAAA
* *
90794945 TTTGCAGATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGACC
456 TTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACC
* * *
90794992 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAACTTGTAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * *
90795055 GCGGAGCAAATCGAAGACGAT-GCATCTTAACCCCCTAAGCAGTAGGGT
66 GTGGAGCAGATCGAAGAC--TCGC--CTTAATCCCCTAAGCAGTAGGGT
90795103 CCAAGATGAT
Statistics
Matches: 568, Mismatches: 39, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
499 27 0.05
500 2 0.00
501 430 0.76
502 93 0.16
503 16 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (502 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
CTTATCTCCCTAAACAGTAGTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
ATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACTCACCTTAA
TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
GATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAA
GCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAACAGTAGGGTAACAAGTTAAA
TTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACC
Found at i:90795865 original size:19 final size:19
Alignment explanation
Indices: 90795841--90795919 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
90795831 AATCTTTAAG
90795841 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
90795860 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
90795879 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90795896 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
90795917 GAT
1 GAT
90795920 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
21 9 0.17
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:90795888 original size:36 final size:37
Alignment explanation
Indices: 90795847--90795919 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
90795837 TAAGGATATG
90795847 CAATCTTAGATATGATATGCAATATT-AGATATGATA
1 CAATCTTAGATATGATATGCAATATTAAGATATGATA
*
90795883 CAATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATGATATGCAATATT-AAGATATGAT
90795920 CTTGTAATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
38 9 0.26
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATATTAAGATATGATA
Found at i:90797778 original size:44 final size:44
Alignment explanation
Indices: 90797715--90797800 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
90797705 TAGTGCCATG
*
90797715 TATGTCTTCTTATAAAACAAACTAGGTTATCTTTTCCAATAATA
1 TATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCCAATAATA
*
90797759 TATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCTAATAA
1 TATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCCAATAA
90797801 GTAAAACTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (44 bp):
TATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCCAATAATA
Found at i:90799031 original size:26 final size:27
Alignment explanation
Indices: 90798994--90799056 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
90798984 GAGAGGGAGT
*
90798994 GTTGAAGAGATAATCATCAA-TTAGTTA
1 GTTGAAGAGATAACCAT-AAGTTAGTTA
90799021 -TTGAAGAGATAACCATAAGTTAGTTA
1 GTTGAAGAGATAACCATAAGTTAGTTA
90799047 GTT-AAGAGAT
1 GTTGAAGAGAT
90799057 GATAGTTGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 2 0.06
26 29 0.88
27 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GTTGAAGAGATAACCATAAGTTAGTTA
Found at i:90803705 original size:14 final size:13
Alignment explanation
Indices: 90803683--90803756 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 13
90803673 GATTTATGAT
90803683 TTTAGGGTTTATGG
1 TTTA-GGTTTATGG
90803697 TTTATGGTTTAAT-G
1 TTTA-GGTTT-ATGG
* *
90803711 TTTAGTATTTAGGG
1 TTTAG-GTTTATGG
*
90803725 TTTAGAGTTTAATGT
1 TTTAG-GTTT-ATGG
90803740 TTTAAGGTTTATGG
1 TTT-AGGTTTATGG
90803754 TTT
1 TTT
90803757 GGAGTTTAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
13 2 0.04
14 32 0.68
15 11 0.23
16 2 0.04
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (13 bp):
TTTAGGTTTATGG
Found at i:90803799 original size:57 final size:57
Alignment explanation
Indices: 90803682--90803803 Score: 133
Period size: 57 Copynumber: 2.1 Consensus size: 57
90803672 TGATTTATGA
* * * *
90803682 TTTTAGGGTTTATGGTTTATGGTTTAATGTTTAGTATTTAGGGTTTAGAGTTTAATG
1 TTTTAAGGTTTATGGTTTAGGGTTTAATGTTTAGTAGTTAGGGTTTAGAGTTTAAGG
* * *
90803739 TTTTAAGGTTTATGGTTT-GGAGTTTAGTGTGTT-GTAGTTAGGGTCTTAGTG-TTAGGG
1 TTTTAAGGTTTATGGTTTAGG-GTTTAATGT-TTAGTAGTTAGGGT-TTAGAGTTTAAGG
90803796 TTTTAAGG
1 TTTTAAGG
90803804 GTCAAGGTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.02
57 47 0.85
58 7 0.13
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (57 bp):
TTTTAAGGTTTATGGTTTAGGGTTTAATGTTTAGTAGTTAGGGTTTAGAGTTTAAGG
Found at i:90803937 original size:7 final size:7
Alignment explanation
Indices: 90803927--90804014 Score: 59
Period size: 7 Copynumber: 12.6 Consensus size: 7
90803917 GTAATATATA
90803927 TAGGGTT
1 TAGGGTT
90803934 TAGGGTT
1 TAGGGTT
* *
90803941 TATGGTG
1 TAGGGTT
**
90803948 TATAGTT
1 TAGGGTT
90803955 TAGGGTT
1 TAGGGTT
*
90803962 TAGGATT
1 TAGGGTT
* *
90803969 TAAGATT
1 TAGGGTT
* *
90803976 TAGTGTA
1 TAGGGTT
**
90803983 TATAGTT
1 TAGGGTT
*
90803990 TAGGGTC
1 TAGGGTT
*
90803997 TAGGCTT
1 TAGGGTT
90804004 TAGGGTT
1 TAGGGTT
90804011 TAGG
1 TAGG
90804015 AATAAAATTC
Statistics
Matches: 60, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (7 bp):
TAGGGTT
Found at i:90804013 original size:35 final size:36
Alignment explanation
Indices: 90803927--90804013 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 36
90803917 GTAATATATA
* * *
90803927 TAGGGTTTAGGGTTTA-TGGTGTATAGTTTAGGGTT
1 TAGGATTTAGGGTTTAGTGGTATATAGTTTAGGGTC
* *
90803962 TAGGATTTAAGATTTAGT-GTATATAGTTTAGGGTC
1 TAGGATTTAGGGTTTAGTGGTATATAGTTTAGGGTC
*
90803997 TAGGCTTTAGGGTTTAG
1 TAGGATTTAGGGTTTAG
90804014 GAATAAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (36 bp):
TAGGATTTAGGGTTTAGTGGTATATAGTTTAGGGTC
Found at i:90807490 original size:25 final size:25
Alignment explanation
Indices: 90807448--90807506 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
90807438 TGAAGTATTA
* *
90807448 TTTTG-ATTTGCTGTTTTTGATTGG
1 TTTTGTATTTACTGCTTTTGATTGG
*
90807472 TTTTGTATTTACTGCTTTTGGTTGG
1 TTTTGTATTTACTGCTTTTGATTGG
*
90807497 ATTTGTATTT
1 TTTTGTATTT
90807507 GTTATTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.10, C:0.05, G:0.22, T:0.63
Consensus pattern (25 bp):
TTTTGTATTTACTGCTTTTGATTGG
Found at i:90808546 original size:15 final size:17
Alignment explanation
Indices: 90808526--90808562 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
90808516 TATTTATTCC
90808526 TATATT-TA-GCATATA
1 TATATTATATGCATATA
*
90808541 TATATTATATGTATATA
1 TATATTATATGCATATA
90808558 TATAT
1 TATAT
90808563 GATTAGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 2 0.11
17 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
TATATTATATGCATATA
Found at i:90821036 original size:17 final size:18
Alignment explanation
Indices: 90821016--90821057 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
90821006 AAAGAACTCA
*
90821016 AAAGGAAAG-AGACAAAG
1 AAAGGAAAGAAGAAAAAG
90821033 AAA-GAAAGAAGAAAAAG
1 AAAGGAAAGAAGAAAAAG
90821050 AAAGGAAA
1 AAAGGAAA
90821058 AAAAAGAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 13 0.59
18 4 0.18
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.00
Consensus pattern (18 bp):
AAAGGAAAGAAGAAAAAG
Found at i:90821047 original size:29 final size:26
Alignment explanation
Indices: 90821015--90821078 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
90821005 AAAAGAACTC
*
90821015 AAAAGGAAAGAGACAAAGAAAGAAAGAAG
1 AAAAGGAAAG-GA-AAAAAAAGAAAG-AG
* *
90821044 AAAAAGAAAGGAAAAAAAAGAGAGAG
1 AAAAGGAAAGGAAAAAAAAGAAAGAG
*
90821070 AAATGGAAA
1 AAAAGGAAA
90821079 AGCAGGGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 9 0.30
27 10 0.33
28 2 0.07
29 9 0.30
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (26 bp):
AAAAGGAAAGGAAAAAAAAGAAAGAG
Found at i:90831841 original size:15 final size:15
Alignment explanation
Indices: 90831786--90831842 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
90831776 TTTATACTAC
90831786 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
90831801 AATATACTTATAATTGTA
1 AAAATA-TT-T-ATTATT
90831819 ATAAATATTTATTATT
1 A-AAATATTTATTATT
90831835 AAAATATT
1 AAAATATT
90831843 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 12 0.38
16 7 0.22
17 2 0.06
18 7 0.22
19 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:90831904 original size:16 final size:16
Alignment explanation
Indices: 90831873--90831909 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
90831863 ATGTGAAGAA
90831873 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
90831889 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
90831905 TATTA
1 TATTA
90831910 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:90832386 original size:36 final size:36
Alignment explanation
Indices: 90832346--90832489 Score: 105
Period size: 36 Copynumber: 3.9 Consensus size: 36
90832336 GTTATTTTTG
*
90832346 GCAGGAAATCTCTCTTGTTCATTTTGTCTTTGCTCT
1 GCAGGAAATCTCTCCTGTTCATTTTGTCTTTGCTCT
* * * * ** *
90832382 GCAGGGAATCTC-ACTATTCATTCT-TAGTTGCTTTT
1 GCAGGAAATCTCTCCTGTTCATTTTGTCTTTGC-TCT
* *
90832417 GGCAGGAAATCACTCCTGTTCATTTCTGCCTTTGCTCT
1 -GCAGGAAATCTCTCCTGTTCATTT-TGTCTTTGCTCT
* * *
90832455 ACAGG-AATCTCCCCTGTTCATCTTTTGTTTTTGCT
1 GCAGGAAATCTCTCCTGTTCA--TTTTGTCTTTGCT
90832490 TTCATTCATC
Statistics
Matches: 79, Mismatches: 22, Indels: 13
0.69 0.19 0.11
Matches are distributed among these distances:
34 5 0.06
35 10 0.13
36 34 0.43
37 20 0.25
38 6 0.08
39 4 0.05
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (36 bp):
GCAGGAAATCTCTCCTGTTCATTTTGTCTTTGCTCT
Found at i:90832402 original size:72 final size:72
Alignment explanation
Indices: 90832313--90832465 Score: 209
Period size: 72 Copynumber: 2.1 Consensus size: 72
90832303 AATTTTTGAA
* * * * * * *
90832313 AGGAATCTTACTGTTCATTCTTGGTTATTTTTGGCAGGAAATCTCTCTTGTTCATTT-TGTCTTT
1 AGGAATCTCACTATTCATTCTTAGTTACTTTTGGCAGGAAATCACTCCTGTTCATTTCTGCCTTT
*
90832377 GCTCTGC
66 GCTCTAC
*
90832384 AGGGAATCTCACTATTCATTCTTAGTTGCTTTTGGCAGGAAATCACTCCTGTTCATTTCTGCCTT
1 A-GGAATCTCACTATTCATTCTTAGTTACTTTTGGCAGGAAATCACTCCTGTTCATTTCTGCCTT
90832449 TGCTCTAC
65 TGCTCTAC
90832457 AGGAATCTC
1 AGGAATCTC
90832466 CCCTGTTCAT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
71 1 0.01
72 57 0.80
73 13 0.18
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (72 bp):
AGGAATCTCACTATTCATTCTTAGTTACTTTTGGCAGGAAATCACTCCTGTTCATTTCTGCCTTT
GCTCTAC
Found at i:90838949 original size:47 final size:47
Alignment explanation
Indices: 90838885--90838995 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
90838875 GACATTGAGT
*
90838885 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
90838932 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
90838979 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
90838996 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:90849323 original size:44 final size:44
Alignment explanation
Indices: 90849227--90849327 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 44
90849217 TTTAGCCACC
*
90849227 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
1 AGTCTTATCTCCCTGAAGTTGCA-TGGAGCAGACTGAAAATAGCA
* *
90849272 AGTCTTATCTTCCTGAAGTTGC-TGGAAGCAGATTGAAAATTA-C-
1 AGTCTTATCTCCCTGAAGTTGCATGG-AGCAGACTGAAAA-TAGCA
90849315 AGATCTTATCTCC
1 AG-TCTTATCTCC
90849328 ATGTATCGGC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
43 5 0.10
44 21 0.43
45 23 0.47
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCATGGAGCAGACTGAAAATAGCA
Found at i:90849342 original size:178 final size:177
Alignment explanation
Indices: 90848951--90849468 Score: 677
Period size: 178 Copynumber: 2.9 Consensus size: 177
90848941 GTGACATAGG
* *
90848951 TGAAAATTACAGATCTTATCTCCATGTATTGGCTATGGAGCGGATCGAAGATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* * * * *
90849016 TCCATGTATCAGCTATGGAGTAGATTTTAGCCACTAACCTTATCTCTCTG-AGTTTGCAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAG-TTGCAGTGGAG
** *
90849079 CAGGTTAAAGATACAGGTCTTATCTTCCTGAAGTTGTAGAAAGCAGAA
130 CAGACTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGAAAGCAGAA
* * * * *
90849127 TGAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGTGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* *
90849192 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
* * *
90849257 AGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCT-GGAAGCAGAT
131 AGACTAAAGATA-CAAGTCTTATCTTCCTGAAGTTG-TAGAAAGCAGAA
*
90849305 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* * * *
90849370 TCCATGTATCGG-TAATGGAGCAGATTTAAGGCACTAGCCTTATCTCCCTAAAGTTGCAATGGAG
66 TCCATGTATCGGCT-ATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
90849434 TAGGCTCAAA-ATTACAAATTTTATCTTCCCGAAGT
130 CAGACT-AAAGA-TACAAGTCTTATCTTCCTGAAGT
90849469 CGCAATGAAG
Statistics
Matches: 297, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
176 108 0.36
177 16 0.05
178 168 0.57
179 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (177 bp):
TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
AGACTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGAAAGCAGAA
Found at i:90849412 original size:89 final size:87
Alignment explanation
Indices: 90849135--90849416 Score: 218
Period size: 89 Copynumber: 3.2 Consensus size: 87
90849125 AATGAAAGTT
* * * *
90849135 ACAGATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTA
1 ACAG-TCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
*
90849200 TCGGCTATGGAGCAGATTTTAGCC
65 TCGG-TATGGAGCAGATTTAAGCC
* * * *
90849224 ACCAGTCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGA-CTGAAGATAGC-AAGTCTTATCTTCC
1 A-CAGTCTTATCTCCATGTA-TCAGCTA-TGGAGCAGATC-GAAGATGGCGAA-TCTTATC-TCC
* * * * ***
90849285 -TG-A-AGTTGCTGGAAGCAGATTGAAAATT
60 ATGTATCGGT-ATGG-AGCAGATT-TAAGCC
*
90849313 ACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
1 ACAG-TCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
*
90849378 TCGGTAATGGAGCAGATTTAAGGC
65 TCGGT-ATGGAGCAGATTTAAGCC
*
90849402 ACTAGCCTTATCTCC
1 AC-AGTCTTATCTCC
90849417 CTAAAGTTGC
Statistics
Matches: 146, Mismatches: 29, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
86 1 0.01
87 4 0.03
88 19 0.13
89 95 0.65
90 22 0.15
91 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (87 bp):
ACAGTCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAT
CGGTATGGAGCAGATTTAAGCC
Found at i:90855842 original size:2 final size:2
Alignment explanation
Indices: 90855835--90855865 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
90855825 AGTGATCAAT
90855835 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 T
90855866 TATCAACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90862473 original size:40 final size:40
Alignment explanation
Indices: 90862417--90862503 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 40
90862407 TAAACTTTAA
*
90862417 TTTATTTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
1 TTTA-TTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
* *
90862458 TTTATTAAACTCATCTTAGTTAATTATTGATTTGCTAGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
90862498 TTTATT
1 TTTATT
90862504 TTTATTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.48
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
Found at i:90865437 original size:29 final size:29
Alignment explanation
Indices: 90865404--90865535 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
90865394 GTGACGAGAT
90865404 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
90865433 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
90865462 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
90865491 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
90865520 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
90865536 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:90872783 original size:29 final size:29
Alignment explanation
Indices: 90872750--90872881 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
90872740 GTGACGAGAT
90872750 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
90872779 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
90872808 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
90872837 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
90872866 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
90872882 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:90884740 original size:68 final size:68
Alignment explanation
Indices: 90884652--90884910 Score: 374
Period size: 68 Copynumber: 3.8 Consensus size: 68
90884642 AGATCTCCTA
* *
90884652 AAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTTCTTT
1 AAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTTATTT
90884717 CTG
66 CTG
* * * * *
90884720 AAATGGTGTTGGATCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGGATCTCTTTTTT
1 AAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTTATTT
90884785 CTG
66 CTG
* * **
90884788 AAGTGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTTATCC
1 AAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTTATTT
*
90884853 CTA
66 CTG
* * * *
90884856 AAATGGCGTTGGAACGGCTAAAAGTCACAGCATATTTCCTTGAAGTTTCAGCGGA
1 AAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGA
90884911 AGAAGATCAA
Statistics
Matches: 171, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 171 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (68 bp):
AAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTTATTT
CTG
Found at i:90885121 original size:23 final size:23
Alignment explanation
Indices: 90885090--90885135 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
90885080 AAGTTGCAGT
* *
90885090 AAAGTAGATCAAAATAGATCTTA
1 AAAGCAGATCAAAACAGATCTTA
90885113 AAAGCAGATCAAAACAGATCTTA
1 AAAGCAGATCAAAACAGATCTTA
90885136 TCTCTCTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (23 bp):
AAAGCAGATCAAAACAGATCTTA
Found at i:90885236 original size:45 final size:45
Alignment explanation
Indices: 90885179--90885301 Score: 156
Period size: 45 Copynumber: 2.7 Consensus size: 45
90885169 TACAAGTCTT
* * *
90885179 ATCTCCTTGAAGTTACAGTGGAGCAGACTGAAGATAACAAACCTC
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
* ** * *
90885224 ATCTCCCTGAAGTTGCAGTGGAACAGAATGAAGATAGGAAATCTT
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
* *
90885269 ATTTCCCTGAAGTTACAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAG
90885302 CTAAATTACA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (45 bp):
ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
Found at i:90886810 original size:3 final size:3
Alignment explanation
Indices: 90886802--90886903 Score: 53
Period size: 3 Copynumber: 33.3 Consensus size: 3
90886792 AGTCTTAAGA
* * * * * * *
90886802 TAT TAT TAT TAT TAT TAT CAT CAT TGT TAC TGT TTT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
90886850 CAT TGT TAA TAT TAT TTT TCAT GTAT ATAT TAT TAT TA- TGT TAT TGT
1 TAT TAT TAT TAT TAT TAT T-AT -TAT -TAT TAT TAT TAT TAT TAT TAT
90886897 TAT TAT T
1 TAT TAT T
90886904 TACATGTTAT
Statistics
Matches: 72, Mismatches: 24, Indels: 6
0.71 0.24 0.06
Matches are distributed among these distances:
2 1 0.01
3 64 0.89
4 6 0.08
5 1 0.01
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:90887307 original size:3 final size:3
Alignment explanation
Indices: 90887299--90887709 Score: 106
Period size: 3 Copynumber: 138.0 Consensus size: 3
90887289 TTTACTTAAC
* * * *
90887299 TAT TAT TAT TAT TAA TAT TAC TAA TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
90887347 TAT TATT TGT TAGT TA- TAT TAC TAT TAT TGT TA- TATT TAT TCT TAC
1 TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * *** * * * * * *
90887393 TAT TAT TAC TAT TAC CGC TAC TAT GAT TTT TAT TAA CA- TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
90887440 TA- TAT T-T TAC CA- TAT TTT TAT T-T CCTAT CTTT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT -TAT TAT -TAT TAT TAT
* * * * *
90887485 TGA- TAT TAA CAT ATAT TAT TAT TAA T-T TAC TAT TAGT T-T CACT T-T
1 T-AT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
* *
90887530 TAT TAT TAT TAT TAC TA- TAT TAT TAT TGT TAT TAT TAT T-T TCCAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T--AT
* * * * * * *
90887575 TAT TAA TAC TAA TAT TAAT T-T TCT TAT TAT TAT TAG TAT CA- TAGG
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * *
90887620 TAT TA- TAT TAC TAT TAT TAT TGT TAT TAT TAT TAT CGTCT T-T CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT
* * * * *
90887664 TAT TAT TCT T-T TAT CAC TAT T-T TAT TAT CAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90887710 CGTTTTCGTT
Statistics
Matches: 292, Mismatches: 80, Indels: 72
0.66 0.18 0.16
Matches are distributed among these distances:
2 31 0.11
3 231 0.79
4 25 0.09
5 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:90887691 original size:14 final size:15
Alignment explanation
Indices: 90887674--90887706 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
90887664 TATTATTCTT
*
90887674 TTATCACTATT-TTA
1 TTATCAATATTATTA
90887688 TTATCAATATTATTA
1 TTATCAATATTATTA
90887703 TTAT
1 TTAT
90887707 TATCGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATCAATATTATTA
Found at i:90891827 original size:12 final size:12
Alignment explanation
Indices: 90891812--90891838 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
90891802 TTATTTTTCA
90891812 ATTATTTGATTT
1 ATTATTTGATTT
90891824 ATTATTTGATTT
1 ATTATTTGATTT
90891836 ATT
1 ATT
90891839 TATCTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (12 bp):
ATTATTTGATTT
Found at i:90892819 original size:25 final size:25
Alignment explanation
Indices: 90892772--90892820 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
90892762 CTTTTCCACA
*
90892772 TATTATATTTCTTCACCTCCATTTT
1 TATTATATTTCTTCAACTCCATTTT
* * *
90892797 TATTATTTTTCTTGAACTGCATTT
1 TATTATATTTCTTCAACTCCATTT
90892821 ACTCCAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATATTTCTTCAACTCCATTTT
Found at i:90893874 original size:14 final size:15
Alignment explanation
Indices: 90893855--90893883 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
90893845 TAATATTGAA
90893855 AATTTAAA-AATATT
1 AATTTAAATAATATT
90893869 AATTTAAATAATATT
1 AATTTAAATAATATT
90893884 TAAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAAATAATATT
Found at i:90894224 original size:13 final size:13
Alignment explanation
Indices: 90894181--90894227 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
90894171 AAAAAAATTA
*
90894181 AAATATAATTATT
1 AAATTTAATTATT
90894194 AAA-TTAATTTATT
1 AAATTTAA-TTATT
* *
90894207 GAATTTAATTAAT
1 AAATTTAATTATT
90894220 AAATTTAA
1 AAATTTAA
90894228 AATTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 3 0.11
13 21 0.75
14 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
AAATTTAATTATT
Found at i:90899119 original size:165 final size:165
Alignment explanation
Indices: 90898841--90899168 Score: 532
Period size: 165 Copynumber: 2.0 Consensus size: 165
90898831 TTTTAACCAA
* * * * *
90898841 TTTTATATTTAAAACCATGTTTCATGCATATTTAAGCATAATCATAAGTTTGTTTAGTTTCAAAC
1 TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
* *
90898906 GTTTTTGCATGTAATGCAAACTAAAATCAACCAAAAATAACCCATGCCACAATCTAAATAAATTA
66 GTTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCATGCCACAATCCAAATAAATTA
* *
90898971 TTACAATCCCCAAATAGAAATTGTTAAATTAAATT
131 TTACAACCCCCAAATAGAAATTGATAAATTAAATT
90899006 TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
1 TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
*
90899071 GTTTTTGCATGTAATGCAAACTAAAACCAA-CAGAAAATAACTCATGCCACAATCCAAATAAATT
66 GTTTTTGCATGTAATGCAAACTAAAACCAACCA-AAAATAACCCATGCCACAATCCAAATAAATT
* *
90899135 ATTACAGCCCCCAAATAGGAATTGATAAATTAAA
130 ATTACAACCCCCAAATAGAAATTGATAAATTAAA
90899169 GTAAAAATAC
Statistics
Matches: 150, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
164 2 0.01
165 148 0.99
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.33
Consensus pattern (165 bp):
TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
GTTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCATGCCACAATCCAAATAAATTA
TTACAACCCCCAAATAGAAATTGATAAATTAAATT
Found at i:90902132 original size:27 final size:26
Alignment explanation
Indices: 90902084--90902241 Score: 151
Period size: 27 Copynumber: 5.9 Consensus size: 26
90902074 GCGAGGCTGC
* *
90902084 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
* *
90902110 ACAGATATTATGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
* *
90902137 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
90902163 CAGATAATTGTGGCATAGCCACCAGGAT
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
*
90902191 -AGATATATGTGGCAAAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
90902217 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
90902242 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.01
26 30 0.27
27 73 0.66
28 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:90902228 original size:54 final size:53
Alignment explanation
Indices: 90902084--90902244 Score: 234
Period size: 53 Copynumber: 3.0 Consensus size: 53
90902074 GCGAGGCTGC
* * *
90902084 CAGATATTGTGACGAAGTCACCAGATACAGAT-ATTATGGCAGAGCCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
90902137 CAGATATTGTGACGAAGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATTGTGACGAAGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
* * * *
90902190 TAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATAT-TGTGACGAAGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
90902244 C
1 C
90902245 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
52 5 0.05
53 50 0.51
54 43 0.44
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACGAAGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:90903430 original size:36 final size:36
Alignment explanation
Indices: 90903383--90903455 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
90903373 GATTTTACTT
90903383 AAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
1 AAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
90903419 AAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
1 AAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
90903455 A
1 A
90903456 TGTTTGCCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (36 bp):
AAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
Found at i:90905463 original size:3 final size:3
Alignment explanation
Indices: 90905457--90905649 Score: 171
Period size: 3 Copynumber: 64.0 Consensus size: 3
90905447 ACATTTCTAA
* * *
90905457 TAT TAT TAA TAT TAT TAT T-T ATAT TAT TGT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
90905502 TAA TAT TCT TGT TAT TAA CAT TAT TTT TAT TCCT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* *
90905547 T-T T-T TCAT TAA TA- TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
90905590 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAAT GTAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT
90905637 TAGT TAT TAT TAT
1 TA-T TAT TAT TAT
90905650 ATATAATATT
Statistics
Matches: 156, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
2 9 0.06
3 136 0.87
4 10 0.06
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:90905680 original size:22 final size:21
Alignment explanation
Indices: 90905557--90905680 Score: 92
Period size: 18 Copynumber: 6.3 Consensus size: 21
90905547 TTTTTCATTA
*
90905557 ATATAGTA-TTAT-TATTATT
1 ATATATTAGTTATGTATTATT
90905576 AT-TATTA-TTAT-TATTATT
1 ATATATTAGTTATGTATTATT
90905594 AT-TATTA-TTAT-TATTATT
1 ATATATTAGTTATGTATTATT
*
90905612 AT-TATT-TTTAATGTATTATT
1 ATATATTAGTT-ATGTATTATT
*
90905632 AT-TACTAGTTAT-TATTATAT
1 ATATATTAGTTATGTATTAT-T
*
90905652 ATAATATTAGTGTATGTTTTATT
1 AT-ATATTAGT-TATGTATTATT
90905675 ATATAT
1 ATATAT
90905681 GTATATATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
18 41 0.45
19 10 0.11
20 17 0.19
21 2 0.02
22 10 0.11
23 6 0.07
24 5 0.05
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (21 bp):
ATATATTAGTTATGTATTATT
Found at i:90905788 original size:3 final size:3
Alignment explanation
Indices: 90905761--90905802 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
90905751 TTGCTTTTTG
* *
90905761 TTA TTA ATA TTA TTA CTA -TA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
90905803 ATAGTGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:90905836 original size:26 final size:27
Alignment explanation
Indices: 90905786--90905845 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
90905776 CTATATTTAT
*
90905786 TATTATTATTATTATTAATAGTGTATA
1 TATTTTTATTATTATTAATAGTGTATA
90905813 T-TTTTTATTATATATGT-ATA-TGTATA
1 TATTTTTATTAT-TAT-TAATAGTGTATA
90905839 TATTTTT
1 TATTTTT
90905846 GTACATAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 16 0.55
27 12 0.41
28 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.62
Consensus pattern (27 bp):
TATTTTTATTATTATTAATAGTGTATA
Found at i:90906036 original size:27 final size:26
Alignment explanation
Indices: 90905981--90906037 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 26
90905971 GTTCTTATTA
90905981 TTACTATATCTATTATTTATTAGTATT
1 TTACTATATCTATTATTTATTAG-ATT
90906008 TTACTAT-TACTATTATTAGTATTAG-TT
1 TTACTATAT-CTATTATT--TATTAGATT
90906035 TTA
1 TTA
90906038 TTTTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.04
27 20 0.74
29 6 0.22
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (26 bp):
TTACTATATCTATTATTTATTAGATT
Found at i:90906105 original size:17 final size:15
Alignment explanation
Indices: 90906073--90906103 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
90906063 TATATTATGT
90906073 TTTTTTAATACTATA
1 TTTTTTAATACTATA
*
90906088 TTTTTTAATACCATA
1 TTTTTTAATACTATA
90906103 T
1 T
90906104 ATATTGTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTTAATACTATA
Found at i:90906142 original size:25 final size:27
Alignment explanation
Indices: 90906084--90906142 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
90906074 TTTTTAATAC
*
90906084 TATAT-TTTTTAATACCATATATATTG
1 TATATATTCTTAATACCATATATATTG
*
90906110 TGTATATTCTTAATA-C-TATATATTG
1 TATATATTCTTAATACCATATATATTG
*
90906135 TATGTATT
1 TATATATT
90906143 TTTTTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 15 0.54
26 5 0.18
27 8 0.29
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (27 bp):
TATATATTCTTAATACCATATATATTG
Found at i:90906449 original size:25 final size:25
Alignment explanation
Indices: 90906379--90906449 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
90906369 CTTATGAATA
90906379 TATATTATTTTTAATAACTATATTATG
1 TATA-TATTTTTAAT-ACTATATTATG
* * **
90906406 CATGTATTTTTAACGCTATATTATG
1 TATATATTTTTAATACTATATTATG
90906431 TATATATTTTTAATACTAT
1 TATATATTTTTAATACTAT
90906450 GTATACACTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 25 0.69
26 9 0.25
27 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATG
Found at i:90907524 original size:25 final size:24
Alignment explanation
Indices: 90907496--90907563 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
90907486 ATAAATGGGG
90907496 TTTAAAATAAGGTATATAAAAT-AA
1 TTTAAAATAA-GTATATAAAATCAA
*
90907520 TTTTAAAATAAGTAATATATAAGTCAA
1 -TTTAAAATAAGT-ATATA-AAATCAA
90907547 TTTAAAATAA-TATATAA
1 TTTAAAATAAGTATATAA
90907564 CAAGTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 16 0.41
26 13 0.33
27 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (24 bp):
TTTAAAATAAGTATATAAAATCAA
Found at i:90907548 original size:27 final size:24
Alignment explanation
Indices: 90907496--90907576 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
90907486 ATAAATGGGG
90907496 TTTAAAATAAGGTATATAAAATAA
1 TTTAAAATAAGGTATATAAAATAA
*
90907520 TTTTAAAATAA-GTAATATATAAGTCAA
1 -TTTAAAATAAGGT-ATATA-AAAT-AA
* *
90907547 TTTAAAATAA--TATATAACA-AG
1 TTTAAAATAAGGTATATAAAATAA
90907568 TTTAAAATA
1 TTTAAAATA
90907577 TATAATATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
21 10 0.20
23 1 0.02
24 7 0.14
25 16 0.33
26 13 0.27
27 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
TTTAAAATAAGGTATATAAAATAA
Found at i:90907579 original size:20 final size:21
Alignment explanation
Indices: 90907532--90907580 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
90907522 TTAAAATAAG
90907532 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
90907554 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
90907575 T-ATATA
1 TAATATA
90907581 ATATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:90907891 original size:19 final size:19
Alignment explanation
Indices: 90907869--90907931 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
90907859 AGCAAGTTAA
90907869 AATAAATAATAATAATTTG
1 AATAAATAATAATAATTTG
* * **
90907888 AATAAACAGT-A-AATTAAAA
1 AATAAATAATAATAATT--TG
90907907 AATAAATAATAATAATTTG
1 AATAAATAATAATAATTTG
90907926 AATAAA
1 AATAAA
90907932 CAGTAAATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 22 0.69
20 1 0.03
21 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (19 bp):
AATAAATAATAATAATTTG
Found at i:90907915 original size:38 final size:38
Alignment explanation
Indices: 90907867--90907944 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
90907857 AAAGCAAGTT
90907867 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAA
1 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAA
90907905 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAA
1 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAA
90907943 AA
1 AA
90907945 TAAGTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (38 bp):
AAAATAAATAATAATAATTTGAATAAACAGTAAATTAA
Found at i:90909211 original size:11 final size:12
Alignment explanation
Indices: 90909190--90909223 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
90909180 TTTGGACTTT
90909190 TTGGTTTATTTA
1 TTGGTTTATTTA
90909202 TTGG-TTATTTA
1 TTGGTTTATTTA
*
90909213 TTGTTTTATTT
1 TTGGTTTATTT
90909224 GGGATAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (12 bp):
TTGGTTTATTTA
Found at i:90909502 original size:44 final size:44
Alignment explanation
Indices: 90909438--90910074 Score: 594
Period size: 44 Copynumber: 14.4 Consensus size: 44
90909428 CCAATATAAT
* ** *
90909438 TTCAGGGAGA-AGAGACTTGTAGCTTGGATCTACTCCACTGCAAC
1 TTCAGGGAGATA-AGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * ** ** * *
90909482 TTCAGTGAGATGAGATTTGTATTTTCAATCTTTTTCTCTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
90909526 TTCAGGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
* * ** * * *
90909571 TTCAGGGAGATGAGACTAATGGTTTCTATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
90909615 TTCAGGGAGATAAGATTCGTAACTTCAACCTACTCCACTGCAAA
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
90909659 TTCAGGAAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
90909703 TTCAGGGAGATAAGGTTTATGGCTTCAATCTACTCCACTGTAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
** *
90909747 TTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
90909791 TTTAGGGAGATAAGATTTGTAACTTCAACCTGTTCCATTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * *
90909835 TTCAGAGAGATGAGGTTTGTGGCTTCAGTCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
** *
90909879 TTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
90909923 TTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAAT
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* **
90909967 TTCAGGGAGATAAGATTTGTAACTTCAA-CATGCTCCACTATAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATC-TGCTCCACTGCAAC
* * * ** *
90910011 TTCAAGGAGATAAGGTTTGTGGTTTCTTTGATCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAG---CTTCAATCTGCTCCACTGCAAC
90910058 TTCAGGGAGATAAGATT
1 TTCAGGGAGATAAGATT
90910075 CACCATGAGA
Statistics
Matches: 473, Mismatches: 113, Indels: 11
0.79 0.19 0.02
Matches are distributed among these distances:
43 1 0.00
44 409 0.86
45 32 0.07
47 30 0.06
48 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
Found at i:90909690 original size:88 final size:88
Alignment explanation
Indices: 90909467--90910074 Score: 667
Period size: 88 Copynumber: 6.9 Consensus size: 88
90909457 TAGCTTGGAT
* * * *** ** * *
90909467 CTACTCCACTGCAACTTCAGTGAGATGAGATTTGTATTTTCAATCTTTTTCTCTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * * **
90909532 AAAATAAGATTTGCTATCTTCAGT
66 GAGATAAGATTTG-TAACTTCAAC
* ** ** * *
90909556 CTACTCCACTGCAACTTCAGGGAGATGAGACTAATGGTTTCTATCTGCTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
90909621 GAGATAAGATTCGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * *
90909644 CTACTCCACTGCAAATTCAGGAAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * ** *
90909709 GAGATAAGGTTTATGGCTTCAAT
66 GAGATAAGATTTGTAACTTCAAC
* * *** * *
90909732 CTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTTAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
90909797 GAGATAAGATTTGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
** * * * * *
90909820 CTGTTCCATTGCAACTTCAGAGAGATGAGGTTTGTGGCTTCAGTCTACTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
90909885 GAGATAAGATTTGTAATTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * *
90909908 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAATTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
90909973 GAGATAAGATTTGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * ** * ** *
90909996 ATGCTCCACTATAACTTCAAGGAGATAAGGTTTGTGGTTTCTTTGATCTACTCCACTGCAACTTC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGG---CTTCAATCTGCTCCACTGCAACTTC
90910061 AGGGAGATAAGATT
63 AGGGAGATAAGATT
90910075 CACCATGAGA
Statistics
Matches: 435, Mismatches: 81, Indels: 4
0.84 0.16 0.01
Matches are distributed among these distances:
88 337 0.77
89 64 0.15
91 34 0.08
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (88 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGATTTGTAACTTCAAC
Found at i:90909752 original size:132 final size:132
Alignment explanation
Indices: 90909465--90910074 Score: 655
Period size: 132 Copynumber: 4.6 Consensus size: 132
90909455 TGTAGCTTGG
* * * * ** * *
90909465 ATCTACTCCACTGCAACTTCAGTGAGATGAGATTTGTATTTTCAATCTTTTTCTCTGCAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * * * * * * * *
90909530 GGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATGAGACTAATGGTT
66 GGAAGATAAGATTTG-TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTATGGCT
*
90909595 TCT
130 TCA
* * * * *
90909598 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTCAACCTACTCCACTGCAAATTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * *
90909663 GGAAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGTTTATGGCTT
66 GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTATGGCTT
90909728 CA
131 CA
* *
90909730 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * * * * * * * * *
90909795 GGGAGATAAGATTTGTAACTTCAACCTGTTCCATTGCAACTTCAGAGAGATGAGGTTTGTGGCTT
66 GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTATGGCTT
90909860 CA
131 CA
*
90909862 GTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * * * * **
90909927 GGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAATTTCAGGGAGATAAGATTTGTAACTT
66 GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTATGGCTT
90909992 CA
131 CA
* ** * * ** * * *
90909994 A-CATGCTCCACTATAACTTCAAGGAGATAAGGTTTGTGGTTTCTTTGATCTACTCCACTGCAAC
1 ATC-TACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTC---AACCTGCTCCACTGCAAC
*
90910058 TTCAGGGAGATAAGATT
62 TTCAGGAAGATAAGATT
90910075 CACCATGAGA
Statistics
Matches: 402, Mismatches: 71, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
131 1 0.00
132 304 0.76
133 66 0.16
135 31 0.08
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (132 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTATGGCTT
CA
Found at i:90915880 original size:13 final size:13
Alignment explanation
Indices: 90915862--90915888 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
90915852 ACTATGCTTT
90915862 AAAATTTTCAGGA
1 AAAATTTTCAGGA
90915875 AAAATTTTCAGGA
1 AAAATTTTCAGGA
90915888 A
1 A
90915889 TTCCCTAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
AAAATTTTCAGGA
Found at i:90916617 original size:2 final size:2
Alignment explanation
Indices: 90916610--90916637 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
90916600 CGAATTCATT
90916610 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
90916638 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:90916642 original size:2 final size:2
Alignment explanation
Indices: 90916637--90916666 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
90916627 ACACACACAC
90916637 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
90916667 CGTGCCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90916919 original size:39 final size:39
Alignment explanation
Indices: 90916876--90917000 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
90916866 CTTTAACCCA
** *
90916876 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* * *
90916915 GATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
90916954 GATATTTTTCCAGCATATAGCCTGCAGACCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
90916993 GATATTTT
1 GATATTTT
90917001 CAATCTCATA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:90919359 original size:21 final size:21
Alignment explanation
Indices: 90919321--90919368 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
90919311 TTTCTATTAT
*
90919321 TATTTA-TCTATTTATATTTC
1 TATTTATTATATTTATATTTC
*
90919341 TATTTATTATATTTTTATTTC
1 TATTTATTATATTTATATTTC
90919362 TATTTAT
1 TATTTAT
90919369 ATACTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTATTATATTTATATTTC
Found at i:90921372 original size:20 final size:19
Alignment explanation
Indices: 90921329--90921366 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
90921319 CCGCATATGT
*
90921329 AATTTGTTTTATGTAAAGG
1 AATTTGTTTTATGAAAAGG
90921348 AATTTGTTTTATAGAAAAG
1 AATTTGTTTTAT-GAAAAG
90921367 TTATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
AATTTGTTTTATGAAAAGG
Found at i:90935599 original size:64 final size:65
Alignment explanation
Indices: 90935520--90935648 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 65
90935510 CATATAATAA
* *
90935520 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTT-GACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATCTCGATCATAGCATCCCAATTATTTGGACATAAGCAT
* *
90935584 CACATCTAGTTAGGAGCATTTGATTCATCTCGATCATAGGATCCCAATTATTTGGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATCTCGATCATAGCATCCCAATTATTTGGACATAAGCAT
90935649 AAATACATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 50 0.83
65 10 0.17
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTCATCTCGATCATAGCATCCCAATTATTTGGACATAAGCAT
Found at i:90936037 original size:85 final size:85
Alignment explanation
Indices: 90935893--90936445 Score: 781
Period size: 86 Copynumber: 6.5 Consensus size: 85
90935883 GCTGAAGATA
* *
90935893 CGAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAACACAGATCTTATCCCTAAACAGTA
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTA
* *
90935958 GTGGAACAGATCGAATACAG
66 GTGGAACAGATCAAAGACAG
* *
90935978 GGAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGT-
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTA
90936042 GTGGAACAGATCAAAGACAG
66 GTGGAACAGATCAAAGACAG
* **
90936062 CGAGCTTTAACCCTATAAGCAGTAGGGTAACAGGCT-AGAAATACAGATCTTATCCCTAAACAGT
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGA-AAATACAGATCTTATCCCTAAACAGT
* *
90936126 AGTGGAGCAGATCAAAGATAG
65 AGTGGAACAGATCAAAGACAG
* * * *
90936147 CAAGCCTTAACCTCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTAATCCCTAAACAGT
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATACAGATCTTATCCCTAAACAGT
* *
90936212 AGTGGAGCAGATCGAAGACAG
65 AGTGGAACAGATCAAAGACAG
* *
90936233 CGAGCCTTAACCCCCAAAGCAGTAGGGTAAAAGGCTAGAAAATACAGATCTTATCCCTAAACAGT
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATACAGATCTTATCCCTAAACAGT
** *
90936298 AGTGGAGTAGATCGAAA-ACGG
65 AGTGGAACAGATC-AAAGACAG
* * * *
90936319 TGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAGGAAAATATAGATCTTATCCCTAAACAGT
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC-TGAAAATACAGATCTTATCCCTAAACAGT
*
90936384 AGTGGAACAGATCAAAGATAG
65 AGTGGAACAGATCAAAGACAG
*
90936405 CGAGCCTTAA-CCCCTAAGTAGTAGGGTAACAGGCTGAAAAT
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAT
90936446 GTCTTAACCC
Statistics
Matches: 418, Mismatches: 43, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
83 1 0.00
84 83 0.20
85 134 0.32
86 197 0.47
87 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (85 bp):
CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTA
GTGGAACAGATCAAAGACAG
Found at i:90937625 original size:15 final size:14
Alignment explanation
Indices: 90937557--90937683 Score: 75
Period size: 14 Copynumber: 8.9 Consensus size: 14
90937547 TTATTGCTAT
90937557 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
90937571 TATTTATATTTAT-
1 TATTTTTATTTATC
*
90937584 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
90937600 TATTATTATTTATC
1 TATTTTTATTTATC
90937614 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
90937629 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
90937644 TATTATTATATT-TC
1 TATTTTTAT-TTATC
* *
90937658 TATTTTT-TTTTTT
1 TATTTTTATTTATC
*
90937671 TATTTCTATTTAT
1 TATTTTTATTTAT
90937684 ATACTAATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
12 8 0.09
13 12 0.13
14 34 0.38
15 24 0.27
16 4 0.04
17 7 0.08
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:90937638 original size:29 final size:27
Alignment explanation
Indices: 90937554--90937683 Score: 79
Period size: 29 Copynumber: 4.6 Consensus size: 27
90937544 ATATTATTGC
90937554 TATTATTTTTATGTT-TCTATTTATATT
1 TATTATTTTTAT-TTATCTATTTATATT
*
90937581 TATT-TTGTTATTCTAATACTA-TTATTATT
1 TATTATTTTTATT-T-AT-CTATTTA-TATT
90937610 TATCTAATTTTTATTTATCTATTTATATTT
1 TAT-T-ATTTTTATTTATCTATTTATA-TT
* * * *
90937640 CTACTATTATTATATT-TCTATTTTTTTT
1 -TATTATTTTTAT-TTATCTATTTATATT
* *
90937668 TTTTATTTCTATTTAT
1 TATTATTTTTATTTAT
90937684 ATACTAATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
25 1 0.01
26 9 0.11
27 13 0.16
28 6 0.08
29 30 0.38
30 11 0.14
31 3 0.04
32 7 0.09
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TATTATTTTTATTTATCTATTTATATT
Found at i:90937689 original size:44 final size:41
Alignment explanation
Indices: 90937596--90937717 Score: 111
Period size: 44 Copynumber: 2.8 Consensus size: 41
90937586 TGTTATTCTA
* *
90937596 ATACTATTATTATTTATCTAATTTTTATTTATCTATTTATATTT
1 ATACTATTATTATTT-TCT-ATTTTT-TTTTTTTATTTATATTT
* *
90937640 CTACTATTATTATATTTCTATTTTTTTTTTTTATTTCTATTTAT
1 ATACTATTATTAT-TTTCTATTTTTTTTTTTTATTTATA-TT-T
* *
90937684 ATACTAATATTATTTTC-ATTATTATTTTTCTTAT
1 ATACTATTATTATTTTCTATT-TT-TTTTTTTTAT
90937718 ATATGTTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 14 0.21
43 14 0.21
44 36 0.55
45 2 0.03
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (41 bp):
ATACTATTATTATTTTCTATTTTTTTTTTTTATTTATATTT
Found at i:90937873 original size:25 final size:24
Alignment explanation
Indices: 90937812--90937873 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
90937802 TATAACGCTC
* *
90937812 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATAT
*
90937836 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTCATACATTATAT
90937861 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
90937874 TTTTACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATAT
Found at i:90938245 original size:125 final size:125
Alignment explanation
Indices: 90938023--90938253 Score: 293
Period size: 125 Copynumber: 1.8 Consensus size: 125
90938013 AAAACCTCTC
** * ** * *
90938023 AAAATAAGGAAATATTTTGTGTTTGGAAATTTGAGAAATCGTGCCCTGCCGTGCTGGGTTTCGAT
1 AAAATAAGGAAATATTTTGTGTTTGGAAATTCAAGAAAACGTGCCCAACCGTGCTAGGTTTCGAC
** * **
90938088 TTTTCGTTCAACCGAATAGCTGAATATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
66 TTACCATTCAACCGAATAGCCAAATATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
* * *
90938148 AAAATGAGGCAATATTTTGTGTTTGGAAATTCAAGAAAACGTGCCCAATCGTGCTAGGTTTCGAC
1 AAAATAAGGAAATATTTTGTGTTTGGAAATTCAAGAAAACGTGCCCAACCGTGCTAGGTTTCGAC
**
90938213 TTACCATTTGACC-AGATAGCCAAATATCCTTTTGAAATTTC
66 TTACCATTCAACCGA-ATAGCCAAATATCCTTTTGAAATTTC
90938254 AAATGCATGA
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
124 1 0.01
125 87 0.99
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (125 bp):
AAAATAAGGAAATATTTTGTGTTTGGAAATTCAAGAAAACGTGCCCAACCGTGCTAGGTTTCGAC
TTACCATTCAACCGAATAGCCAAATATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
Found at i:90943630 original size:21 final size:21
Alignment explanation
Indices: 90943600--90943640 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90943590 AAATTTTAAA
* *
90943600 ATTTTTAAAATTTAAAAAATT
1 ATTTTCAAAAATTAAAAAATT
90943621 ATTTTCAAAAATTAAAAAAT
1 ATTTTCAAAAATTAAAAAAT
90943641 ATAAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTTCAAAAATTAAAAAATT
Found at i:90949209 original size:23 final size:22
Alignment explanation
Indices: 90949179--90949253 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
90949169 GCTGATAAAT
*
90949179 AGTAAGCTCT-ATTAAGCTGAAAC
1 AGTAAGCTCTGA-CAAGCTG-AAC
*
90949202 AGTAAGCTCTGACGAGCTGAAC
1 AGTAAGCTCTGACAAGCTGAAC
*
90949224 AGTAAGCTCTGACGAGCTGAAC
1 AGTAAGCTCTGACAAGCTGAAC
*
90949246 AATAAGCT
1 AGTAAGCT
90949254 TATACAAGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
22 32 0.67
23 15 0.31
24 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (22 bp):
AGTAAGCTCTGACAAGCTGAAC
Found at i:90949227 original size:22 final size:22
Alignment explanation
Indices: 90949193--90949253 Score: 104
Period size: 22 Copynumber: 2.7 Consensus size: 22
90949183 AGCTCTATTA
90949193 AGCTGAAACAGTAAGCTCTGACG
1 AGCTG-AACAGTAAGCTCTGACG
90949216 AGCTGAACAGTAAGCTCTGACG
1 AGCTGAACAGTAAGCTCTGACG
*
90949238 AGCTGAACAATAAGCT
1 AGCTGAACAGTAAGCT
90949254 TATACAAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 32 0.86
23 5 0.14
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (22 bp):
AGCTGAACAGTAAGCTCTGACG
Found at i:90950731 original size:20 final size:22
Alignment explanation
Indices: 90950694--90950753 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
90950684 ATAAACTGCT
*
90950694 AGAATATATGTGGATAAATCGCC
1 AGAA-ATATGTAGATAAATCGCC
*
90950717 A-AAAT-TGTAGATAAATTGCC
1 AGAAATATGTAGATAAATCGCC
*
90950737 AGAAATATGTGGATAAA
1 AGAAATATGTAGATAAA
90950754 CCACTAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 14 0.44
21 6 0.19
22 11 0.34
23 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (22 bp):
AGAAATATGTAGATAAATCGCC
Found at i:90956400 original size:28 final size:28
Alignment explanation
Indices: 90956356--90956425 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
90956346 CGATATTTTG
*
90956356 CACACT-AGTGTCATTCTCAATATCTCC
1 CACACTGAGTGCCATTCTCAATATCTCC
* *
90956383 CACACTGAGTGCCATTCTCAATATTTCG
1 CACACTGAGTGCCATTCTCAATATCTCC
*
90956411 TACACTGAGTGCCAT
1 CACACTGAGTGCCAT
90956426 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 6 0.16
28 32 0.84
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (28 bp):
CACACTGAGTGCCATTCTCAATATCTCC
Found at i:90959886 original size:40 final size:40
Alignment explanation
Indices: 90959842--90959951 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
90959832 TTCACAATTT
* *
90959842 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
90959882 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
90959922 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
90959952 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:90966385 original size:28 final size:28
Alignment explanation
Indices: 90966311--90966389 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
90966301 GAATCATTCG
* *
90966311 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
90966339 ATATCTCCCACATTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
90966367 ATATTTCGTACACTGAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
90966390 ATTTGATTGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:90972566 original size:42 final size:42
Alignment explanation
Indices: 90972507--90972590 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
90972497 TGGAAACACA
90972507 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
1 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
90972549 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
1 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
90972591 GGAAAAACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (42 bp):
ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
Found at i:90975800 original size:37 final size:37
Alignment explanation
Indices: 90975759--90975829 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
90975749 AATTAACCAA
*
90975759 AAAATTATTTAAATTAAAAATCAACTAATTTAACGAT
1 AAAATTATTTAAATTAAAAATAAACTAATTTAACGAT
*
90975796 AAAATTATTTAAATTTAAAATAAACTAATTTAAC
1 AAAATTATTTAAATTAAAAATAAACTAATTTAAC
90975830 AATTGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (37 bp):
AAAATTATTTAAATTAAAAATAAACTAATTTAACGAT
Found at i:90975818 original size:21 final size:22
Alignment explanation
Indices: 90975785--90975828 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
90975775 AAAATCAACT
* *
90975785 AATTTAACGATAAAATTATTTA
1 AATTTAACAATAAAATAATTTA
*
90975807 AATTTAA-AATAAACTAATTTA
1 AATTTAACAATAAAATAATTTA
90975828 A
1 A
90975829 CAATTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
AATTTAACAATAAAATAATTTA
Found at i:90980972 original size:157 final size:157
Alignment explanation
Indices: 90980686--90981001 Score: 587
Period size: 157 Copynumber: 2.0 Consensus size: 157
90980676 ATACAAGGCC
90980686 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
1 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
*
90980751 ATTCCAGCTTATACAAAGAGATTTCAAATGAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
66 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
90980816 AGATCCCTCTCAAAATCCGCAATTGCA
131 AGATCCCTCTCAAAATCCGCAATTGCA
* *
90980843 ATAACCCAAATTTAGATCCTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTATTTT
1 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
*
90980908 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACGAACCTGATGTTCCATGACTCA
66 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
*
90980973 AGATCCCTCTCGAAATCCGCAATTGCA
131 AGATCCCTCTCAAAATCCGCAATTGCA
90981000 AT
1 AT
90981002 CAAAAGTTCA
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (157 bp):
ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
AGATCCCTCTCAAAATCCGCAATTGCA
Found at i:90993094 original size:29 final size:31
Alignment explanation
Indices: 90993044--90993105 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
90993034 TATCTATATC
90993044 TTTATAATTTTTAAAAAATT-AAAT-TAATT
1 TTTATAATTTTTAAAAAATTAAAATATAATT
* ** *
90993073 TTTATTATTTTTAGGAAGTTAAAATATAATT
1 TTTATAATTTTTAAAAAATTAAAATATAATT
90993104 TT
1 TT
90993106 ACTTTTACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.59
30 4 0.15
31 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (31 bp):
TTTATAATTTTTAAAAAATTAAAATATAATT
Found at i:90993269 original size:29 final size:29
Alignment explanation
Indices: 90993236--90993296 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
90993226 GCATGGTAAA
90993236 AGTTAAAACGTAAGAGAGATGGAAGGAAG
1 AGTTAAAACGTAAGAGAGATGGAAGGAAG
90993265 AGTTAAAACGTAAGAGAGATGGAAGGAAG
1 AGTTAAAACGTAAGAGAGATGGAAGGAAG
90993294 AGT
1 AGT
90993297 GAAGTGAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.34, T:0.15
Consensus pattern (29 bp):
AGTTAAAACGTAAGAGAGATGGAAGGAAG
Found at i:90995928 original size:158 final size:153
Alignment explanation
Indices: 90995689--90995994 Score: 504
Period size: 158 Copynumber: 2.0 Consensus size: 153
90995679 AGATTGCTTC
90995689 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
1 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
*
90995754 CTTTCTTCATTTGAATATAAGTATACGGAATTAGCTTTTTTTGCATATGCCAACTTTTTGCAGGT
66 CTTTCTTCATTTGAATATAAGTATACGGAATTAG---TTTTTGCATA-GCCAACCTTTTGCAGGT
*
90995819 AAGATCAAACTAAATAATCTATCATAA
127 AAGATCAAACCAAATAATCTATCATAA
* * *
90995846 AATTCATATACATCTTCTTTTCCTGATATAGATTTTGTTTTACTTTTTCTGCATGCTGATAGTTC
1 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTA-TCTATCTGCATGCTGATAGTTC
*
90995911 CCTTTCTTCATTTGAATATAAGTATACGGAATTAGTTTTTGCATAGCTAACCTTTTGCAGGTAAG
65 CCTTTCTTCATTTGAATATAAGTATACGGAATTAGTTTTTGCATAGCCAACCTTTTGCAGGTAAG
*
90995976 ATCAAACCAAATCATCTAT
130 ATCAAACCAAATAATCTAT
90995995 GGTAGATGCT
Statistics
Matches: 141, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
154 35 0.25
155 10 0.07
157 41 0.29
158 55 0.39
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (153 bp):
AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
CTTTCTTCATTTGAATATAAGTATACGGAATTAGTTTTTGCATAGCCAACCTTTTGCAGGTAAGA
TCAAACCAAATAATCTATCATAA
Found at i:90996825 original size:7 final size:7
Alignment explanation
Indices: 90996815--90996849 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
90996805 TTTACTTTTT
90996815 AATATTG
1 AATATTG
90996822 AATATTG
1 AATATTG
90996829 AATATTG
1 AATATTG
90996836 AATATTG
1 AATATTG
90996843 AATATTG
1 AATATTG
90996850 GTAACTTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
AATATTG
Found at i:90998826 original size:132 final size:132
Alignment explanation
Indices: 90998583--90999247 Score: 1179
Period size: 132 Copynumber: 5.0 Consensus size: 132
90998573 GGTTATCAGC
90998583 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
90998648 TCACCACATCAGGAAACTTTGGCTGCAGCTGCTGCCTACACGGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
90998713 TA
131 TA
*
90998715 TACAAACTTCATTTAGCCCTGCAACTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
90998780 TCACCACATCAGGAAACTTCAGCTGCAGCTGCTGCCGACACAGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
90998845 TA
131 TA
90998847 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
90998912 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCAACATGGACAGGCCTGTTGAT-AAGGATC
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAA-GATC
90998976 TTA
130 TTA
90998979 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
*
90999044 TCACCACATCAGGAAACTTCAGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
90999109 TA
131 TA
*
90999111 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCTAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* **
90999176 GCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACATTGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
90999241 TA
131 TA
90999243 TACAA
1 TACAA
90999248 GCTTTCTTTA
Statistics
Matches: 510, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
131 2 0.00
132 506 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (132 bp):
TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
TA
Found at i:90999945 original size:17 final size:17
Alignment explanation
Indices: 90999909--90999947 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
90999899 TCAATTGCTA
*
90999909 ATTTTTTTCCAACATCT
1 ATTTTTTTCCAACATAT
* *
90999926 ATTTTTTTCCTATATAT
1 ATTTTTTTCCAACATAT
90999943 ATTTT
1 ATTTT
90999948 ACTGTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTTTCCAACATAT
Found at i:91002671 original size:73 final size:74
Alignment explanation
Indices: 91002517--91002855 Score: 406
Period size: 73 Copynumber: 4.6 Consensus size: 74
91002507 TTGCTTACTT
* * * *
91002517 TTTTATATCAATAATATAGTTATTTACAATCTACGAAAAAATGGAAAAACTTGTTTGTATTTTAT
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
91002582 TCTATTGTA
66 TCTATTGTA
* *
91002591 TTTTACATCAATAATATATTTATTTACAATCTACAAAAAAATGGAAAAA-TTGTTTGTATTATAC
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
91002655 TCTATTGTA
66 TCTATTGTA
* * * * *
91002664 TTTTACATCAATAATATACTTATTTACAATTTACAAAAAAAAATGAAAAAAATTATTTGTATTGT
1 TTTTACATCAATAATATACTTATTTACAATCTAC--AAAAAAATGGAAAAACTTGTTTGTATTAT
91002729 ATTCTATT-TA
64 ATTCTATTGTA
* * * * ** *
91002739 TTTTAAAACAATAAAATACTTATTTACAATTTA-TGAAAAAT-GAAAAAGTTGTTTGTATTATAT
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
91002802 TCTATTGTA
66 TCTATTGTA
* **
91002811 TTTTTACAT---TAATATACTTATTTACAATGTACCCAAAAAT-GAAAA
1 -TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAA
91002856 GTTATGAAAA
Statistics
Matches: 233, Mismatches: 26, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
70 20 0.09
71 35 0.15
72 8 0.03
73 60 0.26
74 46 0.20
75 46 0.20
76 18 0.08
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (74 bp):
TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
TCTATTGTA
Found at i:91002791 original size:147 final size:148
Alignment explanation
Indices: 91002516--91002855 Score: 433
Period size: 147 Copynumber: 2.3 Consensus size: 148
91002506 TTTGCTTACT
* * * * * * *
91002516 TTTTTATATCAATAATATAGTTATTTACAATCTACGAAAAAATGGAAAAACTTGTTTGTATTTTA
1 TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGAAAAAAATTATTTGTATTGTA
* * * *
91002581 TTCTATTGTATTTTACATCAATAATATATTTATTTACAATCTACAAAAAAATGGAAAAATTGTTT
66 TTCTATTGTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAATGGAAAAATTGTTT
91002646 GTATTATACTCTATTGTA
131 GTATTATACTCTATTGTA
*
91002664 -TTTTACATCAATAATATACTTATTTACAATTTACAAAAAAAAATGAAAAAAATTATTTGTATTG
1 TTTTTACATCAATAATATACTTATTTACAATCTAC--AAAAAAATGAAAAAAATTATTTGTATTG
* **
91002728 TATTCTATT-TATTTTAAAACAATAAAATACTTATTTACAATTTA-TGAAAAAT-GAAAAAGTTG
64 TATTCTATTGTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAATGGAAAAA-TTG
*
91002790 TTTGTATTATATTCTATTGTA
128 TTTGTATTATACTCTATTGTA
* **
91002811 TTTTTACAT---TAATATACTTATTTACAATGTACCCAAAAATGAAAA
1 TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGAAAA
91002856 GTTATGAAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
143 11 0.07
145 22 0.13
146 6 0.04
147 60 0.36
148 38 0.22
149 32 0.19
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.43
Consensus pattern (148 bp):
TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGAAAAAAATTATTTGTATTGTA
TTCTATTGTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAATGGAAAAATTGTTT
GTATTATACTCTATTGTA
Found at i:91003842 original size:15 final size:15
Alignment explanation
Indices: 91003804--91003845 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
91003794 ATATTCATGA
91003804 ATGAAAATAATGTAT
1 ATGAAAATAATGTAT
*
91003819 ATGTTAAATAATG-AT
1 ATG-AAAATAATGTAT
91003834 ATAGAAAATAAT
1 AT-GAAAATAAT
91003846 ATTTACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (15 bp):
ATGAAAATAATGTAT
Found at i:91006235 original size:2 final size:2
Alignment explanation
Indices: 91006228--91006263 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
91006218 TGATTTATGA
91006228 AT AT 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 AT AT
91006264 GAATGTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91006648 original size:51 final size:49
Alignment explanation
Indices: 91006579--91006709 Score: 144
Period size: 45 Copynumber: 2.7 Consensus size: 49
91006569 CAGGCACTTA
* * * * * *
91006579 TGTGCCGACTACTGTTACTATTACCATTACTGTTACATATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTT-C-GATTCAACACTTTG
91006630 TGTGTCGAATACTGTTACTGTTACCGTTA----TCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTCAACACTTTG
* *
91006675 TGTGTTGAATACTGTTACTGTTACTGTTACTGTTC
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTTC
91006710 CAGATTTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
45 39 0.57
46 1 0.01
47 1 0.01
49 2 0.03
51 25 0.37
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (49 bp):
TGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTCAACACTTTG
Found at i:91006686 original size:45 final size:45
Alignment explanation
Indices: 91006617--91006703 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
91006607 ACTGTTACAT
*
91006617 ATTCGACACTTTGTGTGTCGAATACTGTTACTGTTACCGTTATCG
1 ATTCAACACTTTGTGTGTCGAATACTGTTACTGTTACCGTTATCG
* *
91006662 ATTCAACACTTTGTGTGTTGAATACTGTTACTGTTACTGTTA
1 ATTCAACACTTTGTGTGTCGAATACTGTTACTGTTACCGTTA
91006704 CTGTTCCAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (45 bp):
ATTCAACACTTTGTGTGTCGAATACTGTTACTGTTACCGTTATCG
Found at i:91006695 original size:6 final size:6
Alignment explanation
Indices: 91006684--91006708 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91006674 GTGTGTTGAA
91006684 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
91006709 CCAGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:91006911 original size:18 final size:18
Alignment explanation
Indices: 91006878--91007080 Score: 146
Period size: 18 Copynumber: 11.3 Consensus size: 18
91006868 AAAGGTATAA
* *
91006878 AATAACTGATTATTACTG
1 AATAATTGACTATTACTG
*
91006896 AATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
* *
91006914 GATAATTAACTATTACTG
1 AATAATTGACTATTACTG
* *
91006932 GAT-ATTAGACTATTGCTG
1 AATAATT-GACTATTACTG
* *
91006950 AATAACTGAATATTACTG
1 AATAATTGACTATTACTG
91006968 AATAATTGA-TCATTACTG
1 AATAATTGACT-ATTACTG
* * * *
91006986 AATAACTGATTGTCACTG
1 AATAATTGACTATTACTG
*
91007004 AATGAA-TGACTGTTACTG
1 AAT-AATTGACTATTACTG
* * *
91007022 AATAACTTAATTATTATTG
1 AATAA-TTGACTATTACTG
*
91007041 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTATTACTG
*
91007058 AATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
*
91007076 GATAA
1 AATAA
91007081 CCGATCAATT
Statistics
Matches: 148, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
17 19 0.13
18 113 0.76
19 16 0.11
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
AATAATTGACTATTACTG
Found at i:91007005 original size:54 final size:53
Alignment explanation
Indices: 91006878--91007081 Score: 168
Period size: 54 Copynumber: 3.8 Consensus size: 53
91006868 AAAGGTATAA
* *
91006878 AATAACTGATTATTACTGAATAATTGACTGTTACTGGATAA-TTAA-CTATTACTGG
1 AATAACTGATT-TCACTGAATAA-TGACTGTTACTGAATAACTTAATC-ATTACT-G
* * * *
91006933 ATATTAGACT-A-TT-GCTGAATAACTGAATATTACTGAATAA-TTGATCATTACTG
1 A-A-TA-ACTGATTTCACTGAATAA-TGACTGTTACTGAATAACTTAATCATTACTG
* *
91006986 AATAACTGATTGTCACTGAATGAATGACTGTTACTGAATAACTTAATTATTATTG
1 AATAACTGATT-TCACTGAAT-AATGACTGTTACTGAATAACTTAATCATTACTG
* * *
91007041 AATATCTGATTTTACTGAATAATTGACTGTTACTGGATAAC
1 AATAACTGATTTCACTGAATAA-TGACTGTTACTGAATAAC
91007082 CGATCAATTG
Statistics
Matches: 123, Mismatches: 15, Indels: 23
0.76 0.09 0.14
Matches are distributed among these distances:
50 3 0.02
51 3 0.02
52 2 0.02
53 5 0.04
54 77 0.63
55 25 0.20
56 2 0.02
57 3 0.02
58 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (53 bp):
AATAACTGATTTCACTGAATAATGACTGTTACTGAATAACTTAATCATTACTG
Found at i:91010349 original size:40 final size:40
Alignment explanation
Indices: 91010241--91010450 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
91010231 CGGGATTTAA
* * * * *
91010241 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
91010281 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91010321 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91010361 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91010401 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91010441 CCGGATATAT
1 CCGGATATAT
91010451 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:91018486 original size:40 final size:40
Alignment explanation
Indices: 91018378--91018587 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
91018368 CGGGATTTAA
* * * * *
91018378 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
91018418 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91018458 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91018498 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91018538 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91018578 CCGGATATAT
1 CCGGATATAT
91018588 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:91023576 original size:25 final size:27
Alignment explanation
Indices: 91023539--91023591 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
91023529 TCAAACATGC
91023539 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
91023565 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
91023591 A
1 A
91023592 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:91025089 original size:26 final size:26
Alignment explanation
Indices: 91025053--91025162 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
91025043 CATGAAATTC
91025053 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91025079 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91025105 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
91025131 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91025157 TTATCA
1 TTATCA
91025163 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91027156 original size:26 final size:26
Alignment explanation
Indices: 91027098--91027206 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
91027088 ACATGAATTC
91027098 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
91027123 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
91027149 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91027175 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91027201 TTATCA
1 TTATCA
91027207 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 22 0.29
26 55 0.71
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91031134 original size:134 final size:137
Alignment explanation
Indices: 91030959--91031242 Score: 511
Period size: 134 Copynumber: 2.1 Consensus size: 137
91030949 TATTGGGCCT
**
91030959 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
91031024 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
91031088 CATATGC
131 CATATGC
91031095 AAGCCCATTTGGGTAACAGT-G-ACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
91031158 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
91031223 CATATGC
131 CATATGC
91031230 AAGCCCATTTGGG
1 AAGCCCATTTGGG
91031243 GAGACTACTC
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 102 0.71
135 23 0.16
136 18 0.13
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:91033051 original size:26 final size:26
Alignment explanation
Indices: 91033015--91033124 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
91033005 ACATGAATTC
*
91033015 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
91033041 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
91033067 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
91033093 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91033119 TTATCA
1 TTATCA
91033125 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91034560 original size:29 final size:29
Alignment explanation
Indices: 91034521--91034577 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
91034511 TTTCAACTTG
*
91034521 TTTTAACATGATTAGAAGGTTTTTAAACT
1 TTTTAACATGATTAGAAGGTTTCTAAACT
*
91034550 TTTTAACATGATTATAAGGTTTCTAAAC
1 TTTTAACATGATTAGAAGGTTTCTAAAC
91034578 CTACTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (29 bp):
TTTTAACATGATTAGAAGGTTTCTAAACT
Found at i:91039239 original size:40 final size:40
Alignment explanation
Indices: 91039184--91039387 Score: 219
Period size: 40 Copynumber: 5.1 Consensus size: 40
91039174 TGAATGATAC
* * * *
91039184 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
* * * * * *
91039224 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
* **
91039264 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
* **
91039304 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
* * ** *
91039344 CCGGGCTAAGACCCAAAGGCATTCGTGCGTGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
91039384 CCGG
1 CCGG
91039388 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
Found at i:91047835 original size:25 final size:26
Alignment explanation
Indices: 91047794--91047845 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
91047784 ATCTGTAGAG
91047794 AGAAAATTATCTAGAGAAATTATTTT
1 AGAAAATTATCTAGAGAAATTATTTT
* *
91047820 AGAAAATT-TCTAGAGATATTTTTTT
1 AGAAAATTATCTAGAGAAATTATTTT
91047845 A
1 A
91047846 TTTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (26 bp):
AGAAAATTATCTAGAGAAATTATTTT
Done.