Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 68 of 125
Found at i:13405786 original size:22 final size:22
Alignment explanation
Indices: 13405761--13405805 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13405751 TCGAAAACTA
*
13405761 AGTAATAAAT-CAATTATAACAT
1 AGTAATAAATGC-ATAATAACAT
*
13405783 AGTAGTAAATGCATAATAACAT
1 AGTAATAAATGCATAATAACAT
13405805 A
1 A
13405806 ACAGTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (22 bp):
AGTAATAAATGCATAATAACAT
Found at i:13405823 original size:22 final size:21
Alignment explanation
Indices: 13405766--13405823 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
13405756 AACTAAGTAA
**
13405766 TAAATCAATTATAACATAGTAG
1 TAAATC-ATTATAACATAACAG
*
13405788 TAAATGCATAATAACATAACAG
1 TAAAT-CATTATAACATAACAG
13405810 TAAATCATTGATAA
1 TAAATCATT-ATAA
13405824 TTTAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.10
22 26 0.87
23 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.29
Consensus pattern (21 bp):
TAAATCATTATAACATAACAG
Found at i:13405857 original size:66 final size:66
Alignment explanation
Indices: 13405787--13405916 Score: 145
Period size: 66 Copynumber: 2.0 Consensus size: 66
13405777 TAACATAGTA
* * * *
13405787 GTAAATGCA-TAATAACATAACAGTAAATCATTGATAATTTAGATGTAAATTATTAATAATTTAG
1 GTAAAT-CATTAATAACATAACAGTAAATCACTAAAAATTTAGATGTAAATTAGTAATAATTTAG
13405851 AT
65 AT
* ** ** * *
13405853 GTAAATTATTAATAATTTAGTAGTAAATCACTAAAAATTTAGTTGTAAATTAGTGATAATTTAG
1 GTAAATCATTAATAACATAACAGTAAATCACTAAAAATTTAGATGTAAATTAGTAATAATTTAG
13405917 TAGGAAATTA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
65 1 0.02
66 51 0.98
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (66 bp):
GTAAATCATTAATAACATAACAGTAAATCACTAAAAATTTAGATGTAAATTAGTAATAATTTAGA
T
Found at i:13405917 original size:22 final size:22
Alignment explanation
Indices: 13405809--13405932 Score: 131
Period size: 22 Copynumber: 5.6 Consensus size: 22
13405799 TAACATAACA
* * *
13405809 GTAAATCATTGATAATTTAGAT
1 GTAAATTATTAATAATTTAGTT
*
13405831 GTAAATTATTAATAATTTAGAT
1 GTAAATTATTAATAATTTAGTT
*
13405853 GTAAATTATTAATAATTTAGTA
1 GTAAATTATTAATAATTTAGTT
* * *
13405875 GTAAATCACTAAAAATTTAGTT
1 GTAAATTATTAATAATTTAGTT
* * *
13405897 GTAAATTAGTGATAATTTAGTA
1 GTAAATTATTAATAATTTAGTT
*
13405919 GGAAATTAGTTAAT
1 GTAAATTA-TTAAT
13405933 CATTAATAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
22 82 0.96
23 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
GTAAATTATTAATAATTTAGTT
Found at i:13405925 original size:66 final size:67
Alignment explanation
Indices: 13405808--13405932 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 67
13405798 ATAACATAAC
* * * * *
13405808 AGTAAATCATTGATAATTTAGATGTAAATTATTAATAATTTAGATGTAAATTA-TTAATAATTTA
1 AGTAAATCACTAAAAATTTAGATGTAAATTAGTAATAATTTAGATGGAAATTAGTTAATAATTTA
13405872 GT
66 GT
* *
13405874 AGTAAATCACTAAAAATTTAGTTGTAAATTAGTGATAATTTAG-TAGGAAATTAGTTAAT
1 AGTAAATCACTAAAAATTTAGATGTAAATTAGTAATAATTTAGAT-GGAAATTAGTTAAT
13405933 CATTAATAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 1 0.02
66 44 0.88
67 5 0.10
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (67 bp):
AGTAAATCACTAAAAATTTAGATGTAAATTAGTAATAATTTAGATGGAAATTAGTTAATAATTTA
GT
Found at i:13406055 original size:22 final size:22
Alignment explanation
Indices: 13406030--13406089 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
13406020 CATCAAAAAT
*
13406030 TTAGTAGTAAATCAATTATAAC
1 TTAGTAGTAAATCAATTATAAA
* * *
13406052 TTAGCAGTGAATCATTTATAAA
1 TTAGTAGTAAATCAATTATAAA
* *
13406074 TTGGTAGTACATCAAT
1 TTAGTAGTAAATCAAT
13406090 GCTAATTTAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (22 bp):
TTAGTAGTAAATCAATTATAAA
Found at i:13406573 original size:21 final size:20
Alignment explanation
Indices: 13406549--13406610 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
13406539 ATTAAAACTA
*
13406549 TATCATAAGGTACTAAAATTG
1 TATCA-AAGGTACCAAAATTG
* *
13406570 TATCAAAAGTTACCAAAATTT
1 TATC-AAAGGTACCAAAATTG
*
13406591 TATCAAAGGCTATCAAAATT
1 TATCAAAGG-TACCAAAATT
13406611 AAAATTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.12
21 29 0.85
22 1 0.03
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (20 bp):
TATCAAAGGTACCAAAATTG
Found at i:13411180 original size:106 final size:106
Alignment explanation
Indices: 13411024--13411299 Score: 475
Period size: 106 Copynumber: 2.6 Consensus size: 106
13411014 AAAGACATAA
*
13411024 TATTTATTTAGTACAAAAAATAATAT-ATGAT-AAGAATCATGTACTAAATAAATCTTTTCAAAA
1 TATTTATTTAGTACAAAAAACAATATAAT--TCAAGAAT-ATGTACTAAATAAATCTTTTCAAAA
*
13411087 TTCAAAACCTTTTCCCAAAATATTTTTATTTCAAATATCGCTAG
63 TTCAAAACCTTTTCCCAAAATATTTTTATTTAAAATATCGCTAG
*
13411131 TATTTATTTAGTACAAAAAACAATATAATTCAAGAATATGTATTAAATAAATCTTTTCAAAATTC
1 TATTTATTTAGTACAAAAAACAATATAATTCAAGAATATGTACTAAATAAATCTTTTCAAAATTC
*
13411196 GAAACCTTTTCCCAAAATATTTTTATTTAAAATATCGCTAG
66 AAAACCTTTTCCCAAAATATTTTTATTTAAAATATCGCTAG
13411237 TATTTATTTAGTACAAAAAACAATATAATTCAAGAATATGTACTAAATAAATCTTTTCAAAAT
1 TATTTATTTAGTACAAAAAACAATATAATTCAAGAATATGTACTAAATAAATCTTTTCAAAAT
13411300 CTTGGTCAAG
Statistics
Matches: 162, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
106 129 0.80
107 31 0.19
108 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (106 bp):
TATTTATTTAGTACAAAAAACAATATAATTCAAGAATATGTACTAAATAAATCTTTTCAAAATTC
AAAACCTTTTCCCAAAATATTTTTATTTAAAATATCGCTAG
Found at i:13417700 original size:23 final size:24
Alignment explanation
Indices: 13417661--13417709 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
13417651 GCCAATAATT
13417661 GAACTAAATAACTAAAAGAAAGAA
1 GAACTAAATAACTAAAAGAAAGAA
*
13417685 GAACTAAA-AACTAAAAGAGAGAA
1 GAACTAAATAACTAAAAGAAAGAA
13417708 GA
1 GA
13417710 GAAGTAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.65, C:0.08, G:0.16, T:0.10
Consensus pattern (24 bp):
GAACTAAATAACTAAAAGAAAGAA
Found at i:13419742 original size:3 final size:3
Alignment explanation
Indices: 13419734--13419773 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
13419724 TCATGTTTAA
13419734 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13419774 TTCACCTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13422258 original size:18 final size:18
Alignment explanation
Indices: 13422237--13422284 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
13422227 TTTTCAACTT
13422237 TTGAAATCTTTGCAAATC
1 TTGAAATCTTTGCAAATC
* **
13422255 TTGAAACCTTTGTGAATC
1 TTGAAATCTTTGCAAATC
13422273 TTAGAAATCTTT
1 TT-GAAATCTTT
13422285 ATGAATCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAAATCTTTGCAAATC
Found at i:13422284 original size:19 final size:19
Alignment explanation
Indices: 13422239--13422297 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
13422229 TTCAACTTTT
**
13422239 GAAATCTTTGCAAATCTT-
1 GAAATCTTTGTGAATCTTA
*
13422257 GAAACCTTTGTGAATCTTA
1 GAAATCTTTGTGAATCTTA
*
13422276 GAAATCTTTATGAATCTTA
1 GAAATCTTTGTGAATCTTA
13422295 GAA
1 GAA
13422298 TCCTTGCGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
18 15 0.43
19 20 0.57
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (19 bp):
GAAATCTTTGTGAATCTTA
Found at i:13422433 original size:34 final size:34
Alignment explanation
Indices: 13422395--13422461 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
13422385 GATCCTTTGT
*
13422395 GAAACTTAAATCTCTTGCAAATCTTGAACCTTTA
1 GAAACTTAAATCTCTTGCAAATCTTAAACCTTTA
* *
13422429 GAAACTTAAATCTTTTGCAAATTTTAAACCTTT
1 GAAACTTAAATCTCTTGCAAATCTTAAACCTTT
13422462 GCAAAGCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (34 bp):
GAAACTTAAATCTCTTGCAAATCTTAAACCTTTA
Found at i:13422478 original size:18 final size:17
Alignment explanation
Indices: 13422386--13422480 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 17
13422376 TGAATTTTGG
* *
13422386 ATCCTTTGTGAAACTTAA
1 ATCCTTTG-CAAACTTGA
13422404 AT-CTCTTGCAAATCTTGA
1 ATCCT-TTGCAAA-CTTGA
*
13422422 A-CCTTTAG-AAACTTAA
1 ATCCTTT-GCAAACTTGA
* * *
13422438 ATCTTTTGCAAATTTTA
1 ATCCTTTGCAAACTTGA
*
13422455 AACCTTTGCAAAGCTTGA
1 ATCCTTTGCAAA-CTTGA
13422473 ATCCTTTG
1 ATCCTTTG
13422481 TGAATTGTGA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
16 6 0.10
17 30 0.51
18 23 0.39
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (17 bp):
ATCCTTTGCAAACTTGA
Found at i:13422937 original size:49 final size:49
Alignment explanation
Indices: 13422818--13422956 Score: 149
Period size: 49 Copynumber: 2.8 Consensus size: 49
13422808 AACCTCTGCT
* *
13422818 TAGAGGAGCCCATTTCTTAATTCAGATTTTAAA-TTGTTAAGCCTCTTTT
1 TAGAGAAGCCCATTTCTTAATTCAGA-TTTAAAGTTGTTAAGCCTCTTTA
* * * * *
13422867 TAGAAGTA-CCAATTTTTTAATTCATATTTAAAGTTGTTGAGCCT-TTATA
1 TAG-AGAAGCCCATTTCTTAATTCAGATTTAAAGTTGTTAAGCCTCTT-TA
*
13422916 TAGAGAAGCCCATTTCCTAATTCAGATTTAAAGTTTGTTAA
1 TAGAGAAGCCCATTTCTTAATTCAGATTTAAAG-TTGTTAA
13422957 AGTTGTGTGC
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
48 11 0.15
49 53 0.73
50 9 0.12
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (49 bp):
TAGAGAAGCCCATTTCTTAATTCAGATTTAAAGTTGTTAAGCCTCTTTA
Found at i:13435835 original size:4 final size:4
Alignment explanation
Indices: 13435826--13435851 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13435816 TGAATAAGAG
13435826 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
13435852 ATGATGCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:13449586 original size:11 final size:11
Alignment explanation
Indices: 13449572--13449600 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
13449562 CTAAAGCAAC
13449572 CTTAAACTAAG
1 CTTAAACTAAG
13449583 CTTAAACTAAG
1 CTTAAACTAAG
13449594 CTTAAAC
1 CTTAAAC
13449601 CCAAAACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (11 bp):
CTTAAACTAAG
Found at i:13449672 original size:29 final size:29
Alignment explanation
Indices: 13449639--13449713 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
13449629 ACCCAAAGTT
*
13449639 AAGCCTAAACCTTAAACAAACCCTAAATC
1 AAGCCTAAACCCTAAACAAACCCTAAATC
* *
13449668 GAGCCTAAACCCTAAACAAACCCTAAATT
1 AAGCCTAAACCCTAAACAAACCCTAAATC
*
13449697 AAGCCCAAACCCTAAAC
1 AAGCCTAAACCCTAAAC
13449714 TAATTCCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.47, C:0.33, G:0.05, T:0.15
Consensus pattern (29 bp):
AAGCCTAAACCCTAAACAAACCCTAAATC
Found at i:13449727 original size:19 final size:19
Alignment explanation
Indices: 13449685--13449743 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
13449675 AACCCTAAAC
* *
13449685 AAACCCTAAATTAAGCCC-
1 AAACCCTAAACTAATCCCT
*
13449703 AAACCCTAAACTAATTCCT
1 AAACCCTAAACTAATCCCT
13449722 AAACCCTAAACTAATCCCT
1 AAACCCTAAACTAATCCCT
13449741 AAA
1 AAA
13449744 TCAAACCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 15 0.42
19 21 0.58
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (19 bp):
AAACCCTAAACTAATCCCT
Found at i:13449758 original size:18 final size:18
Alignment explanation
Indices: 13449719--13449783 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
13449709 TAAACTAATT
*
13449719 CCTAAACCCTAAA-CTAATC
1 CCTAAA-CC-AAACCTAAAC
*
13449738 CCTAAATCAAACCTAAAC
1 CCTAAACCAAACCTAAAC
*
13449756 CCTAAACCTAACC-AAAC
1 CCTAAACCAAACCTAAAC
13449773 CC-AAACCAAAC
1 CCTAAACCAAAC
13449784 TTAGACCTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.20
17 9 0.22
18 17 0.43
19 6 0.15
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (18 bp):
CCTAAACCAAACCTAAAC
Found at i:13452119 original size:10 final size:9
Alignment explanation
Indices: 13452108--13452197 Score: 56
Period size: 10 Copynumber: 9.2 Consensus size: 9
13452098 TTGGTATTAT
13452108 TTTATTTTA
1 TTTATTTTA
13452117 TTTATTTTTA
1 TTTA-TTTTA
*
13452127 TCTTATGTTA
1 T-TTATTTTA
*
13452137 TTTATTTAA
1 TTTATTTTA
*
13452146 CTTTCATTTGTT
1 -TTT-ATTT-TA
*
13452158 TTTTTTTTA
1 TTTATTTTA
13452167 TTCT-TTATTA
1 TT-TATT-TTA
13452177 TTTATTTGTA
1 TTTATTT-TA
*
13452187 TATATTTTA
1 TTTATTTTA
13452196 TT
1 TT
13452198 AATATTTCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
9 20 0.32
10 33 0.52
11 10 0.16
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTATTTTA
Found at i:13452127 original size:15 final size:16
Alignment explanation
Indices: 13452107--13452139 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13452097 TTTGGTATTA
*
13452107 TTTTATTTTAT-TTAT
1 TTTTATCTTATGTTAT
13452122 TTTTATCTTATGTTAT
1 TTTTATCTTATGTTAT
13452138 TT
1 TT
13452140 ATTTAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTATCTTATGTTAT
Found at i:13452132 original size:20 final size:20
Alignment explanation
Indices: 13452104--13452143 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13452094 TTCTTTGGTA
* *
13452104 TTATTTTATTTTATTTATTT
1 TTATCTTATGTTATTTATTT
13452124 TTATCTTATGTTATTTATTT
1 TTATCTTATGTTATTTATTT
13452144 AACTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (20 bp):
TTATCTTATGTTATTTATTT
Found at i:13452389 original size:38 final size:38
Alignment explanation
Indices: 13452338--13452411 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
13452328 GCAAGAAATA
*
13452338 AAATTATTTTTAAATCCTACCAAACGATTGGAGGATTC
1 AAATTATTTTTAAATCCTACCAAACGATTAGAGGATTC
** *
13452376 AAATT-TTTGTTAAATTTTACCAAACTATTAGAGGAT
1 AAATTATTT-TTAAATCCTACCAAACGATTAGAGGAT
13452412 CTAATGACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (38 bp):
AAATTATTTTTAAATCCTACCAAACGATTAGAGGATTC
Found at i:13457812 original size:195 final size:195
Alignment explanation
Indices: 13457473--13457853 Score: 627
Period size: 195 Copynumber: 2.0 Consensus size: 195
13457463 ATAAATGAAG
* ** * *
13457473 TAACAATAACTAATGTTAGTGGCAATCTATTGCCCAATCACAATGTCAATGCTCTGAGTGAGGAT
1 TAACAAAAACTAATGAAAGTGGCAATCCATTGCCCAATCACAATGTCAATGCTCTAAGTGAGGAT
* * *
13457538 CAAAATTGTCAAGTGAAGATAAAAGTGGAAAAAATCAAACTCTTTTTAGTCAACTATTTGATGCT
66 CAAAAGTGTCAAGTGAAGATAAAAGTGGAAAAAATCAAACTCCTTTTAGTCAACTACTTGATGCT
* * *
13457603 TTGCATGAAGCTGACATGATACAACTGGTGGATCCACGTACTTATCGTGGAATATGTGTGCTAGA
131 TTGCATGAAGCTGACATGATAAAACTAGTGGATCCACGTACTTATCATGGAATATGTGTGCTAGA
13457668 TAACAAAAACTAATGAAAGTGGCAATCCATTGCCCAATCACAATGTCAATGCTCTAAGTGAGGAT
1 TAACAAAAACTAATGAAAGTGGCAATCCATTGCCCAATCACAATGTCAATGCTCTAAGTGAGGAT
* * *
13457733 CAAAAGTGTCATGTGAAGATGAAAGTGGAAGAAATCAAACTCCTTTTAGTCAACTACTTGATGCT
66 CAAAAGTGTCAAGTGAAGATAAAAGTGGAAAAAATCAAACTCCTTTTAGTCAACTACTTGATGCT
*
13457798 TTGTATGAAGCTGACATGATAAAACTAGTGGATCCACGTACTTATCATGGAATATG
131 TTGCATGAAGCTGACATGATAAAACTAGTGGATCCACGTACTTATCATGGAATATG
13457854 ATAGCTAGAT
Statistics
Matches: 171, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
195 171 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (195 bp):
TAACAAAAACTAATGAAAGTGGCAATCCATTGCCCAATCACAATGTCAATGCTCTAAGTGAGGAT
CAAAAGTGTCAAGTGAAGATAAAAGTGGAAAAAATCAAACTCCTTTTAGTCAACTACTTGATGCT
TTGCATGAAGCTGACATGATAAAACTAGTGGATCCACGTACTTATCATGGAATATGTGTGCTAGA
Found at i:13463279 original size:8 final size:8
Alignment explanation
Indices: 13463268--13463328 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 8
13463258 TAAGAAAAGA
13463268 AAAAAATG
1 AAAAAATG
13463276 AAAAAATG
1 AAAAAATG
13463284 -AAAAA-G
1 AAAAAATG
13463290 -AAAAA-G
1 AAAAAATG
13463296 AAAAAATG
1 AAAAAATG
*
13463304 AAAAAAAGG
1 -AAAAAATG
13463313 AAAAGAATG
1 AAAA-AATG
13463322 AACAAAA
1 AA-AAAA
13463329 AAAAGAAGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
6 7 0.15
7 10 0.22
8 13 0.28
9 14 0.30
10 2 0.04
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.07
Consensus pattern (8 bp):
AAAAAATG
Found at i:13463298 original size:20 final size:21
Alignment explanation
Indices: 13463269--13463308 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
13463259 AAGAAAAGAA
13463269 AAAAATGAAAAAATGAAAAAG
1 AAAAATGAAAAAATGAAAAAG
13463290 AAAAA-GAAAAAATGAAAAA
1 AAAAATGAAAAAATGAAAAA
13463309 AAGGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAAATGAAAAAATGAAAAAG
Found at i:13463329 original size:28 final size:28
Alignment explanation
Indices: 13463262--13463319 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
13463252 TATGCTTAAG
*
13463262 AAAAGAAAAAAATGAAAAAATGAAAAAGA
1 AAAAG-AAAAAATGAAAAAAAGAAAAAGA
*
13463291 AAAAGAAAAAATGAAAAAAAGGAAAAGA
1 AAAAGAAAAAATGAAAAAAAGAAAAAGA
13463319 A
1 A
13463320 TGAACAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (28 bp):
AAAAGAAAAAATGAAAAAAAGAAAAAGA
Found at i:13463333 original size:16 final size:16
Alignment explanation
Indices: 13463262--13463335 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 16
13463252 TATGCTTAAG
*
13463262 AAAAGAAAAA-AATGA
1 AAAAAAAAAAGAATGA
**
13463277 AAAAATGAAA-AA-G-
1 AAAAAAAAAAGAATGA
*
13463290 AAAAAGAAAA-AATGA
1 AAAAAAAAAAGAATGA
13463305 AAAAAAGGAAAAGAATGA
1 AAAAAA--AAAAGAATGA
*
13463323 ACAAAAAAAAGAA
1 AAAAAAAAAAGAA
13463336 GACTTAAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
13 10 0.21
14 2 0.04
15 14 0.30
16 7 0.15
17 4 0.09
18 10 0.21
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.05
Consensus pattern (16 bp):
AAAAAAAAAAGAATGA
Found at i:13464593 original size:77 final size:76
Alignment explanation
Indices: 13464436--13464655 Score: 262
Period size: 77 Copynumber: 2.9 Consensus size: 76
13464426 AGGTGTTTAG
* * * * ** *
13464436 TTATTTTTAAAGTTGTATGCCTCTATTA-GGAGGAACCCTTGTTTTCAAAGTTGTGCACCTTTGT
1 TTATTTTTAAA-TTGTGTGCCTCTATTATGGAGGAACTCTTATTTTTAAAGTTGTGTGCCTCTGT
* *
13464500 TAAGAGAAGCCT
65 TAACAGAAGCCC
* * *
13464512 TTATTTTTACAATTTTGTGCCTCTATTATGGAAGAACTCTTATTTTTAAAATTGTGTGCCTCTGT
1 TTATTTTTA-AATTGTGTGCCTCTATTATGGAGGAACTCTTATTTTTAAAGTTGTGTGCCTCTGT
13464577 TAACAGAAGCCC
65 TAACAGAAGCCC
* * * *
13464589 TTATTTTTAAAATTGTGTGCCTCTGTTATAGAGGAGCTCTTATTTTTAAAGTAGTGTGCCTCTGT
1 TTATTTTT-AAATTGTGTGCCTCTATTATGGAGGAACTCTTATTTTTAAAGTTGTGTGCCTCTGT
13464654 TA
65 TA
13464656 TGAAGGAGTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
76 23 0.19
77 98 0.80
78 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (76 bp):
TTATTTTTAAATTGTGTGCCTCTATTATGGAGGAACTCTTATTTTTAAAGTTGTGTGCCTCTGTT
AACAGAAGCCC
Found at i:13464598 original size:38 final size:38
Alignment explanation
Indices: 13464436--13464655 Score: 201
Period size: 38 Copynumber: 5.7 Consensus size: 38
13464426 AGGTGTTTAG
* * * *
13464436 TTATTTTTAAAGTTGTATGCCTCTATTAGGAGGAA-CCC
1 TTATTTTTAAAATTGTGTGCCTCTGTTAAGA-GAAGCCC
* * * ** * *
13464474 TTGTTTTCAAAGTTGTGCACCTTTGTTAAGAGAAGCCT
1 TTATTTTTAAAATTGTGTGCCTCTGTTAAGAGAAGCCC
* * * * *
13464512 TTATTTTTACAATTTTGTGCCTCTATTATG-GAAGAACTC
1 TTATTTTTAAAATTGTGTGCCTCTGTTAAGAGAAG--CCC
*
13464551 TTATTTTTAAAATTGTGTGCCTCTGTTAACAGAAGCCC
1 TTATTTTTAAAATTGTGTGCCTCTGTTAAGAGAAGCCC
* *
13464589 TTATTTTTAAAATTGTGTGCCTCTGTTATAGAGGAGCTC
1 TTATTTTTAAAATTGTGTGCCTCTGTTA-AGAGAAGCCC
* *
13464628 TTATTTTTAAAGTAGTGTGCCTCTGTTA
1 TTATTTTTAAAATTGTGTGCCTCTGTTA
13464656 TGAAGGAGTT
Statistics
Matches: 145, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
37 7 0.05
38 75 0.52
39 59 0.41
40 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (38 bp):
TTATTTTTAAAATTGTGTGCCTCTGTTAAGAGAAGCCC
Found at i:13464663 original size:39 final size:39
Alignment explanation
Indices: 13464512--13464656 Score: 175
Period size: 39 Copynumber: 3.7 Consensus size: 39
13464502 AGAGAAGCCT
* * * ** * *
13464512 TTATTTTTACAATTTTGTGCCTCTATTATGGAAGAACTC
1 TTATTTTTAAAATTGTGTGCCTCTGTTATACAGGAGCTC
* *
13464551 TTATTTTTAAAATTGTGTGCCTCTGTTA-ACAGAAGCCC
1 TTATTTTTAAAATTGTGTGCCTCTGTTATACAGGAGCTC
*
13464589 TTATTTTTAAAATTGTGTGCCTCTGTTATAGAGGAGCTC
1 TTATTTTTAAAATTGTGTGCCTCTGTTATACAGGAGCTC
* *
13464628 TTATTTTTAAAGTAGTGTGCCTCTGTTAT
1 TTATTTTTAAAATTGTGTGCCTCTGTTAT
13464657 GAAGGAGTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 32 0.35
39 59 0.65
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (39 bp):
TTATTTTTAAAATTGTGTGCCTCTGTTATACAGGAGCTC
Found at i:13465832 original size:19 final size:21
Alignment explanation
Indices: 13465808--13465848 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
13465798 GGTTTTTTTA
13465808 TATTATTTATTT-TAT-TATT
1 TATTATTTATTTGTATATATT
13465827 TATTATTTATTTGTATATATT
1 TATTATTTATTTGTATATATT
13465848 T
1 T
13465849 TATTGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 3 0.15
21 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TATTATTTATTTGTATATATT
Found at i:13470615 original size:18 final size:17
Alignment explanation
Indices: 13470592--13470628 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
13470582 CATGATATGA
13470592 ATGACAAGGTATGAATGC
1 ATGACAA-GTATGAATGC
*
13470610 ATGACAATTATGAATGC
1 ATGACAAGTATGAATGC
13470627 AT
1 AT
13470629 ATAATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (17 bp):
ATGACAAGTATGAATGC
Found at i:13470763 original size:39 final size:40
Alignment explanation
Indices: 13470676--13470780 Score: 137
Period size: 38 Copynumber: 2.7 Consensus size: 40
13470666 TAAGAGTTGG
* *
13470676 TTAGATTTTGGAAGGTAGTTTAGGG--TTTGCAATGTGGT
1 TTAGGTTTTGGAAGGTGGTTTAGGGTTTTTGCAATGTGGT
*
13470714 TTAGGTTTTGGAAGGTGGTTTAGGGTTTTTGGAA-GTGGT
1 TTAGGTTTTGGAAGGTGGTTTAGGGTTTTTGCAATGTGGT
* *
13470753 TTGGGTTTTGGAA-GTGGTTTTGGGTTTT
1 TTAGGTTTTGGAAGGTGGTTTAGGGTTTT
13470781 AGGTTTAAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 37 0.62
39 17 0.28
40 6 0.10
ACGTcount: A:0.15, C:0.01, G:0.38, T:0.46
Consensus pattern (40 bp):
TTAGGTTTTGGAAGGTGGTTTAGGGTTTTTGCAATGTGGT
Found at i:13470780 original size:19 final size:20
Alignment explanation
Indices: 13470681--13470780 Score: 102
Period size: 19 Copynumber: 5.2 Consensus size: 20
13470671 GTTGGTTAGA
* *
13470681 TTTTGGAAGGTAGTTTAGGG
1 TTTTGGAAGGTGGTTTTGGG
* * *
13470701 -TTTGCAATGTGG-TTTAGG
1 TTTTGGAAGGTGGTTTTGGG
*
13470719 TTTTGGAAGGTGGTTTAGGG
1 TTTTGGAAGGTGGTTTTGGG
13470739 TTTTTGGAA-GTGG-TTTGGG
1 -TTTTGGAAGGTGGTTTTGGG
13470758 TTTTGGAA-GTGGTTTTGGG
1 TTTTGGAAGGTGGTTTTGGG
13470777 TTTT
1 TTTT
13470781 AGGTTTAAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
18 16 0.24
19 34 0.52
20 8 0.12
21 8 0.12
ACGTcount: A:0.14, C:0.01, G:0.39, T:0.46
Consensus pattern (20 bp):
TTTTGGAAGGTGGTTTTGGG
Found at i:13475174 original size:10 final size:10
Alignment explanation
Indices: 13475159--13475197 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
13475149 CCTCTTGCTC
13475159 TCTTTTTTTT
1 TCTTTTTTTT
13475169 TC--TTTTTT
1 TCTTTTTTTT
*
13475177 TCTTTTCTTT
1 TCTTTTTTTT
13475187 TCTTTTTTTT
1 TCTTTTTTTT
13475197 T
1 T
13475198 TTGTTATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 8 0.32
10 17 0.68
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:13475180 original size:18 final size:18
Alignment explanation
Indices: 13475159--13475199 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13475149 CCTCTTGCTC
*
13475159 TCTTTTTTTTTCTTTTTT
1 TCTTTTCTTTTCTTTTTT
13475177 TCTTTTCTTTTCTTTTTT
1 TCTTTTCTTTTCTTTTTT
13475195 T-TTTT
1 TCTTTT
13475200 GTTATTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TCTTTTCTTTTCTTTTTT
Found at i:13475566 original size:20 final size:20
Alignment explanation
Indices: 13475519--13475556 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13475509 AATCATTCAT
*
13475519 TTTCTCTTCTTTTCTTTTTG
1 TTTCCCTTCTTTTCTTTTTG
13475539 TTTCCCTTCTTTTCTTTT
1 TTTCCCTTCTTTTCTTTT
13475557 ATTCTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTCCCTTCTTTTCTTTTTG
Found at i:13476781 original size:10 final size:10
Alignment explanation
Indices: 13476753--13476818 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 10
13476743 AAAGAATACC
13476753 TTTTCTTTTCT
1 TTTTCTTTT-T
13476764 TCTTTCTTTTT
1 T-TTTCTTTTT
13476775 TTTTCTTTTT
1 TTTTCTTTTT
** *
13476785 TTAAGGCATTTT
1 TT--TTCTTTTT
*
13476797 TTTTCTTTAT
1 TTTTCTTTTT
13476807 TTTTCTTATTT
1 TTTTCTT-TTT
13476818 T
1 T
13476819 GAAAATTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
10 22 0.51
11 6 0.14
12 15 0.35
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.77
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:13477659 original size:39 final size:39
Alignment explanation
Indices: 13477575--13477827 Score: 184
Period size: 39 Copynumber: 6.9 Consensus size: 39
13477565 TGTACTACCT
*
13477575 ATGTGCATGAAATGGAATGCATATAC-TATC-TATTAAG
1 ATGTGCATGAAATGGAATGCATGTACTTATCTTATTAAG
* *
13477612 ATGTGCATGAAATGGAATGCATGCACTTATCTTATTATG
1 ATGTGCATGAAATGGAATGCATGTACTTATCTTATTAAG
* * *
13477651 ATGTGCATGAGAGGGAATGCATGTACTTATCTTATTAAA
1 ATGTGCATGAAATGGAATGCATGTACTTATCTTATTAAG
* * * * *
13477690 ATTTGTATGAGATGGAATACA--TAC--A-CATATTAAG
1 ATGTGCATGAAATGGAATGCATGTACTTATCTTATTAAG
* **
13477724 ATGTTG-ATGAAATGGAATGTATG----T-TC-TA-CCA-
1 ATG-TGCATGAAATGGAATGCATGTACTTATCTTATTAAG
* * *
13477755 ATGTGCAGGAAATGGAATGCTTGTA-TTAT-TTATTAGG
1 ATGTGCATGAAATGGAATGCATGTACTTATCTTATTAAG
* * *
13477792 ACGTGGATGAAATGGAATGCATATAC-TATCTTATTA
1 ATGTGCATGAAATGGAATGCATGTACTTATCTTATTA
13477828 CTTCCAACTC
Statistics
Matches: 168, Mismatches: 31, Indels: 33
0.72 0.13 0.14
Matches are distributed among these distances:
30 2 0.01
31 17 0.10
32 1 0.01
33 2 0.01
34 23 0.14
35 6 0.04
37 50 0.30
38 10 0.06
39 57 0.34
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (39 bp):
ATGTGCATGAAATGGAATGCATGTACTTATCTTATTAAG
Found at i:13478093 original size:5 final size:5
Alignment explanation
Indices: 13478085--13478127 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
13478075 GTTTGAAAAT
*
13478085 TTTTG TTTTG TTTTG TTTTG -TTT- TTTTG TTTTTG TTTCG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG -TTTTG TTTTG TTTT
13478128 TGGTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 22 0.67
6 5 0.15
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:13478113 original size:18 final size:19
Alignment explanation
Indices: 13478090--13478128 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13478080 AAAATTTTTG
*
13478090 TTTTG-TTTTGTTTTGTTT
1 TTTTGTTTTTGTTTCGTTT
13478108 TTTTGTTTTTGTTTCGTTT
1 TTTTGTTTTTGTTTCGTTT
13478127 TT
1 TT
13478129 GGTTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (19 bp):
TTTTGTTTTTGTTTCGTTT
Found at i:13479758 original size:18 final size:18
Alignment explanation
Indices: 13479735--13479769 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13479725 CATGATATGA
13479735 ATGACAAGGTATGAATGC
1 ATGACAAGGTATGAATGC
**
13479753 ATGACAATTTATGAATG
1 ATGACAAGGTATGAATG
13479770 AATATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (18 bp):
ATGACAAGGTATGAATGC
Found at i:13479859 original size:19 final size:19
Alignment explanation
Indices: 13479837--13479884 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
13479827 TTGGAATGTG
*
13479837 GTTTAGGGTTTGGGAAGTA
1 GTTTAGGGTTTGAGAAGTA
*
13479856 GTTTAGGGTTTGAGAAGTG
1 GTTTAGGGTTTGAGAAGTA
13479875 GTTT-GGGTTT
1 GTTTAGGGTTT
13479885 TAGGGTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (19 bp):
GTTTAGGGTTTGAGAAGTA
Found at i:13481777 original size:16 final size:18
Alignment explanation
Indices: 13481758--13481790 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13481748 TTTTACATTT
13481758 CATG-CATTT-TTTTAAC
1 CATGCCATTTATTTTAAC
13481774 CATGCCATTTATTTTAA
1 CATGCCATTTATTTTAA
13481791 ATTACTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (18 bp):
CATGCCATTTATTTTAAC
Found at i:13482840 original size:16 final size:17
Alignment explanation
Indices: 13482819--13482856 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
13482809 AAGTTTCTGC
13482819 ATTTAC-TTTTCCTTG-T
1 ATTTACATTTT-CTTGCT
13482835 ATTTACATTTTCTTGCT
1 ATTTACATTTTCTTGCT
13482852 ATTTA
1 ATTTA
13482857 AACAGCTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.18, C:0.16, G:0.05, T:0.61
Consensus pattern (17 bp):
ATTTACATTTTCTTGCT
Found at i:13484612 original size:16 final size:17
Alignment explanation
Indices: 13484573--13484614 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
13484563 AAAACTATGT
*
13484573 ATGATATGCATGAACATA
1 ATGATATG-ATGAACAGA
13484591 AT-ATATGATGAA-AGA
1 ATGATATGATGAACAGA
13484606 ATGATATGA
1 ATGATATGA
13484615 ATGACAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.18
16 11 0.50
17 5 0.23
18 2 0.09
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (17 bp):
ATGATATGATGAACAGA
Found at i:13484697 original size:19 final size:19
Alignment explanation
Indices: 13484673--13484713 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
13484663 AAGGTTTGAT
*
13484673 TTTGGAAGATGGTTTAGGG
1 TTTGGAAGATGGTTTAAGG
*
13484692 TTTGGAAGGTGGTTTAAGG
1 TTTGGAAGATGGTTTAAGG
13484711 TTT
1 TTT
13484714 TGCAAGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (19 bp):
TTTGGAAGATGGTTTAAGG
Found at i:13484722 original size:19 final size:18
Alignment explanation
Indices: 13484672--13484751 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 18
13484662 TAAGGTTTGA
13484672 TTTTGGAAGATGGTTTAGG
1 TTTTGGAAG-TGGTTTAGG
*
13484691 GTTTGGAAGGTGGTTTAAGG
1 TTTTGGAA-GTGGTTT-AGG
* **
13484711 TTTTGCAAGTGGTCTGGGG
1 TTTTGGAAGTGGT-TTAGG
* * *
13484730 TTTAGGAGGTAGTTTAGG
1 TTTTGGAAGTGGTTTAGG
13484748 TTTT
1 TTTT
13484752 AAGATTTAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
18 6 0.13
19 29 0.63
20 11 0.24
ACGTcount: A:0.17, C:0.03, G:0.39, T:0.41
Consensus pattern (18 bp):
TTTTGGAAGTGGTTTAGG
Found at i:13484830 original size:14 final size:14
Alignment explanation
Indices: 13484776--13484831 Score: 76
Period size: 14 Copynumber: 3.9 Consensus size: 14
13484766 AAAGTTTACT
*
13484776 ATTTAGGGTTTAAA
1 ATTTAGGGTTTCAA
*
13484790 ATTTAGGGTTTTAA
1 ATTTAGGGTTTCAA
*
13484804 GGTTTAGGGTTTCAA
1 -ATTTAGGGTTTCAA
13484819 ATTTAGGGTTTCA
1 ATTTAGGGTTTCA
13484832 TGGGAATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.45
Consensus pattern (14 bp):
ATTTAGGGTTTCAA
Found at i:13485814 original size:14 final size:14
Alignment explanation
Indices: 13485795--13485840 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
13485785 TAGTGAAGAT
13485795 TTTTTTCTCTCTTA
1 TTTTTTCTCTCTTA
* *
13485809 TTTTTTCTTTCTTC
1 TTTTTTCTCTCTTA
13485823 TTTTTTC-CTC--A
1 TTTTTTCTCTCTTA
13485834 TTTTTTC
1 TTTTTTC
13485841 CTTTCCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 7 0.25
13 2 0.07
14 19 0.68
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTCTCTCTTA
Found at i:13486823 original size:21 final size:21
Alignment explanation
Indices: 13486789--13486839 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13486779 TACTTTATTG
* *
13486789 TTTTTGTTCTTTTTTATTTTTA
1 TTTTT-TTCGTTTTGATTTTTA
* *
13486811 TTTTTTTCGTTTTGGTTTTTC
1 TTTTTTTCGTTTTGATTTTTA
13486832 TTTTTTTC
1 TTTTTTTC
13486840 TCTCTTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (21 bp):
TTTTTTTCGTTTTGATTTTTA
Found at i:13486886 original size:12 final size:11
Alignment explanation
Indices: 13486863--13486900 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
13486853 CTAGCTTGAC
13486863 TTTTTT-TATT
1 TTTTTTATATT
13486873 TTTTTTATAGTT
1 TTTTTTATA-TT
13486885 TTTTTTATTATT
1 TTTTTTA-TATT
13486897 TTTT
1 TTTT
13486901 CATTTTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.24
11 2 0.08
12 15 0.60
13 2 0.08
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (11 bp):
TTTTTTATATT
Found at i:13488414 original size:15 final size:15
Alignment explanation
Indices: 13488396--13488452 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
13488386 TTTTTATTTC
13488396 TTTACTTTCTTGCAT
1 TTTACTTTCTTGCAT
*
13488411 TTTACTTT-TCTACAT
1 TTTACTTTCT-TGCAT
* *
13488426 TTCATTTTCTTGCAT
1 TTTACTTTCTTGCAT
13488441 TTT-CTTTCTTGC
1 TTTACTTTCTTGC
13488453 CAAATAGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 9 0.26
15 24 0.71
16 1 0.03
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.61
Consensus pattern (15 bp):
TTTACTTTCTTGCAT
Found at i:13493132 original size:76 final size:76
Alignment explanation
Indices: 13493019--13493172 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
13493009 AACAAATTTT
*
13493019 AATTGCAAATTAAGCAAGAGAAATGCACTATCTAAACCAAAGAAAAATTGCAAACTTTAACTTTA
1 AATTGCAAATTAAGCAAGAAAAATGCACTATCTAAACCAAAGAAAAATTGCAAACTTTAACTTTA
13493084 GAAACTACAAA
66 GAAACTACAAA
13493095 AATTGCAAATTAAGCAAGAAAAATGCACTATCTAAACCAAAGAAAAATTGCAAACTTTAACTTTA
1 AATTGCAAATTAAGCAAGAAAAATGCACTATCTAAACCAAAGAAAAATTGCAAACTTTAACTTTA
13493160 GAAACTACAAA
66 GAAACTACAAA
13493171 AA
1 AA
13493173 ATTGTGAATG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.22
Consensus pattern (76 bp):
AATTGCAAATTAAGCAAGAAAAATGCACTATCTAAACCAAAGAAAAATTGCAAACTTTAACTTTA
GAAACTACAAA
Found at i:13498170 original size:20 final size:20
Alignment explanation
Indices: 13498124--13498177 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
13498114 AAAATTAAAA
13498124 AAAATAAAAG-AAAAAAAAGC
1 AAAA-AAAAGAAAAAAAAAGC
* *
13498144 ACCAAAAAAGAAAAAAAAAGG
1 A-AAAAAAAGAAAAAAAAAGC
*
13498165 AAAAAAAATAAAA
1 AAAAAAAAGAAAA
13498178 TTATTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.04
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAAAAGC
Found at i:13498685 original size:26 final size:25
Alignment explanation
Indices: 13498656--13498716 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
13498646 AACAATGAGA
13498656 AAATAAAAAATGAAAGAAAATGAAAG
1 AAATAAAAAATGAAAGAAAA-GAAAG
* *
13498682 AAATGAAAAAA-GAAGGACAAGAAAG
1 AAAT-AAAAAATGAAAGAAAAGAAAG
*
13498707 GAA-AAAAAAT
1 AAATAAAAAAT
13498717 AAAATGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.20
25 7 0.23
26 11 0.37
27 6 0.20
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.08
Consensus pattern (25 bp):
AAATAAAAAATGAAAGAAAAGAAAG
Found at i:13498687 original size:19 final size:17
Alignment explanation
Indices: 13498653--13498689 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
13498643 GAAAACAATG
13498653 AGAAAATAAAAAATGAA
1 AGAAAATAAAAAATGAA
13498670 AGAAAATGAAAGAAATGAA
1 AGAAAAT-AAA-AAATGAA
13498689 A
1 A
13498690 AAAGAAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (17 bp):
AGAAAATAAAAAATGAA
Found at i:13498692 original size:17 final size:16
Alignment explanation
Indices: 13498631--13498692 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
13498621 AAAGAAAAGG
*
13498631 AAAA-GAAAAAGTGAA
1 AAAATGAAAAAATGAA
*
13498646 AACAATGAGAAAAT-AA
1 AA-AATGAAAAAATGAA
13498662 AAAATGAAAGAAAATGAA
1 AAAATG-AA-AAAATGAA
13498680 AGAAATGAAAAAA
1 A-AAATGAAAAAA
13498693 GAAGGACAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
15 6 0.16
16 7 0.18
17 15 0.39
18 5 0.13
19 5 0.13
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.10
Consensus pattern (16 bp):
AAAATGAAAAAATGAA
Found at i:13498705 original size:21 final size:19
Alignment explanation
Indices: 13498663--13498715 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
13498653 AGAAAATAAA
* *
13498663 AAATGAAAGAAAATGAAAG
1 AAATGAAAAAAAAGGAAAG
13498682 AAATGAAAAAAGAAGGACAAG
1 AAATGAAAAAA-AAGGA-AAG
*
13498703 AAAGGAAAAAAAA
1 AAATGAAAAAAAA
13498716 TAAAATGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.34
20 6 0.21
21 13 0.45
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.06
Consensus pattern (19 bp):
AAATGAAAAAAAAGGAAAG
Found at i:13501854 original size:26 final size:26
Alignment explanation
Indices: 13501825--13501902 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 26
13501815 TACAAAAGGA
*
13501825 AAAAGACATTTGCATTTGT-ATCATAG
1 AAAAGA-ATTTTCATTTGTAATCATAG
13501851 AAAAGATATTTTCATTT-TAATCACTAG
1 AAAAGA-ATTTTCATTTGTAATCA-TAG
* *
13501878 GAAAGAATTTTTCATTTGTGATCAT
1 AAAAGAA-TTTTCATTTGTAATCAT
13501903 TTGTATTAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 1 0.02
26 20 0.45
27 18 0.41
28 5 0.11
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (26 bp):
AAAAGAATTTTCATTTGTAATCATAG
Found at i:13502264 original size:25 final size:26
Alignment explanation
Indices: 13502236--13502295 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
13502226 AAGCCCAATT
13502236 TAGCTAGCACTAATAAGATTTAAG-C
1 TAGCTAGCACTAATAAGATTTAAGCC
* *
13502261 TAGCTGGCACTAATGAGATTTAAGCC
1 TAGCTAGCACTAATAAGATTTAAGCC
13502287 TAGTCTAGC
1 TAG-CTAGC
13502296 TTACATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 22 0.73
26 4 0.13
27 4 0.13
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (26 bp):
TAGCTAGCACTAATAAGATTTAAGCC
Found at i:13503170 original size:84 final size:84
Alignment explanation
Indices: 13503008--13503181 Score: 197
Period size: 84 Copynumber: 2.1 Consensus size: 84
13502998 GCAAGATTTG
* * * * *
13503008 TAAGTCCTCTGAATAAAATCTGTTTTAGTGCTGAGATTTGTAAAACCTCTAAGCATAGTCTCTAA
1 TAAGTCCTCAGAATAAAATCTATTTTAGTGCTGAGATTTATAAAACCTCAAAGCATAATCTCTAA
***
13503073 GTCCTCTGGGTAAGATTAA
66 GTCCTCCAAGTAAGATTAA
** ** *
13503092 TAAGTCCTCAGAATTGAATCTATTTTAGTTTTGAGATTTATAAGACCT-AAAGGCATAATCTCTA
1 TAAGTCCTCAGAATAAAATCTATTTTAGTGCTGAGATTTATAAAACCTCAAA-GCATAATCTCTA
* *
13503156 AGTCTTCCAAGTAAGATTCA
65 AGTCCTCCAAGTAAGATTAA
13503176 TAAGTC
1 TAAGTC
13503182 TTTTAGGCAA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
83 2 0.03
84 72 0.97
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (84 bp):
TAAGTCCTCAGAATAAAATCTATTTTAGTGCTGAGATTTATAAAACCTCAAAGCATAATCTCTAA
GTCCTCCAAGTAAGATTAA
Found at i:13513986 original size:29 final size:29
Alignment explanation
Indices: 13513954--13514028 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
13513944 AACCAACCCC
*
13513954 AAACTCAAAACAAACCCTAAACTGAGCCT
1 AAACCCAAAACAAACCCTAAACTGAGCCT
* *
13513983 AAACCCTAAACAAGCCCTAAACTGAGCCT
1 AAACCCAAAACAAACCCTAAACTGAGCCT
* *
13514012 AAACCCTAAACCAACCC
1 AAACCCAAAACAAACCC
13514029 CAAAACAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.45, C:0.36, G:0.07, T:0.12
Consensus pattern (29 bp):
AAACCCAAAACAAACCCTAAACTGAGCCT
Found at i:13514001 original size:18 final size:18
Alignment explanation
Indices: 13513965--13514004 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13513955 AACTCAAAAC
*
13513965 AAACCCTAAACTGAGCCT
1 AAACCCTAAACTAAGCCT
13513983 AAACCCTAAAC-AAGCCCT
1 AAACCCTAAACTAAG-CCT
13514001 AAAC
1 AAAC
13514005 TGAGCCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.45, C:0.35, G:0.07, T:0.12
Consensus pattern (18 bp):
AAACCCTAAACTAAGCCT
Found at i:13514101 original size:19 final size:19
Alignment explanation
Indices: 13514077--13514128 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
13514067 TAAACTTAAA
*
13514077 CCAATCCCTAAACCCTAAG
1 CCAATCACTAAACCCTAAG
13514096 CCAATCACTAAACCCTAAG
1 CCAATCACTAAACCCTAAG
*
13514115 CCAATCACCAAACC
1 CCAATCACTAAACC
13514129 AAACCCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.42, G:0.04, T:0.13
Consensus pattern (19 bp):
CCAATCACTAAACCCTAAG
Found at i:13514171 original size:34 final size:34
Alignment explanation
Indices: 13514122--13514186 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
13514112 AAGCCAATCA
13514122 CCAAACCAAACCCAAACCTAAACCTTAAACCTAT
1 CCAAACCAAACCCAAACCTAAACCTTAAACCTAT
* *
13514156 CCAAATCCAAA-CCAAACTTAGACCTTAAACC
1 CCAAA-CCAAACCCAAACCTAAACCTTAAACC
13514187 CAAACTAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.46, C:0.37, G:0.02, T:0.15
Consensus pattern (34 bp):
CCAAACCAAACCCAAACCTAAACCTTAAACCTAT
Found at i:13514195 original size:18 final size:18
Alignment explanation
Indices: 13514167--13514209 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
13514157 CAAATCCAAA
13514167 CCAAACTTAGACCTTAAAC
1 CCAAACTTAGACC-TAAAC
13514186 CCAAAC-TAGACCTAAAC
1 CCAAACTTAGACCTAAAC
13514203 CCTAAAC
1 CC-AAAC
13514210 CACATCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 6 0.26
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (18 bp):
CCAAACTTAGACCTAAAC
Found at i:13514262 original size:19 final size:19
Alignment explanation
Indices: 13514238--13514282 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
13514228 CATTAGACCT
13514238 TAAACCGAACCC-AATCTCC
1 TAAACCGAACCCTAATC-CC
13514257 TAAACC-AACCCTAATCCC
1 TAAACCGAACCCTAATCCC
*
13514275 CAAACCGA
1 TAAACCGA
13514283 TTCCAAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.40, C:0.42, G:0.04, T:0.13
Consensus pattern (19 bp):
TAAACCGAACCCTAATCCC
Found at i:13516530 original size:40 final size:40
Alignment explanation
Indices: 13516479--13516559 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
13516469 TATTAAATAT
*
13516479 CAAATTCTTATTGTATTATCTCTTCATCTTTGTTCTTAAA
1 CAAATTCTTATTGTATTATCCCTTCATCTTTGTTCTTAAA
*
13516519 CAAATTTTTATTGTATTATCCCTTCATCTTTGTTCTTAAA
1 CAAATTCTTATTGTATTATCCCTTCATCTTTGTTCTTAAA
13516559 C
1 C
13516560 CTAGCAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.52
Consensus pattern (40 bp):
CAAATTCTTATTGTATTATCCCTTCATCTTTGTTCTTAAA
Found at i:13523919 original size:2 final size:2
Alignment explanation
Indices: 13523912--13523975 Score: 67
Period size: 2 Copynumber: 32.0 Consensus size: 2
13523902 TAGACGTGTC
* * *
13523912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT -T AT AC AC AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
**
13523954 GC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
13523976 GTGTCATAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 54 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:13524094 original size:17 final size:16
Alignment explanation
Indices: 13524067--13524116 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
13524057 TTTAATTCGA
*
13524067 ATTTGAATCAATTTTT
1 ATTTAAATCAATTTTT
*
13524083 ATTTAAAATCAA-TTTG
1 ATTT-AAATCAATTTTT
13524099 ATTTAAATCAATTTTT
1 ATTTAAATCAATTTTT
13524115 AT
1 AT
13524117 CGATTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 7 0.24
16 16 0.55
17 6 0.21
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (16 bp):
ATTTAAATCAATTTTT
Found at i:13524659 original size:13 final size:12
Alignment explanation
Indices: 13524626--13524673 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
13524616 ATATTGAGAG
13524626 TTTTCTTTT-TT
1 TTTTCTTTTATT
13524637 TTTTCTTTTTATAT
1 TTTTC-TTTTAT-T
13524651 TTTTCTTTTATGT
1 TTTTCTTTTAT-T
*
13524664 TTCTCTTTTA
1 TTTTCTTTTA
13524674 ACAAGAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 5 0.16
12 4 0.12
13 17 0.53
14 6 0.19
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTATT
Found at i:13530376 original size:17 final size:18
Alignment explanation
Indices: 13530356--13530395 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
13530346 TTTTAACATA
13530356 TTGTTAGTTAT-TATAAT
1 TTGTTAGTTATATATAAT
*
13530373 TTGTT-GTTATATATTAT
1 TTGTTAGTTATATATAAT
13530390 TTGTTA
1 TTGTTA
13530396 ATATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (18 bp):
TTGTTAGTTATATATAAT
Found at i:13530903 original size:61 final size:63
Alignment explanation
Indices: 13530810--13530936 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 63
13530800 GATATTTGAA
* * *
13530810 TTTCAGTTTACTAAGTTTTATTTATTTCATAAT-TTCATCATCTATGGTGAGAATTTGTGAG-T
1 TTTCAGTTTACTAAGTTCTATGTATTTCATAATACT-ATCATCTATGGTGAGAATTTGTGAGAT
* * * * * *
13530872 TTTCA-TTTACTATGTTCTATGTGTTTTATAATACTATTATTTATGGTGGGAATTTGTGAGAT
1 TTTCAGTTTACTAAGTTCTATGTATTTCATAATACTATCATCTATGGTGAGAATTTGTGAGAT
13530934 TTT
1 TTT
13530937 TACTAGACAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
61 44 0.81
62 10 0.19
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (63 bp):
TTTCAGTTTACTAAGTTCTATGTATTTCATAATACTATCATCTATGGTGAGAATTTGTGAGAT
Found at i:13538742 original size:16 final size:16
Alignment explanation
Indices: 13538723--13538753 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13538713 TAAAGAGTAA
*
13538723 AAATTTTTTAAAAAAT
1 AAATTATTTAAAAAAT
13538739 AAATTATTTAAAAAA
1 AAATTATTTAAAAAA
13538754 AATCAAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTATTTAAAAAAT
Found at i:13544022 original size:42 final size:42
Alignment explanation
Indices: 13543974--13544060 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
13543964 CCCTAATTTG
13543974 TATGACATAGTACAATGCAATATATAAGAAACCTAATTACAA
1 TATGACATAGTACAATGCAATATATAAGAAACCTAATTACAA
* * *
13544016 TATGACATGGTACAGTGTAATATATAAGAAACCTAATTACAA
1 TATGACATAGTACAATGCAATATATAAGAAACCTAATTACAA
13544058 TAT
1 TAT
13544061 AATCCTATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (42 bp):
TATGACATAGTACAATGCAATATATAAGAAACCTAATTACAA
Found at i:13550574 original size:20 final size:20
Alignment explanation
Indices: 13550536--13550574 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13550526 GGGTAAATTG
* * *
13550536 CAATTTTATTTCTTTTTGTT
1 CAATTTAATTTCGTATTGTT
13550556 CAATTTAATTTCGTATTGT
1 CAATTTAATTTCGTATTGT
13550575 GCATGATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (20 bp):
CAATTTAATTTCGTATTGTT
Found at i:13553740 original size:18 final size:18
Alignment explanation
Indices: 13553711--13553752 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
13553701 AGTAAAGGCC
13553711 ACCTAGTTTTTTCTCAAAT
1 ACCTA-TTTTTTCTCAAAT
*
13553730 ACCTATTTTTTTTCAAAT
1 ACCTATTTTTTCTCAAAT
13553748 -CCTAT
1 ACCTAT
13553753 CGCGAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 12 0.55
19 5 0.23
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.50
Consensus pattern (18 bp):
ACCTATTTTTTCTCAAAT
Found at i:13554310 original size:20 final size:21
Alignment explanation
Indices: 13554280--13554319 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13554270 TATGCCAAAA
13554280 TTTTCCAAAATTTTGAAAATT
1 TTTTCCAAAATTTTGAAAATT
* *
13554301 TTTTCCAAATTTTTAAAAA
1 TTTTCCAAAATTTTGAAAA
13554320 GTTTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTTCCAAAATTTTGAAAATT
Found at i:13564970 original size:42 final size:42
Alignment explanation
Indices: 13564923--13565005 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
13564913 TGTTGCTGTT
13564923 CTAATTGCTA-TTGGATGTAAATCAAGTACCAAAGTTGATATA
1 CTAATTGC-AGTTGGATGTAAATCAAGTACCAAAGTTGATATA
*
13564965 CTAATTGCAGTTGGGTGTAAATCAAGTACCAAAGTTGATAT
1 CTAATTGCAGTTGGATGTAAATCAAGTACCAAAGTTGATAT
13565006 GCTACTAGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (42 bp):
CTAATTGCAGTTGGATGTAAATCAAGTACCAAAGTTGATATA
Found at i:13566528 original size:13 final size:13
Alignment explanation
Indices: 13566512--13566538 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13566502 TACATATTTG
13566512 ACTTCATAGGTTT
1 ACTTCATAGGTTT
13566525 ACTTCATAGGTTT
1 ACTTCATAGGTTT
13566538 A
1 A
13566539 TAATGTAAGG
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:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (13 bp):
ACTTCATAGGTTT
Found at i:13566787 original size:11 final size:11
Alignment explanation
Indices: 13566771--13566797 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13566761 ATGATCGGAT
13566771 GTTCATGTTCA
1 GTTCATGTTCA
13566782 GTTCATGTTCA
1 GTTCATGTTCA
13566793 GTTCA
1 GTTCA
13566798 ATTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (11 bp):
GTTCATGTTCA
Found at i:13566901 original size:14 final size:15
Alignment explanation
Indices: 13566879--13566913 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13566869 AAACCATAAC
*
13566879 CAAATAAAT-TTAAA
1 CAAACAAATCTTAAA
13566893 CAAACAAATCTTAAA
1 CAAACAAATCTTAAA
13566908 CAAACA
1 CAAACA
13566914 TAAAAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (15 bp):
CAAACAAATCTTAAA
Found at i:13570619 original size:20 final size:21
Alignment explanation
Indices: 13570580--13570629 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
13570570 CTTTTTCCTC
*
13570580 CCCTCTTTCCCTTTCCC-TTT
1 CCCTCTTTCCCTTACCCTTTT
13570600 CCCTCTTTCCC-TACCACTTTT
1 CCCTCTTTCCCTTACC-CTTTT
*
13570621 CCATCTTTC
1 CCCTCTTTC
13570630 ATCATCGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.06, C:0.48, G:0.00, T:0.46
Consensus pattern (21 bp):
CCCTCTTTCCCTTACCCTTTT
Found at i:13570904 original size:62 final size:59
Alignment explanation
Indices: 13570768--13570910 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 59
13570758 AAATTTGTTC
* *
13570768 AAATTTG-TTAGGGTTTTGGTTACCAATGTGTTGAGTTTTTGTTAGTTATTTATTTGTTG
1 AAATTTGTTTA-GGTTTTGGTTACCAATGTGTTAAGTTTTTGTTAGTTATTTATTTATTG
* * * *
13570827 AAATTTATTTGGGTTTTGGTTACCAATTTGTTAAGTTTTTGTT-GTTGGTTTTATATTTATTG
1 AAATTTGTTTAGGTTTTGGTTACCAATGTGTTAAGTTTTTGTTAG-T--TATT-TATTTATTG
*
13570889 AAATTTGTTTAGGTTTTCGTTA
1 AAATTTGTTTAGGTTTTGGTTA
13570911 TATATTTATT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
58 1 0.01
59 37 0.53
60 2 0.03
61 3 0.04
62 27 0.39
ACGTcount: A:0.20, C:0.03, G:0.21, T:0.56
Consensus pattern (59 bp):
AAATTTGTTTAGGTTTTGGTTACCAATGTGTTAAGTTTTTGTTAGTTATTTATTTATTG
Found at i:13570947 original size:43 final size:43
Alignment explanation
Indices: 13570900--13570984 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
13570890 AATTTGTTTA
* * *
13570900 GGTTTTCGTTATATATTTATTGAAATTTATTTGTTATATATTG
1 GGTTTTAGTTATATATTTAGTGAAATTTATTGGTTATATATTG
* *
13570943 GGTTTTAGTTATATATTTGGTGAAATTTCTTGGTTATATATT
1 GGTTTTAGTTATATATTTAGTGAAATTTATTGGTTATATATT
13570985 TTTGTTGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.56
Consensus pattern (43 bp):
GGTTTTAGTTATATATTTAGTGAAATTTATTGGTTATATATTG
Found at i:13571381 original size:38 final size:37
Alignment explanation
Indices: 13571300--13571388 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 37
13571290 ATTTGAAGTT
13571300 ATAATTTATATATTATTAATAGTTATCTCATTTTGAA
1 ATAATTTATATATTATTAATAGTTATCTCATTTTGAA
* ** **
13571337 GTAATTTATATATTATTAAGATTTTTAT-TTGTTTTGAA
1 ATAATTTATATATTATT-A-ATAGTTATCTCATTTTGAA
13571375 ATAATTTATATATT
1 ATAATTTATATATT
13571389 TGATAGTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 16 0.36
38 22 0.50
39 6 0.14
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (37 bp):
ATAATTTATATATTATTAATAGTTATCTCATTTTGAA
Found at i:13572854 original size:170 final size:171
Alignment explanation
Indices: 13572572--13572916 Score: 516
Period size: 170 Copynumber: 2.0 Consensus size: 171
13572562 TTGTAATTTT
* * * *
13572572 TTCACAAATGTTTTGTATAAAGAGATATTCCACATGGCTAGTTAGTTGAGACTTGATCCACCTAC
1 TTCACAAATGTTTTGCATAAAGAGATACTCCACATGGCTAGTTAGTTGAAACTCGATCCACCTAC
* * * *
13572637 AATGACTCTTTGTGGTGAAGGCCCAATTGCAAAACTTGAATAGGCACTACAAAATAGTGAGGCAA
66 AATGACTCTTTGTGGTGAAGGCCCAACTACAAAACTTGAACAGGCACTACAAAACAGTGAGGCAA
* *
13572702 CAACTTT-GATT-AATTACTGTTTTGATTGTTCTAGGTGATC
131 CAACTTTAG-TTAAATTACTGTTTGGATTATTCTAGGTGATC
*
13572742 TTCACAAATGTTTTGCATAAAGAGATACTCCACATGGCT-GCTTAGTTGAAACTCGATCCATCTA
1 TTCACAAATGTTTTGCATAAAGAGATACTCCACATGGCTAG-TTAGTTGAAACTCGATCCACCTA
* * *
13572806 CAATGACTCTTTGTGGTGGAGGCCCAACTATAAAACTTGAACAGGCACTGCAAAACAGTGAGGCA
65 CAATGACTCTTTGTGGTGAAGGCCCAACTACAAAACTTGAACAGGCACTACAAAACAGTGAGGCA
*
13572871 ACAACTTTAGTTAAATTATTGTTTGGATTATTCTAGGTGATC
130 ACAACTTTAGTTAAATTACTGTTTGGATTATTCTAGGTGATC
13572913 TTCA
1 TTCA
13572917 TTGGATGATT
Statistics
Matches: 157, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
169 1 0.01
170 125 0.80
171 31 0.20
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (171 bp):
TTCACAAATGTTTTGCATAAAGAGATACTCCACATGGCTAGTTAGTTGAAACTCGATCCACCTAC
AATGACTCTTTGTGGTGAAGGCCCAACTACAAAACTTGAACAGGCACTACAAAACAGTGAGGCAA
CAACTTTAGTTAAATTACTGTTTGGATTATTCTAGGTGATC
Found at i:13573675 original size:124 final size:124
Alignment explanation
Indices: 13573450--13573704 Score: 431
Period size: 124 Copynumber: 2.1 Consensus size: 124
13573440 CTTTGTGCAA
* * *
13573450 TTGATTAGGTCTTTCCTACAGCAAACCCAATGGTTTTGGGTCAGTTGTCAAATGTTGACTGCATT
1 TTGATTAGGTCTTTCCCACAGCAAACCCAACGGTTCTGGGTCAGTTGTCAAATGTTGACTGCATT
13573515 GTTTATGCTATGGGCTCTATTTTCATTTCCTCTCCTTCTGCCCATCATTAGTAACATGC
66 GTTTATGCTATGGGCTCTATTTTCATTTCCTCTCCTTCTGCCCATCATTAGTAACATGC
*
13573574 TTGATTAGGTCTTTCCCACAGCAAACCCAACGGTTCTGGGTTAGTTGTCAAATGTTGACTGCATT
1 TTGATTAGGTCTTTCCCACAGCAAACCCAACGGTTCTGGGTCAGTTGTCAAATGTTGACTGCATT
* * *
13573639 GTTTATGCTATGGGCTCTTTTTTCATTTCC-CTTCCTTTTGCCCATCATTAGTAACATGT
66 GTTTATGCTATGGGCTCTATTTTCATTTCCTC-TCCTTCTGCCCATCATTAGTAACATGC
13573698 TTGATTA
1 TTGATTA
13573705 TTTGTCATAA
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
123 1 0.01
124 122 0.99
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (124 bp):
TTGATTAGGTCTTTCCCACAGCAAACCCAACGGTTCTGGGTCAGTTGTCAAATGTTGACTGCATT
GTTTATGCTATGGGCTCTATTTTCATTTCCTCTCCTTCTGCCCATCATTAGTAACATGC
Found at i:13591420 original size:21 final size:21
Alignment explanation
Indices: 13591379--13591421 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13591369 TCTTTCATGT
* *
13591379 TCTTTAATTTATTTCATGCAA
1 TCTTTAATTTACTTCAAGCAA
13591400 TCTTT-ATTTACTTCAAAGCAA
1 TCTTTAATTTACTTC-AAGCAA
13591421 T
1 T
13591422 TTAGCATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (21 bp):
TCTTTAATTTACTTCAAGCAA
Found at i:13594089 original size:11 final size:11
Alignment explanation
Indices: 13594058--13594083 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13594048 TTGGAAATGT
13594058 TGGAGAAATCA
1 TGGAGAAATCA
13594069 TGGAGAAATCA
1 TGGAGAAATCA
13594080 TGGA
1 TGGA
13594084 TGAATCTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (11 bp):
TGGAGAAATCA
Found at i:13605047 original size:21 final size:20
Alignment explanation
Indices: 13605021--13605059 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
13605011 TTTAGTTCAA
13605021 TTTATGTTCATGCCATTTACC
1 TTTATGTTCATG-CATTTACC
13605042 TTTATGTTCATGCATTTA
1 TTTATGTTCATGCATTTA
13605060 AATGTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTATGTTCATGCATTTACC
Found at i:13605141 original size:20 final size:20
Alignment explanation
Indices: 13605099--13605141 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
13605089 GGGTAAATTG
* * * *
13605099 CAATTTGATTTCTTTTTGTT
1 CAATTTAATTTCTGTTCGCT
13605119 CAATTTAATTTCTGTTCGCT
1 CAATTTAATTTCTGTTCGCT
13605139 CAA
1 CAA
13605142 AGGATTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.53
Consensus pattern (20 bp):
CAATTTAATTTCTGTTCGCT
Found at i:13613701 original size:29 final size:29
Alignment explanation
Indices: 13613659--13613716 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
13613649 AATTGAAAGA
13613659 AACAAAGCTTTTGTTATTGGAAAATCTAT
1 AACAAAGCTTTTGTTATTGGAAAATCTAT
13613688 AACAAAGCTTTTGTTATTGGAAAATCTAT
1 AACAAAGCTTTTGTTATTGGAAAATCTAT
13613717 CTTCTAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (29 bp):
AACAAAGCTTTTGTTATTGGAAAATCTAT
Found at i:13626169 original size:17 final size:17
Alignment explanation
Indices: 13626137--13626169 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13626127 CAATTTTTTT
13626137 ATTTACTTTCTATGCAC
1 ATTTACTTTCTATGCAC
13626154 ATTTAACTTTCT-TGCA
1 ATTT-ACTTTCTATGCA
13626170 TCAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTACTTTCTATGCAC
Found at i:13626811 original size:91 final size:91
Alignment explanation
Indices: 13626666--13626847 Score: 319
Period size: 91 Copynumber: 2.0 Consensus size: 91
13626656 TGAGCTAGAT
* *
13626666 TTTCTCTGGTGTGATGTGATTTCTTTGCTGAATCATGTTGTAAACTTGTTGTTGCTTCTTACTTT
1 TTTCTCTGATGTGATGTGATTTCTTTGCTGAATCATGTTGTAAACTTATTGTTGCTTCTTACTTT
*
13626731 AGCTCAGTTTATGTTCATTATTTCTA
66 AGCTCAGTTTAGGTTCATTATTTCTA
*
13626757 TTTCTCTTATGTGATGTGATTTCTTTGCTGAATCATGTTGTAAACTTATTGTTGCTTCTTACTTT
1 TTTCTCTGATGTGATGTGATTTCTTTGCTGAATCATGTTGTAAACTTATTGTTGCTTCTTACTTT
*
13626822 GGCTCAGTTTAGGTTCATTATTTCTA
66 AGCTCAGTTTAGGTTCATTATTTCTA
13626848 GAAAGTGACA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.52
Consensus pattern (91 bp):
TTTCTCTGATGTGATGTGATTTCTTTGCTGAATCATGTTGTAAACTTATTGTTGCTTCTTACTTT
AGCTCAGTTTAGGTTCATTATTTCTA
Found at i:13628071 original size:69 final size:69
Alignment explanation
Indices: 13627993--13628127 Score: 175
Period size: 69 Copynumber: 2.0 Consensus size: 69
13627983 CCTTAGAAAC
* * * * * *
13627993 TGTTGCTTACCTTTTGAATAAGGTTCTAACTAAATTAGT-TGAAAAGACTCTATATTG-GATATG
1 TGTTGCTTACCTTATGAATAAAGTTCCAACCAAATCAATGT-AAAAGACTCTATA-TGAGATATG
13628056 GTAAAA
64 GTAAAA
*
13628062 TGTTGCTTACCTTATGAATAAAGTTCCAACCAAATCAATGTACAAGACTCTATATGAGATATGGT
1 TGTTGCTTACCTTATGAATAAAGTTCCAACCAAATCAATGTAAAAGACTCTATATGAGATATGGT
13628127 A
66 A
13628128 TGGCAAAAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 2 0.04
69 54 0.95
70 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (69 bp):
TGTTGCTTACCTTATGAATAAAGTTCCAACCAAATCAATGTAAAAGACTCTATATGAGATATGGT
AAAA
Found at i:13638082 original size:20 final size:22
Alignment explanation
Indices: 13638041--13638084 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
13638031 TTTCTGCATC
13638041 TTTAAAATTATTTGGCACTTAG
1 TTTAAAATTATTTGGCACTTAG
13638063 TTTAAAATT-TTTGG-ACTTAG
1 TTTAAAATTATTTGGCACTTAG
13638083 TT
1 TT
13638085 AAATTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.36
21 5 0.23
22 9 0.41
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTAAAATTATTTGGCACTTAG
Found at i:13643121 original size:22 final size:22
Alignment explanation
Indices: 13643093--13643143 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
13643083 GAAAAAAGAT
*
13643093 GAATTTGAAGACAAATTGGCTA
1 GAATTTGAAGAAAAATTGGCTA
13643115 GAATTTGAAGAAAAATTGGCTA
1 GAATTTGAAGAAAAATTGGCTA
13643137 GAATTTG
1 GAATTTG
13643144 GAGTTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (22 bp):
GAATTTGAAGAAAAATTGGCTA
Found at i:13645674 original size:32 final size:31
Alignment explanation
Indices: 13645637--13645696 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
13645627 GATATTAGTG
* *
13645637 CTATTTGAGTT-AGTTAATTGTTGTTTTTATTA
1 CTATTTAAGTTGA-TTAATT-TTGGTTTTATTA
13645669 CTATTTAAGTTGATTAATTTTGGTTTTA
1 CTATTTAAGTTGATTAATTTTGGTTTTA
13645697 ATTGAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.32
32 16 0.64
33 1 0.04
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.58
Consensus pattern (31 bp):
CTATTTAAGTTGATTAATTTTGGTTTTATTA
Found at i:13646004 original size:11 final size:12
Alignment explanation
Indices: 13645973--13645998 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13645963 TTTAAGGGAT
13645973 AAAAAATTTTGA
1 AAAAAATTTTGA
13645985 AAAAAATTTTGA
1 AAAAAATTTTGA
13645997 AA
1 AA
13645999 TAATTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AAAAAATTTTGA
Found at i:13649483 original size:17 final size:19
Alignment explanation
Indices: 13649457--13649497 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
13649447 ACAATAAAAA
* *
13649457 AAAAAGCTTA-AGAACAAT
1 AAAAAGCTTAGAAAACAAG
13649475 AAAAA-CTTAGAAAACAAG
1 AAAAAGCTTAGAAAACAAG
13649493 AAAAA
1 AAAAA
13649498 AGCTATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAAGCTTAGAAAACAAG
Found at i:13655339 original size:201 final size:201
Alignment explanation
Indices: 13654712--13655520 Score: 970
Period size: 201 Copynumber: 4.0 Consensus size: 201
13654702 CAAAAATCTG
* * * *
13654712 TTTTGAAATTCGTGGTTTTGACCTCTTTATGATTTTTGGATAAGTTCTTGATG-ATTCTAGCTTG
1 TTTTGAAATTCGCGGTTTTGACCTCTTTGTGGTTTTTGGATCAGTTCTTGATGAATTCTAGCTTG
* * * *
13654776 TTTTGAGTC--A-TTTTTTGGTTAAATTCCTAACTCATTG-TCTTTAATTTTGAAAACAATTAGC
66 TTTTGAGCCAAATTTTTTTGGTTAGATTCCTAACTCATAGATCTTTAATTATGAAAA-AATTAGC
* * * * * *
13654837 TTCAAATTCCATCCACACGAGTACAAAAAATTCTCCAAACTCACGCCCAAACTCAATTGATAGAT
130 TTCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAATCACGCCTAAACTCAGTTGACAGAT
*
13654902 TAGTTTTTTTTTT
195 TAG------TTCT
** * * **
13654915 TTTTTTAATTCGCGGTTTTGACCTCTTGGTGGTTTTTGGATTAGTTCTTGATGAATTCTAATTTG
1 TTTTGAAATTCGCGGTTTTGACCTCTTTGTGGTTTTTGGATCAGTTCTTGATGAATTCTAGCTTG
** *
13654980 TTTTGAGCCAAATTTTTTTTTTTAGAATCCTAACTCATAGATCTTTAATTATGAAAAAAATTAGC
66 TTTTGAGCCAAATTTTTTTGGTTAGATTCCTAACTCATAGATCTTTAATTATG-AAAAAATTAGC
* *
13655045 TTCAAATTCCATCCACACAAGTACAGAAAAATCTCCAAATTCACGCCTAAACTCAGTTGACAGAT
130 TTCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAATCACGCCTAAACTCAGTTGACAGAT
13655110 TAGTTCT
195 TAGTTCT
*
13655117 TTTTGAAATTCGCGGTTTTGACCTCTTTGTGGTTTTTGGATCAGTTCTTGATAAATTCTAGCTTG
1 TTTTGAAATTCGCGGTTTTGACCTCTTTGTGGTTTTTGGATCAGTTCTTGATGAATTCTAGCTTG
* *
13655182 TTTTGAGCCAAAATTTTTTTGGTTAGAGTCCTAACTCATAGATCTTTAATTATG-AAAAATTTGC
66 TTTTGAGCC-AAATTTTTTTGGTTAGATTCCTAACTCATAGATCTTTAATTATGAAAAAATTAGC
* * * * * * *
13655246 CTCAAATTCCGTCTACAAAAGTATAGAAAATTCTTCAAAGTCACGCCTAAACTCAGTTGACAGAT
130 TTCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAATCACGCCTAAACTCAGTTGACAGAT
*
13655311 TAGCTCT
195 TAGTTCT
** * * *
13655318 TTCCGAAATTTGTGGTTTTGACCTCTTTGTGG-TTTTGGATCAGTTCTTGATGAATTTTAGCTT-
1 TTTTGAAATTCGCGGTTTTGACCTCTTTGTGGTTTTTGGATCAGTTCTTGATGAATTCTAGCTTG
* * * *
13655381 TTTTGAGCCAAAAGTTTTTT-GTTACATTCCTAACTCATAGATATTTAATTCTGGAAAAAAATTA
66 TTTTGAGCC-AAATTTTTTTGGTTAGATTCCTAACTCATAGATCTTTAATTAT-G-AAAAAATTA
* ** * * * *
13655445 GCTTCAAATTCCTTCCACACAAGTTTAGAAAATTCTCCAAAATCACGCATAAATTCACTTGATAG
128 GCTTCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAATCACGCCTAAACTCAGTTGACAG
13655510 ATTAGTTCT
193 ATTAGTTCT
13655519 TT
1 TT
13655521 GCATGAGTGA
Statistics
Matches: 528, Mismatches: 68, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
198 28 0.05
199 20 0.04
200 29 0.05
201 171 0.32
202 70 0.13
203 87 0.16
204 17 0.03
206 1 0.00
207 22 0.04
208 79 0.15
209 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (201 bp):
TTTTGAAATTCGCGGTTTTGACCTCTTTGTGGTTTTTGGATCAGTTCTTGATGAATTCTAGCTTG
TTTTGAGCCAAATTTTTTTGGTTAGATTCCTAACTCATAGATCTTTAATTATGAAAAAATTAGCT
TCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAATCACGCCTAAACTCAGTTGACAGATT
AGTTCT
Found at i:13663419 original size:56 final size:56
Alignment explanation
Indices: 13663343--13663586 Score: 215
Period size: 56 Copynumber: 4.5 Consensus size: 56
13663333 CTAATTATTC
* * * * * *
13663343 CACCATTTGGGCCAAATTAGAAATATTTTCTTTTTTTTTTTAATTTCTAAATTTTT
1 CACCATTTAGGCTAATTTAGAAATATTCTCTTTTTTTGTTGAATTTCTAAATTTTT
* * * *
13663399 CACAATTTAGGCTTATTTAGAAAT-TCTCTCTTTGTTTGTTGGATTTCTAAATTTTT
1 CACCATTTAGGCTAATTTAGAAATAT-TCTCTTTTTTTGTTGAATTTCTAAATTTTT
* *
13663455 CACCATTTGAGTC-AATTTAG-AA-A-T-T-TTTTTTTG--AAATTTCTAAATTTTT
1 CACCATTT-AGGCTAATTTAGAAATATTCTCTTTTTTTGTTGAATTTCTAAATTTTT
* * * *
13663504 CATCGTTTGGGCCT-ATTTAGAAAT-TATCTCTTTTTTTGTTGGATTTCTAAATTTTT
1 CACCATTTAGG-CTAATTTAGAAATAT-TCTCTTTTTTTGTTGAATTTCTAAATTTTT
13663560 CACCATTTAGG-TCAATTTAGAAATATT
1 CACCATTTAGGCT-AATTTAGAAATATT
13663587 TTCTCTTTAT
Statistics
Matches: 147, Mismatches: 25, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
48 1 0.01
49 27 0.18
50 2 0.01
51 7 0.05
52 2 0.01
53 2 0.01
54 9 0.06
55 3 0.02
56 90 0.61
57 4 0.03
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.51
Consensus pattern (56 bp):
CACCATTTAGGCTAATTTAGAAATATTCTCTTTTTTTGTTGAATTTCTAAATTTTT
Found at i:13663501 original size:105 final size:105
Alignment explanation
Indices: 13663373--13663588 Score: 328
Period size: 105 Copynumber: 2.1 Consensus size: 105
13663363 AAATATTTTC
** * *
13663373 TTTTTTTTTTTAATTTCTAAATTTTTCA-CAATTTAGGCTTATTTAGAAATTCTCTCTTTGTTTG
1 TTTTTTTTTGAAATTTCTAAATTTTTCATC-ATTTAGGCCTATTTAGAAATTATCTCTTTGTTTG
13663437 TTGGATTTCTAAATTTTTCACCATTT-GAGTCAATTTAGAAA
65 TTGGATTTCTAAATTTTTCACCATTTAG-GTCAATTTAGAAA
* * *
13663478 TTTTTTTTTGAAATTTCTAAATTTTTCATCGTTTGGGCCTATTTAGAAATTATCTCTTTTTTTGT
1 TTTTTTTTTGAAATTTCTAAATTTTTCATCATTTAGGCCTATTTAGAAATTATCTCTTTGTTTGT
13663543 TGGATTTCTAAATTTTTCACCATTTAGGTCAATTTAGAAA
66 TGGATTTCTAAATTTTTCACCATTTAGGTCAATTTAGAAA
*
13663583 TATTTT
1 TTTTTT
13663589 CTCTTTATTT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
105 99 0.98
106 2 0.02
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (105 bp):
TTTTTTTTTGAAATTTCTAAATTTTTCATCATTTAGGCCTATTTAGAAATTATCTCTTTGTTTGT
TGGATTTCTAAATTTTTCACCATTTAGGTCAATTTAGAAA
Found at i:13664649 original size:8 final size:8
Alignment explanation
Indices: 13664636--13664665 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
13664626 TCAACAACCT
13664636 ATTTTTTA
1 ATTTTTTA
13664644 A-TTTTTA
1 ATTTTTTA
13664651 ATTTTTTA
1 ATTTTTTA
13664659 ATTTTTT
1 ATTTTTT
13664666 TATAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
ATTTTTTA
Found at i:13664656 original size:15 final size:15
Alignment explanation
Indices: 13664636--13664664 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13664626 TCAACAACCT
13664636 ATTTTTTAATTTTTA
1 ATTTTTTAATTTTTA
13664651 ATTTTTTAATTTTT
1 ATTTTTTAATTTTT
13664665 TTATAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTAATTTTTA
Found at i:13665091 original size:61 final size:61
Alignment explanation
Indices: 13665013--13665134 Score: 174
Period size: 61 Copynumber: 2.0 Consensus size: 61
13665003 CTCTAAATAG
* * *
13665013 AGGCTCAACGACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGC-TCAACGACTTTAAAAA
1 AGGCTCAACGAATTTGAAAAATAAAATACTCCTCTAAACAAAGGCATC-ACGACTTTAAAAA
* * *
13665074 AGGCTCAATGAATTTGAAAAATAAAATACTCCTTTAAACAAAGGCATCATGACTTTAAAAA
1 AGGCTCAACGAATTTGAAAAATAAAATACTCCTCTAAACAAAGGCATCACGACTTTAAAAA
13665135 GTAAATTGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 52 0.96
62 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (61 bp):
AGGCTCAACGAATTTGAAAAATAAAATACTCCTCTAAACAAAGGCATCACGACTTTAAAAA
Found at i:13665093 original size:20 final size:20
Alignment explanation
Indices: 13665054--13665094 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13665044 CTCTAAACAG
*
13665054 AGGCTCAACGACTTTAAAAA
1 AGGCTCAACGAATTTAAAAA
* *
13665074 AGGCTCAATGAATTTGAAAA
1 AGGCTCAACGAATTTAAAAA
13665094 A
1 A
13665095 TAAAATACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (20 bp):
AGGCTCAACGAATTTAAAAA
Found at i:13665109 original size:40 final size:41
Alignment explanation
Indices: 13665065--13665201 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
13665055 GGCTCAACGA
13665065 CTTTAAA-AAAGGC-TCAATGAATTTGAAAAA-TAAAATACTC
1 CTTTAAACAAAGGCATC-ATGAATTT-AAAAAGTAAAATACTC
* * *
13665105 CTTTAAACAAAGGCATCATGACTTTAAAAAGTAAATTGCTC
1 CTTTAAACAAAGGCATCATGAATTTAAAAAGTAAAATACTC
* * * * * *
13665146 CTTTAAACAGAGGCATCACGACTTTAAAATGTAAATTGCTC
1 CTTTAAACAAAGGCATCATGAATTTAAAAAGTAAAATACTC
* *
13665187 CTCTAAACAGAGGCA
1 CTTTAAACAAAGGCA
13665202 CCACGACTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
40 12 0.14
41 73 0.84
42 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (41 bp):
CTTTAAACAAAGGCATCATGAATTTAAAAAGTAAAATACTC
Found at i:13665275 original size:42 final size:41
Alignment explanation
Indices: 13665081--13665314 Score: 240
Period size: 41 Copynumber: 5.6 Consensus size: 41
13665071 AAAAGGCTCA
* * * * * *
13665081 ATGAATTTGAAAAATAAAATACTCCTTTAAACAAAGGCATC
1 ATGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
* *
13665122 ATGACTTT-AAAAAGTAAATTGCTCCTTTAAACAGAGGCATC
1 ATGACTTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCACC
* *
13665163 ACGACTTT-AAAATGTAAATTGCTCCTCTAAACAGAGGCACC
1 ATGACTTTGAAAA-ATAAATTGCTCCTCTAAACAGAGGCACC
* **
13665204 ACGACTTTCG-AAAATAAATTGCTTATCTAAACAGAGGCACC
1 ATGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACC
* *
13665245 ATAACTTTGAAAAAATAAATTGCTACTCTAAACAGAGGCAACC
1 ATGACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGGC-ACC
* *
13665288 ATAACTTTCGAAAAATAAATTACTCCT
1 ATGACTTT-GAAAAATAAATTGCTCCT
13665315 TAATAATCAT
Statistics
Matches: 168, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
40 6 0.04
41 106 0.63
42 29 0.17
43 26 0.15
44 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (41 bp):
ATGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
Found at i:13665613 original size:22 final size:22
Alignment explanation
Indices: 13665588--13665637 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
13665578 AGTTCAAAGG
13665588 TTCACATTTGACAAATTTGGGA
1 TTCACATTTGACAAATTTGGGA
13665610 TTCACA-TTGACAAATTTGGGA
1 TTCACATTTGACAAATTTGGGA
13665631 TTCACAT
1 TTCACAT
13665638 CCAAAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TTCACATTTGACAAATTTGGGA
Found at i:13665735 original size:59 final size:58
Alignment explanation
Indices: 13665663--13665780 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 58
13665653 ATTTCATTCT
* * ** * * *
13665663 AGTTCGAAGATTCACATTTGATGGACTCTAGGGTTTTACACCTCAAAGATTCTCATTTG
1 AGTTCGAAAATTCACATTCGATAAAAT-TAGGGTTTCACAACTCAAAGATTCTCATTTG
* *
13665722 AGTTTGAAAATTCACATTCGATAAAATTTGGGTTTCACAACTCAAAGATTCTCATTTG
1 AGTTCGAAAATTCACATTCGATAAAATTAGGGTTTCACAACTCAAAGATTCTCATTTG
13665780 A
1 A
13665781 AATTCAAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
58 29 0.58
59 21 0.42
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (58 bp):
AGTTCGAAAATTCACATTCGATAAAATTAGGGTTTCACAACTCAAAGATTCTCATTTG
Found at i:13665813 original size:21 final size:21
Alignment explanation
Indices: 13665789--13665852 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
13665779 GAAATTCAAA
*
13665789 TTGAAATTCAAAGATTCTCAT
1 TTGAAATTCAAAAATTCTCAT
13665810 TTGAAATTCAAAAACTTC-CAT
1 TTGAAATTCAAAAA-TTCTCAT
13665831 TTGAGAACTT-AAAAATTCTCAT
1 TTGA-AA-TTCAAAAATTCTCAT
13665853 CAAAAGATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 23 0.61
22 13 0.34
23 2 0.05
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TTGAAATTCAAAAATTCTCAT
Found at i:13666199 original size:23 final size:22
Alignment explanation
Indices: 13666169--13666212 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
13666159 TTGGAACAAG
*
13666169 TTTTATCAAC-TGATCATCATTA
1 TTTTATC-ACTTGATCACCATTA
13666191 TTTTCATCACTTGATCACCATT
1 TTTT-ATCACTTGATCACCATT
13666213 CATAAGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (22 bp):
TTTTATCACTTGATCACCATTA
Found at i:13667096 original size:7 final size:8
Alignment explanation
Indices: 13667078--13667125 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
13667068 TTTTTCTCTC
*
13667078 TTTTTCAT
1 TTTTTTAT
13667086 TTTTTTAT
1 TTTTTTAT
13667094 TTTTTTAT
1 TTTTTTAT
*
13667102 TTTTTTTT
1 TTTTTTAT
13667110 CTCTTTTTAT
1 -T-TTTTTAT
13667120 TTTTTT
1 TTTTTT
13667126 CCTTTTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 27 0.77
9 2 0.06
10 6 0.17
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTAT
Found at i:13667098 original size:27 final size:25
Alignment explanation
Indices: 13667068--13667142 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
13667058 TTGAGTCTTA
13667068 TTTTTCTCTCTTTTTCATTTTTTTATT
1 TTTTTCTCT-TTTTTC-TTTTTTTATT
* * *
13667095 TTTTTATTTTTTTTTCTCTTTTTATT
1 TTTTT-CTCTTTTTTCTTTTTTTATT
13667121 TTTTTC-CTTTTTTCTTCTTTTT
1 TTTTTCTCTTTTTTCTT-TTTTT
13667143 TCATCTTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
24 8 0.20
25 5 0.12
26 14 0.35
27 11 0.28
28 2 0.05
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTCTCTTTTTTCTTTTTTTATT
Found at i:13667114 original size:35 final size:34
Alignment explanation
Indices: 13667068--13667151 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
13667058 TTGAGTCTTA
* *
13667068 TTTTTCTCTCTTTTTCATTTTTTTATTTTTTTATT
1 TTTTTTTCTCTTTTT-ATTTTTTTACTTTTTTATT
* *
13667103 TTTTTTTCTCTTTTTATTTTTTTCCTTTTTTCTT
1 TTTTTTTCTCTTTTTATTTTTTTACTTTTTTATT
*
13667137 CTTTTTTCATCTTTT
1 TTTTTTTC-TCTTTT
13667152 CTAATCCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 23 0.53
35 20 0.47
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (34 bp):
TTTTTTTCTCTTTTTATTTTTTTACTTTTTTATT
Done.