Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 168 of 333
Found at i:55307455 original size:40 final size:40
Alignment explanation
Indices: 55307252--55307455 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55307242 CGGAATTTAA
** *
55307252 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55307292 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55307332 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55307371 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55307411 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55307451 CCGGA
1 CCGGA
55307456 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55313496 original size:28 final size:28
Alignment explanation
Indices: 55313433--55313586 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
55313423 ATATTAAGTC
* * *
55313433 CGCACGCTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55313460 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
55313488 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55313516 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
55313544 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
55313572 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55313587 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.17
28 100 0.83
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:55313531 original size:56 final size:56
Alignment explanation
Indices: 55313433--55313611 Score: 261
Period size: 56 Copynumber: 3.2 Consensus size: 56
55313423 ATATTAAGTC
* * *
55313433 CGCACGCTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* *
55313488 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* * * *
55313544 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAA-TCAAACT
55313601 CGCACACTTAG
1 CGCACACTTAG
55313612 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
55 20 0.18
56 76 0.68
57 15 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:55321749 original size:28 final size:28
Alignment explanation
Indices: 55321686--55321836 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
55321676 ATATTAAGTC
*
55321686 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55321713 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
55321741 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55321769 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55321797 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55321826 CGCACACTTAG
1 CGCACACTTAG
55321837 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55347673 original size:27 final size:26
Alignment explanation
Indices: 55347625--55347684 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55347615 GCGAGGCTGC
*
55347625 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
55347652 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
55347678 CAGATAT
1 CAGATAT
55347685 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55347775 original size:27 final size:26
Alignment explanation
Indices: 55347727--55347778 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
55347717 GCGAAGCTGC
*
55347727 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
55347753 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
55347779 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55348440 original size:27 final size:26
Alignment explanation
Indices: 55348410--55348474 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
55348400 AGGGGCAAAA
*
55348410 TGGTAATTTTACCCCACAAGGGTATCT
1 TGGTAATTCTACCCCAC-AGGGTATCT
* *
55348437 TGGTAATTCTACCCTACAGGGTATTT
1 TGGTAATTCTACCCCACAGGGTATCT
*
55348463 TAGTAATTCTAC
1 TGGTAATTCTAC
55348475 AACTTATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (26 bp):
TGGTAATTCTACCCCACAGGGTATCT
Found at i:55358790 original size:26 final size:26
Alignment explanation
Indices: 55358758--55358809 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
55358748 AGAGTTAGTT
55358758 TCTCTTACTCTCGAAGGAGATATTAG
1 TCTCTTACTCTCGAAGGAGATATTAG
55358784 TCTCTTACTCTCGAAGGAGATATTAG
1 TCTCTTACTCTCGAAGGAGATATTAG
55358810 CATAATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
TCTCTTACTCTCGAAGGAGATATTAG
Found at i:55360097 original size:16 final size:16
Alignment explanation
Indices: 55360076--55360114 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
55360066 CCTATAATTG
55360076 GACCCAATATAGAAGA
1 GACCCAATATAGAAGA
55360092 GACCCAATATAGAAGA
1 GACCCAATATAGAAGA
55360108 GACCCAA
1 GACCCAA
55360115 AAGCCCCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.23, G:0.18, T:0.10
Consensus pattern (16 bp):
GACCCAATATAGAAGA
Found at i:55361645 original size:28 final size:27
Alignment explanation
Indices: 55361612--55361667 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
55361602 TTAGAATACT
*
55361612 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-CTAAAAATACCGAAATACCC
* *
55361640 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTCTAAAAATACCGAAATACCC
55361667 T
1 T
55361668 CGATTTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACCC
Found at i:55361651 original size:27 final size:28
Alignment explanation
Indices: 55361621--55361720 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
55361611 TTTAGTTTAC
55361621 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
55361648 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
** * *
55361675 TAAAATTATTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
55361702 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
55361721 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:55361735 original size:27 final size:27
Alignment explanation
Indices: 55361705--55361765 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
55361695 CGACTTGTAA
55361705 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
55361732 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
55361759 AATTACC
1 AATTACC
55361766 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:55361768 original size:27 final size:27
Alignment explanation
Indices: 55361716--55361926 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
55361706 ATTACCAAAG
* *
55361716 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55361743 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55361770 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
55361797 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
55361824 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
55361851 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55361878 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
55361905 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
55361927 TAAAATACCC
Statistics
Matches: 164, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:55361935 original size:27 final size:27
Alignment explanation
Indices: 55361824--55362070 Score: 129
Period size: 27 Copynumber: 9.1 Consensus size: 27
55361814 ATTACCGTTT
* * ****
55361824 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* ***
55361851 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ****
55361878 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
55361905 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
55361932 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
55361959 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * * * **
55361986 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
55362013 TACCCTCAATTTGTGAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
55362040 TAGCCCT-GATTTACAAAGTTACAAAAA
1 TA-CCCTCGATTTATAAAATTACTAAAA
55362067 TACC
1 TACC
55362071 ATTGACTTTC
Statistics
Matches: 182, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 176 0.97
28 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:55361952 original size:54 final size:54
Alignment explanation
Indices: 55361703--55361953 Score: 191
Period size: 54 Copynumber: 4.6 Consensus size: 54
55361693 TTCGACTTGT
* ** * * *
55361703 AAAATTACCAAAGTACCCCCGATTTACAGAATTA-TCGTTTTACCCCCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTATAAAATTACT-GTTTTACCCTCGATTTAC
* **** * * * *
55361757 ATAATTACCGTTTTACCCCTGATTTACATAATTA-TCGTTTTACCCTCGACTTAC
1 AAAATTACCAAAATACCCTTGATTTATAAAATTACT-GTTTTACCCTCGATTTAC
**** * *
55361811 AAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTTGATTTATAAAATTACTGTTTTACCCTCGATTTAC
* * *** * *
55361865 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTATAAAATTACTGTTTTACCCTCGATTTAC
* * *
55361919 AAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 AAAATTACCAAAATACCCTTGATTTATAAAATTAC
55361954 CAAAATACCC
Statistics
Matches: 168, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 167 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.39
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGATTTATAAAATTACTGTTTTACCCTCGATTTAC
Found at i:55361952 original size:81 final size:81
Alignment explanation
Indices: 55361662--55361953 Score: 192
Period size: 81 Copynumber: 3.6 Consensus size: 81
55361652 AATACTGAAA
** * * * * * * *** * *
55361662 TACCCTCGATTTGTAAAATTATTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGACT
* *
55361727 TACAGAATTATCGTTT
66 TACAAAATTACCGTTT
* * ***** * * *
55361743 TACCCCCGATTTACATAATTACCGTTTTACCC-CTGATTTACATAATTA-TCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCGA
55361806 CTTACAAAATTACCGTTT
64 CTTACAAAATTACCGTTT
* * * **** * * *
55361824 TACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGACT
* *
55361889 TACAGAATTACTGTTT
66 TACAAAATTACCGTTT
* * *
55361905 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTAC
55361954 CAAAATACCC
Statistics
Matches: 161, Mismatches: 46, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
80 1 0.01
81 158 0.98
82 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGACT
TACAAAATTACCGTTT
Found at i:55361963 original size:54 final size:54
Alignment explanation
Indices: 55361905--55362046 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 54
55361895 ATTACTGTTT
* **
55361905 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
55361959 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
55362013 TACCCTCAATTTGTGAAATTACTAAAATAGCCCT
1 TACCCTCAATTTGTAAAATTACTAAAATA-CCCT
55362047 GATTTACAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 69 0.92
55 5 0.07
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:55362122 original size:27 final size:27
Alignment explanation
Indices: 55362083--55362134 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
55362073 TGACTTTCTA
55362083 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
55362110 AAAATTATTGAAATACCTTTGGTTT
1 AAAATTATAGAAATACCATTGGTTT
55362135 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:55362209 original size:27 final size:27
Alignment explanation
Indices: 55362188--55362240 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
55362178 ACCCCTATTA
55362188 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
55362215 GGTAAAGTGACCGTAATA-CCCCTGTA
1 GGTAAAGTGACCGTAA-AGCCCCTGTA
55362241 TCTTGGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAGTGACCGTAAAGCCCCTGTAG
Found at i:55363206 original size:20 final size:20
Alignment explanation
Indices: 55363181--55363241 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
55363171 ACACGATATC
55363181 TATGATATGCACATGACATG
1 TATGATATGCACATGACATG
*
55363201 TATGATATGCACATGATATG
1 TATGATATGCACATGACATG
* * *
55363221 TATGATTTGTACATGAGATG
1 TATGATATGCACATGACATG
55363241 T
1 T
55363242 TCATAAATGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TATGATATGCACATGACATG
Found at i:55363342 original size:24 final size:24
Alignment explanation
Indices: 55363285--55363437 Score: 211
Period size: 24 Copynumber: 6.4 Consensus size: 24
55363275 GGAGGAAGTG
55363285 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55363309 -TAAAGGGCTTGTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55363332 CAAAAGGGCTTATGCCCCAGTTGT
1 CAAAAGGGCTTATGCCCCAGTTAT
55363356 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55363380 -TAAAGGACTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55363403 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55363427 TAAAAGAGGCT
1 CAAAAG-GGCT
55363438 AGGCCTCCAG
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 42 0.37
24 69 0.60
25 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:55363385 original size:47 final size:46
Alignment explanation
Indices: 55363287--55363430 Score: 207
Period size: 47 Copynumber: 3.1 Consensus size: 46
55363277 AGGAAGTGCA
* * *
55363287 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTGTGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
*
55363334 AAAGGGCTTATGCCCCAGTTGTCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
55363381 AAAGGACTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATT
55363428 AAA
1 AAA
55363431 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 66 0.75
48 22 0.25
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:55363401 original size:71 final size:71
Alignment explanation
Indices: 55363285--55363424 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 71
55363275 GGAGGAAGTG
* *
55363285 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTGTGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGACTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
55363350 AGTTGT
66 AGTTGT
* *
55363356 CAAAAGGGCTTATGCCCCAGTTATTAAAGGACTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGACTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
55363421 AGTT
66 AGTT
55363425 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGACTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTGT
Found at i:55366461 original size:27 final size:28
Alignment explanation
Indices: 55366431--55366520 Score: 123
Period size: 27 Copynumber: 3.3 Consensus size: 28
55366421 TTTAGTTTAC
* *
55366431 TAAAATTAATGAAATACCCTTAGA-TTG
1 TAAAATTACTGAAATACCCTTCGACTTG
* *
55366458 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACTGAAATACCCTTCGACTTG
55366485 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTCGACTTG
55366512 TAAAATTAC
1 TAAAATTAC
55366521 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.09
27 51 0.91
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTCGACTTG
Found at i:55366530 original size:54 final size:54
Alignment explanation
Indices: 55366431--55366537 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
55366421 TTTAGTTTAC
* *
55366431 TAAAATTAATGAAATACCCTTAGATTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTAATGAAATACCCTTAGATTGTAAAAATACTCAAATACCCCCGATTTG
* * *
55366485 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTAATGAAATACCCTTAGA-TTGTAAAAATACTCAAA-TACCCCCGATTT
55366538 ACAGAATTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 9 0.20
54 37 0.80
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTAATGAAATACCCTTAGATTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:55366545 original size:27 final size:27
Alignment explanation
Indices: 55366515--55366573 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
55366505 CGACTTGTAA
55366515 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
**** *
55366542 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
55366569 AATTA
1 AATTA
55366574 TCGTTTTACC
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:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:55366546 original size:54 final size:54
Alignment explanation
Indices: 55366426--55366547 Score: 131
Period size: 54 Copynumber: 2.2 Consensus size: 54
55366416 AATACTTTAG
* * *
55366426 TTTACTAAAATTAATGAAATACCCTTAGATTGTAAAAATACTGAAATACCCTCGA
1 TTTAC-AAAATTACTGAAATACCCTTAGATTGTAAAAATACTCAAATACCCCCGA
** * *
55366481 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGA
1 TTTACAAAATTACTGAAATACCCTTAGA-TTGTAAAAATACTCAAA-TACCCCCGA
*
55366535 TTTACAGAATTAC
1 TTTACAAAATTAC
55366548 CGTTTTACCC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
53 9 0.16
54 43 0.78
55 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTTAGATTGTAAAAATACTCAAATACCCCCGA
Found at i:55366573 original size:54 final size:54
Alignment explanation
Indices: 55366526--55366738 Score: 275
Period size: 54 Copynumber: 3.9 Consensus size: 54
55366516 ATTACCAAAG
* * * *
55366526 TACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTA-TCGTTT
1 TACCCCTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACT-ATTT
* * * *
55366580 TACCCCTGATTTACATAATTATCGTTTTACCCTCGACTTACAAAATTACTGTTT
1 TACCCCTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* * * * *
55366634 TACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCCTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* *
55366688 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TACCCCTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTA
55366739 AAATACCCTT
Statistics
Matches: 139, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 138 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCCTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
Found at i:55366621 original size:81 final size:81
Alignment explanation
Indices: 55366526--55366736 Score: 273
Period size: 81 Copynumber: 2.6 Consensus size: 81
55366516 ATTACCAAAG
* * * * *
55366526 TACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTATCGTTTTACCC-CTGAT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTC-GAT
* *
55366590 TTACATAATTA-TCGTTT
65 TTACAGAATTACT-ATTT
* * * *
55366607 TACCCTCGACTTACAAAATTACTGTTTTACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
55366672 TATAGAATTACTATTT
66 TACAGAATTACTATTT
*
55366688 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
55366737 TAAAATACCC
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 109 0.98
82 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAGAATTACTATTT
Found at i:55366737 original size:27 final size:27
Alignment explanation
Indices: 55366526--55366737 Score: 241
Period size: 27 Copynumber: 7.9 Consensus size: 27
55366516 ATTACCAAAG
* * *
55366526 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
55366553 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
*
55366580 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAAAATTACT-GTTT
*
55366607 TACCCTCGACTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
55366634 TACCCTTGATTTGCAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
55366661 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
55366688 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
55366715 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
55366738 AAAATACCCT
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 159 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:55366745 original size:27 final size:27
Alignment explanation
Indices: 55366607--55366936 Score: 130
Period size: 27 Copynumber: 12.1 Consensus size: 27
55366597 ATTATCGTTT
* * ****
55366607 TACCCTCGACTTACAAAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* *****
55366634 TACCCTTGATTTGCAAAATTACCGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * * ***
55366661 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
55366688 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
55366715 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
55366742 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
55366769 TACTCCTAG-TTTGTAAAATTACCAAAA
1 TAC-CCTTGATTTACAAAATTACTAAAA
* *** **
55366796 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
** **
55366823 TACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
*
55366850 TAGCCC-TGATTTACAAAGTTAC-AGAAA
1 TA-CCCTTGATTTACAAAATTACTA-AAA
*
55366877 TAGCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * * *
55366906 TACCATTGGTTTAAAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
55366933 TACC
1 TACC
55366937 TTTGGTTTGT
Statistics
Matches: 246, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
26 7 0.03
27 208 0.85
28 14 0.06
29 17 0.07
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:55366746 original size:81 final size:81
Alignment explanation
Indices: 55366472--55366763 Score: 239
Period size: 81 Copynumber: 3.6 Consensus size: 81
55366462 AATACTGAAA
** * * * * *** *
55366472 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
*
55366537 TACAGAATTACCGTTT
66 TACAGAATTACTGTTT
* * *** * * *
55366553 TACCCCCGATTTACATAATTA-TCGTTTTACCC-CTGATTTACATAATTA-TCGTTTTACCCTCG
1 TACCCTCGATTTACAAAATTACT-GAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCG
* *
55366615 ACTTACAAAATTACTGTTT
63 ATTTACAGAATTACTGTTT
* * * *** * *
55366634 TACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
55366699 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
* * * *
55366715 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTAC
55366764 CAAAATACTC
Statistics
Matches: 162, Mismatches: 43, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
80 2 0.01
81 158 0.98
82 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
TACAGAATTACTGTTT
Found at i:55366762 original size:54 final size:54
Alignment explanation
Indices: 55366458--55366871 Score: 233
Period size: 54 Copynumber: 7.7 Consensus size: 54
55366448 CCTTAGATTG
* * * * * *** * * *
55366458 TAAAAATACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTAAAATACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
* * ** * * *
55366512 TAAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTA
1 TAAAATTACTAAAATACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
* * ** * * * * *
55366566 CATAATTATCGT--TTTACCCCTGATTTACATAATTATCGTTTTACCCTCGACTTA
1 TAAAATTA-C-TAAAATACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
* ****
55366620 CAAAATTACTGTTTTACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACTAAAATACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
* *** * * *
55366674 TAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTAAAATACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
* * * **** * *
55366728 CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACTCCTAG-TTTG
1 TAAAATTACTAAAATACCCTTGATTTGCAAAATTACCGTTTTAC-CCTCGATTTA
* * ** *** * *
55366782 TAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACTAAAATACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
* *
55366836 TAAAATTACTAAAATAGCCC-TGATTTACAAAGTTAC
1 TAAAATTACTAAAATA-CCCTTGATTTGCAAAATTAC
55366872 AGAAATAGCC
Statistics
Matches: 287, Mismatches: 66, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 274 0.95
55 8 0.03
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (54 bp):
TAAAATTACTAAAATACCCTTGATTTGCAAAATTACCGTTTTACCCTCGATTTA
Found at i:55366877 original size:54 final size:53
Alignment explanation
Indices: 55366661--55366936 Score: 166
Period size: 54 Copynumber: 5.1 Consensus size: 53
55366651 ATTACCGTTT
* * * *** * * ***
55366661 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTACA-AATTACAGAAA
* **
55366715 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTGG-TT-TACAAATTA-CAGAAA
* * ** *
55366769 TACTCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TAC-CCTCAATTTGTAAAATTACTAAAATACCCTTGGTTT-ACAAATTACAGAAA
*
55366823 TACCCTCAATTTGTAAAATTACTAAAATAGCCC-TGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACTAAAATA-CCCTTGGTTTACAAA-TTACAGAAA
* * * * * * *
55366877 TAGCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTAAAAAATTACTGAAA
1 TA-CCCTCAATTTGT-AAAATTACTA-AAATACCCTTGGTTT-ACAAATTACAGAAA
55366933 TACC
1 TACC
55366937 TTTGGTTTGT
Statistics
Matches: 176, Mismatches: 31, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
52 1 0.01
53 9 0.05
54 109 0.62
55 24 0.14
56 29 0.16
57 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTACAAATTACAGAAA
Found at i:55366941 original size:27 final size:27
Alignment explanation
Indices: 55366892--55366944 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
55366882 TTGACTTTCT
55366892 AAAAATTATAGAAATACCATTGGTTTA
1 AAAAATTATAGAAATACCATTGGTTTA
*
55366919 AAAAATTACT-GAAATACCTTTGGTTT
1 AAAAATTA-TAGAAATACCATTGGTTT
55366945 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (27 bp):
AAAAATTATAGAAATACCATTGGTTTA
Found at i:55368294 original size:9 final size:9
Alignment explanation
Indices: 55368282--55368338 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55368272 TTTGATAAAC
55368282 ATGATATGT
1 ATGATATGT
*
55368291 ATGATATGCAC
1 ATGATATG--T
*
55368302 ATGACATGT
1 ATGATATGT
*
55368311 ATGATATGCAC
1 ATGATATG--T
55368322 ATGATATGT
1 ATGATATGT
55368331 ATGATATG
1 ATGATATG
55368339 AACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:55368305 original size:20 final size:20
Alignment explanation
Indices: 55368280--55368350 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
55368270 ATTTTGATAA
55368280 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55368300 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55368320 ACATGATATGTATGATATGA
1 ACATGATATGTATGATATGC
*
55368340 ACATGAGATGT
1 ACATGATATGT
55368351 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55368452 original size:24 final size:24
Alignment explanation
Indices: 55368395--55368524 Score: 199
Period size: 24 Copynumber: 5.4 Consensus size: 24
55368385 GGAGGAAGTG
*
55368395 CAAAAGGGCTTAGGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55368419 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
55368442 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
55368466 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55368490 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55368514 TAAAAGAGGCT
1 CAAAAG-GGCT
55368525 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
23 21 0.21
24 74 0.75
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:55368767 original size:31 final size:31
Alignment explanation
Indices: 55368732--55368795 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55368722 CGTTTACAGT
*
55368732 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
55368763 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55368794 AA
1 AA
55368796 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55369372 original size:39 final size:39
Alignment explanation
Indices: 55369313--55369395 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
55369303 AATCAAAGAG
*
55369313 CTTGGTACTTAGGCAGCCTTCATGGCTCACCTCCTCTGT
1 CTTGGTACTTAGGCAACCTTCATGGCTCACCTCCTCTGT
55369352 CTTGGTACTTAGGCAACCTTCATGGCTCACCTCCTCTGT
1 CTTGGTACTTAGGCAACCTTCATGGCTCACCTCCTCTGT
55369391 CTTGG
1 CTTGG
55369396 ATACCTACCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.13, C:0.33, G:0.20, T:0.34
Consensus pattern (39 bp):
CTTGGTACTTAGGCAACCTTCATGGCTCACCTCCTCTGT
Found at i:55371587 original size:27 final size:27
Alignment explanation
Indices: 55371557--55371663 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
55371547 TTTAGTTTAC
* * *
55371557 TAAAATTACCGAAATACCCTTTG-TTTT
1 TAAAATTACTGAAATACCC-TCGATTTG
*
55371584 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
55371611 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
55371638 TAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACTGAAA-TACCCTCGATTT
55371664 ACAGAATTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.07
27 62 0.93
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:55371671 original size:27 final size:27
Alignment explanation
Indices: 55371641--55371700 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
55371631 CGACTTGTAA
55371641 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
**** *
55371668 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
55371695 AATTAC
1 AATTAC
55371701 TGTTTTACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:55371705 original size:27 final size:27
Alignment explanation
Indices: 55371652--55371863 Score: 257
Period size: 27 Copynumber: 7.9 Consensus size: 27
55371642 ATTACCAAAG
* *
55371652 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
55371679 TACCCCCGATTTACATAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
55371706 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* *
55371733 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
55371760 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
55371787 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* ** *
55371814 TACCCTTGATTTACAGAATTTTTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
55371841 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
55371864 AAAATACCCT
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 159 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:55371863 original size:54 final size:54
Alignment explanation
Indices: 55371659--55371863 Score: 293
Period size: 54 Copynumber: 3.8 Consensus size: 54
55371649 AAGTACCCCC
* * * *
55371659 GATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTACTGTTTTACCCCT
1 GATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
* * *
55371713 GATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
* *
55371767 GATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
* ** *
55371821 GATTTACAGAATTTTTATTTTACCCTCGATTTACAAAATTACT
1 GATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACT
55371864 AAAATACCCT
Statistics
Matches: 133, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 133 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
GATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
Found at i:55371871 original size:27 final size:27
Alignment explanation
Indices: 55371841--55372008 Score: 144
Period size: 27 Copynumber: 6.2 Consensus size: 27
55371831 ATTTTTATTT
* *
55371841 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGCAAAATTACCAAAA
* * *
55371868 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTGCAAAATTACCAAAA
* *
55371895 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGCAAAATTACCAAAA
* * ** *
55371922 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTGCAAAATTACCAAAA
* *
55371949 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGCAAAATTACCAAAA
* *
55371976 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTGCAAAATTACCA-AAA
55372003 TACCCT
1 TACCCT
55372009 TGACTTTCTA
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.03
27 111 0.97
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGCAAAATTACCAAAA
Found at i:55371899 original size:54 final size:54
Alignment explanation
Indices: 55371841--55371980 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
55371831 ATTTTTATTT
* ** *
55371841 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
55371895 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
55371949 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
55371981 CTGATTTACA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 74 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:55371926 original size:81 final size:79
Alignment explanation
Indices: 55371841--55372093 Score: 206
Period size: 81 Copynumber: 3.1 Consensus size: 79
55371831 ATTTTTATTT
*
55371841 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GTT
55371906 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** ** *** *
55371922 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGTTT
55371987 -TACAAAGTTA-CAGAAA
65 GTA-AAA-TTACCA-AAA
* ** ** **
55372003 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCTTTG
1 TACCCTTGA-TTTC--AAAATTACTA-AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-
* *
55372067 GTTTGTAGATTTACCAAAA
61 GTTTGTAAAATTACCAAAA
*
55372086 CACCCTTG
1 TACCCTTG
55372094 TAGGATGAAA
Statistics
Matches: 132, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
79 2 0.02
80 8 0.06
81 65 0.49
82 3 0.02
83 46 0.35
84 6 0.05
85 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (79 bp):
TACCCTTGATTTCAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGTTTG
TAAAATTACCAAAA
Found at i:55372003 original size:54 final size:53
Alignment explanation
Indices: 55371841--55372062 Score: 182
Period size: 54 Copynumber: 4.1 Consensus size: 53
55371831 ATTTTTATTT
* ** *
55371841 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGG-TT-TACAAATTA-CAGAAA
* ** *
55371895 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAATTACAGAAA
* *
55371949 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAA-TTACAGAAA
* * * * * *
55372003 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCCTTGGTTTAC-AAATTACAGAAA
55372059 TACC
1 TACC
55372063 TTTGGTTTGT
Statistics
Matches: 137, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.05
54 85 0.62
55 8 0.06
56 33 0.24
57 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAATTACAGAAA
Found at i:55372134 original size:27 final size:27
Alignment explanation
Indices: 55372082--55372188 Score: 78
Period size: 27 Copynumber: 4.0 Consensus size: 27
55372072 TAGATTTACC
* * *
55372082 AAAACACCCTTGTAGGATGAAA-TGACT
1 AAAATACCCCTGTAGGGT-AAAGTGACT
*
55372109 AAAATACCCCTATTA-GGTAAAGTGACCGT
1 AAAATACCCCT-GTAGGGTAAAGTGA-C-T
*
55372138 -AAA-GCCCCTGTAGGGTAAAGTGACT
1 AAAATACCCCTGTAGGGTAAAGTGACT
* * *
55372163 ATAATACCCCTGTATGGTAAAATGAC
1 AAAATACCCCTGTAGGGTAAAGTGAC
55372189 GAATATGCCC
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
25 1 0.02
26 8 0.13
27 47 0.75
28 6 0.10
29 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
AAAATACCCCTGTAGGGTAAAGTGACT
Found at i:55373382 original size:25 final size:24
Alignment explanation
Indices: 55373349--55373396 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
55373339 TTATAACATG
* *
55373349 AAAATGACCATTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
55373373 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
55373397 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:55373447 original size:9 final size:9
Alignment explanation
Indices: 55373435--55373493 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
55373425 TTTGATAAAC
55373435 ATGATATGT
1 ATGATATGT
*
55373444 ATGATATGCAC
1 ATGATATG--T
*
55373455 ATGACATGT
1 ATGATATGT
*
55373464 ATGATATGCAC
1 ATGATATG--T
55373475 ATGATATGT
1 ATGATATGT
55373484 ATGATATGT
1 ATGATATGT
55373493 A
1 A
55373494 CATGAGATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 25 0.62
11 15 0.38
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:55373458 original size:20 final size:20
Alignment explanation
Indices: 55373433--55373503 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
55373423 ATTTTGATAA
55373433 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55373453 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55373473 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
*
55373493 ACATGAGATGT
1 ACATGATATGT
55373504 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55373605 original size:24 final size:24
Alignment explanation
Indices: 55373548--55373677 Score: 199
Period size: 24 Copynumber: 5.4 Consensus size: 24
55373538 GGAGGAAGTG
*
55373548 CAAAAGGGCTTAGGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55373572 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
55373595 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
55373619 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55373643 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55373667 TAAAAGAGGCT
1 CAAAAG-GGCT
55373678 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
23 21 0.21
24 74 0.75
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:55373919 original size:30 final size:30
Alignment explanation
Indices: 55373885--55373947 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
55373875 CATTTACAGT
*
55373885 AAAGGCTTCGGCCCAGTAATATGAAATTTG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
**
55373915 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
55373945 AAA
1 AAA
55373948 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:55379583 original size:59 final size:60
Alignment explanation
Indices: 55379516--55379632 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
55379506 ATCACTTTAA
* * * *
55379516 TATTAAATTAATACAATATTTATC-AAGATAGATATTAGATTTAATTTAAAATTAAATCT
1 TATTAAATTAATACAATATCTATCTAAGATAAACATTAAATTTAATTTAAAATTAAATCT
** *
55379575 TATTAAATTAATAGTATATCTATCTATAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAATTAATACAATATCTATC--TAAGATAAACATTAAATTTAATTTAAAATTAA
55379633 GATAATTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (60 bp):
TATTAAATTAATACAATATCTATCTAAGATAAACATTAAATTTAATTTAAAATTAAATCT
Found at i:55379720 original size:26 final size:27
Alignment explanation
Indices: 55379678--55379730 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
55379668 TTAAGATAAG
*
55379678 TATTAAATTTAATTTATTATTA-AATA
1 TATTAAATATAATTTATTATTAGAATA
*
55379704 TATTAAA-ATAATATTATTTTTAGAATA
1 TATTAAATATAAT-TTATTATTAGAATA
55379731 GTTAATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 15 0.65
27 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TATTAAATATAATTTATTATTAGAATA
Found at i:55382959 original size:47 final size:47
Alignment explanation
Indices: 55382888--55382981 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
55382878 AGGCCCAAAA
*
55382888 CATGCGCTGGAAGTGGTTCGGGACTAAACCGATAGTTCAATAAACTT
1 CATGCGCTGGAAGTGGTTCAGGACTAAACCGATAGTTCAATAAACTT
*
55382935 CATGCTCTGGAAGTGGTTCAGGACTAAACCGATAGTTCAATAAACTT
1 CATGCGCTGGAAGTGGTTCAGGACTAAACCGATAGTTCAATAAACTT
55382982 TCACGAAACT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (47 bp):
CATGCGCTGGAAGTGGTTCAGGACTAAACCGATAGTTCAATAAACTT
Found at i:55384622 original size:75 final size:75
Alignment explanation
Indices: 55384499--55384644 Score: 256
Period size: 75 Copynumber: 1.9 Consensus size: 75
55384489 AAACTTGTCT
* *
55384499 GTAATCACATAATCACAATTCATGCTATATCAAAGCACATAAAATACATTTGAAATGAAATTATA
1 GTAATCACATAATAAAAATTCATGCTATATCAAAGCACATAAAATACATTTGAAATGAAATTATA
55384564 ACATACGAAC
66 ACATACGAAC
**
55384574 GTAATCACATAATAAAAATTCATGCTATATTGAAGCACATAAAATACATTTGAAATGAAATTATA
1 GTAATCACATAATAAAAATTCATGCTATATCAAAGCACATAAAATACATTTGAAATGAAATTATA
55384639 ACATAC
66 ACATAC
55384645 AAACTTACAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (75 bp):
GTAATCACATAATAAAAATTCATGCTATATCAAAGCACATAAAATACATTTGAAATGAAATTATA
ACATACGAAC
Found at i:55391090 original size:81 final size:81
Alignment explanation
Indices: 55390994--55391158 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 81
55390984 TTCGTGACAG
55390994 GTAAGTTTTATATATTTATAATTAATCATTCTCGAAACTAACTATTATCACGATGTAGGCAAGTG
1 GTAAGTTTTATATATTTATAATTAATCATTCTCGAAACTAACTATTATCACGATGTAGGCAAGTG
*
55391059 TACTTATCGAACAGTA
66 TACCTATCGAACAGTA
55391075 GTAAGTTTTATATATTTATAATTAATCATTCTCGAAACTAACTATTATCACGATGTAGGCAAGTG
1 GTAAGTTTTATATATTTATAATTAATCATTCTCGAAACTAACTATTATCACGATGTAGGCAAGTG
55391140 TACCTATCGAACAGTA
66 TACCTATCGAACAGTA
55391156 GTA
1 GTA
55391159 TAATTTTAGA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (81 bp):
GTAAGTTTTATATATTTATAATTAATCATTCTCGAAACTAACTATTATCACGATGTAGGCAAGTG
TACCTATCGAACAGTA
Found at i:55399182 original size:19 final size:19
Alignment explanation
Indices: 55399160--55399198 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55399150 ACCTGCCAAG
55399160 ATAAAGAAAAAGTA-AATTA
1 ATAAAGAAAAA-TAGAATTA
*
55399179 ATAAATAAAAATAGAATTA
1 ATAAAGAAAAATAGAATTA
55399198 A
1 A
55399199 CTTGCAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (19 bp):
ATAAAGAAAAATAGAATTA
Found at i:55403412 original size:43 final size:42
Alignment explanation
Indices: 55403305--55403412 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
55403295 GAGTTGTGAT
* * *
55403305 TACATGTAAGACCATGTCTGGGACATTGGCATCGTATATTGA
1 TACATGTAAGACCATGTCTGGGACAGTGACATCGTATATTAA
* * *
55403347 TTCGTGTAAGACCCTGTCTGGGACAGTGACATCG-ATATGTAA
1 TACATGTAAGACCATGTCTGGGACAGTGACATCGTATAT-TAA
*
55403389 TAACATGTAAGACCATATCTGGGA
1 T-ACATGTAAGACCATGTCTGGGA
55403413 TATGGCATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 4 0.07
42 32 0.59
43 18 0.33
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TACATGTAAGACCATGTCTGGGACAGTGACATCGTATATTAA
Found at i:55407587 original size:30 final size:30
Alignment explanation
Indices: 55407541--55407600 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55407531 TTCCCGAGCC
55407541 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
55407571 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
55407601 CATATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:55412484 original size:27 final size:27
Alignment explanation
Indices: 55412454--55412631 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
55412444 ATATTGAGCC
* *
55412454 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
55412481 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55412508 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
55412536 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55412563 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
55412590 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
55412617 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55412632 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55412593 original size:82 final size:81
Alignment explanation
Indices: 55412475--55412630 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
55412465 TGCTATATAA
* * *
55412475 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
55412540 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55412557 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
55412621 CACTTAGTGC
65 CACTTAGTGC
55412631 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55420525 original size:27 final size:27
Alignment explanation
Indices: 55420495--55420672 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
55420485 ATATTGAGCC
* * * *
55420495 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
55420522 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
55420549 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
* ** * *
55420577 CACACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55420604 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55420631 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55420658 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55420673 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55420634 original size:82 final size:81
Alignment explanation
Indices: 55420516--55420671 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
55420506 TGCTATATAA
* * *
55420516 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCACA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCACA
55420581 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
55420598 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
55420662 CACTTAGTGC
65 CACTTAGTGC
55420672 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:55435474 original size:39 final size:40
Alignment explanation
Indices: 55435375--55435555 Score: 185
Period size: 40 Copynumber: 4.5 Consensus size: 40
55435365 ATGATGTCCA
* * *
55435375 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCG
* *
55435415 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
*
55435455 GGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAATT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATTCCG
* * *
55435494 GGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
55435534 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
55435556 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 76 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:55435577 original size:79 final size:79
Alignment explanation
Indices: 55435424--55435588 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
55435414 GGACTAAGAT
* * * **
55435424 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
55435489 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* *
55435503 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
55435566 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
55435582 CCGAAGG
1 CCGAAGG
55435589 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.68
80 21 0.29
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:55443525 original size:79 final size:81
Alignment explanation
Indices: 55443389--55443573 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
55443379 TTGAATGATG
* *
55443389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
55443453 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
55443468 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
55443530 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
55443548 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55443574 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:55443587 original size:40 final size:40
Alignment explanation
Indices: 55443390--55443573 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
55443380 TGAATGATGT
* * * *
55443390 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
55443430 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
55443470 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
55443508 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55443549 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55443574 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:55443595 original size:79 final size:79
Alignment explanation
Indices: 55443442--55443606 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
55443432 GGACTAAGAT
* * **
55443442 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
55443507 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
55443521 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
55443584 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
55443600 CCGAAGG
1 CCGAAGG
55443607 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:55448896 original size:13 final size:13
Alignment explanation
Indices: 55448878--55448904 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55448868 GAAGTAATCG
55448878 CACATGGGTGTGT
1 CACATGGGTGTGT
55448891 CACATGGGTGTGT
1 CACATGGGTGTGT
55448904 C
1 C
55448905 CTTACCGAGC
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:0.15, C:0.19, G:0.37, T:0.30
Consensus pattern (13 bp):
CACATGGGTGTGT
Found at i:55459925 original size:40 final size:40
Alignment explanation
Indices: 55459874--55460185 Score: 473
Period size: 40 Copynumber: 7.8 Consensus size: 40
55459864 ATTACCACAA
* * * *
55459874 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
55459914 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
55459954 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
55459994 GCACAAATGCCTGCGGGTCTTAGCCTGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
55460036 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
55460076 GCACAAATGCCTGT-GGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCT-TCGGGTCTTAGCCCGGATATATCAACTC
* *
55460116 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
55460156 GCACAAATGCCTTCAGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
55460186 GTATTCAAAT
Statistics
Matches: 250, Mismatches: 18, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
39 1 0.00
40 210 0.84
41 1 0.00
42 38 0.15
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:55460148 original size:162 final size:161
Alignment explanation
Indices: 55459874--55460193 Score: 525
Period size: 162 Copynumber: 2.0 Consensus size: 161
55459864 ATTACCACAA
* * *
55459874 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
55459939 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
* *
55460004 CTGCGGGTCTTAGCCTGGATATATGTCAACTC
131 CTGCAGGTCTTAGCCCGGATATAT-TCAACTC
* *
55460036 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGT-GGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCT-TCGGGTCTTAGC
*
55460100 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATG
65 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATG
* *
55460165 CCTTCAGGTCTTAGCCCGGATGTATTCAA
130 CCTGCAGGTCTTAGCCCGGATATATTCAA
55460194 ATGCTCATGC
Statistics
Matches: 147, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
161 4 0.03
162 142 0.97
163 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (161 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
CTGCAGGTCTTAGCCCGGATATATTCAACTC
Found at i:55470318 original size:47 final size:46
Alignment explanation
Indices: 55470226--55470318 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
55470216 GAGCTTCCGA
*
55470226 GCACAATAAAACAGGGAAAATAAAACTAAATAAGCATTACATGCTT
1 GCACAATAAAACAGGGAAAATAAAAATAAATAAGCATTACATGCTT
* *
55470272 GCACTATAAAATAGGGAAAATAAAAATAAAATAAGCATTACATGCTT
1 GCACAATAAAACAGGGAAAATAAAAAT-AAATAAGCATTACATGCTT
55470319 AGTAAGTTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
46 24 0.56
47 19 0.44
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.22
Consensus pattern (46 bp):
GCACAATAAAACAGGGAAAATAAAAATAAATAAGCATTACATGCTT
Found at i:55480948 original size:119 final size:120
Alignment explanation
Indices: 55480766--55480988 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
55480756 TCCTCGTTCA
*
55480766 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
55480831 TTAGTAAC-TCGCACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
55480886 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
55480948 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGA
55480989 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:55480988 original size:40 final size:40
Alignment explanation
Indices: 55480764--55480988 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
55480754 GCTCCTCGTT
* *
55480764 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55480804 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
55480844 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55480884 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
55480923 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
55480964 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55480989 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:55488771 original size:39 final size:40
Alignment explanation
Indices: 55488654--55488838 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
55488644 GCTACTCGTT
* *
55488654 CAAATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
55488694 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
55488734 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
55488773 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
55488814 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55488839 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:55488771 original size:79 final size:81
Alignment explanation
Indices: 55488656--55488838 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
55488646 TACTCGTTCA
* * *
55488656 AATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
55488719 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
55488736 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
55488799 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
55488815 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55488839 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:55496715 original size:119 final size:120
Alignment explanation
Indices: 55496509--55496731 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
55496499 CTCTCGTTCA
*
55496509 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
55496574 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
55496629 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
55496691 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
55496732 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:55496731 original size:40 final size:40
Alignment explanation
Indices: 55496507--55496731 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
55496497 AGCTCTCGTT
* *
55496507 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55496547 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55496587 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55496627 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
55496666 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
55496707 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55496732 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:55503780 original size:20 final size:21
Alignment explanation
Indices: 55503736--55503780 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
55503726 TGAATTTGAG
*
55503736 TAAATATGTGATTAAATAAGT
1 TAAATATGTGATTAAATAAGA
* *
55503757 TAAATTTGT-ATTAAATTAGA
1 TAAATATGTGATTAAATAAGA
55503777 TAAA
1 TAAA
55503781 GAAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (21 bp):
TAAATATGTGATTAAATAAGA
Found at i:55515341 original size:20 final size:19
Alignment explanation
Indices: 55515291--55515342 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
55515281 AATCCAAGAC
55515291 AAATAAAATAAATAAATAAT
1 AAAT-AAATAAATAAATAAT
*
55515311 AACTAAGATAAATAAATAGA-
1 AAATAA-ATAAATAAATA-AT
55515331 ACAATAAATAAA
1 A-AATAAATAAA
55515343 AGATTGGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 20 0.74
21 5 0.19
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (19 bp):
AAATAAATAAATAAATAAT
Found at i:55524917 original size:67 final size:67
Alignment explanation
Indices: 55524787--55524920 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 67
55524777 AAGCGTTCTA
* * * * *
55524787 GCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCATCATAATATC
1 GCAGCCTCGCTGCAATCTAGTGGCCTCGCCACATATATATATTCTGGTGACCTCACCACAATATC
55524852 TG
66 TG
* * *
55524854 GCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATATGTTCTGGTGGCCT-AGCCACAATAT
1 GCAGCCTCGCTGCAATCTAGTGGCCTCGCCACATATATATATTCTGGTGACCTCA-CCACAATAT
55524918 CTG
65 CTG
55524921 TATCTGGTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 1 0.02
67 57 0.98
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (67 bp):
GCAGCCTCGCTGCAATCTAGTGGCCTCGCCACATATATATATTCTGGTGACCTCACCACAATATC
TG
Found at i:55534227 original size:47 final size:47
Alignment explanation
Indices: 55534156--55534513 Score: 581
Period size: 47 Copynumber: 7.6 Consensus size: 47
55534146 CCCTTCGGGA
* * * * * * *
55534156 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55534203 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55534250 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55534297 CTTCTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55534344 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55534391 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55534440 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55534487 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
55534514 TATTCAAATA
Statistics
Matches: 291, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 246 0.85
49 45 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55534469 original size:143 final size:141
Alignment explanation
Indices: 55534156--55534513 Score: 581
Period size: 143 Copynumber: 2.5 Consensus size: 141
55534146 CCCTTCGGGA
* * * * * * * *
55534156 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGACCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55534221 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
55534286 GGCCATTAGGC
131 GGCCATTAGGC
* *
55534297 CTTCTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55534362 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
55534427 TTGGCCATTCGGC
129 TCGGCCATTAGGC
*
55534440 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55534505 TTTCACATT
66 TTTCACATT
55534514 TATTCAAATA
Statistics
Matches: 200, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
141 92 0.46
143 108 0.54
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:55536938 original size:27 final size:27
Alignment explanation
Indices: 55536907--55537084 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55536897 TAAATTGTAC
55536907 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55536934 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
55536960 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55536988 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55537016 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
55537043 AGCACTAAGTGTACGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55537070 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55537085 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55537048 original size:82 final size:81
Alignment explanation
Indices: 55536908--55537063 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
55536898 AAATTGTACA
* *
55536908 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
*
55536973 GCGAATTGACCATGTG
66 ACGAATTGACCATGTG
** *
55536989 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
55537053 GTACGAGTTGA
64 GTACGAATTGA
55537064 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
ACGAATTGACCATGTG
Found at i:55537075 original size:82 final size:81
Alignment explanation
Indices: 55536907--55537084 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 81
55536897 TAAATTGTAC
* *
55536907 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
55536972 TGCGAATTGACCATGT
66 TACGAATTGACCATAT
* ** *
55536988 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* **
55537052 TGTACGAGTTGATTATAT
64 TGTACGAATTGACCATAT
*
55537070 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55537085 GACTCAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 16 0.20
82 66 0.80
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TACGAATTGACCATAT
Found at i:55540121 original size:25 final size:25
Alignment explanation
Indices: 55540093--55540143 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
55540083 AAAAAGAAGA
55540093 GTACAACTAATCAATTAAAATTTTT
1 GTACAACTAATCAATTAAAATTTTT
55540118 GTACAACTAATCAATTAAAATTTTT
1 GTACAACTAATCAATTAAAATTTTT
55540143 G
1 G
55540144 AACATAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (25 bp):
GTACAACTAATCAATTAAAATTTTT
Found at i:55542549 original size:40 final size:40
Alignment explanation
Indices: 55542517--55542792 Score: 392
Period size: 40 Copynumber: 6.8 Consensus size: 40
55542507 CCAGCATGAT
* * * *
55542517 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
55542557 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
55542597 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
55542637 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
55542677 TGCTCTTCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TG-----CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
55542722 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
55542761 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
55542793 CTCAATTCTC
Statistics
Matches: 214, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
39 38 0.18
40 136 0.64
45 40 0.19
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:55542776 original size:124 final size:120
Alignment explanation
Indices: 55542517--55542792 Score: 401
Period size: 124 Copynumber: 2.3 Consensus size: 120
55542507 CCAGCATGAT
* * * * * **
55542517 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACGGATA
* *
55542582 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
55542637 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCTCTTCGAGACTTAGCCC
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG-----CTCTTCGAGACTTAGCAC
55542702 GGATACATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
61 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
55542761 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
55542793 CTCAATTCTC
Statistics
Matches: 139, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
120 37 0.27
124 59 0.42
125 43 0.31
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:55548592 original size:22 final size:22
Alignment explanation
Indices: 55548567--55548615 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
55548557 AAATGGCTAA
55548567 AAAAATTATG-GGAATTGGAGAG
1 AAAAATTATGTGGAATT-GAGAG
* *
55548589 AAAAA-TGTGTGGAGTTGAGAG
1 AAAAATTATGTGGAATTGAGAG
55548610 AAAAAT
1 AAAAAT
55548616 GAAGAAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (22 bp):
AAAAATTATGTGGAATTGAGAG
Found at i:55549208 original size:13 final size:13
Alignment explanation
Indices: 55549143--55549208 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
55549133 AGTTTAGCAT
55549143 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
** *
55549156 TATTTTTAAAAAG
1 TGCTTTTGAAAAG
**
55549169 TGC-AGTGAAAAAG
1 TGCTTTTG-AAAAG
**
55549182 TGCTTTTGGGAAG
1 TGCTTTTGAAAAG
55549195 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
55549208 T
1 T
55549209 TTGGTTTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 4
0.67 0.25 0.07
Matches are distributed among these distances:
12 1 0.03
13 34 0.92
14 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:55549557 original size:43 final size:44
Alignment explanation
Indices: 55549502--55549585 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
55549492 TATAATCATT
55549502 AAAATTTGTAATT-A-GATATTAACACAGTTGTATTATTTTTAG
1 AAAATTTGTAATTAATGATATTAACACAGTTGTATTATTTTTAG
* * *
55549544 AAAATTTTTTAATTAATGATTTTAACACATTTGTATTATTTT
1 AAAA-TTTGTAATTAATGATATTAACACAGTTGTATTATTTT
55549586 ATTTTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 4 0.11
43 8 0.22
44 1 0.03
45 23 0.64
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (44 bp):
AAAATTTGTAATTAATGATATTAACACAGTTGTATTATTTTTAG
Found at i:55554278 original size:67 final size:67
Alignment explanation
Indices: 55554165--55554301 Score: 193
Period size: 67 Copynumber: 2.0 Consensus size: 67
55554155 AGCAAGCGGC
* * * *
55554165 CTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTTGTCACAAT
1 CTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATGTTCTGGTGACCTAGCCACAAT
55554230 AT
66 AT
* * * * *
55554232 CTGGCAGCGTCGCTGCAATCTGGTGGCTTTGCCATATATATATGTTCTGGTGGCCTAGCCACAAT
1 CTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATGTTCTGGTGACCTAGCCACAAT
55554297 AT
66 AT
55554299 CTG
1 CTG
55554302 TATCTGGTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.31
Consensus pattern (67 bp):
CTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATGTTCTGGTGACCTAGCCACAAT
AT
Found at i:55554292 original size:27 final size:27
Alignment explanation
Indices: 55554249--55554310 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
55554239 CGTCGCTGCA
* * *
55554249 ATCTGGTGGCTTTGCCATATATATATGT
1 ATCTGGTGGCCTAGCCACA-ATATATGT
*
55554277 -TCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGGCCTAGCCACAATATATGT
55554303 ATCTGGTG
1 ATCTGGTG
55554311 ACTTCGTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (27 bp):
ATCTGGTGGCCTAGCCACAATATATGT
Found at i:55557914 original size:28 final size:28
Alignment explanation
Indices: 55557882--55557936 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
55557872 CTCAGAAGTT
55557882 AGCGAAACTGTATATGGCGGAAATAGTG
1 AGCGAAACTGTATATGGCGGAAATAGTG
*
55557910 AGCGAAACTGTATGTGGCGGAAATAGT
1 AGCGAAACTGTATATGGCGGAAATAGT
55557937 ACGACTTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.22
Consensus pattern (28 bp):
AGCGAAACTGTATATGGCGGAAATAGTG
Found at i:55559921 original size:10 final size:10
Alignment explanation
Indices: 55559892--55559922 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
55559882 TGGGAAATAT
*
55559892 CGTCATCAAT
1 CGTCATCAAC
55559902 CGTCATCAAC
1 CGTCATCAAC
55559912 CGTCATCAAC
1 CGTCATCAAC
55559922 C
1 C
55559923 AGGTGTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.23
Consensus pattern (10 bp):
CGTCATCAAC
Found at i:55575734 original size:32 final size:32
Alignment explanation
Indices: 55575684--55575749 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
55575674 AGTCTATTTG
*
55575684 TTCTAATCAGGTACAATTTTGGGGCCGAAATT
1 TTCTAATCAGGTAAAATTTTGGGGCCGAAATT
*
55575716 TTCTGATCAGGTAAAATTTTGGGGCCGAAATT
1 TTCTAATCAGGTAAAATTTTGGGGCCGAAATT
55575748 TT
1 TT
55575750 TTTTAGGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (32 bp):
TTCTAATCAGGTAAAATTTTGGGGCCGAAATT
Found at i:55577738 original size:20 final size:21
Alignment explanation
Indices: 55577713--55577751 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55577703 TCCTTAAGAC
55577713 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
55577733 AGGGCAACACGCCCTTGTG
1 AGGGCAACACGCCCGTGTG
55577752 ACCAACTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.31, G:0.36, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:55585077 original size:47 final size:47
Alignment explanation
Indices: 55585008--55585268 Score: 175
Period size: 46 Copynumber: 5.6 Consensus size: 47
55584998 GTGTCAATGC
* *
55585008 CATGTCCTAAACATGGTCTTACACTAGCTCAT-ATCTC-AAGTCGATG
1 CATGTCCTAGACATGGTCTTACACTAGCT-ATCATCTCGAAGCCGATG
* *
55585054 TCATGTCCTAGACATGGTCTTACACT-GACTGTCATCTCGTAGCCGATG
1 -CATGTCCTAGACATGGTCTTACACTAG-CTATCATCTCGAAGCCGATG
* * * * *
55585102 CATGTCCTAGACAT-GTCTTACACTAGCT-TACGTCCCGAGGCCCATA
1 CATGTCCTAGACATGGTCTTACACTAGCTAT-CATCTCGAAGCCGATG
* * * *
55585148 CATGTCCCAGACAT-GTCTTACACTAGTTCTC-TCTC-AATGCCGATAC
1 CATGTCCTAGACATGGTCTTACACTAGCTATCATCTCGAA-GCCGAT-G
* * * * * * ** *
55585194 CATGTCCCAGACATGATCTTACATTGGCTCTCATAAT-GTGGCCAATG
1 CATGTCCTAGACATGGTCTTACACTAGCTATCAT-CTCGAAGCCGATG
55585241 CATGTTCC-AGACAT-GTCTTACACTAGCT
1 CATG-TCCTAGACATGGTCTTACACTAGCT
55585269 CACAAACAAA
Statistics
Matches: 173, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
45 9 0.05
46 76 0.44
47 70 0.40
48 16 0.09
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (47 bp):
CATGTCCTAGACATGGTCTTACACTAGCTATCATCTCGAAGCCGATG
Found at i:55589690 original size:16 final size:17
Alignment explanation
Indices: 55589663--55589694 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55589653 AAGATCGGGT
55589663 GAAAATTTAACAAAATA
1 GAAAATTTAACAAAATA
55589680 GAAAA-TTAACAAAAT
1 GAAAATTTAACAAAAT
55589695 GCCCCTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (17 bp):
GAAAATTTAACAAAATA
Found at i:55589868 original size:14 final size:14
Alignment explanation
Indices: 55589845--55589881 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
55589835 CGTGTTATGA
*
55589845 AATGATGTAAATCT
1 AATGACGTAAATCT
55589859 AATGACGTAAATCT
1 AATGACGTAAATCT
55589873 AATGACGTA
1 AATGACGTA
55589882 CGACGATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (14 bp):
AATGACGTAAATCT
Found at i:55592041 original size:47 final size:47
Alignment explanation
Indices: 55591980--55592140 Score: 138
Period size: 46 Copynumber: 3.4 Consensus size: 47
55591970 TATGAGAGCC
* * *
55591980 AGTGTAAGGCCATGTCTGGGACATGGC-ATTGGCATTGAGACG-AGGGCT
1 AGTGTAA-GACATGTCTGGGACATGGCAATTGGC-TCGAGACGTA-AGCT
*
55592028 AGTGTAAGACATGTCTAGGACAT-GCAATTGGCTCGAGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCAATTGGCTCGAGACGTAAGCT
* * * *
55592074 AGTGTAAGAAATGTTTGGGACAT-GC-ATCGGCTACGAGATG-ATAG-T
1 AGTGTAAGACATGTCTGGGACATGGCAATTGGCT-CGAGACGTA-AGCT
55592119 CAGTGTAAGACCATGTCTGGGA
1 -AGTGTAAGA-CATGTCTGGGA
55592141 TGTGGCATCA
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
45 8 0.08
46 51 0.53
47 30 0.31
48 7 0.07
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCAATTGGCTCGAGACGTAAGCT
Found at i:55592742 original size:35 final size:35
Alignment explanation
Indices: 55592686--55592764 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
55592676 TTGGAAACCC
* *
55592686 TTCAATTTGTATTAAGTCTTTAATGATGGCTAACA
1 TTCACTTTGTATTAAGCCTTTAATGATGGCTAACA
*
55592721 TTCACTTTGTATTAAGCCTTTAGTGATGGCTAACA
1 TTCACTTTGTATTAAGCCTTTAATGATGGCTAACA
55592756 TTCACTTTG
1 TTCACTTTG
55592765 AATTTATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (35 bp):
TTCACTTTGTATTAAGCCTTTAATGATGGCTAACA
Found at i:55593396 original size:22 final size:21
Alignment explanation
Indices: 55593371--55593411 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
55593361 TTGGAATGCT
*
55593371 CACAGGGGTGTGTTGCCCCTCC
1 CACAGGGGCGTG-TGCCCCTCC
*
55593393 CACATGGGCGTGTGCCCCT
1 CACAGGGGCGTGTGCCCCT
55593412 ATGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.10, C:0.37, G:0.32, T:0.22
Consensus pattern (21 bp):
CACAGGGGCGTGTGCCCCTCC
Found at i:55608133 original size:48 final size:48
Alignment explanation
Indices: 55608071--55608360 Score: 483
Period size: 48 Copynumber: 6.0 Consensus size: 48
55608061 TACAAGACAA
*
55608071 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
55608119 ATATATATATGTGGTAAAGCCGTATGACTAAG-GTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATGTATGAG
*
55608167 ATATGTATATGTGGTAAGGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
55608215 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
55608263 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
55608311 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
55608359 AT
1 AT
55608361 GTGTGTATAT
Statistics
Matches: 228, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 2 0.01
48 224 0.98
49 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:55613920 original size:55 final size:55
Alignment explanation
Indices: 55613814--55613921 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
55613804 GCCCGTAGGC
* **
55613814 AATACTGACTTTTAAACACGGCCATGGCACATGCCCATGCTGCCTGTCCGTGTTT
1 AATACTGACTTTGAAACACGGCCATGGCACATGCCCATGCTGCCTACCCGTGTTT
** * *
55613869 AATACTGACTTTGGGACACGGCTATGGCACATGCCCGTG-TGACCTACCCGTGT
1 AATACTGACTTTGAAACACGGCCATGGCACATGCCCATGCTG-CCTACCCGTGT
55613922 CCTGTACTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 2 0.04
55 43 0.96
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (55 bp):
AATACTGACTTTGAAACACGGCCATGGCACATGCCCATGCTGCCTACCCGTGTTT
Found at i:55618043 original size:18 final size:18
Alignment explanation
Indices: 55618020--55618056 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55618010 GTATGGATGA
55618020 TAGAGGGTGACCAAAGGC
1 TAGAGGGTGACCAAAGGC
55618038 TAGAGGGTGACCAAAGGC
1 TAGAGGGTGACCAAAGGC
55618056 T
1 T
55618057 CGAAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.38, T:0.14
Consensus pattern (18 bp):
TAGAGGGTGACCAAAGGC
Found at i:55621193 original size:17 final size:17
Alignment explanation
Indices: 55621167--55621200 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55621157 TATATATTTG
*
55621167 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
55621184 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
55621201 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:55622550 original size:24 final size:24
Alignment explanation
Indices: 55622518--55622579 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
55622508 GAAATGACAT
*
55622518 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTAGAA
* *
55622542 TGGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTAGAA
55622566 TGGCACTATGTGTG
1 TGGCACTATGTGTG
55622580 TGAATTTCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTAGAA
Found at i:55640907 original size:17 final size:17
Alignment explanation
Indices: 55640885--55640920 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
55640875 ATTATATATT
*
55640885 TAAAATATGTTATAAAA
1 TAAAATAAGTTATAAAA
55640902 TAAAATAAGTTATAAAA
1 TAAAATAAGTTATAAAA
55640919 TA
1 TA
55640921 TTAAGTGGGG
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:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TAAAATAAGTTATAAAA
Found at i:55642277 original size:24 final size:24
Alignment explanation
Indices: 55642245--55642386 Score: 180
Period size: 24 Copynumber: 5.9 Consensus size: 24
55642235 GAAATGACAT
55642245 TGGCACTATGTGTGCGGATTTCAA
1 TGGCACTATGTGTGCGGATTTCAA
*
55642269 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTCAA
*
55642293 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTCAA
* * *
55642317 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATT-TCAA
* *
55642342 -GGCACTATGTGTGCGGGTTAGC-A
1 TGGCACTATGTGTGCGGATT-TCAA
*
55642365 TGGCACTATGTGTGCGAATTTC
1 TGGCACTATGTGTGCGGATTTC
55642387 CTTGACCGAA
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 101 0.96
25 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTCAA
Found at i:55642368 original size:72 final size:72
Alignment explanation
Indices: 55642245--55642385 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
55642235 GAAATGACAT
* * * *
55642245 TGGCACTATGTGTGCGGATTTCAATGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGG
1 TGGCACTACGTGTGCGGATTGCAATGGCACTATGTGTGCGGATTAGAATGGCACTATGTGTGCGA
55642310 ATTTGAA
66 ATTTGAA
* * *
55642317 TGGCACTACGTGTGTGGATTAGCAA-GGCACTATGTGTGCGGGTTAGCATGGCACTATGTGTGCG
1 TGGCACTACGTGTGCGGATT-GCAATGGCACTATGTGTGCGGATTAGAATGGCACTATGTGTGCG
55642381 AATTT
65 AATTT
55642386 CCTTGACCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 58 0.95
73 3 0.05
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.32
Consensus pattern (72 bp):
TGGCACTACGTGTGCGGATTGCAATGGCACTATGTGTGCGGATTAGAATGGCACTATGTGTGCGA
ATTTGAA
Found at i:55650885 original size:47 final size:47
Alignment explanation
Indices: 55650815--55650938 Score: 180
Period size: 47 Copynumber: 2.6 Consensus size: 47
55650805 GGTAAGGTGT
* *
55650815 CGATGCCATGTCCCAGACATGGTCTTACACTGACTGTCAT-CTCGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-GTAGC
* *
55650863 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTAGC
55650910 CGATGCATGTCCCAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
55650939 AGCTCACAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
46 10 0.14
47 55 0.77
48 6 0.08
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTAGC
Found at i:55652035 original size:20 final size:20
Alignment explanation
Indices: 55652010--55652058 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
55652000 TCGCTATTGG
*
55652010 GCTCACAAACGTTAAAATTA
1 GCTCACAAACATTAAAATTA
55652030 GCTCACAAACATTAAAATTA
1 GCTCACAAACATTAAAATTA
55652050 GCTCACAAA
1 GCTCACAAA
55652059 ATTTTTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (20 bp):
GCTCACAAACATTAAAATTA
Found at i:55655092 original size:27 final size:27
Alignment explanation
Indices: 55655061--55655238 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
55655051 TAAATTGTAC
55655061 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55655088 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55655114 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55655142 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
55655170 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
55655197 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55655224 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55655239 GACTAAAAAT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 109 0.83
28 23 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55655175 original size:82 final size:81
Alignment explanation
Indices: 55655062--55655217 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
55655052 AAATTGTACA
*
55655062 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
55655126 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55655143 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
55655208 TGCGATTTGA
65 TGCGAATTGA
55655218 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55655229 original size:82 final size:81
Alignment explanation
Indices: 55655058--55655238 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
55655048 GATTAAATTG
*
55655058 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
55655123 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55655139 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
55655203 AAGTGTGCGATTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55655221 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55655239 GACTAAAAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Done.