Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 178 of 320
Found at i:58970461 original size:40 final size:40
Alignment explanation
Indices: 58970361--58970625 Score: 252
Period size: 40 Copynumber: 6.7 Consensus size: 40
58970351 GCTCCTCGTT
* * * *
58970361 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
58970401 C-AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
58970440 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
58970480 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
* *
58970520 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
58970560 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
58970601 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58970626 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
39 38 0.20
40 141 0.73
41 14 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58970634 original size:41 final size:41
Alignment explanation
Indices: 58970557--58970634 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58970547 TTTGTATCTC
* * *
58970557 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58970598 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58970635 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58972298 original size:18 final size:20
Alignment explanation
Indices: 58972260--58972299 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
58972250 CACATAGATG
58972260 AATTGAAGTGGATAAAGAAAA
1 AATTGAAGTGGAT-AAGAAAA
58972281 AATTGAAGT-GAT-AGAAAA
1 AATTGAAGTGGATAAGAAAA
58972299 A
1 A
58972300 TTTCCACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
20 3 0.16
21 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (20 bp):
AATTGAAGTGGATAAGAAAA
Found at i:59009684 original size:55 final size:55
Alignment explanation
Indices: 59009590--59009698 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
59009580 GCCCATACCC
*
59009590 GTGTTAATTTAATAGGTTCGACCACAGGTGCTAGACACGGGCGTGTCGCATGCCT
1 GTGTTAATTTAACAGGTTCGACCACAGGTGCTAGACACGGGCGTGTCGCATGCCT
* * * *
59009645 GTGTTAATTTGACAGGTTCGGCCACAGGT-TTAAGGCACGGGCGTGTCGCATGCC
1 GTGTTAATTTAACAGGTTCGACCACAGGTGCT-AGACACGGGCGTGTCGCATGCC
59009699 GGTGCTGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 47 0.98
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (55 bp):
GTGTTAATTTAACAGGTTCGACCACAGGTGCTAGACACGGGCGTGTCGCATGCCT
Found at i:59009716 original size:55 final size:55
Alignment explanation
Indices: 59009594--59009724 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 55
59009584 ATACCCGTGT
* * * *
59009594 TAATTTAATAGGTTCGACCACAGGTGCTAGACACGGGCGTGTCGCATGCCTGTGT
1 TAATTTGACAGGTTCGACCACAGGTGCTAGACACGGGCGTGTCGCATGCCGGTGC
* * *
59009649 TAATTTGACAGGTTCGGCCACAGGT-TTAAGGCACGGGCGTGTCGCATGCCGGTGC
1 TAATTTGACAGGTTCGACCACAGGTGCT-AGACACGGGCGTGTCGCATGCCGGTGC
** * *
59009704 TGTTTTGGCAGGTTCGCCCAC
1 TAATTTGACAGGTTCGACCAC
59009725 GACCATGTTG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 1 0.02
55 63 0.98
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (55 bp):
TAATTTGACAGGTTCGACCACAGGTGCTAGACACGGGCGTGTCGCATGCCGGTGC
Found at i:59016415 original size:3 final size:3
Alignment explanation
Indices: 59016407--59016431 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
59016397 ATGTTAAAAT
59016407 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
59016432 CAAAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:59016420 original size:22 final size:22
Alignment explanation
Indices: 59016378--59016420 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
59016368 AGTTTTATAA
* * *
59016378 TTAAAATATTATTATATTAATG
1 TTAAAATATAATAATAATAATG
59016400 TTAAAATATAATAATAATAAT
1 TTAAAATATAATAATAATAAT
59016421 AATAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAAAATATAATAATAATAATG
Found at i:59022120 original size:43 final size:42
Alignment explanation
Indices: 59021965--59022121 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
59021955 TGTGATTTCG
* * * **
59021965 TGTAAGACCACATCTGGGATGTTGGCATCGAT-TTGAGATTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-ATATT-TGA-TTACA
* * ** * * *
59022009 TGTAAGACCATGTCTGGGACATCAGTATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
*
59022051 TGTAAGACC-CTGTCTAGGACAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTACA
59022094 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
59022122 TGTACAAGCT
Statistics
Matches: 86, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
42 24 0.28
43 37 0.43
44 25 0.29
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
Found at i:59029624 original size:44 final size:44
Alignment explanation
Indices: 59029571--59029701 Score: 160
Period size: 42 Copynumber: 3.0 Consensus size: 44
59029561 TCTGATATGT
* *
59029571 GATTTCGTGTAAGTCCATGTCTGGGACATTGGCATC-AATTTGA
1 GATTTCGTGTAAGACCATGTCTGGGACACTGGCATCGAATTTGA
* *
59029614 GATTTACGTGTAAGACCATGTCTGGGACACCGGCATCGTATTT--
1 GATTT-CGTGTAAGACCATGTCTGGGACACTGGCATCGAATTTGA
* * *
59029657 GATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 GATTTCGTGTAAGACCATGTCTGGGACACTGGCATCGA-ATTTGA
59029702 TTACATGTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 28 0.38
43 14 0.19
44 28 0.38
45 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (44 bp):
GATTTCGTGTAAGACCATGTCTGGGACACTGGCATCGAATTTGA
Found at i:59029680 original size:42 final size:42
Alignment explanation
Indices: 59029570--59029721 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 42
59029560 TTCTGATATG
* * *
59029570 TGATTTCGTGTAAGTCCATGTCTGGGACATTGGCATC-AATT
1 TGATTTCGTGTAAGACCATGTCTGGGACACTGGCATCGTATT
*
59029611 TGAGATTTACGTGTAAGACCATGTCTGGGACACCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACACTGGCATCGTATT
* * *
59029656 TGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACACTGGCATCG-TATT
* * *
59029699 TGATTACATGTAAGACCACGTCT
1 TGATTTCGTGTAAGACCATGTCT
59029722 AGGATGTTGG
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 32 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACACTGGCATCGTATT
Found at i:59034893 original size:40 final size:40
Alignment explanation
Indices: 59034804--59035064 Score: 375
Period size: 40 Copynumber: 6.6 Consensus size: 40
59034794 TATTCGAATG
* * *
59034804 ATATCCGGGTTAAGTTCCGAAGGTATTTGTGCTA-TGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
*
59034843 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
59034883 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* *
59034923 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* *
59034963 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* * * *
59035003 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGATT
*
59035043 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
59035065 TACTTGGGTT
Statistics
Matches: 202, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 43 0.21
40 156 0.77
41 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
Found at i:59036692 original size:24 final size:24
Alignment explanation
Indices: 59036665--59036749 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
59036655 CGTTTCCTCA
*
59036665 CACACATAGTGCTATATAATCTCG
1 CACACATAGTGCCATATAATCTCG
* * * *
59036689 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCCATATA-ATCTCG
* *
59036714 CACACATAGTGCCGTATAACCTCG
1 CACACATAGTGCCATATAATCTCG
59036738 CACACATAGTGC
1 CACACATAGTGC
59036750 TGAAATTTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 30 0.61
25 19 0.39
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (24 bp):
CACACATAGTGCCATATAATCTCG
Found at i:59042615 original size:27 final size:27
Alignment explanation
Indices: 59042581--59042779 Score: 240
Period size: 27 Copynumber: 7.4 Consensus size: 27
59042571 TGGATAAGTT
*
59042581 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
59042608 GTAGAATTACTGAAATACCCTTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * *
59042635 TTAGAATTATTAAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
59042662 GTAGAATTA-TCGAAATACCCCTGTAGG
1 GTAGAATTACT-GAAATACCCCTGTAGG
* *
59042689 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
59042716 GTAGAAATAC-GAAATACCCCAGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * * *
59042742 GTAGAATTACAGAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
59042769 GTAAAATTACT
1 GTAGAATTACT
59042780 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
26 24 0.16
27 121 0.83
28 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:59043531 original size:29 final size:27
Alignment explanation
Indices: 59043498--59043574 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
59043488 TCGCTGCAAC
59043498 CTGGTGGCTTCGCCACATATATATCTATT
1 CTGGTGGCTTCGCCACA-ATATATCTA-T
* * * *
59043527 CTGGTGGCCTAGCCACAATATTTGTAT
1 CTGGTGGCTTCGCCACAATATATCTAT
* *
59043554 CTGGTGACTTCGTCACAATAT
1 CTGGTGGCTTCGCCACAATAT
59043575 CTGGCAGCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 18 0.45
28 7 0.17
29 15 0.38
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTTCGCCACAATATATCTAT
Found at i:59050199 original size:27 final size:27
Alignment explanation
Indices: 59050169--59050337 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
59050159 TAAGTTGTAG
* *
59050169 AATTACTGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAA
*
59050196 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAA
** *
59050223 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAA
*
59050250 AATTACCGAAATACCCTTGTAGGGTAGA
1 AATTACCGAAATACCCCTGTAGGGTA-A
** * *
59050278 AA-TAATGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAA
* * *
59050304 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAA
59050331 AATTACC
1 AATTACC
59050338 ATTTTTGCCC
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 115 0.97
28 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAA
Found at i:59050241 original size:54 final size:54
Alignment explanation
Indices: 59050165--59050335 Score: 252
Period size: 54 Copynumber: 3.2 Consensus size: 54
59050155 TGGATAAGTT
* * * *
59050165 GTAGAATTACTGAAATACCCCTGTAAGGTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTAATGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
*
59050219 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTAATGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
59050273 GTAGAAATAATGAAATACCTCTGTAGGGTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTAATGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
*
59050327 GTAAAATTA
1 GTAGAATTA
59050336 CCATTTTTGC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (54 bp):
GTAGAATTAATGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:59050300 original size:81 final size:81
Alignment explanation
Indices: 59050165--59050337 Score: 222
Period size: 81 Copynumber: 2.1 Consensus size: 81
59050155 TGGATAAGTT
* * **
59050165 GTAGAATTACTGAAATACCCCTGTAAGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCCTGTAAGGTAAAATTAACGAAATACCCCTGTAGGGTAGAATTACC
59050230 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* * * *
59050246 GTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TAATGAAATACCTCTGTAGGGTAGAATTAC
1 GTAGAATTACCGAAATACCCCTGTAAGGTA-AAATTAACGAAATACCCCTGTAGGGTAGAATTAC
* * *
59050310 CGAGATACCCTTGTGGG
65 CGAAATACCCCTGTAGG
*
59050327 GTAAAATTACC
1 GTAGAATTACC
59050338 ATTTTTGCCC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 76 0.96
82 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAAAATTAACGAAATACCCCTGTAGGGTAGAATTACC
GAAATACCCCTGTAGG
Found at i:59051034 original size:27 final size:26
Alignment explanation
Indices: 59050990--59051040 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
59050980 CTCGCTGTAA
*
59050990 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
59051017 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
59051041 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:59052068 original size:43 final size:43
Alignment explanation
Indices: 59052020--59052186 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
59052010 GATTACCGAG
* *
59052020 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCACCATT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* **
59052063 ATGTGATTACGTGTAAGACCATTTCTGGGACATTGGCATTGTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* * * *
59052106 ATTTGATTTCGTGTAAGACCATAG-CTGGG-CTATCGGCATCAAT
1 ATGTGATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCATT
* * * *
59052149 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
59052187 TATACGAGTT
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 6 0.06
43 95 0.94
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:59052168 original size:86 final size:85
Alignment explanation
Indices: 59052030--59052187 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 85
59052020 ATGTGATTAT
* * * * *
59052030 GTGTAAGACCATGTCTGGGACATTGGCACCATTATGTGATTACGTGTAAGACCATTTCTGGGACA
1 GTGTAAGACCATGTCTGGGACATCGGCACCAATATGTGATAACATGTAAGACCATATCTGGGACA
59052095 TTGGCATTGTTATTTGATTTC
66 -TGGCATTGTTATTTGATTTC
*
59052116 GTGTAAGACCATAG-CTGGG-CTATCGGCATCAATATGTGATAACATGTAAGACCATATCTGGGA
1 GTGTAAGACCAT-GTCTGGGAC-ATCGGCACCAATATGTGATAACATGTAAGACCATATCTGGGA
*
59052179 TATGGCATT
64 CATGGCATT
59052188 ATACGAGTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 8 0.13
86 54 0.86
87 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (85 bp):
GTGTAAGACCATGTCTGGGACATCGGCACCAATATGTGATAACATGTAAGACCATATCTGGGACA
TGGCATTGTTATTTGATTTC
Found at i:59063593 original size:25 final size:25
Alignment explanation
Indices: 59063565--59063635 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
59063555 GGAGGAAGTG
*
59063565 CAAAAGGGCTATGCCCCAGTTTACC
1 CAAAAGGGCTTTGCCCCAGTTTACC
*
59063590 CAAAAGGGCTTTGCCCCAGTTTATC
1 CAAAAGGGCTTTGCCCCAGTTTACC
* *
59063615 AAAAAGGGCTTTGCCTCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
59063636 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (25 bp):
CAAAAGGGCTTTGCCCCAGTTTACC
Found at i:59063648 original size:24 final size:24
Alignment explanation
Indices: 59063590--59063662 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
59063580 CCAGTTTACC
*
59063590 CAAAAG-GGCTTTGCCCCAGTTTAT
1 CAAAAGAGGCTTTGCCTCAG-TTAT
59063614 CAAAA-AGGGCTTTGCCTCAGTTAT
1 CAAAAGA-GGCTTTGCCTCAGTTAT
* **
59063638 TAAAAGAGGCTAAGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCCT-CAGTTAT
59063663 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCTCAGTTAT
Found at i:59063892 original size:31 final size:31
Alignment explanation
Indices: 59063857--59063971 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
59063847 TGTTTGCAGT
*
59063857 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
59063888 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
59063919 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
59063950 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
59063972 CTGAGATTGA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 4 0.05
31 75 0.95
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:59073070 original size:11 final size:11
Alignment explanation
Indices: 59073054--59073079 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59073044 CAAAGCCCAC
59073054 ATCACAATAAT
1 ATCACAATAAT
59073065 ATCACAATAAT
1 ATCACAATAAT
59073076 ATCA
1 ATCA
59073080 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:59073581 original size:27 final size:27
Alignment explanation
Indices: 59073532--59073609 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
59073522 AGGGCAAAAC
* *
59073532 GGTCATTTTACCCTACAGGGGTATGTA
1 GGTCATTTTACACTACAAGGGTATGTA
* * * *
59073559 TGTCATTTTACACTACAAAGGTATTTC
1 GGTCATTTTACACTACAAGGGTATGTA
* *
59073586 GGTAATTTTACACAACAAGGGTAT
1 GGTCATTTTACACTACAAGGGTAT
59073610 TTCGATAATT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTCATTTTACACTACAAGGGTATGTA
Found at i:59073610 original size:27 final size:27
Alignment explanation
Indices: 59073578--59073888 Score: 330
Period size: 27 Copynumber: 11.6 Consensus size: 27
59073568 ACACTACAAA
* *
59073578 GGTATTTCGGTAATTTTACACAA-CAAG
1 GGTATTTCGATAATTTTACA-AATCGAG
59073605 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
59073632 GGTATTTCAATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * * *
59073659 GGTGTTTCCATAATTTTACAAATCAAA
1 GGTATTTCGATAATTTTACAAATCGAG
* *
59073686 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * ** *
59073713 GGTGTTTCAATAATTGCACAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
*
59073740 GGTATTT-TAGTAATTTTACAAATCGAG
1 GGTATTTCGA-TAATTTTACAAATCGAG
* *
59073767 GGTATTT-TAGTAATTTCAC-AATCGAG
1 GGTATTTCGA-TAATTTTACAAATCGAG
*
59073793 GGTATTTCGGTAATTTTACAAATC-ATG
1 GGTATTTCGATAATTTTACAAATCGA-G
* * *
59073820 GGTGTTTCGATAATTTCACAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
*
59073847 GGTA-TTCGATAATTTTTCAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
59073873 GGTATTTC-AGTAATTT
1 GGTATTTCGA-TAATTT
59073889 CTCTTTATTA
Statistics
Matches: 243, Mismatches: 33, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
26 50 0.21
27 193 0.79
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:59074240 original size:29 final size:29
Alignment explanation
Indices: 59074203--59074267 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
59074193 TTTGGCCCCT
* *
59074203 TTAGG-CCCAATCTCGTTCACATGGCCCA
1 TTAGGCCCCAATCACATTCACATGGCCCA
*
59074231 TTAGGCCCCAATCACATTCATATGGCCCA
1 TTAGGCCCCAATCACATTCACATGGCCCA
*
59074260 TCAGGCCC
1 TTAGGCCC
59074268 AACTACTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (29 bp):
TTAGGCCCCAATCACATTCACATGGCCCA
Found at i:59086241 original size:47 final size:47
Alignment explanation
Indices: 59086179--59086299 Score: 158
Period size: 47 Copynumber: 2.6 Consensus size: 47
59086169 CTTACTCTCA
* *
59086179 CACATATATCA-AAATCACATATCGATGCCATGGTTTTACTCACACGT
1 CACATATAT-AGAAATCACATATCGATGCCATGGTCTTACTCACACAT
* * *
59086226 CGCATATATTGAAATCACATATCGATGCCATGGTCTTACTCCCACAT
1 CACATATATAGAAATCACATATCGATGCCATGGTCTTACTCACACAT
*
59086273 CACATGT-TAG-AATCACATATCGATGCC
1 CACATATATAGAAATCACATATCGATGCC
59086300 TCATACATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
45 17 0.26
46 2 0.03
47 46 0.71
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (47 bp):
CACATATATAGAAATCACATATCGATGCCATGGTCTTACTCACACAT
Found at i:59092001 original size:27 final size:27
Alignment explanation
Indices: 59091971--59092267 Score: 441
Period size: 27 Copynumber: 11.0 Consensus size: 27
59091961 TACTGAAATG
* *
59091971 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
59091998 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
59092025 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
59092052 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
59092079 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
59092106 CCCTCGATTTACAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
59092133 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
59092160 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
59092187 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
59092214 CCCTTGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* ** *
59092241 CCCTTGATTTGCAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
59092268 AAATCGATTT
Statistics
Matches: 254, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 254 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:59092297 original size:81 final size:81
Alignment explanation
Indices: 59091971--59092316 Score: 442
Period size: 81 Copynumber: 4.3 Consensus size: 81
59091961 TACTGAAATG
**
59091971 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
* **
59092036 TAGAATTACCGTTTTA
66 CAGAATTACTATTTTA
* * *
59092052 CCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
59092117 CAGAATTA-TCATTTTA
66 CAGAATTACT-ATTTTA
* *
59092133 CCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
*
59092198 CAGAATTACCATTTTA
66 CAGAATTACTATTTTA
* * ** * ***
59092214 CCCTTGATTTACAGAATTACCATTTTACCCTTGATTTGCAGAATTACTGTTTTAAAATCGATTTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
* ***
59092279 CAAAATTACTAAAATA
66 CAGAATTACTATTTTA
* * *
59092295 CCCTTGGTTTACAAAATTACCA
1 CCCTCGATTTACAGAATTACCA
59092317 AAATACCCTC
Statistics
Matches: 236, Mismatches: 27, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
81 236 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
CAGAATTACTATTTTA
Found at i:59092305 original size:27 final size:27
Alignment explanation
Indices: 59092275--59092515 Score: 175
Period size: 27 Copynumber: 9.0 Consensus size: 27
59092265 TTAAAATCGA
* *
59092275 TTTACAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
59092302 TTTACAAAATTACCAAAATACCC-TCG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
59092328 ATCAGTAAAATTACCAAAATACCC-TGG
1 TTTA-TAAAATTACCAAAATACCCTTGG
* * * *
59092355 TCTGTAAAATTGCTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
59092382 TTTGTAAAGTTACCAAAATACCAC-TAG
1 TTTATAAAATTACCAAAATACC-CTTGG
* * * ***
59092409 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTTGG
* * * *
59092436 TTTGTAAAAATACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCTTGG
*
59092463 TTTACAAAATTA-CAGAAATACCCTTGG
1 TTTATAAAATTACCA-AAATACCCTTGG
* * * *
59092490 TTTGTAGATTTACCAAAACACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
59092516 TAGGATGAAA
Statistics
Matches: 170, Mismatches: 38, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
26 24 0.14
27 143 0.84
28 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:59092419 original size:80 final size:80
Alignment explanation
Indices: 59092280--59092486 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
59092270 ATCGATTTAC
*
59092280 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
59092345 AATACCCTGGTCTGT
66 AATACCCTGGTCTGT
* ** * ** * *
59092360 AAAATTGCTAAAATACCCTTGGTTTGTAAAGTTACCAAAATACCACTAG-TTTGTGAAATTACCG
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACC-CTAGATCAGTAAAATTACCA
** *
59092424 AAATACCCTCAATTTGT
65 AAATACCCT-GGTCTGT
* * * *
59092441 AAAAATACCAAAATACCCCTGATTTACAAAATTA-CAGAAATACCCT
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCT
59092487 TGGTTTGTAG
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 64 0.62
81 40 0.38
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
AATACCCTGGTCTGT
Found at i:59092525 original size:108 final size:107
Alignment explanation
Indices: 59092308--59092526 Score: 253
Period size: 108 Copynumber: 2.0 Consensus size: 107
59092298 TTGGTTTACA
* * * ** *
59092308 AAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAA
1 AAATTACCAAAATACCCTCAATCAGTAAAAATACCAAAATACCCTGATCTACAAAATTACTAAAA
* **
59092373 TACCCTTGGTTTGTAAAGTTACCAAAATACCACTAGTTTGTG
66 TACCCTTGGTTTGTAAAGTTACCAAAACACCACTAGTAGGTG
* ** *
59092415 AAATTACCGAAATACCCTCAATTTGTAAAAATACCAAAATACCCCTGATTTACAAAATTAC-AGA
1 AAATTACCAAAATACCCTCAATCAGTAAAAATACCAAAATA-CCCTGATCTACAAAATTACTA-A
* * *
59092479 AATACCCTTGGTTTGTAGATTTACCAAAACACC-CTTGTAGGATG
64 AATACCCTTGGTTTGTAAAGTTACCAAAACACCACTAGTAGG-TG
59092523 AAAT
1 AAAT
59092527 GACTACAATA
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
107 42 0.45
108 51 0.55
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (107 bp):
AAATTACCAAAATACCCTCAATCAGTAAAAATACCAAAATACCCTGATCTACAAAATTACTAAAA
TACCCTTGGTTTGTAAAGTTACCAAAACACCACTAGTAGGTG
Found at i:59095015 original size:11 final size:11
Alignment explanation
Indices: 59094979--59095034 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
59094969 CATGGTATAT
59094979 ATGATATGCAC
1 ATGATATGCAC
* *
59094990 ATGACATG--T
1 ATGATATGCAC
59094999 ATGATATGCAC
1 ATGATATGCAC
*
59095010 ATGATATG--T
1 ATGATATGCAC
59095019 ATGATATGCAC
1 ATGATATGCAC
59095030 ATGAT
1 ATGAT
59095035 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59095034 original size:20 final size:20
Alignment explanation
Indices: 59094968--59095034 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
59094958 ATTTTGATAA
* *
59094968 ACATGGTATATATGATATGC
1 ACATGATATGTATGATATGC
*
59094988 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
59095008 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
59095028 ACATGAT
1 ACATGAT
59095035 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59095152 original size:46 final size:47
Alignment explanation
Indices: 59095085--59095180 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
59095075 AGGAAGTGTA
*
59095085 AAAGGGCTTATGACCCAGTTATT-AAAGGGGTTATGCCCCAGTTATT
1 AAAGGGCTTATGACCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
59095131 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGACCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
59095178 AAA
1 AAA
59095181 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 22 0.48
47 24 0.52
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGACCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:59095163 original size:24 final size:24
Alignment explanation
Indices: 59095083--59095201 Score: 163
Period size: 23 Copynumber: 5.0 Consensus size: 24
59095073 GGAGGAAGTG
*
59095083 TAAAAGGGCTTATGACCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
59095107 T-AAAGGGGTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
59095130 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
59095153 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
59095177 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
59095202 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.50
24 32 0.37
25 11 0.13
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:59095430 original size:31 final size:31
Alignment explanation
Indices: 59095395--59095458 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
59095385 CGTTTACAGT
59095395 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
59095426 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59095457 AA
1 AA
59095459 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59103005 original size:25 final size:25
Alignment explanation
Indices: 59102976--59103023 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
59102966 TTATAACATG
* *
59102976 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATGCCCCTAGGTA
59103001 AAAATGACCATTATGCCCCTAGG
1 AAAATGACCATTATGCCCCTAGG
59103024 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATGCCCCTAGGTA
Found at i:59103107 original size:11 final size:11
Alignment explanation
Indices: 59103071--59103126 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
59103061 CATGGTATGT
59103071 ATGATATGCAC
1 ATGATATGCAC
* *
59103082 ATGACATG--T
1 ATGATATGCAC
59103091 ATGATATGCAC
1 ATGATATGCAC
*
59103102 ATGATATG--T
1 ATGATATGCAC
59103111 ATGATATGCAC
1 ATGATATGCAC
59103122 ATGAT
1 ATGAT
59103127 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59103126 original size:20 final size:20
Alignment explanation
Indices: 59103061--59103126 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
59103051 TTTTGATAAG
*
59103061 CATGGTATGTATGATATGCA
1 CATGATATGTATGATATGCA
*
59103081 CATGACATGTATGATATGCA
1 CATGATATGTATGATATGCA
59103101 CATGATATGTATGATATGCA
1 CATGATATGTATGATATGCA
59103121 CATGAT
1 CATGAT
59103127 GTAATCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
CATGATATGTATGATATGCA
Found at i:59103241 original size:23 final size:22
Alignment explanation
Indices: 59103177--59103286 Score: 167
Period size: 22 Copynumber: 5.1 Consensus size: 22
59103167 AGGAAGTGTA
59103177 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATG-CCCAGTTATT
59103200 AAA-GGCTTATGCCCAGTTATT
1 AAAGGGCTTATGCCCAGTTATT
59103221 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATG-CCCAGTTATT
59103244 AAAGGGCTTATGCCCAGTTATT
1 AAAGGGCTTATGCCCAGTTATT
59103266 -AA-GGCTT-TGCCCA-TTATT
1 AAAGGGCTTATGCCCAGTTATT
59103284 AAA
1 AAA
59103287 AGAGGCTAGG
Statistics
Matches: 84, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.06
19 8 0.10
20 5 0.06
21 15 0.18
22 26 0.31
23 25 0.30
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (22 bp):
AAAGGGCTTATGCCCAGTTATT
Found at i:59103536 original size:31 final size:31
Alignment explanation
Indices: 59103501--59103564 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
59103491 CGTTTACAGT
59103501 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
59103532 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59103563 AA
1 AA
59103565 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59104345 original size:25 final size:25
Alignment explanation
Indices: 59104316--59104363 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59104306 TTGTAATGTG
* * *
59104316 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59104341 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59104364 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59104424 original size:20 final size:20
Alignment explanation
Indices: 59104390--59104462 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
59104380 GATACGTGGG
59104390 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
59104407 GGTATGATATGCACATGATAT
1 -GTATGATATGCACATGATAT
59104428 GTATGATATGCACATGATAT
1 GTATGATATGCACATGATAT
*
59104448 GTATGAAATGCACAT
1 GTATGATATGCACAT
59104463 AATGAATTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 9 0.18
20 41 0.80
21 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:59104426 original size:11 final size:11
Alignment explanation
Indices: 59104410--59104448 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
59104400 CATGATTGGT
59104410 ATGATATGCAC
1 ATGATATGCAC
*
59104421 ATGATATG--T
1 ATGATATGCAC
59104430 ATGATATGCAC
1 ATGATATGCAC
59104441 ATGATATG
1 ATGATATG
59104449 TATGAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59104544 original size:26 final size:26
Alignment explanation
Indices: 59104515--59104701 Score: 208
Period size: 26 Copynumber: 7.3 Consensus size: 26
59104505 GAGGAAGTGC
59104515 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAAGGCTTATGCCCCAGTTTATTG
*
59104541 -AAAAGTGCTTATGCCTCAGTTTATTG
1 AAAAAG-GCTTATGCCCCAGTTTATTG
*
59104567 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAAGGCTTATGCCCCAGTTTATTG
* * **
59104593 AAAAGGGCTTATGCCCTAGTTTACGG
1 AAAAAGGCTTATGCCCCAGTTTATTG
*
59104619 AAAAGGGCTTATGCCCCAGTTTATT-
1 AAAAAGGCTTATGCCCCAGTTTATTG
**
59104644 AAAAAGGGCTT-TGCCCCAGTTTA-CC
1 AAAAA-GGCTTATGCCCCAGTTTATTG
59104669 AAAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAA-GGCTTATGCCCCAGTTTATTG
*
59104693 AAAGAGGCT
1 AAAAAGGCT
59104702 AGGCCTCTAG
Statistics
Matches: 143, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.03
24 7 0.05
25 40 0.28
26 88 0.62
27 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAAGGCTTATGCCCCAGTTTATTG
Found at i:59104593 original size:52 final size:51
Alignment explanation
Indices: 59104515--59104689 Score: 246
Period size: 52 Copynumber: 3.4 Consensus size: 51
59104505 GAGGAAGTGC
* * **
59104515 AAAAAGGCTTATGCCCCAGTTTATTGAAAAGTGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCC-CAGTTTACCG
*
59104567 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACGG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCC-AGTTTACCG
* *
59104619 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTTTACCG
59104670 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
59104690 ATTAAAGAGG
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
50 10 0.09
51 20 0.18
52 84 0.74
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCG
Found at i:59104649 original size:78 final size:77
Alignment explanation
Indices: 59104514--59104689 Score: 248
Period size: 78 Copynumber: 2.3 Consensus size: 77
59104504 AGAGGAAGTG
** * * *
59104514 CAAAAA-GGCTTATGCCCCAGTTTATTGAAAAGTGCTTATGCCTCAGTTTATTGAAAAGGGCTTA
1 CAAAAAGGGCTTATGCCCCAGTTTACGGAAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-
*
59104578 TGCCCCAGTTTAT
65 TGCCCCAGTTTAC
** *
59104591 TGAAAAGGGCTTATGCCCTAGTTTACGGAAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTT
1 CAAAAAGGGCTTATGCCCCAGTTTACGGAAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTT
59104656 GCCCCAGTTTAC
66 GCCCCAGTTTAC
59104668 CAAAAAGGGCTT-TGCCCCAGTT
1 CAAAAAGGGCTTATGCCCCAGTT
59104690 ATTAAAGAGG
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
76 9 0.10
77 26 0.30
78 51 0.59
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (77 bp):
CAAAAAGGGCTTATGCCCCAGTTTACGGAAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTT
GCCCCAGTTTAC
Found at i:59104893 original size:42 final size:42
Alignment explanation
Indices: 59104834--59104925 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
59104824 TAGTCTCCCC
59104834 AAATGGGCTTGCATACATTCATT-AGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGA-TATTTCATGTGATATTG
*
59104876 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
59104918 AAATGGGC
1 AAATGGGC
59104926 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:59121799 original size:43 final size:43
Alignment explanation
Indices: 59121703--59121826 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
59121693 TGGGATGTTG
* * * *
59121703 GCATCGAT-TTGTGATTTATGTGTAAGACCATGTCTAGGATATTG
1 GCATCGATATT-TGATTT-CGTGTAAGACCATGTCTAGGACAGTA
*
59121747 GCATC-ATATTTGATTTCGTGTAAGACCCTGTCT-GGAACAGTA
1 GCATCGATATTTGATTTCGTGTAAGACCATGTCTAGG-ACAGTA
* * **
59121789 GCATCGATATTTGATTACATGTAAGACCACATCTAGGA
1 GCATCGATATTTGATTTCGTGTAAGACCATGTCTAGGA
59121827 TATTGGCATT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
41 2 0.03
42 23 0.35
43 32 0.48
44 9 0.14
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (43 bp):
GCATCGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTA
Found at i:59126012 original size:40 final size:40
Alignment explanation
Indices: 59125949--59126169 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
59125939 TATTCGAATG
* * *
59125949 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
59125989 ATATCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
59126029 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* **
59126069 ATATCCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
59126109 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
59126149 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
59126170 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.10
40 136 0.87
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:59145055 original size:65 final size:66
Alignment explanation
Indices: 59144950--59145077 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 66
59144940 ATGCTACATG
59144950 GCCTTGTGTCCCCTGGGGTACCCTTTCAAATTAAGTCAATATACACTACAGGTTTGACACGGTGT
1 GCCTTGTGTCCCCTGGGGTACCCTTTCAAATTAAGTCAATATACACTACAGGTTTGACACGGTGT
59145015 A
66 A
59145016 GCCTTGTGTCCCCT-GGGTACCCTTTCAAATTAAGTCAATATACACTACAGGTTTGACACGGT
1 GCCTTGTGTCCCCTGGGGTACCCTTTCAAATTAAGTCAATATACACTACAGGTTTGACACGGT
59145078 CTAGACACAC
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
65 48 0.77
66 14 0.23
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (66 bp):
GCCTTGTGTCCCCTGGGGTACCCTTTCAAATTAAGTCAATATACACTACAGGTTTGACACGGTGT
A
Found at i:59150509 original size:17 final size:16
Alignment explanation
Indices: 59150487--59150518 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
59150477 TAAGGTTCTA
59150487 TAGCTATTAGATACTCT
1 TAGCTATTAGA-ACTCT
59150504 TAGCTATTAGAACTC
1 TAGCTATTAGAACTC
59150519 CACTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
TAGCTATTAGAACTCT
Found at i:59151963 original size:38 final size:38
Alignment explanation
Indices: 59151909--59151981 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
59151899 CACACTCTAA
* *
59151909 CATCTTGTATATCTTTGAGAAAACCGTTTGGTTAGGTC
1 CATCTTGTATAACTTTGAGAAAACCGTTTGCTTAGGTC
59151947 CATCTTGTATAACTTTGAGAAAACCGTTTGCTTAG
1 CATCTTGTATAACTTTGAGAAAACCGTTTGCTTAG
59151982 CGGAAGTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (38 bp):
CATCTTGTATAACTTTGAGAAAACCGTTTGCTTAGGTC
Found at i:59155156 original size:27 final size:26
Alignment explanation
Indices: 59155126--59155178 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
59155116 ACAATTTCAC
*
59155126 TTGGGTCTCAGCCC-TCATCAAAATCAA
1 TTGGGCCT-AGCCCATC-TCAAAATCAA
59155153 TTGGGCCTAGCCCATTCTCAAAATCA
1 TTGGGCCTAGCCCA-TCTCAAAATCA
59155179 GTAACAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 16 0.70
28 2 0.09
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (26 bp):
TTGGGCCTAGCCCATCTCAAAATCAA
Found at i:59157377 original size:24 final size:24
Alignment explanation
Indices: 59157344--59157427 Score: 123
Period size: 24 Copynumber: 3.5 Consensus size: 24
59157334 AAGTTTGCCA
59157344 ATATGGTTCTTTGTGAACTTCCCG
1 ATATGGTTCTTTGTGAACTTCCCG
* *
59157368 ATATGATTCTTTGTGAACTTCTCG
1 ATATGGTTCTTTGTGAACTTCCCG
*
59157392 ATATGGTTCTTTGTGAACTTTCCG
1 ATATGGTTCTTTGTGAACTTCCCG
*
59157416 ATTATGGCTCTT
1 A-TATGGTTCTT
59157428 ATGAGCTTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 44 0.83
25 9 0.17
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (24 bp):
ATATGGTTCTTTGTGAACTTCCCG
Found at i:59159512 original size:35 final size:35
Alignment explanation
Indices: 59159348--59159511 Score: 179
Period size: 35 Copynumber: 4.7 Consensus size: 35
59159338 TCCTCATTGA
* * *
59159348 AATACCATACCTACATTTAACAACTCGGTATGG-G
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
** **
59159382 AATGTCATACCTACATTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
** * *
59159417 AATACCATACCTATGTTTCAAAACTCAGTATGGTT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
59159452 AATACCATACCTATC-TTTCACAACTTAGTATGGAT
1 AATACCATACCTA-CATTTCACAACTCAGTATGGAT
* *
59159487 GATACCATACCTACGTTTCACAACT
1 AATACCATACCTACATTTCACAACT
59159512 TTGCCATGGA
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
34 28 0.26
35 80 0.74
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:59159529 original size:35 final size:35
Alignment explanation
Indices: 59159411--59159529 Score: 116
Period size: 35 Copynumber: 3.4 Consensus size: 35
59159401 TTAACTCAGT
* * * * *
59159411 ATGGATAATACCATACCTATGTTTCAAAACTCAGT
1 ATGGATCATACCATACCTATCTTTCACAACTTAGC
* * *
59159446 ATGGTTAATACCATACCTATCTTTCACAACTTAGT
1 ATGGATCATACCATACCTATCTTTCACAACTTAGC
* *
59159481 ATGGATGATACCATACCTA-CGTTTCACAACTTTGCC
1 ATGGATCATACCATACCTATC-TTTCACAACTTAG-C
59159517 ATGGATCA-ACCAT
1 ATGGATCATACCAT
59159530 GGCCTTATCC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.01
35 65 0.89
36 7 0.10
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (35 bp):
ATGGATCATACCATACCTATCTTTCACAACTTAGC
Found at i:59164057 original size:30 final size:30
Alignment explanation
Indices: 59164021--59164080 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
59164011 TAGCTGAATG
59164021 AATGACCGTAAATGCTTGAAAAATGACTCT
1 AATGACCGTAAATGCTTGAAAAATGACTCT
*
59164051 AATGACCGTAAATTCTTGAAAAATGACTCT
1 AATGACCGTAAATGCTTGAAAAATGACTCT
59164081 TGAATTGTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (30 bp):
AATGACCGTAAATGCTTGAAAAATGACTCT
Found at i:59167740 original size:42 final size:43
Alignment explanation
Indices: 59167638--59167785 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 43
59167628 TGAGACATCG
* * *
59167638 TGTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATT-TA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATTGA-ATTACA
*
59167679 TGTATAAGACCATGTCTGGGACATCA-GCATC-ATATCTG-ATTTCA
1 TG--TAAGACCATGTCTGGGACA-CAGGCATCGATAT-TGAATTACA
* *
59167723 TGTAAGACCATGTCTGGGATAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATTGAATTACA
* *
59167766 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCATGTCTGGGAC
59167786 GTCGGCATTG
Statistics
Matches: 88, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
41 3 0.03
42 25 0.28
43 51 0.58
44 7 0.08
45 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATATTGAATTACA
Found at i:59177426 original size:25 final size:25
Alignment explanation
Indices: 59177398--59177445 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
59177388 AGAACTTAAT
59177398 CAAATCTTTCAAAACTATTAAGGAC
1 CAAATCTTTCAAAACTATTAAGGAC
*
59177423 CAAATCTTTCAAAACTGTTAAGG
1 CAAATCTTTCAAAACTATTAAGG
59177446 TCACACGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (25 bp):
CAAATCTTTCAAAACTATTAAGGAC
Found at i:59180359 original size:23 final size:23
Alignment explanation
Indices: 59180325--59180378 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
59180315 TTCTACCGTA
*
59180325 TAAGGCTTCATACGGTGCCATTT
1 TAAGGCTCCATACGGTGCCATTT
59180348 TAAGGCTCCATACGGTGCCATTT
1 TAAGGCTCCATACGGTGCCATTT
59180371 TAAGGCTC
1 TAAGGCTC
59180379 GATTGAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (23 bp):
TAAGGCTCCATACGGTGCCATTT
Found at i:59191255 original size:19 final size:19
Alignment explanation
Indices: 59191233--59191270 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
59191223 TTTAGCCCGA
*
59191233 ATTTTGATTTTTCATTTAT
1 ATTTTGACTTTTCATTTAT
59191252 ATTTTGACTTTTCATTTAT
1 ATTTTGACTTTTCATTTAT
59191271 CTATCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTTTGACTTTTCATTTAT
Found at i:59200248 original size:24 final size:24
Alignment explanation
Indices: 59200189--59200305 Score: 107
Period size: 24 Copynumber: 4.9 Consensus size: 24
59200179 AGTCATGGTC
* *
59200189 GGTAAGCTCTTACTGAGCTGATAAAC
1 GGTAAGCTC-TATTGAGCTGA-AAAT
*
59200215 AGTAAGCTCTATTGAGCTGAAAAT
1 GGTAAGCTCTATTGAGCTGAAAAT
*
59200239 GGTAAGCTCTATTGAGCTGAACA-
1 GGTAAGCTCTATTGAGCTGAAAAT
* *
59200262 -GTAAGCTCTTTTGAGCTG--GAT
1 GGTAAGCTCTATTGAGCTGAAAAT
* *
59200283 CGGTAAGCTCCAATGAGCTGAAA
1 -GGTAAGCTCTATTGAGCTGAAA
59200306 CAGTAAGCTC
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.01
22 17 0.23
23 15 0.20
24 24 0.32
25 10 0.13
26 8 0.11
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (24 bp):
GGTAAGCTCTATTGAGCTGAAAAT
Found at i:59200276 original size:46 final size:46
Alignment explanation
Indices: 59200187--59200317 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
59200177 CAAGTCATGG
* *
59200187 TCGGTAAGCTCTTACTGAGCTGATAAACAGTAAGCTCTATTGAGCTGAAAA
1 TCGGTAAGCTC-TAATGAGCTG--AAACAGTAAGCTCTTTTGAGCTG--AA
* *
59200238 T-GGTAAGCTCTATTGAGCTG-AACAGTAAGCTCTTTTGAGCTGGA
1 TCGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTTGAGCTGAA
*
59200282 TCGGTAAGCTCCAATGAGCTGAAACAGTAAGCTCTT
1 TCGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTT
59200318 ACGAGCTATG
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
44 2 0.03
45 17 0.23
46 35 0.48
49 9 0.12
50 9 0.12
51 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (46 bp):
TCGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTTGAGCTGAA
Found at i:59200311 original size:23 final size:23
Alignment explanation
Indices: 59200190--59200316 Score: 132
Period size: 23 Copynumber: 5.4 Consensus size: 23
59200180 GTCATGGTCG
*
59200190 GTAAGCTCTTACTGAGCTGATAAACA
1 GTAAGCTC-TATTGAGCTG--AAACA
59200216 GTAAGCTCTATTGAGCTGAAA-A
1 GTAAGCTCTATTGAGCTGAAACA
59200238 TGGTAAGCTCTATTGAGCTG-AACA
1 --GTAAGCTCTATTGAGCTGAAACA
* * * *
59200262 GTAAGCTCTTTTGAGCTGGATCG
1 GTAAGCTCTATTGAGCTGAAACA
* *
59200285 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAAACA
59200308 GTAAGCTCT
1 GTAAGCTCT
59200317 TACGAGCTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
22 18 0.21
23 32 0.37
24 19 0.22
25 9 0.10
26 8 0.09
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACA
Found at i:59203679 original size:27 final size:27
Alignment explanation
Indices: 59203649--59203707 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
59203639 GCCAAGCGTT
59203649 CTGGCGAACTCTAACTCGCCAAACCTA
1 CTGGCGAACTCTAACTCGCCAAACCTA
* * * *
59203676 CTGGTGGACTCTAGCTTGCCAAACCTA
1 CTGGCGAACTCTAACTCGCCAAACCTA
59203703 CTGGC
1 CTGGC
59203708 AGTCATAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (27 bp):
CTGGCGAACTCTAACTCGCCAAACCTA
Found at i:59214251 original size:74 final size:74
Alignment explanation
Indices: 59214163--59214310 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
59214153 TTTGGTGTAA
** *
59214163 AGCTGAGCTTTTGGTGAATGTTTTGAGTTCTCTACTAAACTTTTTGTTTCTTCCTATTATGTGCT
1 AGCTGAGCTTTTGGTGAATGTTCGGAGTTCTCTACTAAACTTTTTGTTCCTTCCTATTATGTGCT
59214228 ATTTAGTTT
66 ATTTAGTTT
59214237 AGCTGAGCTTTTGGTGAATGTTCGGAGTTCTCTACTAAACTTTTTGTTCCTTCCTATTATGTGCT
1 AGCTGAGCTTTTGGTGAATGTTCGGAGTTCTCTACTAAACTTTTTGTTCCTTCCTATTATGTGCT
59214302 ATTTAGTTT
66 ATTTAGTTT
59214311 GGTTGAAGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (74 bp):
AGCTGAGCTTTTGGTGAATGTTCGGAGTTCTCTACTAAACTTTTTGTTCCTTCCTATTATGTGCT
ATTTAGTTT
Found at i:59221531 original size:3 final size:3
Alignment explanation
Indices: 59221523--59221547 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
59221513 ATTCAATACC
59221523 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
59221548 CACTTACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:59222182 original size:17 final size:19
Alignment explanation
Indices: 59222148--59222185 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
59222138 AAACCTTTAA
59222148 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
59222167 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
59222184 TT
1 TT
59222186 CCTTCCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:59230481 original size:27 final size:27
Alignment explanation
Indices: 59230439--59230565 Score: 161
Period size: 27 Copynumber: 4.7 Consensus size: 27
59230429 CACTAGATAT
59230439 AGATAT-TGTGGCAGAGCCACCAGAAC
1 AGATATATGTGGCAGAGCCACCAGAAC
* *
59230465 AGATATATGTGGTAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
* *
59230492 AGATA-ATCGTGGCATAGCCAACAGAAC
1 AGATATAT-GTGGCAGAGCCACCAGAAC
*
59230519 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
59230546 AGATA-ATTGTGGCATAGCCA
1 AGATATA-TGTGGCAGAGCCA
59230566 TCAGGACGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
26 9 0.10
27 76 0.87
28 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
AGATATATGTGGCAGAGCCACCAGAAC
Found at i:59230517 original size:54 final size:54
Alignment explanation
Indices: 59230446--59230565 Score: 204
Period size: 54 Copynumber: 2.2 Consensus size: 54
59230436 TATAGATATT
* * *
59230446 GTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATC
1 GTGGCATAGCCAACAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
*
59230500 GTGGCATAGCCAACAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCATAGCCAACAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
59230554 GTGGCATAGCCA
1 GTGGCATAGCCA
59230566 TCAGGACGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (54 bp):
GTGGCATAGCCAACAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
Found at i:59234426 original size:56 final size:56
Alignment explanation
Indices: 59234340--59234489 Score: 237
Period size: 56 Copynumber: 2.7 Consensus size: 56
59234330 ATGTATATGA
* * * *
59234340 GGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
*
59234396 GGCATCAATATGTGACTCTAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
* *
59234452 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAA
1 GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAA
59234490 TGATACGGCC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 86 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
Found at i:59234723 original size:20 final size:20
Alignment explanation
Indices: 59234700--59234757 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
59234690 TAGCTCGTCC
* *
59234700 AGCTCACAACCAGCTCAGCA
1 AGCTCACATCCAGCTCAACA
**
59234720 AGCTCAGTTCCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
*
59234740 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
59234758 TTCCAGCTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.14, T:0.17
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:59236392 original size:11 final size:11
Alignment explanation
Indices: 59236376--59236405 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
59236366 TATATATACA
*
59236376 AAAAAAAATTT
1 AAAAAAAATTC
59236387 AAAAAAAATTC
1 AAAAAAAATTC
59236398 AAAAAAAA
1 AAAAAAAA
59236406 AGGTTCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:59244954 original size:30 final size:30
Alignment explanation
Indices: 59244859--59244955 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
59244849 AGCTCACTCC
*
59244859 TAGCTC-ACTTTCAACTCACGAGCTAAA-CTT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGC-T
* *** **
59244889 TAGCTCAACTTCAGCTTTGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
59244919 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
59244949 TAGCTCA
1 TAGCTCA
59244956 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
29 2 0.04
30 38 0.79
31 8 0.17
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:59248907 original size:46 final size:45
Alignment explanation
Indices: 59248833--59249007 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
59248823 GTAACCCGCC
* * *
59248833 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
59248878 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCGCAT
* * *
59248928 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCA-T
59248972 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59249008 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 4 0.04
45 2 0.02
46 60 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:59248998 original size:93 final size:93
Alignment explanation
Indices: 59248839--59249011 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
59248829 CGCCCATAAG
* * *
59248839 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59248904 ACGAGTTCGAATGCCTAGTTACATCTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
* *
59248932 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
59248997 ACGAGTTCGGATGCC
66 ACGAGTTCGAATGCC
59249012 CAAACATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCA
Found at i:59251076 original size:13 final size:13
Alignment explanation
Indices: 59251058--59251086 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59251048 CGGCTAACCT
59251058 ACATAATTAAATA
1 ACATAATTAAATA
59251071 ACATAATTAAATA
1 ACATAATTAAATA
59251084 ACA
1 ACA
59251087 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:59251122 original size:19 final size:19
Alignment explanation
Indices: 59251100--59251169 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
59251090 AACTATTCAT
59251100 ATAATTATAATTTAAAATA
1 ATAATTATAATTTAAAATA
*
59251119 ATAACTAAATAATTTAAAAGTA
1 ATAA-T-TATAATTTAAAA-TA
*
59251141 ATAATTA-AATTTAGACATA
1 ATAATTATAATTTA-AAATA
59251160 ATAATTATAA
1 ATAATTATAA
59251170 GTCAAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
19 19 0.44
20 6 0.14
21 12 0.28
22 6 0.14
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAATTATAATTTAAAATA
Found at i:59251130 original size:21 final size:22
Alignment explanation
Indices: 59251106--59251150 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
59251096 TCATATAATT
59251106 ATAATTTAAAA-TAATAACTAA
1 ATAATTTAAAAGTAATAACTAA
*
59251127 ATAATTTAAAAGTAATAATTAA
1 ATAATTTAAAAGTAATAACTAA
59251149 AT
1 AT
59251151 TTAGACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATTTAAAAGTAATAACTAA
Found at i:59251319 original size:10 final size:10
Alignment explanation
Indices: 59251306--59251341 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
59251296 TAAGCTCGGT
59251306 TGAGCTCAAA
1 TGAGCTCAAA
*
59251316 TGAGCTGAAA
1 TGAGCTCAAA
*
59251326 CGAGCTCAAA
1 TGAGCTCAAA
59251336 TGAGCT
1 TGAGCT
59251342 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:59251350 original size:20 final size:20
Alignment explanation
Indices: 59251304--59251351 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
59251294 AGTAAGCTCG
59251304 GTTGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
***
59251324 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
59251344 GTTGAGCT
1 GTTGAGCT
59251352 GGACGGAGCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:59255729 original size:29 final size:29
Alignment explanation
Indices: 59255663--59255719 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
59255653 GATTCAAAGA
*
59255663 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
59255692 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
59255720 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:59260839 original size:16 final size:16
Alignment explanation
Indices: 59260818--59260854 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
59260808 ATGAATCGCT
59260818 ATTATCAATCCACATG
1 ATTATCAATCCACATG
59260834 ATTATCAATCCACATG
1 ATTATCAATCCACATG
59260850 ATTAT
1 ATTAT
59260855 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTATCAATCCACATG
Found at i:59261396 original size:25 final size:25
Alignment explanation
Indices: 59261352--59261401 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
59261342 ATGAAAACCA
* *
59261352 AATTTACATATACAATCATATTATAT
1 AATTTACATAAACAAACATA-TATAT
59261378 AATTTA-ATAAACAAACATATATAT
1 AATTTACATAAACAAACATATATAT
59261402 TTTCAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 11 0.50
26 6 0.27
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (25 bp):
AATTTACATAAACAAACATATATAT
Found at i:59266157 original size:47 final size:47
Alignment explanation
Indices: 59266094--59266741 Score: 1008
Period size: 47 Copynumber: 13.6 Consensus size: 47
59266084 CCCTTCGGGA
* * * * * *
59266094 CTTATCACATTTATACACTTTCACATCCATAACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59266141 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59266188 GTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59266235 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59266284 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59266331 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59266378 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59266427 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59266476 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59266523 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59266570 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59266619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59266666 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59266715 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59266742 ACCAACCCTT
Statistics
Matches: 558, Mismatches: 35, Indels: 16
0.92 0.06 0.03
Matches are distributed among these distances:
47 330 0.59
49 228 0.41
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59266291 original size:96 final size:94
Alignment explanation
Indices: 59266094--59266741 Score: 1008
Period size: 96 Copynumber: 6.8 Consensus size: 94
59266084 CCCTTCGGGA
* * * * * * * *
59266094 CTTATCACATTTATACACTTTCACATCCATAACGTTGGCCATTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
59266159 TTTCACATTCATCACATCGGCCATTAGGT
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
59266188 GTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
59266253 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
59266284 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
59266349 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
59266378 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
59266443 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
59266476 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
59266541 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
59266570 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59266635 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
59266666 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59266731 ACTTTCACATT
64 ACTTTCACATT
59266742 ACCAACCCTT
Statistics
Matches: 517, Mismatches: 29, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
94 135 0.26
96 337 0.65
98 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:59266363 original size:143 final size:143
Alignment explanation
Indices: 59266094--59266741 Score: 1070
Period size: 143 Copynumber: 4.5 Consensus size: 143
59266084 CCCTTCGGGA
* * * * *
59266094 CTTATCACAT-T-TATACACTTTCACATCCATAACGTTGGCCATTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
** *
59266157 ACTTTCACATTCATCACATCGGCCATTAGGTGTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59266222 TCGGCCATTAGGC
131 TCGGCCATTAGGC
59266235 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
59266300 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59266365 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
59266378 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
* *
59266443 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
59266508 CATCGGCTATTAGGC
129 CATCGGCCATTAGGC
* *
59266523 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
* *
59266586 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
59266651 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
59266666 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
59266731 ACTTTCACATT
66 ACTTTCACATT
59266742 ACCAACCCTT
Statistics
Matches: 482, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 336 0.70
145 135 0.28
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:59267071 original size:40 final size:40
Alignment explanation
Indices: 59266966--59267108 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
59266956 GCTACTCGTT
*
59266966 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
59267006 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
59267046 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
59267087 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
59267109 AGACATCATT
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 74 0.82
41 13 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59270552 original size:40 final size:40
Alignment explanation
Indices: 59270508--59270777 Score: 441
Period size: 40 Copynumber: 6.8 Consensus size: 40
59270498 CGAGCATGAT
* * * *
59270508 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
59270548 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
59270588 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
59270628 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
59270668 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
59270708 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
59270748 TGCTCTTCGGGACTTAGCCCGGATACATCA
1 TGCTCTTCGGGACTTAGCCCGGATACATCA
59270778 TCGTCGAGAC
Statistics
Matches: 216, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:59273174 original size:49 final size:47
Alignment explanation
Indices: 59273000--59273600 Score: 941
Period size: 47 Copynumber: 12.6 Consensus size: 47
59272990 CCCTTCGGGA
* * * * * *
59273000 CTTATCACATTTATACACTTTCACATCCATAACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59273047 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59273094 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59273141 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59273190 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59273237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59273284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59273333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59273380 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59273429 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59273478 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59273525 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59273574 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59273601 ACCAACCCTT
Statistics
Matches: 519, Mismatches: 27, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
47 289 0.56
49 230 0.44
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59273197 original size:96 final size:94
Alignment explanation
Indices: 59273000--59273600 Score: 950
Period size: 96 Copynumber: 6.3 Consensus size: 94
59272990 CCCTTCGGGA
* * * * * * * *
59273000 CTTATCACATTTATACACTTTCACATCCATAACGTTGGCCATTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
59273065 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTCGGC
*
59273094 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
59273159 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTCGGC
*
59273190 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
59273255 TTTCACATTCATCACATCGGCCATTGGGC
66 TTTCACATTCATCACATCGGCCATTCGGC
*
59273284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
59273349 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTCGGC
*
59273380 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
59273445 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTCGGC
59273478 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
59273543 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTCGGC
59273574 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59273601 ACCAACCCTT
Statistics
Matches: 480, Mismatches: 21, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
94 91 0.19
96 344 0.72
98 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTCGGC
Found at i:59273862 original size:40 final size:40
Alignment explanation
Indices: 59273825--59273917 Score: 152
Period size: 40 Copynumber: 2.3 Consensus size: 40
59273815 GCTACTCGTT
*
59273825 CAAATGCCTTCGGGACATAGCCT-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCTAGATT-TAGTAACTCGCA
*
59273865 CAAATGCCTTCGGGACTTAACCTAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCTAGATTTAGTAACTCGCA
59273905 CAAATGCCTTCGG
1 CAAATGCCTTCGG
59273918 ATCTTAGTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCTAGATTTAGTAACTCGCA
Found at i:59276901 original size:13 final size:13
Alignment explanation
Indices: 59276883--59276911 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59276873 CGGCTAACCT
59276883 ACATAATTAAATA
1 ACATAATTAAATA
59276896 ACATAATTAAATA
1 ACATAATTAAATA
59276909 ACA
1 ACA
59276912 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:59283455 original size:13 final size:13
Alignment explanation
Indices: 59283437--59283465 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59283427 CGGCTAACCT
59283437 ACATAATTAAATA
1 ACATAATTAAATA
59283450 ACATAATTAAATA
1 ACATAATTAAATA
59283463 ACA
1 ACA
59283466 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:59296687 original size:27 final size:27
Alignment explanation
Indices: 59296656--59296833 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
59296646 TAAATTGTAC
59296656 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
59296683 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59296709 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59296737 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59296765 AGCACTAAGGGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59296792 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59296819 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59296834 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59296770 original size:82 final size:81
Alignment explanation
Indices: 59296657--59296812 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
59296647 AAATTGTACA
* *
59296657 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCAAAATGAATATGTA-GCACTAAGTG
59296721 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
59296738 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGGGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGGGTGCAAAATGAATATGTAGCACTAAGTG
*
59296803 TGCGAGTTGA
65 TGCGAATTGA
59296813 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCAAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59296824 original size:82 final size:81
Alignment explanation
Indices: 59296653--59296833 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
59296643 GATTAAATTG
* *
59296653 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCAAAATGAATATGATGCACTAA
59296718 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
59296734 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGGGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGGGTGCAAAATGAATATGAT-GCACT
* **
59296798 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59296816 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59296834 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCAAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59304828 original size:27 final size:27
Alignment explanation
Indices: 59304797--59304973 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
59304787 TAAATTGTAC
59304797 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59304824 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59304850 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59304878 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59304906 AGCACTAAGGGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59304933 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59304960 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
59304974 AGACTCAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59304911 original size:82 final size:81
Alignment explanation
Indices: 59304798--59304953 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59304788 AAATTGTACA
* *
59304798 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCGAAATGAATATGTA-GCACTAAGTG
59304862 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59304879 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGGGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGGGTGCGAAATGAATATGTAGCACTAAGTG
*
59304944 TGCGAGTTGA
65 TGCGAATTGA
59304954 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59304965 original size:82 final size:81
Alignment explanation
Indices: 59304794--59304973 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
59304784 GATTAAATTG
* *
59304794 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCGAAATGAATATGATGCACTAA
59304859 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59304875 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGGGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGGGTGCGAAATGAATATGAT-GCACT
* **
59304939 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59304957 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
59304974 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59309953 original size:30 final size:30
Alignment explanation
Indices: 59309870--59309964 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
59309860 AACTAAAATT
* *
59309870 AGCTAAGCTTTAGCTCGTAAGCTAAAGTTG
1 AGCTAAGATTTAGCTCGTAAGCTGAAGTTG
* * ** *
59309900 AGCTGAGATTAAAATCCTAAGCTGAAGTTG
1 AGCTAAGATTTAGCTCGTAAGCTGAAGTTG
* *
59309930 AGCTAAGGTTTAGCTCGTGAGCTGAA-TATG
1 AGCTAAGATTTAGCTCGTAAGCTGAAGT-TG
59309960 AGCTA
1 AGCTA
59309965 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (30 bp):
AGCTAAGATTTAGCTCGTAAGCTGAAGTTG
Found at i:59310601 original size:19 final size:19
Alignment explanation
Indices: 59310577--59310616 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
59310567 AGCTCCCATG
59310577 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
* *
59310596 TAGCTCGAGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
59310615 TA
1 TA
59310617 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:59311878 original size:14 final size:14
Alignment explanation
Indices: 59311856--59311903 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
59311846 ACCTAAACCG
* *
59311856 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
59311870 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
59311884 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
59311898 ACCATT
1 ACCATT
59311904 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:59312277 original size:15 final size:14
Alignment explanation
Indices: 59312257--59312302 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
59312247 TATACAAGTT
*
59312257 AAAAAAAAATC--G
1 AAAAAAAAATCAAA
59312269 AAAAAAAAATCAAA
1 AAAAAAAAATCAAA
59312283 ATAAAAAAAATCAAA
1 A-AAAAAAAATCAAA
59312298 AAAAA
1 AAAAA
59312303 TTGATTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 11 0.37
14 5 0.17
15 14 0.47
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.09
Consensus pattern (14 bp):
AAAAAAAAATCAAA
Found at i:59312302 original size:11 final size:12
Alignment explanation
Indices: 59312257--59312289 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59312247 TATACAAGTT
59312257 AAAAAAAAATCG
1 AAAAAAAAATCG
59312269 AAAAAAAAATC-
1 AAAAAAAAATCG
59312280 AAAATAAAAA
1 AAAA-AAAAA
59312290 AAATCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:59318993 original size:19 final size:19
Alignment explanation
Indices: 59318969--59319008 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59318959 AGCTCCCATG
59318969 TAGCTCCACACCAACTCAT
1 TAGCTCCACACCAACTCAT
* * *
59318988 TAGCTCGAGACCAGCTCAT
1 TAGCTCCACACCAACTCAT
59319007 TA
1 TA
59319009 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAACTCAT
Found at i:59320272 original size:14 final size:14
Alignment explanation
Indices: 59320250--59320297 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
59320240 ACCTAAACCG
* *
59320250 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
59320264 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
59320278 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
59320292 ACCATT
1 ACCATT
59320298 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:59321133 original size:22 final size:22
Alignment explanation
Indices: 59321108--59321161 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
59321098 TAAAGATGTG
*
59321108 TAATGCT-CTCTTTAATTGATG-A
1 TAATGCTCCT-TTTAA-TGAAGAA
59321130 TAATAGCTCCTTTTAATGAAGAA
1 TAAT-GCTCCTTTTAATGAAGAA
59321153 TAATGCTCC
1 TAATGCTCC
59321162 CCTTTGTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 13 0.46
23 13 0.46
24 2 0.07
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (22 bp):
TAATGCTCCTTTTAATGAAGAA
Found at i:59331918 original size:27 final size:27
Alignment explanation
Indices: 59331888--59332065 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59331878 ATATTGAGTC
* * * *
59331888 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59331915 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59331942 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59331970 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59331997 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59332024 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59332051 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59332066 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59332027 original size:82 final size:81
Alignment explanation
Indices: 59331909--59332064 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59331899 TGCTATATAA
* *
59331909 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59331974 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59331991 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59332055 CACTTAGTGC
65 CACTTAGTGC
59332065 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59340103 original size:27 final size:27
Alignment explanation
Indices: 59340073--59340250 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59340063 ATATTGAGTC
* * * *
59340073 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59340100 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59340127 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59340155 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59340182 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59340209 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59340236 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59340251 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59340212 original size:82 final size:81
Alignment explanation
Indices: 59340094--59340249 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59340084 TGCTATATAA
* *
59340094 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59340159 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59340176 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59340240 CACTTAGTGC
65 CACTTAGTGC
59340250 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59342265 original size:20 final size:21
Alignment explanation
Indices: 59342227--59342266 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
59342217 CAGCTTGTTG
* *
59342227 AGCTCAATTTAGCTTGTTTGT
1 AGCTCAATTGAGCTCGTTTGT
59342248 AGCTCAA-TGAGCTCGTTTG
1 AGCTCAATTGAGCTCGTTTG
59342267 CTCATTCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (21 bp):
AGCTCAATTGAGCTCGTTTGT
Found at i:59344980 original size:29 final size:29
Alignment explanation
Indices: 59344947--59345003 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
59344937 ATAACCAAAC
*
59344947 CTACA-AAACCTTTATATCCATAAACCCAA
1 CTACATAAA-CTTCATATCCATAAACCCAA
59344976 CTACATAAACTTCATATCCATAAACCCA
1 CTACATAAACTTCATATCCATAAACCCA
59345004 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACATAAACTTCATATCCATAAACCCAA
Found at i:59345862 original size:29 final size:29
Alignment explanation
Indices: 59345829--59345885 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
59345819 ATAACCAAAC
*
59345829 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
59345858 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
59345886 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:59345991 original size:882 final size:881
Alignment explanation
Indices: 59344693--59346435 Score: 3310
Period size: 882 Copynumber: 2.0 Consensus size: 881
59344683 ATTTGTTGGC
59344693 TACCTAGTGTACTAGTTGTGTCATCCATTTTCTTTGTTGAAAACCGAACTTATCACTACTCGTAG
1 TACCTAGTGTACTAGTTGTGTCATCCATTTTCTTTGTTGAAAACCGAACTTATCACTACTCGTAG
**
59344758 TGTGGCGTTAAAACATGCCAAGGTTCCTACTTTGCTAAGTAGTGGGTCAAGGTTCTCATATTCTC
66 TGTGGCGTTAAAACATGCCAAGGTTCCTACTTTGCTAAGTAGTGAATCAAGGTTCTCATATTCTC
59344823 CATCCGACCACCTTGAAAACTTATAAACATTTGGGTCAATATTTTCTAATATTGGTTCGTGTTTG
131 CATCCGACCACCTTGAAAACTTATAAACATTTGGGTCAATATTTTCTAATATTGGTTCGTGTTTG
59344888 TTTTTGAGATCATTTTCATTTCCATTCCATTCCATCTTTTCGTTTCATTATAACCAAACCTACAA
196 TTTTTGAGATCATTTTCATTTCCATTCCATTCCATCTTTTCGTTTCATTATAACCAAACCTACAA
*
59344953 AACCTTTATATCCATAAACCCAACTACATAAACTTCATATCCATAAACCCATCTTTGAATCCTTT
261 AAACTTTATATCCATAAACCCAACTACATAAACTTCATATCCATAAACCCATCTTTGAATCCTTT
* *
59345018 TACATAGCTTCTGCCATTATTTACGTTAACACATCCTTTTGAACAAATCGAACACTATTTCTTCA
326 TACATAGCTTCTGCCATTATTTACGTTAAAACATCCTTTTGAACAAATCGAACACTACTTCTTCA
59345083 TAGACGATCGGGCAAATTCACATACGACTCGACTCACCCCGACGCGGATCGTATCATTTGGTATC
391 TAGACGATCGGGCAAATTCACATACGACTCGACTCACCCCGACGCGGATCGTATCATTTGGTATC
* *
59345148 AGAGCTACAAAAATGAGGAGTACGAGCATTAAAAATTACTCTAGGAATAGTCTGTGACTCATCAA
456 AGAGCTACAAAAACGAGGAGTACGAGCATTAAAAATTACTCCAGGAATAGTCTGTGACTCATCAA
* *
59345213 GTAAGTTTTAAAAAAA-ACAAAAAAAAAGAAAAAAATTTCAAACAAAAATTTTGAAAAAAAAAAC
521 GTAAGTTTTAAAAAAACA-AAAAAAAAAGAAAAAAAATTCAAACAAAAATTCTG--AAAAAAAAC
59345277 AAAATCTGAAAATTTGAACATAGTTTTACTTCTTCTCCA-TTTTCAATCCTGAAACCTTTACCCT
583 AAAATCTGAAAATTTGAACATAGTTTTACTTCTTCTCCATTTTTCAATCCTGAAACCTTTACCCT
59345341 CTCATCCACTTCCATCCTTGACCTTTTCGCCACACTATACCCGAATTATTCTATTTCTTGTAAGC
648 CTCATCCACTTCCATCCTTGACCTTTTCGCCACACTATACCCGAATTATTCTATTTCTTGTAAGC
*
59345406 CTACCCAGTTGTAAATCACATCATTCCTTGTTACCCATTTCAAACCGACCACCTAGACTAAGGTT
713 CTACCCAGTTGTAAATCACATCATCCCTTGTTACCCATTTCAAACCGACCACCTAGACTAAGGTT
59345471 AAGCCTTGGCGAATCTGCTTACGAAATCACGAGAAAGGTAAAGAGAGGTAAAAGGCACGAGTGTT
778 AAGCCTTGGCGAATCTGCTTACGAAATCACGAGAAAGGTAAAGAGAGGTAAAAGGCACGAGTGTT
59345536 GTGAGAGCATTAGAGTGTTCTATCGATCAAGTGCTCTAT
843 GTGAGAGCATTAGAGTGTTCTATCGATCAAGTGCTCTAT
59345575 TACCTAGTGTACTAGTTGTGTCATCCATTTTCTTTGTTGAAAACCGAACTTATCACTACTCGTAG
1 TACCTAGTGTACTAGTTGTGTCATCCATTTTCTTTGTTGAAAACCGAACTTATCACTACTCGTAG
* *
59345640 TGTGGCGTTCAAACATGCCAAGGTTCCTACTTTGCTAAGTAGTGAATCGAGGTTCTCATATTCTC
66 TGTGGCGTTAAAACATGCCAAGGTTCCTACTTTGCTAAGTAGTGAATCAAGGTTCTCATATTCTC
59345705 CATCCGACCACCTTGAAAACTTATAAACATTTGGGTCAATATTTTCTAATATTGGTTCGTGTTTG
131 CATCCGACCACCTTGAAAACTTATAAACATTTGGGTCAATATTTTCTAATATTGGTTCGTGTTTG
59345770 TTTTTGAGATCATTTTCATTTCCATTCCATTCCATCTTTTCGTTTCATTATAACCAAACCTACAA
196 TTTTTGAGATCATTTTCATTTCCATTCCATTCCATCTTTTCGTTTCATTATAACCAAACCTACAA
59345835 AAACTTTATATCCATAAACCCAACTACATAAACTTCATATCCATAAACCCATCTTTGAATCCTTT
261 AAACTTTATATCCATAAACCCAACTACATAAACTTCATATCCATAAACCCATCTTTGAATCCTTT
*
59345900 TACATAGCTTCTGCCATTATTTACGTTAAAACATCCTTTTGAACAAATCGAACGCTACTTCTTCA
326 TACATAGCTTCTGCCATTATTTACGTTAAAACATCCTTTTGAACAAATCGAACACTACTTCTTCA
59345965 TAGACGATCGGGCAAATTCACATACGACTCGACTCACCCCGACGCGGATCGTATCATTTGGTATC
391 TAGACGATCGGGCAAATTCACATACGACTCGACTCACCCCGACGCGGATCGTATCATTTGGTATC
*
59346030 AGAGCTACAAAAACGAGGAGTACGAGCATTCAAAATTACTCCAGGAATAGTCTGTGACTCATCAA
456 AGAGCTACAAAAACGAGGAGTACGAGCATTAAAAATTACTCCAGGAATAGTCTGTGACTCATCAA
59346095 GTAAGTTTTAAAAAAACAAAAAAAAAAGAAAAAAAATTCAAACAAAAATTCTGAAAAAAAACAAA
521 GTAAGTTTTAAAAAAACAAAAAAAAAAGAAAAAAAATTCAAACAAAAATTCTGAAAAAAAACAAA
59346160 ATCTGAAAATTTGAACATAGTTTTACTTCTTCTCCATTTTTCAATCCTGAAACCTTTACCCTCTC
586 ATCTGAAAATTTGAACATAGTTTTACTTCTTCTCCATTTTTCAATCCTGAAACCTTTACCCTCTC
*
59346225 ATCCACTTCCATCCTTGACCTTTTCGCCACACTATACCCTAATTATTCTATTTCTTGTAAGCCTA
651 ATCCACTTCCATCCTTGACCTTTTCGCCACACTATACCCGAATTATTCTATTTCTTGTAAGCCTA
59346290 CCCAGTTGTAAATCACATCATCCCTTGTTACCCATTTCAAACCGACCACCTAGACTAAGGTTAAG
716 CCCAGTTGTAAATCACATCATCCCTTGTTACCCATTTCAAACCGACCACCTAGACTAAGGTTAAG
59346355 CCTTGGCGAATCTGCTTACGAAATCACGAGAAAGGTAAAGAGAGGTAAAAGGCACGAGTGTTGTG
781 CCTTGGCGAATCTGCTTACGAAATCACGAGAAAGGTAAAGAGAGGTAAAAGGCACGAGTGTTGTG
59346420 AGAGCATTAGAGTGTT
846 AGAGCATTAGAGTGTT
59346436 GAAAAAGCCA
Statistics
Matches: 844, Mismatches: 15, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
880 48 0.06
881 237 0.28
882 558 0.66
883 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (881 bp):
TACCTAGTGTACTAGTTGTGTCATCCATTTTCTTTGTTGAAAACCGAACTTATCACTACTCGTAG
TGTGGCGTTAAAACATGCCAAGGTTCCTACTTTGCTAAGTAGTGAATCAAGGTTCTCATATTCTC
CATCCGACCACCTTGAAAACTTATAAACATTTGGGTCAATATTTTCTAATATTGGTTCGTGTTTG
TTTTTGAGATCATTTTCATTTCCATTCCATTCCATCTTTTCGTTTCATTATAACCAAACCTACAA
AAACTTTATATCCATAAACCCAACTACATAAACTTCATATCCATAAACCCATCTTTGAATCCTTT
TACATAGCTTCTGCCATTATTTACGTTAAAACATCCTTTTGAACAAATCGAACACTACTTCTTCA
TAGACGATCGGGCAAATTCACATACGACTCGACTCACCCCGACGCGGATCGTATCATTTGGTATC
AGAGCTACAAAAACGAGGAGTACGAGCATTAAAAATTACTCCAGGAATAGTCTGTGACTCATCAA
GTAAGTTTTAAAAAAACAAAAAAAAAAGAAAAAAAATTCAAACAAAAATTCTGAAAAAAAACAAA
ATCTGAAAATTTGAACATAGTTTTACTTCTTCTCCATTTTTCAATCCTGAAACCTTTACCCTCTC
ATCCACTTCCATCCTTGACCTTTTCGCCACACTATACCCGAATTATTCTATTTCTTGTAAGCCTA
CCCAGTTGTAAATCACATCATCCCTTGTTACCCATTTCAAACCGACCACCTAGACTAAGGTTAAG
CCTTGGCGAATCTGCTTACGAAATCACGAGAAAGGTAAAGAGAGGTAAAAGGCACGAGTGTTGTG
AGAGCATTAGAGTGTTCTATCGATCAAGTGCTCTAT
Found at i:59346166 original size:17 final size:19
Alignment explanation
Indices: 59346134--59346168 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
59346124 AAAAAAATTC
59346134 AAACAAAAATTCTGAAAAA
1 AAACAAAAATTCTGAAAAA
59346153 AAAC-AAAA-TCTGAAAA
1 AAACAAAAATTCTGAAAA
59346169 TTTGAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (19 bp):
AAACAAAAATTCTGAAAAA
Done.