Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 214 of 344
Found at i:71019883 original size:13 final size:13
Alignment explanation
Indices: 71019865--71019889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71019855 AATTAGTATA
71019865 TGTGAAAATTTTG
1 TGTGAAAATTTTG
71019878 TGTGAAAATTTT
1 TGTGAAAATTTT
71019890 ATCGTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:71021029 original size:44 final size:43
Alignment explanation
Indices: 71020979--71021181 Score: 243
Period size: 44 Copynumber: 4.7 Consensus size: 43
71020969 TATGTGTTAT
* *
71020979 CGTGTAAGACCACGTCTAGGACATTGGCATCGACTTATAATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTATGATTTA
* * **
71021023 CGTGTAAGACCACATCTAGGATGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTATGATTTA
71021067 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATT-TGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTATGATTTA
* *
71021109 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TATGATTTA
* *
71021152 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
71021182 TGTACGAGCT
Statistics
Matches: 141, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
41 3 0.02
42 32 0.23
43 34 0.24
44 71 0.50
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATTATGATTTA
Found at i:71025173 original size:40 final size:40
Alignment explanation
Indices: 71024991--71025213 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
71024981 TCCTCGTTCA
* * * * *
71024991 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
71025030 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
71025070 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
71025110 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
71025150 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
71025190 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71025214 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:71025222 original size:41 final size:41
Alignment explanation
Indices: 71025145--71025222 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71025135 TTAGTATCTC
* * *
71025145 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71025186 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71025223 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71033062 original size:40 final size:40
Alignment explanation
Indices: 71032884--71033102 Score: 228
Period size: 40 Copynumber: 5.5 Consensus size: 40
71032874 CGTTCAAATA
* * * * *
71032884 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* *
71032923 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
71032963 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* * * *
71033003 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
** * * * * *
71033043 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AAAG
1 CCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAATG
*
71033083 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
71033103 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 33 0.21
40 115 0.74
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
Found at i:71033111 original size:41 final size:41
Alignment explanation
Indices: 71033034--71033111 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71033024 TTAGTATCTC
* * *
71033034 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71033075 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71033112 AGTAATCATG
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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71047483 original size:40 final size:40
Alignment explanation
Indices: 71047301--71047523 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
71047291 TCCTCGTTCA
* * * * *
71047301 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
71047340 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
71047380 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
71047420 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
71047460 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
71047500 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71047524 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:71047532 original size:41 final size:41
Alignment explanation
Indices: 71047455--71047532 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71047445 TTAGTATCTC
* * *
71047455 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71047496 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71047533 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71055362 original size:40 final size:40
Alignment explanation
Indices: 71055180--71055402 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
71055170 TCCTCGTTCA
* * * * *
71055180 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
71055219 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
71055259 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
71055299 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
71055339 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
71055379 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71055403 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:71055411 original size:41 final size:41
Alignment explanation
Indices: 71055334--71055411 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71055324 TTAGTATCTC
* * *
71055334 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71055375 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71055412 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71060849 original size:13 final size:13
Alignment explanation
Indices: 71060831--71060857 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71060821 TGAATTAGTA
71060831 TGTGTGAAAATTT
1 TGTGTGAAAATTT
71060844 TGTGTGAAAATTT
1 TGTGTGAAAATTT
71060857 T
1 T
71060858 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:71062069 original size:44 final size:44
Alignment explanation
Indices: 71061951--71062070 Score: 179
Period size: 44 Copynumber: 2.7 Consensus size: 44
71061941 TATGTGTTAT
* *
71061951 CGTGTAAGACCACATCTAGGG-CGTTGGCATCGACTTATAATTTA
1 CGTGTAAGACCACGTCT-GGGACGTTGGCATTGACTTATAATTTA
* * *
71061995 CGTGTAAGACCACGTCTGGGATGTTGGCATTGGCTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATAATTTA
71062039 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
71062071 TACGAGCTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
43 3 0.04
44 66 0.96
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATAATTTA
Found at i:71067528 original size:16 final size:16
Alignment explanation
Indices: 71067507--71067537 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71067497 ATTGGGTTGA
*
71067507 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
71067523 GAAAATTAATTAATT
1 GAAAATTAATTAATT
71067538 AAATTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:71067562 original size:4 final size:5
Alignment explanation
Indices: 71067525--71067560 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
71067515 TTTAATTGGA
71067525 AAATT -AATT -AATT AAATT AAATT AAATT AAA-T AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAAT
71067561 AATGTCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 12 0.41
5 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:71067785 original size:25 final size:25
Alignment explanation
Indices: 71067751--71067828 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
71067741 AAGATTGTTT
*
71067751 TTCTATTAAATAGACATTAAATGCA
1 TTCTACTAAATAGACATTAAATGCA
* **
71067776 TTCTACTAAA-AG--ATT--GT-TT
1 TTCTACTAAATAGACATTAAATGCA
*
71067795 TTCTATTAAATAGACATTAAATGCA
1 TTCTACTAAATAGACATTAAATGCA
71067820 TTCTACTAA
1 TTCTACTAA
71067829 TTCAACTAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
19 9 0.24
20 3 0.08
22 6 0.16
24 3 0.08
25 17 0.45
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (25 bp):
TTCTACTAAATAGACATTAAATGCA
Found at i:71067785 original size:44 final size:44
Alignment explanation
Indices: 71067731--71067828 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
71067721 CTCTCTCCTA
*
71067731 ATTCAACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
1 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
71067775 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
1 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
71067819 ATTCTACTAA
1 ATTCTACTAA
71067829 TTCAACTAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (44 bp):
ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
Found at i:71076701 original size:47 final size:46
Alignment explanation
Indices: 71076647--71076770 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
71076637 TGTGTGTGCT
71076647 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-AT-GAAATGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGATAGAAA-GCC
* * *
71076694 AGTGTAAGACATGTCTGGGATATGCATCAG-CATTGATACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATA-GAAAGCC
*
71076740 AGTGTAAGACATGTCTGGGACATGCTTCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
71076771 TACGAGATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 4 0.06
45 2 0.03
46 30 0.45
47 31 0.46
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATAGAAAGCC
Found at i:71090867 original size:18 final size:17
Alignment explanation
Indices: 71090835--71090870 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
71090825 CAATTTAGGT
71090835 CGTGTAGGCCACACAGG
1 CGTGTAGGCCACACAGG
*
71090852 CGTGTGGGCACACACAGG
1 CGTGTAGGC-CACACAGG
71090870 C
1 C
71090871 AGGCCACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.22, C:0.31, G:0.36, T:0.11
Consensus pattern (17 bp):
CGTGTAGGCCACACAGG
Found at i:71092134 original size:16 final size:18
Alignment explanation
Indices: 71092108--71092140 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71092098 TGTAATTGGG
71092108 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
71092125 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
71092141 TTTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:71092153 original size:26 final size:24
Alignment explanation
Indices: 71092119--71092172 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
71092109 TGAGAAAATT
71092119 ATTTAATTGA-AAAATTAATTTATTTA
1 ATTTAATTGAGAAAA-TAA--TATTTA
*
71092145 ATTTTATTGAGAAAATAATATTTA
1 ATTTAATTGAGAAAATAATATTTA
71092169 ATTT
1 ATTT
71092173 GAGAAATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 10 0.38
26 12 0.46
27 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (24 bp):
ATTTAATTGAGAAAATAATATTTA
Found at i:71093532 original size:11 final size:11
Alignment explanation
Indices: 71093501--71093526 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71093491 TTATTACTTA
71093501 AATTTCACAAC
1 AATTTCACAAC
71093512 AATTTCACAAC
1 AATTTCACAAC
71093523 AATT
1 AATT
71093527 ATACAATTTA
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTTCACAAC
Found at i:71103168 original size:43 final size:43
Alignment explanation
Indices: 71103093--71103178 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
71103083 GTTACGTGAA
* * *
71103093 TCGCATCCATTATGAACTCGGACCTGTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGC
* * *
71103136 TCGCATCCATAATGAACTCA-AGCCTCTTAACGAGGTCGGATGC
1 TCGCATCCATAATGAACTCAGA-CCTCTCAACGAGCTCAGATGC
71103179 CACATATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGC
Found at i:71122763 original size:45 final size:45
Alignment explanation
Indices: 71122699--71122786 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
71122689 CAGAGTTAGC
*
71122699 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATTATCCCGG
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
71122744 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
71122787 TAGGTATTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (45 bp):
TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
Found at i:71160869 original size:79 final size:79
Alignment explanation
Indices: 71160733--71160951 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 79
71160723 AACTTCTATT
* * ** * * *
71160733 CAGCTCTTGTGAGCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCA
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
*
71160798 TGTTT-TGATTGGAC
66 TGTTTCAG-TTGGAC
*
71160812 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTA-CAGGCTTCTGTTTGGC
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGG-TTCTGTTTGGC
*
71160876 ATGTTTCAGTTGGAT
65 ATGTTTCAGTTGGAC
** * * * *
71160891 CAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTT
71160952 AGGTGTGTTC
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 78 0.66
80 36 0.30
81 2 0.02
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (79 bp):
CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
TGTTTCAGTTGGAC
Found at i:71160960 original size:40 final size:40
Alignment explanation
Indices: 71160732--71160951 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
71160722 CAACTTCTAT
* ** *
71160732 TCAGCTCTTGTGAGCTTCTG-TTGGCATGTTTTGGATGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* * *
71160771 CCAGCTCTTATGAGGTTCTGTTTGGCATGTTT-TGATTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAG-TTGGA
*
71160811 CCAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* *
71160850 TCAACTCTTA-CAGGCTTCTGTTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGA-GCTTCTGTTTGGCATGTTTCAGTTGGA
** * *
71160890 TCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
71160930 TCAGCTCTTATGAGCTTCTGTT
1 TCAGCTCTTATGAGCTTCTGTT
71160952 AGGTGTGTTC
Statistics
Matches: 158, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 49 0.31
40 107 0.68
41 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.41
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
Found at i:71160963 original size:119 final size:117
Alignment explanation
Indices: 71160745--71160966 Score: 277
Period size: 119 Copynumber: 1.9 Consensus size: 117
71160735 GCTCTTGTGA
** ** * *
71160745 GCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCATGTTTTGATTGG
1 GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTAGATTGG
*
71160810 ACCAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTACAG
66 ACCAGCTCTTATGAGCTTCTTTAGG-ATGTTTCAGTTGGATCAACTCTTACAG
* * * *
71160863 GCTTCTGTTTGGCATGTTTCAGTTGGATCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAG-TT
1 GCTTCTG-TTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTT-AGATT
*
71160927 GGATCAGCTCTTATGAGCTTCTGTTAGG-TGTGTTCAGTTG
64 GGACCAGCTCTTATGAGCTTCT-TTAGGATGT-TTCAGTTG
71160967 ATCTGACAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 10 0.11
119 73 0.83
120 5 0.06
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (117 bp):
GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTAGATTGG
ACCAGCTCTTATGAGCTTCTTTAGGATGTTTCAGTTGGATCAACTCTTACAG
Found at i:71161459 original size:12 final size:12
Alignment explanation
Indices: 71161442--71161466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71161432 ACTAGCTTGT
71161442 GGCTATGTTTAA
1 GGCTATGTTTAA
71161454 GGCTATGTTTAA
1 GGCTATGTTTAA
71161466 G
1 G
71161467 CCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (12 bp):
GGCTATGTTTAA
Found at i:71170885 original size:21 final size:20
Alignment explanation
Indices: 71170840--71170885 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
71170830 TTGTTGGAAT
71170840 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
71170859 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
71170880 GGTTGA
1 GGTTGA
71170886 TTGTATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:71176519 original size:24 final size:24
Alignment explanation
Indices: 71176488--71176548 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
71176478 TGAATCGGCA
* *
71176488 AAAT-TTGAAATGCCGGAAAGCTG
1 AAATATTGAAAAGCCGAAAAGCTG
71176511 AAATATTGAAAAGCCGAAAAGCTG
1 AAATATTGAAAAGCCGAAAAGCTG
*
71176535 AAATACTGAAAAGC
1 AAATATTGAAAAGC
71176549 AAAAGTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (24 bp):
AAATATTGAAAAGCCGAAAAGCTG
Found at i:71176858 original size:29 final size:28
Alignment explanation
Indices: 71176809--71176880 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
71176799 GGTGAATTTG
* **
71176809 GGCCTAGTGGGCCATAAGAATATAAACTA
1 GGCCTAGTGGGCTATTTGAATA-AAACTA
* *
71176838 GGCC-AGATGGGCTATTTGAATAAAATTG
1 GGCCTAG-TGGGCTATTTGAATAAAACTA
71176866 GGCCTAGTGGGCTAT
1 GGCCTAGTGGGCTAT
71176881 ATGCATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
GGCCTAGTGGGCTATTTGAATAAAACTA
Found at i:71176878 original size:28 final size:29
Alignment explanation
Indices: 71176806--71176881 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
71176796 GAAGGTGAAT
*
71176806 TTGGGCCTAGTGGGCCATAAGAATATAAA
1 TTGGGCCTAGTGGGCTATAAGAATATAAA
* * **
71176835 CTAGGCC-AGATGGGCTATTTGAATA-AAA
1 TTGGGCCTAG-TGGGCTATAAGAATATAAA
71176863 TTGGGCCTAGTGGGCTATA
1 TTGGGCCTAGTGGGCTATA
71176882 TGCATGTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCTATAAGAATATAAA
Found at i:71189863 original size:19 final size:19
Alignment explanation
Indices: 71189841--71189908 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
71189831 CTGTCAGAAA
71189841 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
** * * *
71189860 ATAATTAAAGTGTAGTCAGAAA
1 ATAATT-AA-T-TTTTTATAAG
71189882 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
71189901 ATAATTAA
1 ATAATTAA
71189909 AGTGTACTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 19 0.53
20 3 0.08
21 3 0.08
22 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (19 bp):
ATAATTAATTTTTTATAAG
Found at i:71189878 original size:41 final size:41
Alignment explanation
Indices: 71189833--71189914 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
71189823 TAAAATTCCT
71189833 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
71189874 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
71189915 CTTAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (41 bp):
GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
Found at i:71190836 original size:21 final size:20
Alignment explanation
Indices: 71190791--71190836 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
71190781 TTGTTGGAAT
71190791 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
71190810 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
71190831 GGTTGA
1 GGTTGA
71190837 TTGCATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:71196486 original size:25 final size:25
Alignment explanation
Indices: 71196455--71196507 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
71196445 TAAGGAGCCT
71196455 GAAACGACAATTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
*
71196480 GAAACGACAGTTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
71196505 GAA
1 GAA
71196508 GCTAGGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (25 bp):
GAAACGACAATTGATAGGGATTACC
Found at i:71203087 original size:48 final size:48
Alignment explanation
Indices: 71203016--71203118 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
71203006 ACACGGGTGT
* *
71203016 GTGGCTGGCTGTGTAACTCAAGTCAGAGAGTTACATGGGTAAGGAGAC
1 GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
71203064 GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
1 GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
71203112 G-GGCTGG
1 GTGGCTGG
71203119 AACACGACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 6 0.11
48 47 0.89
ACGTcount: A:0.27, C:0.15, G:0.36, T:0.22
Consensus pattern (48 bp):
GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
Found at i:71206334 original size:22 final size:24
Alignment explanation
Indices: 71206294--71206337 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
71206284 TATATTTAGT
71206294 TTAATTAAACATAATTAATTAAGG
1 TTAATTAAACATAATTAATTAAGG
*
71206318 TTAA-TAAA-ATACTTAATTAA
1 TTAATTAAACATAATTAATTAA
71206338 AGTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (24 bp):
TTAATTAAACATAATTAATTAAGG
Found at i:71209169 original size:40 final size:40
Alignment explanation
Indices: 71209118--71209233 Score: 187
Period size: 40 Copynumber: 2.9 Consensus size: 40
71209108 ACACCATGTT
*
71209118 GGGATAAAATCGACCCACCCATCCCTGCACACCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
*
71209158 GGGATATAATCGACCCACCCATCCCTGCACAGCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
* * *
71209198 GGGATATAATCGACCCATCCAACCCTACACACCATA
1 GGGATATAATCGACCCACCCATCCCTGCACACCATA
71209234 AGGTACCGCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.33, C:0.34, G:0.15, T:0.18
Consensus pattern (40 bp):
GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
Found at i:71209613 original size:50 final size:48
Alignment explanation
Indices: 71209551--71209671 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
71209541 ACGCCCGTGT
*
71209551 GCCTTGCCAGTGT-GAGCCACACGCCCGTGTGGGTCACACAGCCCAAATTG
1 GCCTTACCAGTGTGGA-CCACACG--CGTGTGGGTCACACAGCCCAAATTG
* * * *
71209601 GCCTTACTAGTGTGGATCACACGCGTGTGGGTCACACTGGCCAAATTG
1 GCCTTACCAGTGTGGACCACACGCGTGTGGGTCACACAGCCCAAATTG
*
71209649 GCCTTACCAGTGTGGATCACACG
1 GCCTTACCAGTGTGGACCACACG
71209672 GCCTAGCCCA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
48 45 0.70
50 17 0.27
51 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (48 bp):
GCCTTACCAGTGTGGACCACACGCGTGTGGGTCACACAGCCCAAATTG
Found at i:71209645 original size:48 final size:48
Alignment explanation
Indices: 71209576--71209671 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
71209566 GCCACACGCC
*
71209576 CGTGTGGGTCACACAGCCCAAATTGGCCTTACTAGTGTGGATCACACG
1 CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
* *
71209624 CGTGTGGGTCACACTGGCCAAATTGGCCTTACCAGTGTGGATCACACG
1 CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
71209672 GCCTAGCCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (48 bp):
CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
Found at i:71215373 original size:25 final size:25
Alignment explanation
Indices: 71215341--71215389 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
71215331 GATTTGACAC
71215341 GATGAGAAAGTGTTTGTGTACTTAT
1 GATGAGAAAGTGTTTGTGTACTTAT
71215366 GATGAGAAAGTGTTTGTGTACTTA
1 GATGAGAAAGTGTTTGTGTACTTA
71215390 CTTTTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (25 bp):
GATGAGAAAGTGTTTGTGTACTTAT
Found at i:71217012 original size:53 final size:54
Alignment explanation
Indices: 71216943--71217148 Score: 222
Period size: 53 Copynumber: 3.9 Consensus size: 54
71216933 TTTCCTTTTT
* * * * *
71216943 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCTTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * **
71216996 GAACTCACCAACGCCATGCCTTGGCTTGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
71217050 GTAACTC-TCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
71217104 GAACTTATCAAT-CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
71217149 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 76 0.59
54 43 0.34
55 7 0.05
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:71217179 original size:47 final size:47
Alignment explanation
Indices: 71217127--71217248 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
71217117 CATGCCTTGG
*
71217127 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
71217174 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
71217221 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
71217249 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:71218546 original size:19 final size:19
Alignment explanation
Indices: 71218524--71218565 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
71218514 TTTCTTTCAA
71218524 ATTTGTCCTATTCTTGCCC
1 ATTTGTCCTATTCTTGCCC
71218543 ATTTGTCCTATTCTTGCCC
1 ATTTGTCCTATTCTTGCCC
71218562 ATTT
1 ATTT
71218566 TTGTCCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.29, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTTGTCCTATTCTTGCCC
Found at i:71225797 original size:12 final size:12
Alignment explanation
Indices: 71225780--71225804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71225770 GAGCACCAGG
71225780 ATCATCAGCTTC
1 ATCATCAGCTTC
71225792 ATCATCAGCTTC
1 ATCATCAGCTTC
71225804 A
1 A
71225805 GCAGTGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCATCAGCTTC
Found at i:71227932 original size:126 final size:126
Alignment explanation
Indices: 71227707--71228090 Score: 750
Period size: 126 Copynumber: 3.0 Consensus size: 126
71227697 TATGAATCAA
71227707 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
71227772 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
71227833 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
71227898 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
*
71227959 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTACTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
*
71228024 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAATGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
71228085 AAATGC
1 AAATGC
71228091 AGGCTACCTC
Statistics
Matches: 256, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 256 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (126 bp):
AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
Found at i:71234670 original size:11 final size:11
Alignment explanation
Indices: 71234656--71234698 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
71234646 CAAAATAGGG
71234656 AGAAAACAACA
1 AGAAAACAACA
*
71234667 AGAAAATAACA
1 AGAAAACAACA
**
71234678 TTAAAACAACA
1 AGAAAACAACA
71234689 A-AAAACAACA
1 AGAAAACAACA
71234699 GATTTTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.72, C:0.16, G:0.05, T:0.07
Consensus pattern (11 bp):
AGAAAACAACA
Found at i:71234683 original size:22 final size:21
Alignment explanation
Indices: 71234658--71234698 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
71234648 AAATAGGGAG
*
71234658 AAAACAACAAGAAAATAACATT
1 AAAACAACAA-AAAACAACATT
71234680 AAAACAACAAAAAACAACA
1 AAAACAACAAAAAACAACA
71234699 GATTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.73, C:0.17, G:0.02, T:0.07
Consensus pattern (21 bp):
AAAACAACAAAAAACAACATT
Found at i:71236132 original size:21 final size:20
Alignment explanation
Indices: 71236106--71236150 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
71236096 CATACAACCA
*
71236106 AAAAAAAAACATACTACATTT
1 AAAAAAAAACATACCA-ATTT
**
71236127 AAAAAAATTCATACCAATTT
1 AAAAAAAAACATACCAATTT
71236147 AAAA
1 AAAA
71236151 TTTTGGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAAAAACATACCAATTT
Found at i:71240826 original size:8 final size:8
Alignment explanation
Indices: 71240813--71240837 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
71240803 TAAAATTATT
71240813 CATTAATA
1 CATTAATA
71240821 CATTAATA
1 CATTAATA
71240829 CATTAATA
1 CATTAATA
71240837 C
1 C
71240838 TTTGTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (8 bp):
CATTAATA
Found at i:71260791 original size:46 final size:46
Alignment explanation
Indices: 71260724--71260951 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
71260714 AGTGTGCTCT
*
71260724 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71260770 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71260816 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
71260862 ATGATATGAAATGAATAACACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
71260908 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
71260952 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:71262812 original size:18 final size:18
Alignment explanation
Indices: 71262791--71262849 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
71262781 AAGAAACATT
71262791 ATCAGAA-CTAGAATTAGA
1 ATCAGAATC-AGAATTAGA
71262809 ATCAGAATCAGAATTAG-
1 ATCAGAATCAGAATTAGA
* *
71262826 GTGACAGAATCAGAATTAAA
1 AT--CAGAATCAGAATTAGA
71262846 ATCA
1 ATCA
71262850 CTATCAGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 1 0.03
18 17 0.50
19 15 0.44
20 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (18 bp):
ATCAGAATCAGAATTAGA
Found at i:71262841 original size:31 final size:31
Alignment explanation
Indices: 71262800--71262897 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
71262790 TATCAGAACT
* * * *
71262800 AGAATTAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
* * *
71262831 AGAATCAGAATTAAAATCACTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
*
71262862 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
71262893 AGAAT
1 AGAAT
71262898 AAAAAATCAG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:71263089 original size:27 final size:26
Alignment explanation
Indices: 71263047--71263148 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
71263037 GCTCAGTTAT
*
71263047 CAGATATTGTGACAGAGCCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
71263074 CAGATATTGTGGCAGAGCAACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
71263100 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
71263128 CAAATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
71263149 TTAACAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.79
28 7 0.11
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:71263335 original size:22 final size:22
Alignment explanation
Indices: 71263307--71263371 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
71263297 GCAAATACGT
*
71263307 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
71263329 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
71263351 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
71263372 AAGGCTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:71263856 original size:27 final size:27
Alignment explanation
Indices: 71263826--71263992 Score: 217
Period size: 27 Copynumber: 6.2 Consensus size: 27
71263816 GGTATCTCGA
* * *
71263826 TAATTCCACCCTATAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTTGG
***
71263853 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTTGG
* * *
71263880 TAATTCTATCCTACAGGGGTATTGTGA
1 TAATTCTACCCTACAGGGGTATTTTGG
**
71263907 TAATTCTACCCTACAGGGGTATTGCGG
1 TAATTCTACCCTACAGGGGTATTTTGG
71263934 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTTGG
* *
71263961 TATTTCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTTGG
71263988 TAATT
1 TAATT
71263993 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTTGG
Found at i:71263990 original size:54 final size:54
Alignment explanation
Indices: 71263797--71263992 Score: 232
Period size: 54 Copynumber: 3.6 Consensus size: 54
71263787 AGGGGCAAAA
* * * * * * *
71263797 TGGTAATTTTACCCCACA-AGGTATCTCGATAATTCCACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* ** * *
71263850 TAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTATCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* *
71263904 TGATAATTCTACCCTACAGGGGTATTGCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * *
71263958 TGGTATTTCTACCCTACAAGGGTATTTTGGTAATT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATT
71263993 TTGTAAATCG
Statistics
Matches: 120, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 15 0.12
54 105 0.88
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:71264006 original size:27 final size:26
Alignment explanation
Indices: 71263950--71264371 Score: 382
Period size: 27 Copynumber: 15.7 Consensus size: 26
71263940 TACCCTACAG
**
71263950 GGGTATTTTGGT-ATTTCTACCCTACAA
1 GGGTATTTTGGTAATTT-TA-CAAACAA
** *
71263977 GGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*** *
71264004 GGGTAAAATGGTAATTCTGTA-AATCAA
1 GGGTATTTTGGTAATT-T-TACAAACAA
* * * *
71264031 TGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACAA
* * * *
71264058 GGGTATTTTAGTAATTTCAGAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
71264085 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
71264112 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
71264139 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
71264166 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
71264193 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
71264220 GGGTATTTTAGTAATTTTACAAATC-A
1 GGGTATTTTGGTAATTTTACAAA-CAA
**
71264246 GAGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTACAAA-CAA
*
71264274 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
71264301 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* * *
71264328 GGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
71264355 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
71264372 GGTAAATTAA
Statistics
Matches: 332, Mismatches: 50, Indels: 26
0.81 0.12 0.06
Matches are distributed among these distances:
25 2 0.01
26 8 0.02
27 310 0.93
28 11 0.03
29 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:71264008 original size:54 final size:54
Alignment explanation
Indices: 71263977--71264371 Score: 484
Period size: 54 Copynumber: 7.3 Consensus size: 54
71263967 TACCCTACAA
* * * *** * ** * *
71263977 GGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * ** * * * * *
71264031 TGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTCAGAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
71264085 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
71264139 GGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
71264193 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
71264247 AGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
71264301 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
71264355 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
71264372 GGTAAATTAA
Statistics
Matches: 297, Mismatches: 44, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 297 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:71269286 original size:49 final size:48
Alignment explanation
Indices: 71269136--71269453 Score: 213
Period size: 49 Copynumber: 6.6 Consensus size: 48
71269126 CATCAAAGTT
* *
71269136 GATGCCATGTCCCAGACAGGTCTTACACT-GACTTCCATATATCGAGGTC
1 GATG-CATGTCCCAGACAGGTCTTACACTAG-CTTCTATATCTCGAGGTC
* * * ** * * *
71269185 GATGCCGTGTCCTAGACAGGTCTTATACCGGCTT-TCATCTATCG-GTATC
1 GATG-CATGTCCCAGACAGGTCTTACACTAGCTTCT-ATATCTCGAG-GTC
* * * *
71269234 AATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
* * * *
71269283 AATGCATGTCCCAGACATGTCTTACACTAG-TTCT-CATCTCGATG-C
1 GATGCATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
* * **
71269328 TGATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGTC
1 -GATGCATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
** * * * * *
71269377 GATGCATGTCCCAGACTTGTATTACACTGGC-TCTCA-ATAT-GTGGCC
1 GATGCATGTCCCAGACAGGTCTTACACTAGCTTCT-ATATCTCGAGGTC
* * *
71269423 AATGCATGTCCCAGACATGTGTTACACTAGC
1 GATGCATGTCCCAGACAGGTCTTACACTAGC
71269454 ACACATATCA
Statistics
Matches: 217, Mismatches: 42, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.00
46 67 0.31
47 9 0.04
48 61 0.28
49 76 0.35
50 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
Found at i:71269305 original size:48 final size:48
Alignment explanation
Indices: 71269233--71269453 Score: 227
Period size: 46 Copynumber: 4.7 Consensus size: 48
71269223 CTATCGGTAT
* *
71269233 CAATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGC
1 CAATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* * *
71269282 CAATGCATGTCCCAGACATGTCTTACACTAG-TTCT-CATCTCGATGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
** * * *
71269328 TGATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGT
1 CAATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* * * * * * *
71269376 CGATGCATGTCCCAGACTTGTATTACACTGGCTCT-CA-ATAT-GTGGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGGC
*
71269422 CAATGCATGTCCCAGACATGTGTTACACTAGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGC
71269454 ACACATATCA
Statistics
Matches: 142, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
46 68 0.48
47 8 0.06
48 61 0.43
49 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CAATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
Found at i:71269366 original size:94 final size:94
Alignment explanation
Indices: 71269233--71269451 Score: 271
Period size: 94 Copynumber: 2.3 Consensus size: 94
71269223 CTATCGGTAT
* * * *
71269233 CAATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGA
1 CAATG-CATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGA
* * *
71269298 CATGTCTTACACTAGTTCTC-ATCTCGAT-GC
65 CATGTATTACACTAGCTCTCAATAT-G-TGGC
** * *
71269328 TGATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGTCGATGCATGTCCCAGAC
1 CAATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
* *
71269393 TTGTATTACACTGGCTCTCAATATGTGGC
66 ATGTATTACACTAGCTCTCAATATGTGGC
*
71269422 CAATGCATGTCCCAGACATGTGTTACACTA
1 CAATGCATGTCCCAGACATGTCTTACACTA
71269452 GCACACATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 1 0.01
94 99 0.93
95 6 0.06
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (94 bp):
CAATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
ATGTATTACACTAGCTCTCAATATGTGGC
Found at i:71270865 original size:35 final size:35
Alignment explanation
Indices: 71270751--71270849 Score: 182
Period size: 35 Copynumber: 2.9 Consensus size: 35
71270741 AACCACTCCA
71270751 AAACACACCAATGCT-ATAAGAGCTAGTCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
*
71270785 AAACACACCAATTCTCATAAGAGCTAGTCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
71270820 AAACACACCAATGCTCATAAGAGCTAGTCC
1 AAACACACCAATGCTCATAAGAGCTAGTCC
71270850 AACAGAAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
34 14 0.23
35 48 0.77
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.20
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
Found at i:71273881 original size:17 final size:17
Alignment explanation
Indices: 71273859--71273894 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
71273849 CAATTAATTT
*
71273859 AAATAAATTAATTTCTC
1 AAATAAATAAATTTCTC
71273876 AAATAAATAAATTTCTC
1 AAATAAATAAATTTCTC
71273893 AA
1 AA
71273895 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAAATAAATTTCTC
Found at i:71273966 original size:268 final size:267
Alignment explanation
Indices: 71273474--71274261 Score: 1232
Period size: 262 Copynumber: 3.0 Consensus size: 267
71273464 GTCTTTGCTA
* * * * *
71273474 TACTGGGTCCAATTATATATACTTCTTGGATTTTAACCCAACACACTAT-ATTTATTCCAACCCA
1 TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACCCA
** *
71273538 ATACATGTTTTTTTTCTATTTTTCAAATTAAATATTATTTGATCAATTAATTTAAATAAATTAAT
66 ATACATG--TTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAAT
* *
71273603 TTATCAAATAAATAGTTTTCTCAATCCAATTCTAATTCTGTTAAAATTAT-AACAACTTTACCAT
129 TTATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAA-AACTTTACCAT
*
71273667 AAAAGAATCTATGAGAAAATATATCTAATTTTTTTACATTAAATTAGATTCACAATAACCAATTA
193 AAAAGAATCTATGAGAAAATATATTTAA-TTTTTTACATTAAATTAGATTCACAATAACCAATTA
71273732 AATTTTTCCTG
257 AATTTTTCCTG
*
71273743 TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACTCA
1 TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACCCA
*
71273808 ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTTCTCAATTAATTTAAATAAATTAATTT
66 ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATTT
* * *
71273873 CTCAAATAAATAAATTTCTCAACCCAATTCTAATTCTGTTAAAATAATGAAAACTTTACCATAAA
131 ATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAAA
* * *
71273938 AGAATTTATGAGAAAATATATTTAATTTTTT---TTACATTA-ATTCACAATAACCAATT-ATTT
196 AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTAAATT
71273998 TTTCCTG
261 TTTCCTG
* *
71274005 TACTGGATCCAATCATATGTACTTCTT-AGACTTTAACCCAACACTTTATAATTTATTCCAACCC
1 TACTGGATCCAATTATATGTACTTCTTGA-ACTTTAACCCAACACTCTATAATTTATTCCAACCC
*
71274069 AATACATGTTTTTTCTATTTCCCAAATTAAATATTATCTGCTCAATTAATTTAAATAAATTAATT
65 AATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATT
* * *
71274134 TATCAAATAAATAATTTTCTCAACCTAATTCTAATTCTGTTAAAATTTTGGAAACTTTACCATAA
130 TATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAA
* *
71274199 AAGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTGGATTCACCATAACCAATTAA
195 AAGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTAA
71274262 TTTAAATCCA
Statistics
Matches: 477, Mismatches: 34, Indels: 18
0.90 0.06 0.03
Matches are distributed among these distances:
261 1 0.00
262 222 0.47
263 17 0.04
264 7 0.01
265 6 0.01
266 16 0.03
267 7 0.01
268 134 0.28
269 46 0.10
270 21 0.04
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (267 bp):
TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACCCA
ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATTT
ATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAAA
AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTAAATT
TTTCCTG
Found at i:71277523 original size:15 final size:15
Alignment explanation
Indices: 71277503--71277533 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71277493 ATTTCACTAC
*
71277503 TATGTCTTTTGTATT
1 TATGTCTTTTATATT
71277518 TATGTCTTTTATATT
1 TATGTCTTTTATATT
71277533 T
1 T
71277534 TGCATGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (15 bp):
TATGTCTTTTATATT
Found at i:71279192 original size:37 final size:36
Alignment explanation
Indices: 71279146--71279221 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
71279136 ATTCCAGAAA
71279146 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTATT-ATATT-AATTTAATAT
* *
71279182 TAATAATTATTTTATTAGTATTTTATTAATTTAATAT
1 TAAT-ATTATTTTAATAGTATTATATTAATTTAATAT
71279219 TAA
1 TAA
71279222 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.34
37 21 0.60
38 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (36 bp):
TAATATTATTTTAATAGTATTATATTAATTTAATAT
Found at i:71286033 original size:27 final size:27
Alignment explanation
Indices: 71286003--71286069 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
71285993 CAGTTGCATT
*
71286003 GAAGTGCCACTTTCACTA-ATTTGCACC
1 GAAGTGCCACTTTCACTATA-TTACACC
*
71286030 GAAGTGCCACTTTCACTATATTACATC
1 GAAGTGCCACTTTCACTATATTACACC
*
71286057 GAAGTACCACTTT
1 GAAGTGCCACTTT
71286070 TCATTCATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (27 bp):
GAAGTGCCACTTTCACTATATTACACC
Found at i:71289884 original size:47 final size:48
Alignment explanation
Indices: 71289637--71289903 Score: 189
Period size: 47 Copynumber: 5.7 Consensus size: 48
71289627 GGGGTAGAAT
* * *
71289637 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCCTAAAGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAATGTG
* * * *
71289686 --CGATGCCATGTCCCGGACATGGTCTTACACTGACTATCGA-AATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-GTG
* * * * * *
71289733 GCCGACGCCATGTCCCAGACATGATCTTACACTGACACATC-T--CGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
* * * * * * ***
71289779 GCCGATG-CATGTCCCAAACA-AGTCTTATACTAGCTCTCGT-TTCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
*
71289825 GCCGCTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
71289873 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
71289904 AGCACACAAA
Statistics
Matches: 167, Mismatches: 38, Indels: 29
0.71 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 11 0.07
45 15 0.09
46 25 0.15
47 58 0.35
48 22 0.13
49 32 0.19
50 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:71292334 original size:14 final size:14
Alignment explanation
Indices: 71292315--71292342 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71292305 ATTATTTCAA
71292315 CCAAAATTTTTGTT
1 CCAAAATTTTTGTT
71292329 CCAAAATTTTTGTT
1 CCAAAATTTTTGTT
71292343 TATAAAGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
CCAAAATTTTTGTT
Found at i:71295829 original size:26 final size:26
Alignment explanation
Indices: 71295798--71295905 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
71295788 TAAAATTTCC
71295798 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71295824 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71295850 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71295876 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
71295902 ATCA
1 ATCA
71295906 ATTTATGGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71296643 original size:23 final size:23
Alignment explanation
Indices: 71296613--71296657 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
71296603 ATAGGTTAGT
71296613 CTTTACCTAAAACAAAACGTGAC
1 CTTTACCTAAAACAAAACGTGAC
71296636 CTTTACCTAAAACAAAACGTGA
1 CTTTACCTAAAACAAAACGTGA
71296658 TTCTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (23 bp):
CTTTACCTAAAACAAAACGTGAC
Found at i:71299166 original size:15 final size:15
Alignment explanation
Indices: 71299146--71299175 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71299136 TTAATACTAT
71299146 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
71299161 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
71299176 AAAGGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (15 bp):
TGACAAGAAAGAAAA
Found at i:71316488 original size:26 final size:26
Alignment explanation
Indices: 71316457--71316563 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
71316447 TGAAATGCCC
*
71316457 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
71316483 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
71316509 ATCATGGAATATTTACCT-ATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71316534 ATCATGGAACATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71316560 ATCA
1 ATCA
71316564 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71316546 original size:51 final size:52
Alignment explanation
Indices: 71316457--71316563 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
71316447 TGAAATGCCC
71316457 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* * *
71316509 ATCATGGAATATTTACCT-ATCCATTATCATGGAACATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
71316560 ATCA
1 ATCA
71316564 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 35 0.67
52 17 0.33
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:71330414 original size:40 final size:40
Alignment explanation
Indices: 71330340--71330561 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
71330330 AACCCAAGTA
* * *
71330340 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
71330379 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
71330419 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
71330459 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
71330499 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
71330539 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
71330562 CATTCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 155 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:71339107 original size:9 final size:9
Alignment explanation
Indices: 71339095--71339184 Score: 51
Period size: 9 Copynumber: 9.8 Consensus size: 9
71339085 CCTTTTTCTG
71339095 ATTTTTTTT
1 ATTTTTTTT
71339104 ATTTGTTTTT
1 ATTT-TTTTT
71339114 CA-TTTTTTT
1 -ATTTTTTTT
** *
71339123 CCTTTTTCT
1 ATTTTTTTT
*
71339132 -GTTTTTTT
1 ATTTTTTTT
71339140 ATTTTTTTGT
1 ATTTTTTT-T
*
71339150 CCTTTTTCTTT
1 -ATTTTT-TTT
*
71339161 A-TTTTATT
1 ATTTTTTTT
*
71339169 ATTATTTTT
1 ATTTTTTTT
71339178 ATTTTTT
1 ATTTTTT
71339185 ATAATATTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
8 9 0.15
9 36 0.58
10 8 0.13
11 7 0.11
12 2 0.03
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:71339126 original size:38 final size:36
Alignment explanation
Indices: 71339084--71339156 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
71339074 GGGCCTATGG
71339084 TCCTTTTTCTGATTTTTTTTATTTGTTTT-TCATTTTTT
1 TCCTTTTTCTG--TTTTTTTATTT-TTTTGTCATTTTTT
*
71339122 TCCTTTTTCTGTTTTTTTATTTTTTTGTCCTTTTT
1 TCCTTTTTCTGTTTTTTTATTTTTTTGTCATTTTT
71339157 CTTTATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 4 0.12
36 18 0.55
38 11 0.33
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.77
Consensus pattern (36 bp):
TCCTTTTTCTGTTTTTTTATTTTTTTGTCATTTTTT
Found at i:71339165 original size:26 final size:26
Alignment explanation
Indices: 71339116--71339168 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
71339106 TTGTTTTTCA
*
71339116 TTTTTTTCCTTTTTCTGTTTTTTTAT
1 TTTTTTTCCTTTTTCTGTTATTTTAT
71339142 TTTTTTGTCCTTTTTCT-TTATTTTAT
1 TTTTTT-TCCTTTTTCTGTTATTTTAT
71339168 T
1 T
71339169 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.79
Consensus pattern (26 bp):
TTTTTTTCCTTTTTCTGTTATTTTAT
Found at i:71339165 original size:27 final size:25
Alignment explanation
Indices: 71339099--71339165 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
71339089 TTTCTGATTT
*
71339099 TTTTTATTTGTTTTTCATTTTTTTCC
1 TTTTTCTTT-TTTTTCATTTTTTTCC
71339125 TTTTTCTGTTTTTTT-ATTTTTTTGTCC
1 TTTTTCT-TTTTTTTCA-TTTTTT-TCC
*
71339152 TTTTTCTTTATTTT
1 TTTTTCTTTTTTTT
71339166 ATTATTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 23 0.64
27 12 0.33
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.79
Consensus pattern (25 bp):
TTTTTCTTTTTTTTCATTTTTTTCC
Found at i:71339404 original size:22 final size:23
Alignment explanation
Indices: 71339359--71339404 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
71339349 TTTTTAATAG
* *
71339359 AAATAAAAAAAATAGAGGATAAA
1 AAATAAAAAAAATAGAGAAAAAA
71339382 AAATAAAAAAAAT-GAGAAAAAA
1 AAATAAAAAAAATAGAGAAAAAA
71339404 A
1 A
71339405 TGAAAGTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (23 bp):
AAATAAAAAAAATAGAGAAAAAA
Found at i:71342421 original size:30 final size:30
Alignment explanation
Indices: 71342348--71342421 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
71342338 GTTGCAAAGT
* * *
71342348 AGTTCATATCACCCGGACATGGGCAGTTTG
1 AGTTCATATCACCTGGACATGGACACTTTG
*
71342378 AGTTTATATCACCTGGACATGGACACTTTG
1 AGTTCATATCACCTGGACATGGACACTTTG
*
71342408 TGTTCATATCACCT
1 AGTTCATATCACCT
71342422 AGAGCAACCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGACACTTTG
Found at i:71355213 original size:50 final size:50
Alignment explanation
Indices: 71355158--71355384 Score: 278
Period size: 50 Copynumber: 4.5 Consensus size: 50
71355148 AGTTCTAGTC
*
71355158 TAAGACCATGTCTGGGACATGGCATCGGCACCAATA-GATGAGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATG-TGAGAGCCAATG
* * * * * *
71355208 CAAGACCATGTCTAGGATATGCCATCGGCTTCAATATGTGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
* * * *
71355258 TAAGACCATGTCTGAGACATGGCATCGGCTTCAATATGTGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
* * * * *
71355308 TAAGACCATGTCTAGAACATGGCATCAGC-CTCGATATGTGAGAGTCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCTC-CAATATGTGAGAGCCAATG
71355358 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
71355385 ACTTTAACGT
Statistics
Matches: 150, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
50 149 0.99
51 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
Found at i:71355345 original size:100 final size:100
Alignment explanation
Indices: 71355158--71355384 Score: 312
Period size: 100 Copynumber: 2.3 Consensus size: 100
71355148 AGTTCTAGTC
71355158 TAAGACCATGTCTGGGACATGGCATCGGCACCAATAGATGAGAGCCAATGCAAGACCATGTCTAG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCAATAGATGAGAGCCAATGCAAGACCATGTCTAG
* * * * *
71355223 GATATGCCATCGGCTTCAATATGTGAGAGCCAGTG
66 AACATGCCATCAGCCTCAATATGTGAGAGCCAATG
* ** * * *
71355258 TAAGACCATGTCTGAGACATGGCATCGGCTTCAATATG-TGAGAGCTAGTGTAAGACCATGTCTA
1 TAAGACCATGTCTGGGACATGGCATCGGCACCAATA-GATGAGAGCCAATGCAAGACCATGTCTA
* * *
71355322 GAACATGGCATCAGCCTCGATATGTGAGAGTCAATG
65 GAACATGCCATCAGCCTCAATATGTGAGAGCCAATG
71355358 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
71355385 ACTTTAACGT
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
100 110 0.99
101 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (100 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACCAATAGATGAGAGCCAATGCAAGACCATGTCTAG
AACATGCCATCAGCCTCAATATGTGAGAGCCAATG
Found at i:71362368 original size:23 final size:25
Alignment explanation
Indices: 71362342--71362388 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
71362332 TATCATTCAT
*
71362342 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
71362365 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
71362389 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:71362712 original size:46 final size:46
Alignment explanation
Indices: 71362662--71362913 Score: 333
Period size: 46 Copynumber: 5.7 Consensus size: 46
71362652 CATAGTGTCG
* * * *
71362662 TTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCT
** * * *
71362708 TTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*
71362754 TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
71362800 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
71362846 TTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*
71362884 TTCAACTATGGTCTTACACATTTCATATCA
1 TTCAACCATGGTCTTACACATTTCATATCA
71362914 AAGAGCACAC
Statistics
Matches: 185, Mismatches: 12, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 139 0.75
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
Found at i:71362879 original size:38 final size:38
Alignment explanation
Indices: 71362828--71362903 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
71362818 CATTTCATAT
71362828 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
71362866 CAGGTTGCCATGGTATCTTTCAACTATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
71362904 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:71366447 original size:50 final size:50
Alignment explanation
Indices: 71366380--71366700 Score: 362
Period size: 50 Copynumber: 6.5 Consensus size: 50
71366370 TAGGGTTATA
* * ** *
71366380 TGAGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACCGATA-G
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG
* * *
71366429 AGGAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCGACTTCAATATG
1 -TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG
* * *
71366480 TGAGAACCAATGTAAGACCATGTCTGGGACATGGCATCAGCTTCAATATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG
* *
71366530 TGAGAGCCAGTGTAAGACCATGTCTGGGAAATGCCATCGGCTTCAATATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG
* * * * * * *
71366580 TGAGAACCAGTGTATGATCATGTCTGGGACATGGCATTGGCCTCTATACG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG
* * * *
71366630 TGAGAGTCAGTGTAAGACCATGTCTGGGACATAGCGTCGACTT---TGATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAAT-ATG
**
71366678 TTTGAGCCAGTGTAAGACCATGT
1 TGAGAGCCAGTGTAAGACCATGT
71366701 GTAGAACATA
Statistics
Matches: 228, Mismatches: 41, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.00
48 22 0.10
50 204 0.89
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG
Found at i:71368676 original size:48 final size:48
Alignment explanation
Indices: 71368617--71368877 Score: 264
Period size: 48 Copynumber: 5.5 Consensus size: 48
71368607 AAGCTGACGC
* *
71368617 CATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * *
71368665 CATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCTGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * ** * * * *
71368713 CATGTCCTAGACATGTCTTACACTAGC-TCT-CGTCTCAATGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * *
71368759 CATGTCCCAGACATGTCTTACATTGGCTTGCATCTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
71368807 CATGTCCCGGACATGTCTTACACTAGCTCTCGTA-A--T-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATG
*
71368853 CATGTCCTAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
71368878 AAACACATAT
Statistics
Matches: 171, Mismatches: 38, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
46 64 0.37
47 3 0.02
48 101 0.59
49 1 0.01
50 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:71368763 original size:142 final size:140
Alignment explanation
Indices: 71368617--71368877 Score: 373
Period size: 142 Copynumber: 1.9 Consensus size: 140
71368607 AAGCTGACGC
*
71368617 CATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACAGTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * * *
71368682 TTACACTGGCTTGCATC-T-CTCGAGGCTGGTGCATGTCCTAGACATGTCTTACACTAGCTCTCG
66 TTACACTAGC-T-C-TCGTAAT-GAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCG
71368745 TCTCAATGTCAATG
127 TCTCAATGTCAATG
* * * * *
71368759 CATGTCCCAGACATGTCTTACATTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCGGACATGTC
1 CATGTCCCAGACAGGTCTTACAGTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGACATGTC
*
71368824 TTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCTAGACATGTCTTACACTA
66 TTACACTAGCTCTCGTAATGAGGCCGATGCATGTCCTAGACATGTCTTACACTA
71368878 AAACACATAT
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
139 2 0.02
140 34 0.32
141 2 0.02
142 68 0.64
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (140 bp):
CATGTCCCAGACAGGTCTTACAGTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTAATGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTC
AATGTCAATG
Found at i:71368780 original size:94 final size:92
Alignment explanation
Indices: 71368662--71368876 Score: 315
Period size: 94 Copynumber: 2.3 Consensus size: 92
71368652 CTCGAGGCCG
* * *
71368662 ATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCTGGTGCATGTCCTAGACAT
1 ATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCAGACAT
71368727 GTCTTACACTAGCTCTCGTCTCAATGT-CA
66 GTCTTACACTAGCTCTCG--T-AATGTGCA
* *
71368756 ATGCATGTCCCAGACATGTCTTACATTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCGGACAT
1 ATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCAGACAT
*
71368821 GTCTTACACTAGCTCTCGTAATGTGGCCG
66 GTCTTACACTAGCTCTCGTAATGT-G-CA
*
71368850 ATGCATGTCCTAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
71368877 AAAACACATA
Statistics
Matches: 110, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
91 5 0.05
92 1 0.01
94 104 0.95
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.30
Consensus pattern (92 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTAATGTGCA
Found at i:71373795 original size:18 final size:18
Alignment explanation
Indices: 71373772--71373807 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
71373762 TTCCTCGGTG
71373772 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
71373790 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
71373808 CAACCATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:71378638 original size:49 final size:49
Alignment explanation
Indices: 71378585--71378697 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
71378575 TGTCCCAGGT
* *
71378585 AGGTCTTACACTGACTTTCATATATCGAG-GCCGATGTC-GTGTCCCAAAC
1 AGGTCTTACACTGACTCTCATATATC-AGTGCCGAT-TCTATGTCCCAAAC
* * *
71378634 AGGTCTTACACT-AGCTCTCATCTATCAGTGTCGATTCTATGTCCCAGAC
1 AGGTCTTACACTGA-CTCTCATATATCAGTGCCGATTCTATGTCCCAAAC
*
71378683 AAGTCTTACACTGAC
1 AGGTCTTACACTGAC
71378698 ACATACCAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
48 5 0.09
49 48 0.89
50 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
AGGTCTTACACTGACTCTCATATATCAGTGCCGATTCTATGTCCCAAAC
Found at i:71378770 original size:48 final size:48
Alignment explanation
Indices: 71378715--71378929 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 48
71378705 AAGCTGACGC
* * * *
71378715 CATGTCCCAAACAGGTCTTACAGTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * ** * * *
71378763 CATGTCCCAGACATGTTTTACACTAGC-TCT-CGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * **
71378809 CATGTCCCAGACATGTCTTACACTAGATTGCATCGCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * *
71378857 CATGTCCCAGACAAGTCTTACGCTGGCTCTCGTA-A--T-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATG
*
71378903 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
71378930 ATACATACCA
Statistics
Matches: 130, Mismatches: 33, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
46 66 0.51
47 4 0.03
48 57 0.44
49 1 0.01
50 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:71378848 original size:94 final size:93
Alignment explanation
Indices: 71378715--71378928 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 93
71378705 AAGCTGACGC
* * * * * * * * *
71378715 CATGTCCCAAACAGGTCTTACAGTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGATTGCATAGCTCGAGGCCGATGCATGTCCCAGACAAGTC
71378780 TTACACTAGCTCTCGTCTCAA-T-GCCAATG
66 TTACACTAGCTCTCG--T-AAGTGGCCAATG
*
71378809 CATGTCCCAGACATGTCTTACACTAGATTGCATCGCTCGAGGCCGATGCATGTCCCAGACAAGTC
1 CATGTCCCAGACATGTCTTACACTAGATTGCATAGCTCGAGGCCGATGCATGTCCCAGACAAGTC
* * **
71378874 TTACGCTGGCTCTCGTAATGTGGCTGATG
66 TTACACTAGCTCTCGTAA-GTGGCCAATG
*
71378903 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
71378929 CATACATACC
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 98 0.96
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGATTGCATAGCTCGAGGCCGATGCATGTCCCAGACAAGTC
TTACACTAGCTCTCGTAAGTGGCCAATG
Found at i:71382370 original size:21 final size:21
Alignment explanation
Indices: 71382346--71382394 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
71382336 TAAAAGTAAC
*
71382346 TTTAAAAATA-ATATTTAAAAT
1 TTTAAAAATATACATTT-AAAT
71382367 TTT-AAAATATACATTTAAAT
1 TTTAAAAATATACATTTAAAT
*
71382387 ATTAAAAA
1 TTTAAAAA
71382395 ACAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTAAAAATATACATTTAAAT
Found at i:71382384 original size:34 final size:34
Alignment explanation
Indices: 71382292--71382385 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 34
71382282 AATATATTTT
*
71382292 TTTAAAATTTT-AAATATA-ATTTAAAAAAAACG
1 TTTAAAATTTTAAAATATACATTTAAAAAAAACA
* * *
71382324 TTTGAATATCTTTAAAAGTA-AC-TTTAAAAATAATA
1 TTT-AAAAT-TTTAAAA-TATACATTTAAAAAAAACA
71382359 TTTAAAATTTTAAAATATACATTTAAA
1 TTTAAAATTTTAAAATATACATTTAAA
71382386 TATTAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
32 5 0.10
33 13 0.26
34 13 0.26
35 17 0.34
36 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.40
Consensus pattern (34 bp):
TTTAAAATTTTAAAATATACATTTAAAAAAAACA
Found at i:71382482 original size:22 final size:23
Alignment explanation
Indices: 71382457--71382534 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 23
71382447 TTTATAATAT
* *
71382457 TAAAAATTTATATT-TAAAATTA
1 TAAAAAATAATATTATAAAATTA
71382479 TAAAAAATAATATTATAAAA-TA
1 TAAAAAATAATATTATAAAATTA
** * *
71382501 TTTAAAATATTA-TA-AAAATAA
1 TAAAAAATAATATTATAAAATTA
71382522 TAAAGAAATAATA
1 TAAA-AAATAATA
71382535 ATAAAGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 4 0.09
21 5 0.11
22 30 0.68
23 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (23 bp):
TAAAAAATAATATTATAAAATTA
Found at i:71382508 original size:9 final size:10
Alignment explanation
Indices: 71382487--71382517 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
71382477 TATAAAAAAT
71382487 AATATTATAA
1 AATATTATAA
71382497 AATATT-TAA
1 AATATTATAA
71382506 AATATTATAA
1 AATATTATAA
71382516 AA
1 AA
71382518 ATAATAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATATTATAA
Found at i:71382551 original size:17 final size:14
Alignment explanation
Indices: 71382514--71382553 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
71382504 AAAATATTAT
71382514 AAAAATAATAAAGA
1 AAAAATAATAAAGA
*
71382528 AATAATAATAAAGA
1 AAAAATAATAAAGA
*
71382542 AAAAAAAATAAA
1 AAAAATAATAAA
71382554 AAACTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAAATAATAAAGA
Found at i:71383546 original size:8 final size:8
Alignment explanation
Indices: 71383533--71383560 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
71383523 CAGTTTCAAT
71383533 GCAAGTTG
1 GCAAGTTG
71383541 GCAAGTTG
1 GCAAGTTG
71383549 GCAAGTTG
1 GCAAGTTG
71383557 GCAA
1 GCAA
71383561 CTTGCAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (8 bp):
GCAAGTTG
Found at i:71387383 original size:23 final size:23
Alignment explanation
Indices: 71387340--71387384 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71387330 ATTCCACATT
* *
71387340 CATATATCAATATCTTACATTTC
1 CATATATCAATACCGTACATTTC
71387363 CATATATCAATAACCGT-CATTT
1 CATATATCAAT-ACCGTACATTT
71387385 TTCTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (23 bp):
CATATATCAATACCGTACATTTC
Found at i:71387767 original size:39 final size:39
Alignment explanation
Indices: 71387708--71387847 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
71387698 ATCATGATCT
** *
71387708 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
71387747 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
71387786 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
71387825 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
71387848 TCATCAGAGC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.36, C:0.24, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:71390937 original size:17 final size:17
Alignment explanation
Indices: 71390904--71390937 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71390894 CTTGCATATT
**
71390904 TGGTGAGCTCGTGGTTC
1 TGGTGAGCTCGCAGTTC
71390921 TGGTGAGCTCGCAGTTC
1 TGGTGAGCTCGCAGTTC
71390938 ACAAGTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.21, G:0.38, T:0.32
Consensus pattern (17 bp):
TGGTGAGCTCGCAGTTC
Found at i:71393301 original size:41 final size:41
Alignment explanation
Indices: 71393244--71393326 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
71393234 AGGACCTTAG
71393244 ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
1 ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
* *
71393285 ATTGTCTTTTTCATTCATATTCTTTGCGGAAAAATTAACAC
1 ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
71393326 A
1 A
71393327 AACATATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (41 bp):
ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
Found at i:71411457 original size:7 final size:7
Alignment explanation
Indices: 71411445--71411469 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71411435 TTGACAAAAT
71411445 AAAATAA
1 AAAATAA
71411452 AAAATAA
1 AAAATAA
71411459 AAAATAA
1 AAAATAA
71411466 AAAA
1 AAAA
71411470 GTAGGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:71422694 original size:170 final size:170
Alignment explanation
Indices: 71422412--71422747 Score: 645
Period size: 170 Copynumber: 2.0 Consensus size: 170
71422402 ATTAAAAAAA
*
71422412 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTGGCAGGA
1 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
*
71422477 TTAAATCTTCCACTATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
66 TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
71422542 ACATTATAAACCACTTTTTGAACAAGATATCTTGTTACAT
131 ACATTATAAACCACTTTTTGAACAAGATATCTTGTTACAT
71422582 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
1 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
71422647 TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
66 TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
*
71422712 ACATTATAAACCATTTTTTGAACAAGATATCTTGTT
131 ACATTATAAACCACTTTTTGAACAAGATATCTTGTT
71422748 CCTAACAAGC
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 163 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (170 bp):
ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
ACATTATAAACCACTTTTTGAACAAGATATCTTGTTACAT
Found at i:71424954 original size:11 final size:11
Alignment explanation
Indices: 71424938--71424962 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
71424928 GTTTGAAATG
71424938 TAACTAGATAT
1 TAACTAGATAT
71424949 TAACTAGATAT
1 TAACTAGATAT
71424960 TAA
1 TAA
71424963 GTGTCAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (11 bp):
TAACTAGATAT
Found at i:71425025 original size:18 final size:17
Alignment explanation
Indices: 71425002--71425036 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
71424992 GAATAGATTT
71425002 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
71425020 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
71425037 ATCTTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:71428269 original size:24 final size:24
Alignment explanation
Indices: 71428239--71428290 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
71428229 ATAACACATC
71428239 AAGCCAACCACCCTTAACCCAACA
1 AAGCCAACCACCCTTAACCCAACA
71428263 AAGCCAACCACCCTTAACCCAACA
1 AAGCCAACCACCCTTAACCCAACA
71428287 AAGC
1 AAGC
71428291 TCAAACCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.44, G:0.06, T:0.08
Consensus pattern (24 bp):
AAGCCAACCACCCTTAACCCAACA
Found at i:71431511 original size:18 final size:17
Alignment explanation
Indices: 71431477--71431511 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
71431467 GATTTTGGGT
71431477 TTAAATTTTTAAATTAA
1 TTAAATTTTTAAATTAA
*
71431494 TTAAATTTATTTAATTAA
1 TTAAATTT-TTAAATTAA
71431512 AAATCTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAATTTTTAAATTAA
Found at i:71431708 original size:31 final size:29
Alignment explanation
Indices: 71431639--71431712 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
71431629 ACAAAATAAT
**
71431639 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
71431668 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
71431699 AACAAAAGTGACTA
1 AACATAAGTGACTA
71431713 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:71434656 original size:14 final size:15
Alignment explanation
Indices: 71434637--71434665 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71434627 TTTAGAAAAT
71434637 GGGCCT-TATTTTTG
1 GGGCCTATATTTTTG
71434651 GGGCCTATATTTTTG
1 GGGCCTATATTTTTG
71434666 TTCAAACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.10, C:0.14, G:0.28, T:0.48
Consensus pattern (15 bp):
GGGCCTATATTTTTG
Found at i:71436611 original size:15 final size:15
Alignment explanation
Indices: 71436593--71436711 Score: 83
Period size: 15 Copynumber: 8.3 Consensus size: 15
71436583 ACTATTTAAA
*
71436593 GGTTTATGGATTATG
1 GGTTTATGGGTTATG
71436608 GGTTTA-GGGATTAT-
1 GGTTTATGGG-TTATG
*
71436622 -GTTTATGGCTTAT-
1 GGTTTATGGGTTATG
* *
71436635 GGTTTAAGGGTT-GG
1 GGTTTATGGGTTATG
71436649 GGTTTGA-GGGTTATG
1 GGTTT-ATGGGTTATG
*
71436664 GG-TTA-GTGGTTAGG
1 GGTTTATG-GGTTATG
71436678 GGTTTATGGGTTATG
1 GGTTTATGGGTTATG
* * *
71436693 GGTTAATGGTTTAGG
1 GGTTTATGGGTTATG
71436708 GGTT
1 GGTT
71436712 AAGGCTTAAG
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
13 11 0.13
14 33 0.39
15 39 0.46
16 1 0.01
ACGTcount: A:0.16, C:0.01, G:0.40, T:0.43
Consensus pattern (15 bp):
GGTTTATGGGTTATG
Found at i:71436668 original size:7 final size:7
Alignment explanation
Indices: 71436596--71436727 Score: 58
Period size: 7 Copynumber: 18.6 Consensus size: 7
71436586 ATTTAAAGGT
*
71436596 TTATGGA
1 TTATGGG
71436603 TTATGGG
1 TTATGGG
71436610 TT-TAGGG
1 TTAT-GGG
*
71436617 ATTAT-GT
1 -TTATGGG
*
71436624 TTATGGC
1 TTATGGG
*
71436631 TTATGGT
1 TTATGGG
*
71436638 TTAAGGG
1 TTATGGG
*
71436645 TT-GGGG
1 TTATGGG
71436651 TT-TGAGGG
1 TTAT--GGG
71436659 TTATGGG
1 TTATGGG
71436666 TTA-GTGG
1 TTATG-GG
*
71436673 TTAGGGG
1 TTATGGG
71436680 TTTATGGG
1 -TTATGGG
71436688 TTATGGG
1 TTATGGG
*
71436695 TTAATGGT
1 TT-ATGGG
*
71436703 TTAGGGG
1 TTATGGG
* *
71436710 TTAAGGC
1 TTATGGG
*
71436717 TTAAGGG
1 TTATGGG
71436724 TTAT
1 TTAT
71436728 TATTTTGTGG
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
6 11 0.11
7 65 0.66
8 20 0.20
9 2 0.02
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.42
Consensus pattern (7 bp):
TTATGGG
Found at i:71436674 original size:22 final size:22
Alignment explanation
Indices: 71436659--71436712 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
71436649 GGTTTGAGGG
71436659 TTATGGGTTAGTGGTTAGGGGT
1 TTATGGGTTAGTGGTTAGGGGT
**
71436681 TTATGGGTTA-TGGGTTAATGGT
1 TTATGGGTTAGT-GGTTAGGGGT
*
71436703 TTAGGGGTTA
1 TTATGGGTTA
71436713 AGGCTTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.43
Consensus pattern (22 bp):
TTATGGGTTAGTGGTTAGGGGT
Found at i:71436680 original size:29 final size:29
Alignment explanation
Indices: 71436622--71436711 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
71436612 TAGGGATTAT
* * *
71436622 GTTTATGGCTTATGGTTTAAGGGTT-GGG
1 GTTTATGGGTTATGGGTTAATGGTTAGGG
*
71436650 GTTTGA-GGGTTATGGGTTAGTGGTTAGGG
1 GTTT-ATGGGTTATGGGTTAATGGTTAGGG
71436679 GTTTATGGGTTATGGGTTAATGGTTTAGGG
1 GTTTATGGGTTATGGGTTAATGG-TTAGGG
71436709 GTT
1 GTT
71436712 AAGGCTTAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 20 0.38
29 24 0.45
30 9 0.17
ACGTcount: A:0.14, C:0.01, G:0.42, T:0.42
Consensus pattern (29 bp):
GTTTATGGGTTATGGGTTAATGGTTAGGG
Found at i:71436720 original size:22 final size:22
Alignment explanation
Indices: 71436677--71436725 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
71436667 TAGTGGTTAG
* * *
71436677 GGGTTTATGGGTTATGGGTTAA
1 GGGTTTAGGGGTTAAGGCTTAA
*
71436699 TGGTTTAGGGGTTAAGGCTTAA
1 GGGTTTAGGGGTTAAGGCTTAA
71436721 GGGTT
1 GGGTT
71436726 ATTATTTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (22 bp):
GGGTTTAGGGGTTAAGGCTTAA
Found at i:71436726 original size:14 final size:15
Alignment explanation
Indices: 71436663--71436726 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
71436653 TGAGGGTTAT
* *
71436663 GGGTTAGTGG-TTAG
1 GGGTTAATGGCTTAA
* * *
71436677 GGGTTTATGGGTTAT
1 GGGTTAATGGCTTAA
* *
71436692 GGGTTAATGGTTTAG
1 GGGTTAATGGCTTAA
71436707 GGGTTAA-GGCTTAA
1 GGGTTAATGGCTTAA
71436721 GGGTTA
1 GGGTTA
71436727 TTATTTTGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 19 0.46
15 22 0.54
ACGTcount: A:0.19, C:0.02, G:0.42, T:0.38
Consensus pattern (15 bp):
GGGTTAATGGCTTAA
Found at i:71436952 original size:21 final size:21
Alignment explanation
Indices: 71436918--71436967 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
71436908 TTGTTTTGTG
*
71436918 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
71436938 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
*
71436959 ATTTAGGGT
1 GTTTAGGGT
71436968 ACTTTAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGGATATA
Done.