Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 187 of 333
Found at i:61384482 original size:85 final size:85
Alignment explanation
Indices: 61384339--61384508 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
61384329 AGATCGTCGG
*
61384339 AGGCAGCATCACACTATCAAGTCGCTATCTTTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
61384404 AAGTGGCATTTATAGGGATC
66 AAGTGGCATTTATAGGGATC
61384424 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
61384489 AAGTGGCATTTATAGGGATC
66 AAGTGGCATTTATAGGGATC
61384509 TAGTTGATTG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (85 bp):
AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
AAGTGGCATTTATAGGGATC
Found at i:61386814 original size:15 final size:16
Alignment explanation
Indices: 61386791--61386832 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
61386781 TGATATTTTC
61386791 TTCTGGATTTCTT-TA
1 TTCTGGATTTCTTATA
61386806 TGT-TGGATTT-TTATA
1 T-TCTGGATTTCTTATA
61386821 TTCTGGATTTCT
1 TTCTGGATTTCT
61386833 CCGTTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.60
Consensus pattern (16 bp):
TTCTGGATTTCTTATA
Found at i:61389543 original size:50 final size:47
Alignment explanation
Indices: 61389383--61389551 Score: 145
Period size: 47 Copynumber: 3.6 Consensus size: 47
61389373 ATATGTGTGT
* * *
61389383 GCTAGTGTAAGACATGTTTAGGACATGCATCGGCCAC-AT-TATGAAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-CACGATATGTGACA
* * * * *
61389429 TGCCAGTGTAAGAAATGTCTGGGACATGCATCGGCTACGAGATGTGTCA
1 -GCTAGTGTAAGACATGTCTAGGACATGCATCGGC-ACGATATGTGACA
61389478 G-TA---TAAGACCATGTCTAGGACATGGCATCGGCACGGATATGTGACA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCAC-GATATGTGACA
61389524 GCTAGTGTAAGACCATGTCT-GGAACATG
1 GCTAGTGTAAGA-CATGTCTAGG-ACATG
61389552 GAGTCGGCCT
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
44 5 0.05
45 14 0.14
46 19 0.19
47 34 0.35
48 2 0.02
49 7 0.07
50 17 0.17
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCACGATATGTGACA
Found at i:61389552 original size:50 final size:48
Alignment explanation
Indices: 61389433--61389552 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 48
61389423 ATGAAATGCC
* *
61389433 AGTGTAAGA-AATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGT
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCTACGAGATGTGACAGT
*
61389480 A---TAAGACCATGTCTAGGACATGGCATCGGC-ACGGATATGTGACAGCT
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCTAC-GAGATGTGACAG-T
61389527 AGTGTAAGACCATGTCTGGAACATGG
1 AGTGTAAGACCATGTCTGG-ACATGG
61389553 AGTCGGCCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
44 5 0.08
45 14 0.23
46 18 0.30
47 3 0.05
49 2 0.03
50 19 0.31
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGACATGGCATCGGCTACGAGATGTGACAGT
Found at i:61389600 original size:49 final size:47
Alignment explanation
Indices: 61389529--61389651 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 47
61389519 TGACAGCTAG
* * *
61389529 TGTAAGACCATGTCTGGAACATGG-AGTCGGCCTTGATTTCGAT-AGTCAA
1 TGTAAGACCATGTCTGGGACATGGCA-TC-GACTTGA--TCGATGAGCCAA
* * *
61389578 TGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGAGCCAA
61389625 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
61389652 TGACATTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 4 0.06
47 30 0.46
48 6 0.09
49 24 0.37
50 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGAGCCAA
Found at i:61392180 original size:40 final size:40
Alignment explanation
Indices: 61392116--61392212 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
61392106 ACTCGATATC
* * ** *
61392116 TCACACACTAAGTGTCGTACATAGCCGAAGCTATCTTAAA
1 TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
* * * * *
61392156 TCGCACACTAAGTGCCATTTATAGCTGCAGCTATGTCAAG
1 TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
61392196 TCACACACTAAGTGCCA
1 TCACACACTAAGTGCCA
61392213 CAAATAGCCG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
Found at i:61399156 original size:79 final size:81
Alignment explanation
Indices: 61399054--61399238 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61399044 GCTCCTCGTT
* *
61399054 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
61399117 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * **
61399134 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
* *
61399198 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
61399214 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61399239 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:61399238 original size:40 final size:41
Alignment explanation
Indices: 61399054--61399238 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
61399044 GCTCCTCGTT
* * *
61399054 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
61399094 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* *
61399134 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTAGCA
* * *
61399173 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
61399214 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61399239 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:61402559 original size:47 final size:46
Alignment explanation
Indices: 61402490--61402651 Score: 175
Period size: 47 Copynumber: 3.5 Consensus size: 46
61402480 CCGATGCCAG
* * * * *
61402490 GTCCCATACACGGTCTTACACTGACTTATATCTTAAGTCAAAGCCAT
1 GTCCCAGACATGGTCTTACACTGACTTATATCTCAAGCCGAAG-CAT
* *
61402537 GTCCCAGACATGGTCTTACACTGAC-TATCATCTCATAGCCGACGTAT
1 GTCCCAGACATGGTCTTACACTGACTTAT-ATCTCA-AGCCGAAGCAT
* * * *
61402584 GTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAGGCCGATGCAT
1 GTCCCAGACATGGTCTTACACTGACTTATATCTC-AAGCCGAAGCAT
61402630 GTCCCAGACATGGTCTTACACT
1 GTCCCAGACATGGTCTTACACT
61402652 AGCTCTCACA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 38 0.39
47 55 0.56
48 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCCCAGACATGGTCTTACACTGACTTATATCTCAAGCCGAAGCAT
Found at i:61408922 original size:40 final size:40
Alignment explanation
Indices: 61408864--61409066 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
61408854 TCTTCAGGAT
*
61408864 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
61408903 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
61408943 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * **
61408983 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGAAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * * *
61409023 ATAGCCTGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
61409063 TTAG
1 TTAG
61409067 TTCGGTTATC
Statistics
Matches: 147, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 6 0.04
40 139 0.95
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:61413950 original size:42 final size:42
Alignment explanation
Indices: 61413903--61413993 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
61413893 GACCCTTAGA
* *
61413903 CCCATTTCAATATCACATGTAATGTCAATGAATGTGTGCAAG
1 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
61413945 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
61413987 CCCATTT
1 CCCATTT
61413994 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
Found at i:61414174 original size:25 final size:25
Alignment explanation
Indices: 61414141--61414210 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
61414131 CTCTTTTAAT
*
61414141 AACTAGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
61414166 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61414191 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61414211 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61415708 original size:40 final size:40
Alignment explanation
Indices: 61415671--61415854 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
61415661 GCTACTCGTT
*
61415671 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
61415711 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTATAGTAACTCGCA
* *
61415751 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
61415790 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
61415831 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
61415855 ACATCATTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:61415839 original size:79 final size:81
Alignment explanation
Indices: 61415671--61415855 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
61415661 GCTACTCGTT
* * *
61415671 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCAG
* *
61415735 AATTTAGTAACTCGCAC
65 AATATAGTAACTAGCAC
* *
61415752 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCA
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCA
* *
61415814 G-ATATGGTCACTTAGCA-
64 GAATATAGTAAC-TAGCAC
61415831 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
61415856 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 28 0.31
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCAGA
ATATAGTAACTAGCAC
Found at i:61420329 original size:43 final size:43
Alignment explanation
Indices: 61420252--61420333 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
61420242 GCTGGTATTA
* **
61420252 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
* *
61420295 TATTCGGGCCTTTGTGCCTAGTAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
61420334 AATGATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:61422302 original size:27 final size:28
Alignment explanation
Indices: 61422271--61422339 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
61422261 TACGGAACAT
*
61422271 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
61422298 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
61422325 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
61422340 TTTTTACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:61422345 original size:27 final size:27
Alignment explanation
Indices: 61422283--61422346 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
61422273 GGGCATATTC
61422283 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
61422310 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
61422337 GTCTTTTTAC
1 GTCATTTTAC
61422347 TTATTAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:61422431 original size:27 final size:27
Alignment explanation
Indices: 61422401--61422613 Score: 167
Period size: 27 Copynumber: 7.9 Consensus size: 27
61422391 GTAAATCCAC
* *
61422401 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCGGTAATTTTAT
** ** *
61422428 AAAC-AATAGTATTTCTATAATTTTTAG
1 AAACTAAGGGTATTTCGGTAA-TTTTAT
* * *
61422455 AAAGTTAAGGGTATTTCTGTAATTTTGT
1 AAA-CTAAGGGTATTTCGGTAATTTTAT
* * *
61422483 AAATTAGGGGTATTTTGGTAATTTTAT
1 AAACTAAGGGTATTTCGGTAATTTTAT
* * * * *
61422510 AAATTGAGGGTATTTCGATAATTTCAC
1 AAACTAAGGGTATTTCGGTAATTTTAT
* * * *
61422537 AAACCAATGGTATTTCGATAATTTTAC
1 AAACTAAGGGTATTTCGGTAATTTTAT
* * *
61422564 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCGGTAATTTTAT
*
61422591 AAACTAGGGGTATTTCGGTAATT
1 AAACTAAGGGTATTTCGGTAATT
61422614 CTATCCTACA
Statistics
Matches: 150, Mismatches: 33, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
26 12 0.08
27 118 0.79
28 7 0.05
29 13 0.09
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTCGGTAATTTTAT
Found at i:61422508 original size:55 final size:53
Alignment explanation
Indices: 61422405--61422533 Score: 127
Period size: 55 Copynumber: 2.4 Consensus size: 53
61422395 ATCCACAAAC
*
61422405 TAAGGGTATTTCAGTAATTTTGTAAACAATAGTATTTCTATAATTTTTAGAAAGT
1 TAAGGGTATTTC-GTAATTTTGTAAACAAGAGTATTTCTATAATTTTTAGAAA-T
* * * * *
61422460 TAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTT-TGGTAA-TTTTATAAAT
1 TAAGGGTATTTC-GTAATTTTGTAAA-CAAGAGTATTTCT-ATAATTTTTAGAAAT
*
61422514 TGAGGGTATTTCGATAATTT
1 TAAGGGTATTTCG-TAATTT
61422534 CACAAACCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
53 1 0.02
54 18 0.29
55 34 0.54
56 10 0.16
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.46
Consensus pattern (53 bp):
TAAGGGTATTTCGTAATTTTGTAAACAAGAGTATTTCTATAATTTTTAGAAAT
Found at i:61422549 original size:54 final size:54
Alignment explanation
Indices: 61422490--61422646 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 54
61422480 TGTAAATTAG
* * *
61422490 GGGTATTTTGGTAATTTTATAAA-TTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTCGGTAATTTTACAAACTAG-GGGTATTTCGATAATTTCACAAACCAA
* * * * * * *
61422544 TGGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAA
* **
61422598 GGGTATTTCGGTAATTCTATCCTAC-AGGGGTATTTC-AGTAATTTCACAA
1 GGGTATTTCGGTAATTTTA-CAAACTAGGGGTATTTCGA-TAATTTCACAA
61422647 TCGAGGGTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
54 77 0.94
55 5 0.06
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAA
Found at i:61422572 original size:81 final size:81
Alignment explanation
Indices: 61422464--61422613 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
61422454 GAAAGTTAAG
** * * *
61422464 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAA-TTGAGGGTATTTCGA
1 GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGA
61422528 TAATTTCACAAACCAAT
65 TAATTTCACAAACCAAT
*
61422545 GGTATTTC-GATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
1 GGTATTTCTG-TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGA
61422609 TAATT
65 TAATT
61422614 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.02
81 58 0.95
82 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGAT
AATTTCACAAACCAAT
Found at i:61422626 original size:27 final size:27
Alignment explanation
Indices: 61422463--61422640 Score: 128
Period size: 27 Copynumber: 6.6 Consensus size: 27
61422453 AGAAAGTTAA
* * ** *
61422463 GGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTTCGGTAATTCTACAAACTAG
* * * *
61422490 GGGTATTTTGGTAATTTTATAAA-TTG
1 GGGTATTTCGGTAATTCTACAAACTAG
* * *
61422516 AGGGTATTTCGATAATT-TCACAAACCAA
1 -GGGTATTTCGGTAATTCT-ACAAACTAG
* * *
61422544 TGGTATTTCGATAATTTTACAAACTAG
1 GGGTATTTCGGTAATTCTACAAACTAG
* *
61422571 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTCTACAAACTAG
**
61422598 GGGTATTTCGGTAATTCTATCCTAC-AG
1 GGGTATTTCGGTAATTCTA-CAAACTAG
*
61422625 GGGTATTTCAGTAATT
1 GGGTATTTCGGTAATT
61422641 TCACAATCGA
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 3 0.02
27 118 0.94
28 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACAAACTAG
Found at i:61422679 original size:27 final size:27
Alignment explanation
Indices: 61422645--61422825 Score: 256
Period size: 27 Copynumber: 6.7 Consensus size: 27
61422635 GTAATTTCAC
61422645 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
61422672 GA-CTGAGGGTAAAATGGTAATTTTTTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* *
61422699 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
61422726 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
61422753 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* ** * *
61422780 AATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
61422807 AATCGAGGGTAAAATGGTA
1 AATCGAGGGTAAAATGGTA
61422826 GTTCTACAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:61422748 original size:81 final size:81
Alignment explanation
Indices: 61422645--61422842 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 81
61422635 GTAATTTCAC
* * *
61422645 AATCGAGGGTAAAATGGTAATTTTGTAGA-CTGAGGGTAAAATGGTAATTTTTTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTATAAATC-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
* *
61422709 AAAACGGTAATTCTGTA
65 AAAACAGTAATTCTATA
*
61422726 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
61422791 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
* * *
61422807 AATCGAGGGTAAAATGGTAGTTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGG
61422843 CATTTCTGTA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
81 106 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:61434443 original size:46 final size:46
Alignment explanation
Indices: 61434393--61434485 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
61434383 GTAAACCATT
61434393 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
1 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
61434439 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
1 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
61434485 C
1 C
61434486 TCAAACACGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (46 bp):
CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
Found at i:61437212 original size:22 final size:21
Alignment explanation
Indices: 61437187--61437228 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61437177 CTTTTTAACT
*
61437187 AATTAAGTATTTTGCCATTTTC
1 AATTAAGT-TCTTGCCATTTTC
*
61437209 AATTTAGTTCTTGCCATTTT
1 AATTAAGTTCTTGCCATTTT
61437229 TCTCTAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (21 bp):
AATTAAGTTCTTGCCATTTTC
Found at i:61438458 original size:24 final size:24
Alignment explanation
Indices: 61438427--61438472 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
61438417 TCAATACAGG
61438427 ACAACACCAAAGTACAAAATCAAA
1 ACAACACCAAAGTACAAAATCAAA
* * *
61438451 ACAACACCGAAGTGCATAATCA
1 ACAACACCAAAGTACAAAATCA
61438473 GGATAGCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.26, G:0.09, T:0.11
Consensus pattern (24 bp):
ACAACACCAAAGTACAAAATCAAA
Found at i:61447182 original size:39 final size:40
Alignment explanation
Indices: 61447104--61447320 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
61447094 AAGCCAAGTA
* * * * *
61447104 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61447143 CCTTCGGGACATAGCCCGGATATAGTAACT-GCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61447182 CCTTCGGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61447222 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61447262 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61447302 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61447321 TTATCATCCA
Statistics
Matches: 162, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
39 49 0.30
40 113 0.70
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61454491 original size:40 final size:40
Alignment explanation
Indices: 61454429--61454686 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
61454419 AAGCCAAGTA
* * * * *
61454429 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
61454468 CCTTCGGGACATAGCCCGGATATAGTAACCCGCACCAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61454508 CCTTCGGAACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61454548 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61454588 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61454628 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
61454668 CCTTCGGGAGTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61454687 TTATCATCCA
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.07
40 184 0.93
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61458317 original size:49 final size:50
Alignment explanation
Indices: 61458129--61458322 Score: 189
Period size: 49 Copynumber: 3.9 Consensus size: 50
61458119 ATCTATTGTG
* * *
61458129 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * * **
61458180 CGATCACATGTGTAGTACTAAATGCAAGCTAC---GTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * * *
61458227 AGGTCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
61458277 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
61458323 GCTTTGGCTA
Statistics
Matches: 112, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
47 28 0.25
48 7 0.06
49 39 0.35
50 11 0.10
51 27 0.24
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:61463402 original size:50 final size:50
Alignment explanation
Indices: 61463311--61463541 Score: 232
Period size: 50 Copynumber: 4.6 Consensus size: 50
61463301 ATCTATTGTG
* ** *
61463311 AGGTCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
61463361 -GGTCGCATAGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACAT-GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
61463412 CGATCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
61463462 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
61463512 -GGTCGCATGTGTGGCACTAAGTGCAGGCTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTA
61463542 TTATGCGTAC
Statistics
Matches: 146, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 31 0.21
50 77 0.53
51 33 0.23
52 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:61463491 original size:101 final size:101
Alignment explanation
Indices: 61463314--61463509 Score: 243
Period size: 101 Copynumber: 1.9 Consensus size: 101
61463304 TATTGTGAGG
* *
61463314 TCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCGGATAATTGGTCGCATAGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTAC
*
61463379 TAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
66 TAAGTACAGGCTACTACGCGTACCCGATAACTTCGA
* * * ** *
61463415 TCACGTGTGTAGTACTAAGTG-AAGGCTACTACGTGTATCAGATGGTTAGGTCACGT-GTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAA-CCTACTACATGTACCAGATAATT-GGTCACATAGTGTAGT
** * *
61463478 ACTAAGTGTAGGCTACTACGTGTACCGGATAA
64 ACTAAGTACAGGCTACTACGCGTACCCGATAA
61463510 TTGGTCGCAT
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
100 2 0.03
101 72 0.90
102 6 0.08
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTAC
TAAGTACAGGCTACTACGCGTACCCGATAACTTCGA
Found at i:61471219 original size:23 final size:22
Alignment explanation
Indices: 61471194--61471235 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
61471184 GAGATCAACA
61471194 AAAATAT-AATCACATACATATT
1 AAAATATCAATCACAT-CATATT
*
61471216 AAAATATCAATCTCATCATA
1 AAAATATCAATCACATCATA
61471236 ATAATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATATCAATCACATCATATT
Found at i:61474273 original size:26 final size:26
Alignment explanation
Indices: 61474222--61474273 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
61474212 GATTAAATAT
* *
61474222 TAAATATAATATAATATTTATCTTAA
1 TAAATATAATATAATATTAATATTAA
*
61474248 TAAATATTATATCAAT-TTAATATTAA
1 TAAATATAATAT-AATATTAATATTAA
61474274 AGTGATTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAATATAATATAATATTAATATTAA
Found at i:61476192 original size:6 final size:6
Alignment explanation
Indices: 61476174--61476366 Score: 128
Period size: 6 Copynumber: 31.3 Consensus size: 6
61476164 AAGAAACATT
* *
61476174 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATTAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
61476221 GTGACAGA ATCAAA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * *
61476272 ATCAGT ATCAGGTA A-CAAA ATTAGA ATCAGA ACCAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
61476323 A-CAGA ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
61476367 ATGAATGCAA
Statistics
Matches: 146, Mismatches: 24, Indels: 34
0.72 0.12 0.17
Matches are distributed among these distances:
5 10 0.07
6 115 0.79
7 14 0.10
8 7 0.05
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:61476231 original size:19 final size:19
Alignment explanation
Indices: 61476207--61476363 Score: 106
Period size: 19 Copynumber: 7.7 Consensus size: 19
61476197 AATTAGAATT
*
61476207 AGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGGTAAC
*
61476226 AGAATCAAAATCA-G-AACC
1 AGAATCAGAATCAGGTAA-C
*
61476244 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGGTAAC
61476263 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAG----A--ATCAGGTAAC
* *
61476288 AAAATTAGAATCA-G-AACC
1 AGAATCAGAATCAGGTAA-C
*
61476306 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGGTAAC
61476325 AGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAG----A--ATCAGGTAAC
61476350 AGAATCAGAATCAG
1 AGAATCAGAATCAG
61476364 AATATGAATG
Statistics
Matches: 109, Mismatches: 11, Indels: 36
0.70 0.07 0.23
Matches are distributed among these distances:
17 3 0.03
18 25 0.23
19 41 0.38
20 4 0.04
21 2 0.02
23 2 0.02
25 32 0.29
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:61476247 original size:31 final size:31
Alignment explanation
Indices: 61476174--61476365 Score: 130
Period size: 31 Copynumber: 6.2 Consensus size: 31
61476164 AAGAAACATT
* *
61476174 ATCAGAACTAGAATCA-G-AATCAGAATTAGA
1 ATCAGAACCAGAATCAGGTAA-CAGAATCAGA
* * * *
61476204 ATTAGAATCAGAATCAGGTGACAGAATCAAA
1 ATCAGAACCAGAATCAGGTAACAGAATCAGA
*
61476235 ATCAGAACCAGAATCA-G-AATTAGGTAA-CAGA
1 ATCAGAACCAGAATCAGGTAA-CA-G-AATCAGA
* * * *
61476266 ATCAGAATCAGTATCAGGTAACAAAATTAGA
1 ATCAGAACCAGAATCAGGTAACAGAATCAGA
*
61476297 ATCAGAACCAGAATCA-G-AATTAGGTAA-CAGA
1 ATCAGAACCAGAATCAGGTAA-CA-G-AATCAGA
** *
61476328 ATCAGAATTAGTATCAGGTAACAGAATCAGA
1 ATCAGAACCAGAATCAGGTAACAGAATCAGA
61476359 ATCAGAA
1 ATCAGAA
61476366 TATGAATGCA
Statistics
Matches: 123, Mismatches: 25, Indels: 27
0.70 0.14 0.15
Matches are distributed among these distances:
29 3 0.02
30 21 0.17
31 86 0.70
32 9 0.07
33 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
ATCAGAACCAGAATCAGGTAACAGAATCAGA
Found at i:61476248 original size:37 final size:37
Alignment explanation
Indices: 61476188--61476335 Score: 131
Period size: 37 Copynumber: 4.3 Consensus size: 37
61476178 GAACTAGAAT
* ** *
61476188 CAGAATCAGAATTAGAATTAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
* *
61476225 CAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
61476262 CAGAATCAGAAT------CAG--T----ATCAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
* * *
61476287 CAAAATTAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
61476324 CAGAATCAGAAT
1 CAGAATCAGAAT
61476336 TAGTATCAGG
Statistics
Matches: 86, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
25 18 0.21
29 1 0.01
31 6 0.07
33 1 0.01
37 60 0.70
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
Found at i:61476283 original size:62 final size:62
Alignment explanation
Indices: 61476217--61476365 Score: 253
Period size: 62 Copynumber: 2.4 Consensus size: 62
61476207 AGAATCAGAA
* *
61476217 TCAGGTGACAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTA
1 TCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTA
* * *
61476279 TCAGGTAACAAAATTAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATTAGTA
1 TCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTA
61476341 TCAGGTAACAGAATCAGAATCAGAA
1 TCAGGTAACAGAATCAGAATCAGAA
61476366 TATGAATGCA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (62 bp):
TCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTA
Found at i:61476333 original size:25 final size:25
Alignment explanation
Indices: 61476183--61476366 Score: 109
Period size: 25 Copynumber: 7.4 Consensus size: 25
61476173 TATCAGAACT
* *
61476183 AGAATCAGAATCA-G-AATTAGAATT
1 AGAATCAGAATCAGGTAA-CAGAATC
*
61476207 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
* * *
61476232 AAAATCAGAACCA-G-AATCAGAATT
1 AGAATCAGAATCAGGTAA-CAGAATC
*
61476256 AGGTAA-CAGAATCA-G-AATCAGTATC
1 A-G-AATCAGAATCAGGTAA-CAGAATC
* * *
61476281 AGGTAA-CAAAATTA-G-AATCAGAACC
1 A-G-AATCAGAATCAGGTAA-CAGAATC
*
61476306 AGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
* *
61476331 AGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
61476356 AGAATCAGAAT
1 AGAATCAGAAT
61476367 ATGAATGCAA
Statistics
Matches: 130, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
23 3 0.02
24 29 0.22
25 93 0.72
26 5 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:61476533 original size:27 final size:26
Alignment explanation
Indices: 61476485--61476544 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61476475 GCGAGGCTGC
*
61476485 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
61476512 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
61476538 CAGATAT
1 CAGATAT
61476545 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61476900 original size:27 final size:27
Alignment explanation
Indices: 61476870--61477225 Score: 444
Period size: 27 Copynumber: 13.2 Consensus size: 27
61476860 AACACCCTAG
* *
61476870 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
61476897 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
61476924 GGGTAAAATAAAAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
61476951 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
61476978 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
61477005 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
61477032 GGGTAAAATAGTAACTCTGTAAACCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
61477059 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
61477086 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
61477113 GGGTAAACT-GATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* *
61477140 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
61477167 GGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
61477194 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
61477221 GGGTA
1 GGGTA
61477226 CTTTGATAAT
Statistics
Matches: 283, Mismatches: 44, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 281 0.99
28 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:61477061 original size:108 final size:108
Alignment explanation
Indices: 61476870--61477225 Score: 561
Period size: 108 Copynumber: 3.3 Consensus size: 108
61476860 AACACCCTAG
* * * *
61476870 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG
* * * *
61476935 AAATTTTGTAAATTGAGGGTAAAATAGTAATTCTATCAATCGA
66 TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
*
61476978 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG
* *
61477043 TAACTCTGTAAACCGAGGGTAAAATAGTAATTCTATAAATCGA
66 TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
* *
61477086 GGGTAAAACGGTAATTTTGTAAATCGAGGGT-AAACTGATAATTTTGTAAATCGAGGGTAAAACA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAATA
*
61477150 GTAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGA
65 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
*
61477194 GGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTA
61477226 CTTTGATAAT
Statistics
Matches: 228, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
107 5 0.02
108 223 0.98
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (108 bp):
GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG
TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
Found at i:61477235 original size:27 final size:26
Alignment explanation
Indices: 61477070--61477347 Score: 135
Period size: 27 Copynumber: 10.3 Consensus size: 26
61477060 GGTAAAATAG
* *** *
61477070 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGT-ATTTGA
* **
61477097 TAATTTTGTAAATCGAGGGTAAACTGA
1 TAATTTTATAAATCGAGGGT-ATTTGA
* ****
61477124 TAATTTTGTAAATCGAGGGTAAAACA
1 TAATTTTATAAATCGAGGGTATTTGA
* * ** *
61477150 GTAATTCTGTAAATCGAGGGTAAAATAA
1 -TAATTTTATAAATCGAGGGT-ATTTGA
* ** *
61477178 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGT-ATTTGA
*
61477205 TAATTTTGTAAATCGAGGGTACTTTGA
1 TAATTTTATAAATCGAGGGTA-TTTGA
* ** *
61477232 TAATTTTACATGTCGAGGGTATTTTA
1 TAATTTTATAAATCGAGGGTATTTGA
* *
61477258 GTAATTTT-TCAAATTGATGGTATTTCGA
1 -TAATTTTAT-AAATCGAGGGTATTT-GA
* * * *
61477286 TAATTTTACAAATTGAGGATATTTGGG
1 TAATTTTATAAATCGAGGGTATTT-GA
* *
61477313 TAATTTTATAAACCGAGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTA-TTTGA
61477340 TAATTTTA
1 TAATTTTA
61477348 CAACTGGGGG
Statistics
Matches: 204, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
26 8 0.04
27 188 0.92
28 8 0.04
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.37
Consensus pattern (26 bp):
TAATTTTATAAATCGAGGGTATTTGA
Found at i:61477262 original size:54 final size:54
Alignment explanation
Indices: 61476870--61477350 Score: 310
Period size: 54 Copynumber: 8.9 Consensus size: 54
61476860 AACACCCTAG
* * *** * **
61476870 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
** * ** *
61476924 GGGTAAAATAAAAATTTTGTAAATTGAGGGTAAAAT-AGTAATTCTATC-AATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTA-CAAATCGA
** *** ** *
61476978 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAA-AACAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTACAAATCGA
* * * ** * *
61477032 GGGTAAAATAGTAACTCTGTAAACCGAGGGTAAAAT-AGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTACAAATCGA
** ** **
61477086 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAACTGATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
* * ** * * *
61477140 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
* * **
61477194 GGGTAAAATGGTAATTTTGTAAATCGAGGGTACTTTGATAATTTTACATGTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
*** * * *
61477248 GGGTATTTTAGTAATTTT-TCAAATTGATGGT-ATTTCGATAATTTTACAAATTGA
1 GGGTAAAATAGTAATTTTGT-AAATCGAGGGTAATTT-GATAATTTTACAAATCGA
* ** * * * * *
61477302 GGAT-ATTTGGGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAA
1 GGGTAAAAT-AGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAA
61477351 CTGGGGGTAT
Statistics
Matches: 344, Mismatches: 72, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
53 8 0.02
54 330 0.96
55 6 0.02
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (54 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
Found at i:61479896 original size:18 final size:17
Alignment explanation
Indices: 61479869--61479907 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
61479859 ATTTTGTAAA
61479869 AATTCATAAAAGGACTT
1 AATTCATAAAAGGACTT
* *
61479886 AATTGCATAAAATGAGTT
1 AATT-CATAAAAGGACTT
61479904 AATT
1 AATT
61479908 TTGCTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (17 bp):
AATTCATAAAAGGACTT
Found at i:61480373 original size:37 final size:37
Alignment explanation
Indices: 61480312--61480971 Score: 522
Period size: 37 Copynumber: 18.3 Consensus size: 37
61480302 AATGAATATC
* * *
61480312 GATTCTATTG-AAGTGCT-GAACGAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
*
61480347 GATTCTACTAAAAGTGCTCAAACGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61480384 GATTCTATTGAACGTGCTCAAACAAG--A-A---A-T
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * *
61480414 -A-TCTACTGAAAGTGCTC-AATGGGCAAT-GCCACA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61480447 GATCCTACTGAATGTGCTCAAACGAG-AATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * *
61480483 GATTTTACTGGAAGTGCTCAAACAAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61480520 GATTCTACTGAAAGTGCTCAAACGAGTAATACCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61480557 GGTACTACAGAAAGTGCTC-AACGAGCAATATCTA--
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * *
61480591 -ATCCTATTGAATA-TGATCAAATGAACAATGTCTACT
1 GATTCTACTGAA-AGTGCTCAAACGAGCAATATCTACT
* *
61480627 GATTCTACTGAAAGTGCTCAAACAAGAAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61480664 GATTCTACTAAAAGTGCTC-AACGAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * * *
61480700 GATCCTACTGAATGTGCTCAACCAAGCAATGTTTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
61480737 GATTCTACT-AAAGTTCTCAAATGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61480773 GGTTCTACT-AGAAGTGCTC-AACAAGCAATATCTGCT
1 GATTCTACTGA-AAGTGCTCAAACGAGCAATATCTACT
* * ** * *
61480809 GATCCTACTGAATGTAATCAAACAAGCAATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
61480846 GATTCTACTG-AAGTGCTCAAACGAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61480882 GATTCTACTGATTAGTTGCTCAAACAAGCAATATCTATT
1 GATTCTACTGA-AAG-TGCTCAAACGAGCAATATCTACT
* * * *
61480921 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCACT
1 GATTCTACTGAAAG--TGCTCAAACGAGCAATATCTACT
*
61480960 GATTATACTGAA
1 GATTCTACTGAA
61480972 TAAGATTTTT
Statistics
Matches: 493, Mismatches: 104, Indels: 52
0.76 0.16 0.08
Matches are distributed among these distances:
27 3 0.01
28 14 0.03
29 2 0.00
30 1 0.00
31 1 0.00
32 1 0.00
33 11 0.02
34 15 0.03
35 26 0.05
36 163 0.33
37 190 0.39
38 3 0.01
39 63 0.13
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (37 bp):
GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
Found at i:61480539 original size:73 final size:73
Alignment explanation
Indices: 61480451--61480971 Score: 457
Period size: 73 Copynumber: 7.1 Consensus size: 73
61480441 GCCACAGATC
* * *
61480451 CTACTGAATGTGCTCAAACGAG-AATGTCTACTGATTTTACTGGAAGTGCTCAAACAAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACT-GAAGTGCTCAAACAAGCAATAT
*
61480515 CTATTGATT
65 CTACTGATT
* * * * * * *
61480524 CTACTGAAAGTGCTCAAACGAGTAATACCTATTGGTACTACAGAAAGTGCTC-AACGAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTG-AAGTGCTCAAACAAGCAATAT
*
61480588 CTA---ATC
65 CTACTGATT
* * * * * *
61480594 CTATTGAATA-TGATCAAATGAACAATGTCTACTGATTCTACTGAAAGTGCTCAAACAAGAAATA
1 CTACTGAA-AGTGCTCAAACGAGCAATATCTACTGATTCTACTG-AAGTGCTCAAACAAGCAATA
61480658 TCTACTGATT
64 TCTACTGATT
* * * * * *
61480668 CTACTAAAAGTGCTC-AACGAGAAATATCTATTGATCCTACTGAATGTGCTCAACCAAGCAATGT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-GTGCTCAAACAAGCAATAT
* *
61480732 TTATTGATT
65 CTACTGATT
* * *
61480741 CTACT-AAAGTTCTCAAATGAGCAATATCTACTGGTTCTACTAGAAGTGCTC-AACAAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACT-GAAGTGCTCAAACAAGCAATAT
* *
61480804 CTGCTGATC
65 CTACTGATT
* ** * * * *
61480813 CTACTGAATGTAATCAAACAAGCAATGTCTACTGATTCTACTGAAGTGCTCAAACGAGAAATATC
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAGTGCTCAAACAAGCAATATC
*
61480878 TATTGATT
66 TACTGATT
* * * * *
61480886 CTACTGATTAGTTGCTCAAACAAGCAATATCTATTGATTATACTGAATGCTTGCTCAAACGAGCA
1 CTACTGA-AAG-TGCTCAAACGAGCAATATCTACTGATTCTACTGAA-G--TGCTCAAACAAGCA
* *
61480951 TTATCCACTGATT
61 ATATCTACTGATT
*
61480964 ATACTGAA
1 CTACTGAA
61480972 TAAGATTTTT
Statistics
Matches: 355, Mismatches: 75, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
70 41 0.12
71 14 0.04
72 39 0.11
73 165 0.46
74 36 0.10
75 30 0.08
76 1 0.00
78 29 0.08
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (73 bp):
CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAGTGCTCAAACAAGCAATATC
TACTGATT
Found at i:61483845 original size:17 final size:17
Alignment explanation
Indices: 61483825--61483858 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61483815 AAATAGATTT
61483825 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
61483842 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
61483859 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:61493082 original size:40 final size:40
Alignment explanation
Indices: 61493051--61493242 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
61493041 ATAACAACTC
61493051 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * *
61493091 GCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
61493131 GCACAAATGCCTTCGGGTCTTAGCCCAGATATAG-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTA
* * *
61493171 GCACAAATGCCTTCGGATCTTAGTCCAGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
61493211 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
61493243 CATTCGAATA
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:61496226 original size:48 final size:47
Alignment explanation
Indices: 61496151--61496300 Score: 183
Period size: 48 Copynumber: 3.1 Consensus size: 47
61496141 CACATGGTAG
* * * * *
61496151 GATGCCAATGTCATATCCCAGATATGGTCTTACATGCGATCACATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATG-GATCATATATC
* * *
61496199 GATGCCAATGCTATGTTCCAAACATGGTCTTACATGGGATCATAGATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACAT-GGATCATATATC
* *
61496247 GATGCCAATGCCGTGTCCCAGACATGGTCTTACATTGGATCATATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACA-TGGATCATATATC
61496295 GATGCC
1 GATGCC
61496301 GATATCCCAG
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 85 0.98
49 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGATCATATATC
Found at i:61499693 original size:49 final size:49
Alignment explanation
Indices: 61499633--61499803 Score: 163
Period size: 49 Copynumber: 3.5 Consensus size: 49
61499623 TGTTGTGTGT
*
61499633 CAGTGTAAGACCTATCT-GGATCATGGCATCAACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGA-CATGGCATCAAC-CTCGATAGATGAAAGC
* * ** * *
61499682 CAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* * * **
61499731 CAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGA-AG-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
61499778 CAGTGTAAGACC-ATCTTTGGGACATG
1 CAGTGTAAGACCTATC--TGGGACATG
61499804 ACGTCGGCAT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
46 3 0.03
47 16 0.16
48 11 0.11
49 69 0.68
50 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:61501046 original size:7 final size:7
Alignment explanation
Indices: 61501034--61501063 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
61501024 TAATTCACAC
61501034 GGGCTCG
1 GGGCTCG
61501041 GGGCTCG
1 GGGCTCG
61501048 GGGCTCG
1 GGGCTCG
*
61501055 GGGCACG
1 GGGCTCG
61501062 GG
1 GG
61501064 CGTGTTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.27, G:0.60, T:0.10
Consensus pattern (7 bp):
GGGCTCG
Found at i:61505281 original size:19 final size:19
Alignment explanation
Indices: 61505257--61505297 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
61505247 ATCTCATTTC
61505257 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
61505276 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
61505295 ATT
1 ATT
61505298 TACTTTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:61507027 original size:2 final size:2
Alignment explanation
Indices: 61507020--61507055 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
61507010 CTCATTCTTC
*
61507020 AT AT AT AT AT AT AT AT AT AT AT TT 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
61507056 TCATATTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:61507468 original size:45 final size:45
Alignment explanation
Indices: 61507417--61507507 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
61507407 CCAAAACATG
**
61507417 TGTCACATACATCATGAACTCTGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
*
61507462 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
61507507 T
1 T
61507508 CACATAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:61507511 original size:21 final size:21
Alignment explanation
Indices: 61507442--61507511 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
61507432 GAACTCTGAC
61507442 CACAACTCAATGAGTTCAGATGT
1 CACAACTCAATGAGTTCAGA--T
* ** * *
61507465 CACATATATC-ATGAACTCAAAC
1 CACA-A-CTCAATGAGTTCAGAT
61507487 CACAACTCAATGAGTTCAGAT
1 CACAACTCAATGAGTTCAGAT
61507508 CACA
1 CACA
61507512 TAGTTCCTAG
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 4 0.12
23 4 0.12
24 9 0.26
25 2 0.06
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (21 bp):
CACAACTCAATGAGTTCAGAT
Found at i:61526996 original size:45 final size:45
Alignment explanation
Indices: 61526900--61527070 Score: 224
Period size: 45 Copynumber: 3.9 Consensus size: 45
61526890 CGAATTCATC
* * *
61526900 CACCGGCATT-TCGCTTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTT
* * *
61526942 CTCCAGCATTATAGCCTGCCAGGCTCAAAGGCCCGAATAGTATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* *
61526987 CACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
*
61527032 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
61527071 TTACTGTACG
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 8 0.07
43 14 0.12
44 5 0.04
45 84 0.75
46 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
Found at i:61535234 original size:16 final size:17
Alignment explanation
Indices: 61535213--61535250 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
61535203 TGAATAAATT
*
61535213 ATTAAAAAATCAA-AAA
1 ATTAAAAAATAAATAAA
61535229 ATTAAAAAATAAATAAA
1 ATTAAAAAATAAATAAA
61535246 ATTAA
1 ATTAA
61535251 TTTTGTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTAAAAAATAAATAAA
Found at i:61543255 original size:16 final size:16
Alignment explanation
Indices: 61543234--61543269 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
61543224 TTTGGTTCGC
61543234 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
61543250 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
61543266 TGTA
1 TGTA
61543270 ATGAAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:61543279 original size:16 final size:16
Alignment explanation
Indices: 61543244--61543303 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
61543234 TGTATTGGAT
* * *
61543244 TAGAGGTGTATTGGAT
1 TAGAGGTGTAATGAAA
61543260 TAGAGGTGTAATGAAA
1 TAGAGGTGTAATGAAA
*
61543276 TAGAGATGTAATGAAA
1 TAGAGGTGTAATGAAA
*
61543292 TAGAAGTGTAAT
1 TAGAGGTGTAAT
61543304 AGCAAATCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (16 bp):
TAGAGGTGTAATGAAA
Found at i:61543332 original size:45 final size:44
Alignment explanation
Indices: 61543281--61543372 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 44
61543271 TGAAATAGAG
*
61543281 ATGTAATGAAATAGAAGTGTAATAGCAAATC-AACTGTTTGGTTGA
1 ATGTAATGAAATAGAAGCGTAATAG-AAATCTAA-TGTTTGGTTGA
* * * *
61543326 ATGTAATGGAATAGAGGCGTAATAGTAATCTTATGTTTGGTTGA
1 ATGTAATGAAATAGAAGCGTAATAGAAATCTAATGTTTGGTTGA
61543370 ATG
1 ATG
61543373 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (44 bp):
ATGTAATGAAATAGAAGCGTAATAGAAATCTAATGTTTGGTTGA
Found at i:61543675 original size:16 final size:16
Alignment explanation
Indices: 61543631--61543677 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
61543621 TACTATAAAA
*
61543631 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
61543647 TATTATT-AAATATAT
1 TATAATTAAAATATAT
61543662 TATAATTAAAATATAT
1 TATAATTAAAATATAT
61543678 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:61543875 original size:119 final size:120
Alignment explanation
Indices: 61543515--61544050 Score: 864
Period size: 120 Copynumber: 4.5 Consensus size: 120
61543505 ATTTAATTAT
* *
61543515 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
61543580 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
61543635 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
61543700 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
61543755 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAT-AAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
61543819 TCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* *
61543874 ATTTAA-ATTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAACA-TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
61543938 ATCAACATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * * *
61543994 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
61544051 TAAAATAATT
Statistics
Matches: 395, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
118 1 0.00
119 173 0.44
120 219 0.55
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:61543950 original size:239 final size:239
Alignment explanation
Indices: 61543515--61544047 Score: 856
Period size: 239 Copynumber: 2.2 Consensus size: 239
61543505 ATTTAATTAT
* *
61543515 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAT-AAATTCTTAATA
* *
61543580 ATCAATATCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATA
65 ATCAAAATCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAACATA
* * * * *
61543645 ATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAAATTAATATTCT
130 ATTAATATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAACATTCT
*
61543710 TATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
195 TATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
61543755 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAATTCTTAATAA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAATTCTTAATAA
61543819 TCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAA-ATT
66 TCAAAA-TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAACA-T
* *
61543883 AATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAACATTC
129 AATTAATATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAACATTC
*
61543948 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
194 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
* * * * *
61543994 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAA
61544048 ATTTAAAATA
Statistics
Matches: 273, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
238 19 0.07
239 248 0.91
240 6 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (239 bp):
ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAATTCTTAATAA
TCAAAATCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAACATAA
TTAATATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAACATTCTT
ATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
Found at i:61544038 original size:59 final size:58
Alignment explanation
Indices: 61543612--61544039 Score: 187
Period size: 59 Copynumber: 7.2 Consensus size: 58
61543602 CTCAAATCAT
* * *
61543612 AATATATGATACTATAAAATATAATTTAACATAATTATTATTAAATATATTATAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTAATATTAAAAATATTTTAATTAA
* * * ** * *
61543671 AATATATAAT-TTAGTAAAAT-T--CTTAAA-AATTAATATTCTTATATGAATTTACTCAAATCA
1 AATATATGATACTA-TAAAATATAATTTAAATAATTAATATT-AAAAAT--ATTT--T--AATTA
*
61543731 T
58 A
* * *
61543732 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTAATATTAAAAATATTTTAATTAA
* * * * * * ** * ** * ** * *
61543791 AATATATAAT-TTAATAAATTCTTAATAATCAA-AATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATACT-ATAAAAT-ATAAT-TTAAATAATTAATAT-TAAAAATATTTTAATTAA
61543851 AATATATGATACTATAAAATATAATTTAAATTAATTAATATTAAAAATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAAA-TAATTAATATTAAAAATATTTTAATTAA
* * * * * ** * *
61543910 AATATAT-A-A-T-T-TAATAAAATTCTTAATAATCAACATTCTTATATGAATTTACTAAAATCA
1 AATATATGATACTATAAAATATAATT-TAAATAATTAATATT-AAAAAT--ATTT--T--AATTA
*
61543970 T
58 A
*
61543971 AATATATGATACTATAAAATATAATTTGAAGTAATTAATATTAAAAATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTAATATTAAAAATATTTTAATTAA
61544030 AATATATGAT
1 AATATATGAT
61544040 TTAATAAAAT
Statistics
Matches: 264, Mismatches: 70, Indels: 70
0.65 0.17 0.17
Matches are distributed among these distances:
54 26 0.10
55 12 0.05
56 5 0.02
57 8 0.03
58 8 0.03
59 78 0.30
60 38 0.14
61 34 0.13
62 4 0.02
63 9 0.03
64 5 0.02
65 10 0.04
66 27 0.10
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTAATATTAAAAATATTTTAATTAA
Found at i:61544101 original size:47 final size:46
Alignment explanation
Indices: 61544032--61544199 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
61544022 TTAATTAAAA
*
61544032 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
61544079 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
61544124 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
61544170 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
61544200 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 8 0.08
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:61544108 original size:101 final size:92
Alignment explanation
Indices: 61544047--61544223 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 92
61544037 GATTTAATAA
* *
61544047 AATTT-AAAATAATT-ATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTCATAA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA
61544110 TATTAAATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * *
61544138 AATTTCATAAAATTCGTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
61544203 TTAAATATAATTTAA-TAATAA
66 TTAAATATAATTTAATTAATAA
61544224 AATGTTCTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
91 73 0.94
92 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:61544219 original size:17 final size:15
Alignment explanation
Indices: 61544188--61544226 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
61544178 TTTATACAAT
61544188 TTAAAATAATTAATA
1 TTAAAATAATTAATA
61544203 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
61544220 ATAAAAT
1 TTAAAAT
61544227 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:61547898 original size:3 final size:3
Alignment explanation
Indices: 61547885--61547984 Score: 193
Period size: 3 Copynumber: 33.7 Consensus size: 3
61547875 CACATGTCAA
61547885 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
61547932 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
61547980 TTC TT
1 TTC TT
61547985 TGGTGAGGAC
Statistics
Matches: 96, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 94 0.98
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:61554095 original size:53 final size:53
Alignment explanation
Indices: 61553939--61554104 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
61553929 GACGAAAAAT
* * **
61553939 ATGTGATAAGTGTG-C-CCGTTTAAGACTATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
61553991 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
61554044 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
61554098 TATGTGA
1 -ATGTGA
61554105 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:61557972 original size:43 final size:44
Alignment explanation
Indices: 61557869--61557972 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 44
61557859 TCTGGGAAGT
* * * * ** *
61557869 TGGCATCGATTTTTGATTTATGTGTAAAACCATGTTTGGGACAT
1 TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
* * *
61557913 TGGCATTG-TATATGATTT-CGCGTAAAACCCTGTCTACGACAG
1 TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
61557955 TGGCATCGATATTTGATT
1 TGGCATCGATATTTGATT
61557973 ACATGTAAGA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
42 24 0.51
43 16 0.34
44 7 0.15
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (44 bp):
TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
Found at i:61558003 original size:43 final size:43
Alignment explanation
Indices: 61557845--61558003 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
61557835 TATGTGTCGT
* * *
61557845 CGTGTAAGACCATGTCTGGGA-AGTTGGCATCGATTTTTGATTTA
1 CGTGTAAAACCACGTCTGGGACA-TTGGCATCGATATTTGA-TTA
* * * * * *
61557889 TGTGTAAAACCATGTTTGGGACATTGGCATTG-TATATGATTT
1 CGTGTAAAACCACGTCTGGGACATTGGCATCGATATTTGATTA
* ** *
61557931 CGCGTAAAACC-CTGTCTACGACAGTGGCATCGATATTTGATTA
1 CGTGTAAAACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
* *
61557974 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAAACCACGTCTGGGACATTGGCAT
61558004 TGTACAAGCT
Statistics
Matches: 88, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.28
43 35 0.40
44 27 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
CGTGTAAAACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:61578514 original size:26 final size:27
Alignment explanation
Indices: 61578485--61578535 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
61578475 AATATTAACA
61578485 TAATTAAATAATACTTA-TATTTTTGG
1 TAATTAAATAATACTTATTATTTTTGG
*
61578511 TAATTAAATAATATTTATTATTTTT
1 TAATTAAATAATACTTATTATTTTT
61578536 TATGATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
TAATTAAATAATACTTATTATTTTTGG
Found at i:61578545 original size:22 final size:22
Alignment explanation
Indices: 61578518--61578580 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
61578508 TGGTAATTAA
61578518 ATAATATTTATTATTTTTTATG
1 ATAATATTTATTATTTTTTATG
* *
61578540 ATAATA-GTATT-TATATTTATG
1 ATAATATTTATTAT-TTTTTATG
61578561 ATAAATATTATATTATTTTT
1 AT-AATATT-TATTATTTTT
61578581 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 10 0.31
24 7 0.22
25 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATATTTATTATTTTTTATG
Found at i:61578558 original size:21 final size:23
Alignment explanation
Indices: 61578534--61578582 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
61578524 TTTATTATTT
61578534 TTTATGAT-AATAGTAT-TTATA
1 TTTATGATAAATAGTATATTATA
* *
61578555 TTTATGATAAATATTATATTATT
1 TTTATGATAAATAGTATATTATA
61578578 TTTAT
1 TTTAT
61578583 TTTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTATGATAAATAGTATATTATA
Found at i:61578634 original size:30 final size:30
Alignment explanation
Indices: 61578562--61578642 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
61578552 ATATTTATGA
61578562 TAAATATTATATTATTTTTATTTTTAATAT
1 TAAATATTATATTATTTTTATTTTTAATAT
*
61578592 TAAGATA-AATATTATTTAACTT-TTTTT-A-AT
1 TAA-ATATTATATTATTT---TTATTTTTAATAT
*
61578622 TAAATATTATATTATATTTAT
1 TAAATATTATATTATTTTTAT
61578643 GATAAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 3 0.07
30 25 0.60
31 4 0.10
32 5 0.12
33 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (30 bp):
TAAATATTATATTATTTTTATTTTTAATAT
Found at i:61578856 original size:19 final size:18
Alignment explanation
Indices: 61578832--61578877 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
61578822 GGATTTTTAC
61578832 TAAAATTAAAAATATTATT
1 TAAAATTAAAAATATTA-T
* *
61578851 TAAAATTGAAATTATTAT
1 TAAAATTAAAAATATTAT
61578869 TAAAATTAA
1 TAAAATTAA
61578878 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAATTAAAAATATTAT
Found at i:61581530 original size:30 final size:30
Alignment explanation
Indices: 61581489--61581545 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
61581479 AATCGATTTC
*
61581489 AAGCATAGGGGTAAAATGGTCATTTTGTGA
1 AAGCATAGGGGTAAAATAGTCATTTTGTGA
*
61581519 AAGCCTAGGGGTAAAATAGTCATTTTG
1 AAGCATAGGGGTAAAATAGTCATTTTG
61581546 CCCAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (30 bp):
AAGCATAGGGGTAAAATAGTCATTTTGTGA
Found at i:61584894 original size:19 final size:19
Alignment explanation
Indices: 61584870--61584910 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
61584860 TGTTCATTTC
61584870 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
61584889 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
61584908 ATT
1 ATT
61584911 TAATTTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:61584916 original size:20 final size:20
Alignment explanation
Indices: 61584875--61584916 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61584865 ATTTCATTCA
*
61584875 TTGCATTTAGATTAATTCAT
1 TTGCATTTAGATTAATTAAT
61584895 TTGCATTTA-ATTAATTTAAT
1 TTGCATTTAGATTAA-TTAAT
61584915 TT
1 TT
61584917 AACACCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
TTGCATTTAGATTAATTAAT
Found at i:61586390 original size:21 final size:21
Alignment explanation
Indices: 61586364--61586406 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61586354 GAAGAATGAC
61586364 GCCTTAATCCAAATCCAAGTA
1 GCCTTAATCCAAATCCAAGTA
61586385 GCCTTAATCCAAATCCAAGTA
1 GCCTTAATCCAAATCCAAGTA
61586406 G
1 G
61586407 AAACACTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (21 bp):
GCCTTAATCCAAATCCAAGTA
Found at i:61603982 original size:79 final size:80
Alignment explanation
Indices: 61603881--61604027 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
61603871 TCCTCGTTCA
* * *
61603881 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
61603945 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* * *
61603960 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
61604025 TTA
66 TTA
61604028 GTATCTCACA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 34 0.56
80 27 0.44
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACG
Found at i:61604057 original size:40 final size:40
Alignment explanation
Indices: 61603881--61604103 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
61603871 TCCTCGTTCA
* * * *
61603881 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * *
61603920 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
*
61603960 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * *
61604000 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * * * * * *
61604040 AAGGCCTTC-GGATCTTAATCCAGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACG
* *
61604080 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61604104 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.24
40 114 0.73
41 6 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
Found at i:61611882 original size:40 final size:39
Alignment explanation
Indices: 61611784--61612006 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
61611774 TCCTCGTTCA
* * * * *
61611784 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
61611823 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
61611862 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
61611902 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
61611942 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
61611983 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61612007 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:61612006 original size:120 final size:119
Alignment explanation
Indices: 61611784--61612006 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
61611774 TCCTCGTTCA
* * * *
61611784 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
61611849 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
61611903 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
61611967 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
61612007 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61615092 original size:40 final size:40
Alignment explanation
Indices: 61614856--61615078 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
61614846 TGAGTGATGT
* * * *
61614856 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * *
61614896 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
61614936 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
61614975 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
61615015 CGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
61615055 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
61615079 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:61615100 original size:119 final size:119
Alignment explanation
Indices: 61614856--61615111 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 119
61614846 TGAGTGATGT
* *
61614856 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 CGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
* ** *
61614921 GCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
66 GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
* * * **
61614975 CGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
* *
61615038 GTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATC
64 GTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATC
* *
61615095 C-GGTTAAATTCCGAAGG
1 CGGGTTAAGTCCCGAAGG
61615112 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 80 0.69
120 32 0.28
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
CGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
Found at i:61622984 original size:40 final size:40
Alignment explanation
Indices: 61622749--61622970 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
61622739 AGTGATGTCT
* * * *
61622749 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
61622789 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
61622829 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
61622868 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
61622908 GGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
61622948 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
61622971 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 118 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:61622988 original size:80 final size:78
Alignment explanation
Indices: 61622753--61623003 Score: 251
Period size: 80 Copynumber: 3.2 Consensus size: 78
61622743 ATGTCTGGGC
* * * * *
61622753 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
61622816 AGATACTAATTCCGGGC
64 AG-GACTAA-TCCGGGT
* *
61622833 TAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
61622896 GTTACTAAATCCGGGT
65 G-GACT-AATCCGGGT
* **
61622912 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
61622977 GAGCTATATCC-GGT
66 GA-CTA-ATCCGGGT
* *
61622991 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
61623004 TACGTGATTT
Statistics
Matches: 146, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
78 2 0.01
79 70 0.48
80 72 0.49
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTAATCCGGGT
Found at i:61622992 original size:119 final size:119
Alignment explanation
Indices: 61622753--61623003 Score: 280
Period size: 119 Copynumber: 2.1 Consensus size: 119
61622743 ATGTCTGGGC
*
61622753 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
61622818 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGT
* * * **
61622872 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* *
61622935 A-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGT
64 AGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGT
* *
61622991 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
61623004 TACGTGATTT
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
118 4 0.04
119 76 0.68
120 32 0.29
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGT
Found at i:61624892 original size:10 final size:9
Alignment explanation
Indices: 61624866--61625401 Score: 259
Period size: 10 Copynumber: 57.9 Consensus size: 9
61624856 TACAAATATG
61624866 CATACATAA
1 CATACATAA
*
61624875 TATACATAA
1 CATACATAA
61624884 CAGTACATAA
1 CA-TACATAA
61624894 CATAACAT-A
1 CAT-ACATAA
*
61624903 TATACA-AA
1 CATACATAA
* *
61624911 TATA-AAAA
1 CATACATAA
*
61624919 CAT-CATAG
1 CATACATAA
* *
61624927 TAAACATAA
1 CATACATAA
61624936 CATACAT-A
1 CATACATAA
61624944 CATAACAGT-A
1 CAT-ACA-TAA
61624954 CATAACATAA
1 CAT-ACATAA
61624964 CATACGTATAAA
1 CATAC--AT-AA
*
61624976 TATACA-AA
1 CATACATAA
61624984 CATCACAGTAAA
1 CAT-ACA-T-AA
61624996 CATAACAT-A
1 CAT-ACATAA
61625005 CATACATAA
1 CATACATAA
61625014 CATAACATAA
1 CAT-ACATAA
61625024 CATAACATAA
1 CAT-ACATAA
61625034 CATACAT-A
1 CATACATAA
61625042 CA-A-ATATA
1 CATACATA-A
*
61625050 CAAACAT-A
1 CATACATAA
*
61625058 -ATA-GTAAA
1 CATACAT-AA
61625066 CATAACAT-A
1 CAT-ACATAA
61625075 CATACATAA
1 CATACATAA
61625084 CAATACATAA
1 C-ATACATAA
61625094 CAT--ATAA
1 CATACATAA
*
61625101 CATACA-CA
1 CATACATAA
61625109 CA-A-ATATA
1 CATACATA-A
*
61625117 CAAACATAA
1 CATACATAA
61625126 CAGTAAACATAA
1 CA-T--ACATAA
61625138 CATAACATAA
1 CAT-ACATAA
*
61625148 CATAGCATAG
1 CATA-CATAA
*
61625158 CATAGCATAG
1 CATA-CATAA
61625168 CATAACATAA
1 CAT-ACATAA
61625178 CATAACATAA
1 CAT-ACATAA
*
61625188 CATAACACAA
1 CAT-ACATAA
61625198 CATAACATAA
1 CAT-ACATAA
61625208 CATAACATAA
1 CAT-ACATAA
61625218 CATAACATAA
1 CAT-ACATAA
61625228 CATAACATAA
1 CAT-ACATAA
61625238 CATACA-AA
1 CATACATAA
*
61625246 TATACA-AA
1 CATACATAA
61625254 CATAACAGT-A
1 CAT-ACA-TAA
61625264 -A-ACATAA
1 CATACATAA
*
61625271 CAGACAT-A
1 CATACATAA
61625279 CATA-ATAGTA
1 CATACATA--A
61625289 CATAACATAA
1 CAT-ACATAA
*
61625299 CAAACATAA
1 CATACATAA
61625308 -ATACATAA
1 CATACATAA
61625316 CAGTACATAA
1 CA-TACATAA
61625326 CATACATAA
1 CATACATAA
*
61625335 TATACATAA
1 CATACATAA
*
61625344 CAGTTTA-AAAA
1 CA---TACATAA
61625355 CATAACAT-A
1 CAT-ACATAA
61625364 CATACATAAA
1 CATACAT-AA
*
61625374 CAGTACAGAAA
1 CA-TACA-TAA
61625385 CATACATAA
1 CATACATAA
*
61625394 CAAACATA
1 CATACATA
61625402 CCTTTCACCC
Statistics
Matches: 429, Mismatches: 36, Indels: 124
0.73 0.06 0.21
Matches are distributed among these distances:
6 5 0.01
7 18 0.04
8 73 0.17
9 108 0.25
10 178 0.41
11 20 0.05
12 27 0.06
ACGTcount: A:0.57, C:0.19, G:0.03, T:0.21
Consensus pattern (9 bp):
CATACATAA
Found at i:61624906 original size:65 final size:65
Alignment explanation
Indices: 61624803--61625372 Score: 432
Period size: 65 Copynumber: 8.4 Consensus size: 65
61624793 ACTTTCATTA
* *
61624803 AACATGACATACATAATATACA-AACATAACAGTAATATAACAAATA-ACAAACATACA-AATAT
1 AACAT-ACATACATAACATACATAACATAACA-T-ATAT-ACAAATATACAAACATACATAATAA
*
61624865 GCAT
62 ACAT
* * *
61624869 -ACATAATATACATAACAGTACATAACATAACATATATACAAATATAAAAACAT-CATAGTAAAC
1 AACAT-ACATACATAACA-TACATAACATAACATATATACAAATATACAAACATACATAATAAAC
61624932 AT
64 AT
** * *
61624934 AACATACATACATAACAGTACATAACATAACATACGTATAAATATACAAACATCACAGTAAACAT
1 AACATACATACATAACA-TACATAACATAACATATATACAAATATACAAACAT-ACA-T-AATA-
61624999 AACAT
61 AACAT
* *
61625004 -ACATACATAACATAACATAACATAACATAACATACATACAAATATACAAACATA-ATAGTAAAC
1 AACATACAT-ACATAACAT-ACATAACATAACATATATACAAATATACAAACATACATAATAAAC
61625067 AT
64 AT
* * * *
61625069 AACATACATACATAACAATACATAACATATAACATACACACAAATATACAAACATA-ACAGTAAA
1 AACATACATACATAAC-ATACATAAC--ATAACATATATACAAATATACAAACATACATAATAAA
61625133 CAT
63 CAT
* * * * *
61625136 AACAT--A-ACATAACATAGCATAGCATAGCATAGCATA-ACATA-ACATAACATAACATAACAC
1 AACATACATACATAACATA-CATAACATAACATA-TATACAAATATACA-AACAT-ACATAATA-
61625196 AACAT
61 AACAT
* * *
61625201 AACATAACATAACATAACATAACATAACATAACATAACATACAAATATACAAACATA-ACAGTAA
1 AACAT-ACAT-ACATAACAT-ACATAACATAACAT-ATATACAAATATACAAACATACATAATAA
61625265 ACAT
62 ACAT
* * * *
61625269 AACAGACATACATAATAGTACATAACATAACAAACATAAATACATAACAGTACATAACATACATA
1 AACATACATACATAACA-TACATAACAT----AACATATATACA-AATA-TACA-AACATACATA
*
61625334 ATATACAT
58 ATAAACAT
* *
61625342 AACAGTTTAAAAACATAACATACAT-ACATAA
1 AACA---TACATACATAACATACATAACATAA
61625373 ACAGTACAGA
Statistics
Matches: 417, Mismatches: 44, Indels: 82
0.77 0.08 0.15
Matches are distributed among these distances:
61 3 0.01
62 16 0.04
63 7 0.02
64 24 0.06
65 104 0.25
66 37 0.09
67 59 0.14
68 12 0.03
69 21 0.05
70 80 0.19
71 15 0.04
72 9 0.02
73 12 0.03
74 4 0.01
75 5 0.01
76 9 0.02
ACGTcount: A:0.57, C:0.19, G:0.03, T:0.21
Consensus pattern (65 bp):
AACATACATACATAACATACATAACATAACATATATACAAATATACAAACATACATAATAAACAT
Found at i:61625363 original size:5 final size:5
Alignment explanation
Indices: 61624803--61625345 Score: 341
Period size: 5 Copynumber: 109.8 Consensus size: 5
61624793 ACTTTCATTA
* * *
61624803 AACAT GACAT -ACAT AATAT -ACA- AACAT AACAGT AATAT AACAAAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACA-T AACAT AAC--AT
* * *
61624848 AACA- AACAT ACAAAT ATGCAT -ACAT AATAT -ACAT AACAGT -ACAT
1 AACAT AACAT A-ACAT A-ACAT AACAT AACAT AACAT AACA-T AACAT
* * * *
61624892 AACAT AACAT -ATAT -ACA- AATAT AA-A- AACAT CATAGT AAACAT AACAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACA-T -AACAT AACAT
61624939 -ACAT -ACAT AACAGT -ACAT AACAT AACAT -ACGTAT AA-AT ATACA-
1 AACAT AACAT AACA-T AACAT AACAT AACAT AAC--AT AACAT A-ACAT
*
61624982 AACAT CACAGT AAACAT AACAT -ACAT -ACAT AACAT AACAT AACAT AACAT
1 AACAT AACA-T -AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
* *
61625032 AACAT -ACAT ACAAAT ATACA- AACAT AATAGT AAACAT AACAT -ACAT
1 AACAT AACAT A-ACAT A-ACAT AACAT AACA-T -AACAT AACAT AACAT
*
61625078 -ACAT AACA- ATACAT AACATAT AACAT ACACAC AA-AT ATACA- AACAT
1 AACAT AACAT A-ACAT AAC--AT AACAT A-ACAT AACAT A-ACAT AACAT
* * * *
61625124 AACAGT AAACAT AACAT AACAT AACAT AGCAT AGCAT AGCAT AGCAT AACAT
1 AACA-T -AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
*
61625176 AACAT AACAT AACAT AACAC AACAT AACAT AACAT AACAT AACAT AACAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
*
61625226 AACAT AACAT AACAT ACAAAT ATACA- AACAT AACAGT AAACAT AACA-
1 AACAT AACAT AACAT A-ACAT A-ACAT AACAT AACA-T -AACAT AACAT
* *
61625273 GACAT -ACAT AATAGT -ACAT AACAT AACA- AACAT AA-AT -ACAT AACAGT
1 AACAT AACAT AACA-T AACAT AACAT AACAT AACAT AACAT AACAT AACA-T
*
61625320 -ACAT AACAT -ACAT AATAT -ACAT AACA
1 AACAT AACAT AACAT AACAT AACAT AACA
61625346 GTTTAAAAAC
Statistics
Matches: 437, Mismatches: 40, Indels: 122
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.01
4 102 0.23
5 260 0.59
6 45 0.10
7 27 0.06
ACGTcount: A:0.57, C:0.19, G:0.03, T:0.21
Consensus pattern (5 bp):
AACAT
Found at i:61637098 original size:46 final size:47
Alignment explanation
Indices: 61636910--61637227 Score: 209
Period size: 46 Copynumber: 6.8 Consensus size: 47
61636900 GGGGCAAGTT
* *
61636910 GCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCG-AG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTA-CATC-TCGTAG
* * * * *
61636959 GCTGATGTCATATCCCAGACAAGGTCTTACACTAGCTCTCACATATTCGT--
1 GCCGATGCCATGTCCCAGAC-ATGTCTTACACTAG--CT-ACAT-CTCGTAG
* *
61637009 GCCGATGCCATGTCCCAAACATGGTCTTACACTAAC-ACATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTACATCTCGTAG
* *
61637055 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC-TACATCTCGTAG
** * * *
61637101 GTTGATG-CATGTCTCAAACATGTCTTACACTAGC-AC-TCGTC-TCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTACATC-TCGT--AG
* *
61637147 CCCGATGCCATGTTCCAGACATGGTCTTACACTAGCT-C-TCAAT-GT-G
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTACATC--TCGTAG
*
61637193 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCT
61637228 CACACCAGTG
Statistics
Matches: 214, Mismatches: 35, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
43 2 0.01
44 29 0.14
45 31 0.14
46 57 0.27
47 11 0.05
48 17 0.08
49 30 0.14
50 28 0.13
51 8 0.04
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTACATCTCGTAG
Found at i:61637169 original size:138 final size:140
Alignment explanation
Indices: 61636910--61637223 Score: 347
Period size: 138 Copynumber: 2.2 Consensus size: 140
61636900 GGGGCAAGTT
*
61636910 GCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGGCTGATGTCATATCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCTGATGTCATATCCC
*
61636975 AGACAAGGTCTTACACTAGCTCTCACATATTCGTGCCGATGCCATGTCCCAAACATGGTCTTACA
64 AAACAAGGTCTTACACTAGCTCTCACATATTC--GCCGATGCCATGTCCCAAACATGGTCTTACA
61637040 CTAACACATC-TCGTA
127 CTAACAC-TCAT-GTA
* * * *
61637055 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTC-TCGAGGTTGATG-CATGTCTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCATCGAGGCTGATGTCATATCCCA
* * * *
61637117 AAC-ATGTCTTACACTAGCACTCGTCTCA-A-TC-CCGATGCCATGTTCCAGACATGGTCTTACA
65 AACAAGGTCTTACACTAG--CTC-TCACATATTCGCCGATGCCATGTCCCAAACATGGTCTTACA
* * *
61637178 CTAGCTCTCAATGTG
127 CTAACACTC-ATGTA
*
61637193 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
61637224 AGCTCACACC
Statistics
Matches: 149, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
137 2 0.01
138 65 0.44
139 1 0.01
140 13 0.09
141 11 0.07
142 16 0.11
143 21 0.14
144 13 0.09
145 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCTGATGTCATATCCCAA
ACAAGGTCTTACACTAGCTCTCACATATTCGCCGATGCCATGTCCCAAACATGGTCTTACACTAA
CACTCATGTA
Found at i:61637199 original size:92 final size:90
Alignment explanation
Indices: 61636962--61637226 Score: 245
Period size: 92 Copynumber: 2.9 Consensus size: 90
61636952 CATCGAGGCT
* * * *
61636962 GATGTCATATCCCAGACAAGGTCTTACACTAGCTCTCACATATTCGTGCCGATGCCATGTCCCAA
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCA-ATAGT-G-GCTGATG-CATGTCCCAA
* *
61637027 ACATGGTCTTACACTAACACATCTCGTAGCC
61 ACAT-GTCTTACACTAGCACATCTCGTACCC
* * * * *
61637058 GATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTC--TCGAGGTTGATGCATGTCTCAAAC
1 GATGCATGTCCCAGACATGGTCTTACACTAGC-T-C-TCAATAGTGGCTGATGCATGTCCCAAAC
61637120 ATGTCTTACACTAGCAC-TCGTC-TCAATCCC
63 ATGTCTTACACTAGCACATC-TCGT--A-CCC
* *
61637150 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCAAT-GTGGCTGATGCATGTCCCAGACAT
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCAATAGTGGCTGATGCATGTCCCAAACAT
61637214 GTCTTACACTAGC
65 GTCTTACACTAGC
61637227 TCACACCAGT
Statistics
Matches: 141, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
89 3 0.02
90 16 0.11
91 16 0.11
92 45 0.32
93 16 0.11
94 25 0.18
95 13 0.09
96 5 0.04
97 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCTCTCAATAGTGGCTGATGCATGTCCCAAACATG
TCTTACACTAGCACATCTCGTACCC
Found at i:61638695 original size:46 final size:47
Alignment explanation
Indices: 61638575--61638822 Score: 178
Period size: 46 Copynumber: 5.3 Consensus size: 47
61638565 CATGTCCTGA
*
61638575 ACATGGTCTTACACTGGC-TATCATCATCGAGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTTA-CATC-TCGAGGCTGATG-CATGTCCCAG
* * *
61638624 TCATGGTCTTACATTGAC--ACATCTCGTA-GCTGATGCATGTCCCAG
1 ACATGGTCTTACACTGGCTTACATCTCG-AGGCTGATGCATGTCCCAG
* *
61638669 ACAT-GTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCTCAG
1 ACATGGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGTCCCAG
* * * * * *
61638715 ACAT-GTCTTGCACTAGCAGTT--GTCTCAATGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGC--TTACATCTCGAGGCTGATG-CATGTCCCAG
* * * *
61638762 GCATGGTCTTACACTGGCTCT-CATAAT-GTGG-TCGATGTATGTCCCAG
1 ACATGGTCTTACACTGGCT-TACAT-CTCGAGGCT-GATGCATGTCCCAG
61638809 ACAT-GTCTTACACT
1 ACATGGTCTTACACT
61638823 AGCTCACACC
Statistics
Matches: 161, Mismatches: 26, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.07
45 14 0.09
46 70 0.43
47 30 0.19
48 20 0.12
49 16 0.10
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (47 bp):
ACATGGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGTCCCAG
Found at i:61642761 original size:49 final size:49
Alignment explanation
Indices: 61642672--61642798 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
61642662 AGATGTCGAC
* * *
61642672 GCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAG-GCCAAT
1 GCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCCAAT
* * * * * * *
61642721 TCCGTATCCCAGACAAGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCAAT
*
61642770 GCCATGTCCCAGACAGGTCTTACACTGAC
1 GCCATATCCCAGACAGGTCTTACACTGAC
61642799 ACACAACAAG
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCAAT
Found at i:61644791 original size:22 final size:22
Alignment explanation
Indices: 61644766--61644811 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
61644756 ACGAAGCATT
61644766 ACCAGACTTATTAAACAATTAA
1 ACCAGACTTATTAAACAATTAA
61644788 ACCAGACTTATTAAACAATTAA
1 ACCAGACTTATTAAACAATTAA
61644810 AC
1 AC
61644812 AATCATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (22 bp):
ACCAGACTTATTAAACAATTAA
Found at i:61649729 original size:45 final size:44
Alignment explanation
Indices: 61649679--61649775 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
61649669 TCCAATACTG
** * *
61649679 CTTAGGGAGACAAAATCTACAATCTTCAGTTTGCTTCCTTGCTAC
1 CTTAGGGAGACAAAA-CTACAATCTTCAGCCTACTCCCTTGCTAC
* * *
61649724 CTTAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
1 CTTAGGGAGACAAAACTACAATCTTCAGCCTACTCCCTTGCTAC
*
61649768 CTCAGGGA
1 CTTAGGGA
61649776 AATAAGGCTA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 31 0.72
45 12 0.28
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (44 bp):
CTTAGGGAGACAAAACTACAATCTTCAGCCTACTCCCTTGCTAC
Found at i:61649748 original size:177 final size:176
Alignment explanation
Indices: 61649507--61650229 Score: 926
Period size: 177 Copynumber: 4.1 Consensus size: 176
61649497 ACTGTTATGA
** * * * *
61649507 GGAGACAAGCTCTACAATATTTAGTCTGCTCCCTTGCTACCTTAGGACGATAAGACTACAATCTT
1 GGAGACAAAATCTACAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTT
* * * * * * * *
61649572 CAACTTGCTCTCTTACTACCTCAAAGAGATAAGACTGGTGGCTAAAATCTACTCTCCTGCTACCT
66 CAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCT
* * * *
61649637 CGGGAAGATAAGATTCACCATTTAAGATTTGCTCCAATACTGCTTAG
131 CGGGAAGATAAGATTCACCATTT-TGATCTGCTCCACTACTACTTAG
*
61649684 GGAGACAAAATCTACAATCTTCAGTTTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTT
1 GGAGACAAAATCTACAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTT
* * * * * *
61649749 CAGCCTACTCCCTTGCTACCTCAGGGAAATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTTCCT
66 CAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCT
* *
61649814 CGGGAAGATAAGATTCTCCATTTTTGATTTGCTCCACTACTACTTAG
131 CGGGAAGATAAGATTCACCA-TTTTGATCTGCTCCACTACTACTTAG
* * * *
61649861 GGAGACAAAATTTACAATCTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTACAATCTT
1 GGAGACAAAATCTACAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTT
** * *
61649926 CAGTCTGCTCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCTTGCTACCT
66 CAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCT
* * ** * * * *
61649991 TGGGAAGATAAGATTCCCCGCCTTTGATCTGCTCTATTGCTA-TATCAA
131 CGGGAAGATAAGATTCACC-ATTTTGATCTGCTCCACTACTACT-T-AG
* * * *
61650039 GGAGATAATATCTATAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGAGTACAATCTT
1 GGAGACAAAATCTACAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTT
* *
61650104 CAACCTGCTCCCTTGCTACATCAGAGAGATAAGGCTAGTGGCTAAAATTTGCTCCCCTGCTACCT
66 CAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCT
*
61650169 TGGGAAGATAAGATTCACCATTTTCGATCTGCTCCACTACTACTTAG
131 CGGGAAGATAAGATTCACCATTTT-GATCTGCTCCACTACTACTTAG
*
61650216 AGAGACAAAATCTA
1 GGAGACAAAATCTA
61650230 ACTTCACCAT
Statistics
Matches: 471, Mismatches: 69, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
176 1 0.00
177 316 0.67
178 153 0.32
179 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (176 bp):
GGAGACAAAATCTACAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTT
CAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCT
CGGGAAGATAAGATTCACCATTTTGATCTGCTCCACTACTACTTAG
Found at i:61649941 original size:44 final size:44
Alignment explanation
Indices: 61649873--61650136 Score: 163
Period size: 44 Copynumber: 6.0 Consensus size: 44
61649863 AGACAAAATT
**
61649873 TACAATCTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGAC
1 TACAATCTTCAGTCTGCTCCCTTGCTACCTCAAGAAGATAAGAC
* * *
61649917 TACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGGAGATAAGGC
1 TACAATCTTCAGTCTGCTCCCTTGCTACCTCAAGAAGATAAGAC
**** ** * *** *
61649961 TAGTGGCTAAAATCTGCTCCCTTGCTACCTTGGGAAGATAAGAT
1 TACAATCTTCAGTCTGCTCCCTTGCTACCTCAAGAAGATAAGAC
* *** * ** ** * *
61650005 TCCCCGCCTT-TGATCTGCTCTATTGCTATATCAAGGAGATAATATC
1 T-ACAATCTTCAG-TCTGCTCCCTTGCTACCTCAAGAAGATAAGA-C
* * * * *
61650051 TATAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGAG
1 TACAATCTTCAGTCTGCTCCCTTGCTACCTCAAGAAGATAAGAC
** *
61650095 TACAATCTTCAACCTGCTCCCTTGCTACATC-AGAGAGATAAG
1 TACAATCTTCAGTCTGCTCCCTTGCTACCTCAAGA-AGATAAG
61650137 GCTAGTGGCT
Statistics
Matches: 158, Mismatches: 57, Indels: 10
0.70 0.25 0.04
Matches are distributed among these distances:
43 2 0.01
44 104 0.66
45 50 0.32
46 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
TACAATCTTCAGTCTGCTCCCTTGCTACCTCAAGAAGATAAGAC
Found at i:61650201 original size:89 final size:89
Alignment explanation
Indices: 61649710--61650203 Score: 279
Period size: 89 Copynumber: 5.6 Consensus size: 89
61649700 ATCTTCAGTT
* * * * * * * *
61649710 TGCTTCCTTGCTACCTTAGGAAGATAAGACT-ACAATCTTC-AGCCTACTCCCTTGCTACCTCAG
1 TGCTCCCTTGCTACCTTGGGAAGATAAGATTCACCATTTTCGA-TCTGCTCCCTTGCTACATCAG
* *
61649773 GGAAATAAGGCTAGTGGCTAAAATC
65 AGAGATAAGGCTAGTGGCTAAAATC
* * * * * * * * *
61649798 TGCTCCCCTACTTCCTCGGGAAGATAAGATTCTCCATTTTTGATTTGCTCCAC-TACTAC-TTAG
1 TGCTCCCTTGCTACCTTGGGAAGATAAGATTCACCATTTTCGATCTGCTCC-CTTGCTACATCAG
* * *** **** ** *
61649861 GGAGACAAAATTTACAATCTTCAGTC
65 AGAGA-TAAGGCTAGTGGCTAAAATC
** *** * * * *
61649887 TGCTTTCTTGCTACCTCAAGAAGATAAGACT-ACAATCTTC-AGTCTGCTCCCTTGCTACCTCAG
1 TGCTCCCTTGCTACCTTGGGAAGATAAGATTCACCATTTTCGA-TCTGCTCCCTTGCTACATCAG
*
61649950 GGAGATAAGGCTAGTGGCTAAAATC
65 AGAGATAAGGCTAGTGGCTAAAATC
* ** ** *
61649975 TGCTCCCTTGCTACCTTGGGAAGATAAGATTCCCCGCCTTT-GATCTGCTCTATTGCTATATCA-
1 TGCTCCCTTGCTACCTTGGGAAGATAAGATTCACC-ATTTTCGATCTGCTCCCTTGCTACATCAG
** ** ** *
61650038 AGGAGATAATATCTA-TAATCTTCAGTC
65 A-GAGATAA-GGCTAGT-GGCTAAAATC
* * * * * * *
61650065 TGCTTCCTTGCTACCTTAGGAAGATAAGAGT-ACAATCTTCAACCTGCTCCCTTGCTACATCAGA
1 TGCTCCCTTGCTACCTTGGGAAGATAAGATTCACCATTTTCGATCTGCTCCCTTGCTACATCAGA
*
61650129 GAGATAAGGCTAGTGGCTAAAATT
66 GAGATAAGGCTAGTGGCTAAAATC
*
61650153 TGCTCCCCTGCTACCTTGGGAAGATAAGATTCACCATTTTCGATCTGCTCC
1 TGCTCCCTTGCTACCTTGGGAAGATAAGATTCACCATTTTCGATCTGCTCC
61650204 ACTACTACTT
Statistics
Matches: 283, Mismatches: 106, Indels: 33
0.67 0.25 0.08
Matches are distributed among these distances:
87 2 0.01
88 118 0.42
89 121 0.43
90 42 0.15
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (89 bp):
TGCTCCCTTGCTACCTTGGGAAGATAAGATTCACCATTTTCGATCTGCTCCCTTGCTACATCAGA
GAGATAAGGCTAGTGGCTAAAATC
Found at i:61654532 original size:24 final size:24
Alignment explanation
Indices: 61654500--61654548 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
61654490 CTTAACCAGT
*
61654500 TGTTCTTGCATTTGTGTTTGCATC
1 TGTTCTTGCATTTCTGTTTGCATC
* *
61654524 TGTTCTTGCGTTTCTTTTTGCATC
1 TGTTCTTGCATTTCTGTTTGCATC
61654548 T
1 T
61654549 ATTCCAACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.18, G:0.18, T:0.57
Consensus pattern (24 bp):
TGTTCTTGCATTTCTGTTTGCATC
Found at i:61656931 original size:23 final size:21
Alignment explanation
Indices: 61656904--61656953 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
61656894 AGTAATATAC
* *
61656904 AAAATAATTTACATTAATTTAA
1 AAAATAATATACA-TAAATTAA
61656926 ATAAATAATATACATAAATTAA
1 A-AAATAATATACATAAATTAA
61656948 AAAATA
1 AAAATA
61656954 GTGTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
23 11 0.44
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATAATATACATAAATTAA
Found at i:61656977 original size:13 final size:13
Alignment explanation
Indices: 61656959--61656983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61656949 AAATAGTGTA
61656959 ATATAAATAATAT
1 ATATAAATAATAT
61656972 ATATAAATAATA
1 ATATAAATAATA
61656984 ATGTATAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:61661156 original size:117 final size:117
Alignment explanation
Indices: 61660947--61661168 Score: 327
Period size: 117 Copynumber: 1.9 Consensus size: 117
61660937 ATCACCAGGA
* * * * *
61660947 GCCATAGCCTAGCTATGGTCTTACATATAAACACTATCGTGATCTAACCATGGTATTATGTTCAT
1 GCCATAGCCCAGCTATGCTCTTACATATAAACACTACCATGATCTAACCATGGTATTACGTTCAT
*
61661012 AGTGTCATAACCCAGTTATGGTCTTATCCGTCAATTCATCCTTTACATTAAT
66 AGTGCCATAACCCAGTTATGGTCTTATCCGTCAATTCATCCTTTACATTAAT
* * * * *
61661064 GCCATAGCCCAGCTATGCTCTTGCATATAAACACTGCCATGGTCTAACCATGGTCTTACGTTTAT
1 GCCATAGCCCAGCTATGCTCTTACATATAAACACTACCATGATCTAACCATGGTATTACGTTCAT
* *
61661129 AGTGCCATAACCCAGTTATGGTTTTATCTGTCAATTCATC
66 AGTGCCATAACCCAGTTATGGTCTTATCCGTCAATTCATC
61661169 TTGAGCCACA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 92 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (117 bp):
GCCATAGCCCAGCTATGCTCTTACATATAAACACTACCATGATCTAACCATGGTATTACGTTCAT
AGTGCCATAACCCAGTTATGGTCTTATCCGTCAATTCATCCTTTACATTAAT
Found at i:61661618 original size:32 final size:32
Alignment explanation
Indices: 61661577--61661652 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
61661567 AGCTTATTTT
61661577 TATCAATTGACAATTTATTCCATTATTCTAAGC
1 TATC-ATTGACAATTTATTCCATTATTCTAAGC
61661610 TATCATTGACAATTTATTCCATTATTCTAAGC
1 TATCATTGACAATTTATTCCATTATTCTAAGC
61661642 TATC-TT-ACAAT
1 TATCATTGACAAT
61661653 CTTTTATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
30 5 0.12
31 2 0.05
32 32 0.74
33 4 0.09
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.43
Consensus pattern (32 bp):
TATCATTGACAATTTATTCCATTATTCTAAGC
Found at i:61664785 original size:46 final size:44
Alignment explanation
Indices: 61664730--61664845 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 44
61664720 TTAACGCCAC
*
61664730 GTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT-CGATGCAT
1 GTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTGCGATGCAT
*
61664776 GTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTAGCTCTCATAATGT-G-CGATGCAT
*
61664822 GTCCCAGACATGTCTTCCACTAGC
1 GTCCCAGACATGTCTTACACTAGC
61664846 ACACATATCA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
43 5 0.08
44 1 0.02
46 57 0.90
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (44 bp):
GTCCCAGACATGTCTTACACTAGCTCTCATAATGTGCGATGCAT
Found at i:61676294 original size:20 final size:20
Alignment explanation
Indices: 61676253--61676294 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61676243 ATTTCATTTA
*
61676253 TTGCATTTAGATTAATTCAT
1 TTGCATTTAGATTAATTAAT
61676273 TTGCATTTA-ATTAATTTAAT
1 TTGCATTTAGATTAA-TTAAT
61676293 TT
1 TT
61676295 AACACCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
TTGCATTTAGATTAATTAAT
Found at i:61677422 original size:43 final size:43
Alignment explanation
Indices: 61677370--61677452 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
61677360 ATTTATAAGT
* *
61677370 AAGTTTTAACTTTTCGCCTTTTAATTATAAATTTATTTAGTCA
1 AAGTTTTAACTTTTCGCCTATTAATAATAAATTTATTTAGTCA
61677413 AAGTTTTAACTTTTCGCCTATTAATAATAAATTTATTTAG
1 AAGTTTTAACTTTTCGCCTATTAATAATAAATTTATTTAG
61677453 CCACAAAGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (43 bp):
AAGTTTTAACTTTTCGCCTATTAATAATAAATTTATTTAGTCA
Found at i:61681885 original size:103 final size:102
Alignment explanation
Indices: 61681732--61681936 Score: 340
Period size: 103 Copynumber: 2.0 Consensus size: 102
61681722 AGTGAAAGAG
* *
61681732 AAAAATGGAAGAATATGAGAGAAAATCCGACATTTTGTTTTACAACAAGTA-GGAGAAGATACCG
1 AAAAATGGAAGAATATGAGAAAAAATCCCACATTTTGTTTTACAACAAGTATGGAGAAGATACCG
*
61681796 CAAGTATTACAACATTTTGCTAAAAAGCCCGACTCATT
66 CAAGTATTACAACATTTT-CTAAAAAGCCCGAATCATT
* *
61681834 AAAAATGGAAGAATATGAGAAAAAAATCCCACATTTTGTTTTATAGCAAGTATGGAGAAGATACC
1 AAAAATGGAAGAATATGAG-AAAAAATCCCACATTTTGTTTTACAACAAGTATGGAGAAGATACC
61681899 GCAAGTATTACAACATTTTCTAAAAAGCCCGAATCATT
65 GCAAGTATTACAACATTTTCTAAAAAGCCCGAATCATT
61681937 CCTTATTTAG
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
102 19 0.20
103 46 0.48
104 31 0.32
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (102 bp):
AAAAATGGAAGAATATGAGAAAAAATCCCACATTTTGTTTTACAACAAGTATGGAGAAGATACCG
CAAGTATTACAACATTTTCTAAAAAGCCCGAATCATT
Found at i:61683296 original size:21 final size:22
Alignment explanation
Indices: 61683272--61683321 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
61683262 TTTTAAAAAA
*
61683272 TTGTGGG-CCTTTTTCAATTTT
1 TTGTGGGACCTTTTTAAATTTT
61683293 TTGTGGGATCCTTTTTAAATTTT
1 TTGTGGGA-CCTTTTTAAATTTT
61683316 TATGTG
1 T-TGTG
61683322 AATTAATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
23 14 0.56
24 4 0.16
ACGTcount: A:0.14, C:0.10, G:0.20, T:0.56
Consensus pattern (22 bp):
TTGTGGGACCTTTTTAAATTTT
Found at i:61697239 original size:49 final size:49
Alignment explanation
Indices: 61697186--61697284 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
61697176 TAACATTTCA
61697186 AATATAACATATTTATTACTCACATTAATCAAATTGACCCAAAAATCAT
1 AATATAACATATTTATTACTCACATTAATCAAATTGACCCAAAAATCAT
*
61697235 AATATAACATATTTATTACTCATATTAATCAAATTGACCCAAAAATCAT
1 AATATAACATATTTATTACTCACATTAATCAAATTGACCCAAAAATCAT
61697284 A
1 A
61697285 CTTTTACAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.33
Consensus pattern (49 bp):
AATATAACATATTTATTACTCACATTAATCAAATTGACCCAAAAATCAT
Found at i:61700669 original size:47 final size:45
Alignment explanation
Indices: 61700560--61700686 Score: 134
Period size: 46 Copynumber: 2.8 Consensus size: 45
61700550 AGAATATCTG
* * *
61700560 TGTCGATGCCATGTCCCAGATATGGTCTTATACTGACACATCTCA
1 TGTCGATACCATGTCCCAGACATGGTCTTACACTGACACATCTCA
* *
61700605 TAGCCAATA-CATGTCCCAGACAT-GTCTTACACT-AGCAGTCATCTCAA
1 T-GTCGATACCATGTCCCAGACATGGTCTTACACTGA-CA--CATCTC-A
*
61700652 TGTCGATACCATGTCCCAAACATGGTCTTACACTG
1 TGTCGATACCATGTCCCAGACATGGTCTTACACTG
61700687 GCTCCCATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
43 1 0.02
44 11 0.17
45 14 0.21
46 15 0.23
47 15 0.23
48 10 0.15
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (45 bp):
TGTCGATACCATGTCCCAGACATGGTCTTACACTGACACATCTCA
Found at i:61712499 original size:43 final size:43
Alignment explanation
Indices: 61712417--61712499 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
61712407 GATATATGTG
*
61712417 GCATCCAAGCTCGTTGAGTGGTCCGAGTCCATTACGGATGCGA
1 GCATCCAAGCTCGTTGAGTGGTCCGAGTCCATAACGGATGCGA
* *
61712460 GCATCTAAGCTCGTTGAGTGGTCCGAG-CTCATAATGGATG
1 GCATCCAAGCTCGTTGAGTGGTCCGAGTC-CATAACGGATG
61712500 TGATGCATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTGGTCCGAGTCCATAACGGATGCGA
Found at i:61713257 original size:20 final size:20
Alignment explanation
Indices: 61713232--61713273 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
61713222 GTAAAGTAAG
61713232 ACTACAGTCAAGAAGAATGA
1 ACTACAGTCAAGAAGAATGA
61713252 ACTACAGTCAAGAAGAATGA
1 ACTACAGTCAAGAAGAATGA
61713272 AC
1 AC
61713274 ATTAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.14
Consensus pattern (20 bp):
ACTACAGTCAAGAAGAATGA
Found at i:61717571 original size:6 final size:6
Alignment explanation
Indices: 61717562--61717598 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
61717552 TAAGTCTAAG
*
61717562 AAAATA AAAATA AACATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
61717599 GAGGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:61725983 original size:27 final size:28
Alignment explanation
Indices: 61725920--61725981 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
61725910 ATTTACTAGA
*
61725920 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
61725948 ATACCCCTATGTATGCTAAATGA-CATTT
1 ATACCCCTATGTATGCAAAATGACCA-TT
61725976 ATACCC
1 ATACCC
61725982 TAGGGTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Done.