Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_pilon, 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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 12
Found at i:1957512 original size:132 final size:130
Alignment explanation
Indices: 1957334--1957708 Score: 387
Period size: 132 Copynumber: 2.8 Consensus size: 130
1957324 TCGAATCGAT
* ** * *
1957334 GATGAGAATAGTAATATC-CTTTCATTTCGGTAGGAGTAATAAATGATTGCTTTAAGGCATAAGA
1 GATGA-AATACTAATATCTCTTT-ATTTCAATTGGAGTAATAAATGATTGCTTTAATGCATAA-A
* * * * * * *
1957398 TGTCATTTATTCTCGATTGGAAATAATTTGATATTGTCGTTTTCTCTCGAATTAATA-TCAATTT
63 GGTCATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTCAA-TT
*
1957462 TTTA
127 TTAA
* * * * *
1957466 GATGAAATATTAATATCTCTTTGTTTCGATTGGGGGTAATAAATGATTGTTTTAATGCATGAAAG
1 GATGAAATACTAATATCTCTTTATTTCAATT-GGAGTAATAAATGATTGCTTTAATGCAT-AAAG
* * * * * * * *
1957531 GTCGTTTTTTCCCAATTGGAAATCATTAGATATTATTATTTTCACTTGAATCGATATTGAATTTT
64 GTCATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTCAATTTT
1957596 AA
129 AA
* * * *
1957598 GATGAAATACTAATATTTTTTTATTTCAATTGGAGTAATAAATGACT-CTTTTAATGCACGAAAG
1 GATGAAATACTAATATCTCTTTATTTCAATTGGAGTAATAAATGATTGC-TTTAATGCA-TAAAG
1957662 GTCATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTC
64 GTCATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTC
1957709 TTAAGATCAT
Statistics
Matches: 199, Mismatches: 38, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
131 85 0.43
132 109 0.55
133 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (130 bp):
GATGAAATACTAATATCTCTTTATTTCAATTGGAGTAATAAATGATTGCTTTAATGCATAAAGGT
CATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTCAATTTTAA
Found at i:1967749 original size:23 final size:21
Alignment explanation
Indices: 1967696--1967758 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
1967686 TTTTGGTGCA
*
1967696 GAGGGAATCGATTCCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
**
1967717 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCCT
1967738 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
1967759 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.53
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCCT
Found at i:1967766 original size:21 final size:21
Alignment explanation
Indices: 1967698--1967779 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
1967688 TTGGTGCAGA
* *
1967698 GGGAATCGATTCCCCCC-CTG
1 GGGAACCGATTCCCCCCACAG
*
1967718 AGGGAACCGATTCCCCCTTTGA-AG
1 -GGGAACCGATTCCCCC---CACAG
1967742 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCACAG
* *
1967763 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
1967780 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 32 0.64
23 16 0.32
24 1 0.02
ACGTcount: A:0.22, C:0.38, G:0.24, T:0.16
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCACAG
Found at i:1971172 original size:15 final size:15
Alignment explanation
Indices: 1971152--1971181 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1971142 AACTCAACAA
1971152 TCTCAACAAATCTTC
1 TCTCAACAAATCTTC
1971167 TCTCAACAAATCTTC
1 TCTCAACAAATCTTC
1971182 ATTATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
TCTCAACAAATCTTC
Found at i:1975453 original size:65 final size:64
Alignment explanation
Indices: 1975364--1975509 Score: 168
Period size: 65 Copynumber: 2.3 Consensus size: 64
1975354 ACTAGGGTGC
* * * * * *
1975364 GCATCGGTGCACAAATTTACTTCGATGTTTCAA-AAATAGCCGGGGTGCATCAATGCCTGACTTG
1 GCATCGGTGCATAAAATCAATTCGATGTTTCAATAAA-AGCCGGAGTGCATCAATGCATG-CTTG
1975428 T
64 T
* ** * *
1975429 GCATCGGTGCATAAAATCAATTCGATGTTTCAATAAAATCTTGAGTGCATCGATGCATGGTTGT
1 GCATCGGTGCATAAAATCAATTCGATGTTTCAATAAAAGCCGGAGTGCATCAATGCATGCTTGT
1975493 GCATCGGTGCATAAAAT
1 GCATCGGTGCATAAAAT
1975510 GCATTCAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
64 21 0.30
65 45 0.65
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (64 bp):
GCATCGGTGCATAAAATCAATTCGATGTTTCAATAAAAGCCGGAGTGCATCAATGCATGCTTGT
Found at i:1978876 original size:17 final size:17
Alignment explanation
Indices: 1978854--1978887 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1978844 CAAAACGACA
1978854 TGGGAGATCTAAGAGAC
1 TGGGAGATCTAAGAGAC
1978871 TGGGAGATCTAAGAGAC
1 TGGGAGATCTAAGAGAC
1978888 CCAGATGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.35, T:0.18
Consensus pattern (17 bp):
TGGGAGATCTAAGAGAC
Found at i:1990162 original size:20 final size:22
Alignment explanation
Indices: 1990137--1990212 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
1990127 CGATTGGTGT
1990137 ATCGATGCACAGCCAA-G-TGC
1 ATCGATGCACAGCCAAGGATGC
**
1990157 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACAGCCAA-GGATGC
**
1990180 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACAGCCAA-GGATGC
1990203 ATCGATGCAC
1 ATCGATGCAC
1990213 TAACCATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
20 14 0.27
22 1 0.02
23 36 0.71
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (22 bp):
ATCGATGCACAGCCAAGGATGC
Found at i:1990184 original size:23 final size:23
Alignment explanation
Indices: 1990154--1990212 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
1990144 CACAGCCAAG
1990154 TGCATCGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAAGGGA
1990177 TGCATCGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAAGGGA
1990200 TGCATCGATGCAC
1 TGCATCGATGCAC
1990213 TAACCATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:1998279 original size:19 final size:19
Alignment explanation
Indices: 1998255--1998293 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1998245 TATGCATTGG
*
1998255 GCTATAAATATGAAATTAA
1 GCTATAAATATGAAAATAA
1998274 GCTATAAATATGAAAATAA
1 GCTATAAATATGAAAATAA
1998293 G
1 G
1998294 TTATGAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (19 bp):
GCTATAAATATGAAAATAA
Found at i:1998309 original size:19 final size:19
Alignment explanation
Indices: 1998287--1998323 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1998277 ATAAATATGA
1998287 AAATAAGTTATGAATCTGG
1 AAATAAGTTATGAATCTGG
* *
1998306 AAATAGGTTCTGAATCTG
1 AAATAAGTTATGAATCTG
1998324 AGAATGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (19 bp):
AAATAAGTTATGAATCTGG
Found at i:1998462 original size:18 final size:19
Alignment explanation
Indices: 1998441--1998477 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1998431 TAAAAAAGAA
1998441 TATGATA-TGATTATTATG
1 TATGATATTGATTATTATG
*
1998459 TATGATATTGTTTATTATG
1 TATGATATTGATTATTATG
1998478 GTTTTGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (19 bp):
TATGATATTGATTATTATG
Found at i:2001642 original size:20 final size:19
Alignment explanation
Indices: 2001617--2001750 Score: 133
Period size: 20 Copynumber: 6.6 Consensus size: 19
2001607 ATTCTGTAAA
*
2001617 TCGCAACACAGAAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
*
2001637 TCGCAATGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
*
2001657 TCGCAACGCTATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
* *
2001677 TCGCAACACAAAAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
* *
2001697 TCGTAACGCGAAATTTCAAATT
1 TCGCAACGCG-AA-GTCAAA-T
2001719 TCGCAACGCGAAAGTCAAAT
1 TCGCAACGCG-AAGTCAAAT
2001739 TCGCAACGCGAA
1 TCGCAACGCGAA
2001751 TAGTAAAAAC
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
19 4 0.04
20 69 0.71
21 11 0.11
22 13 0.13
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAGTCAAAT
Found at i:2001726 original size:22 final size:20
Alignment explanation
Indices: 2001628--2001850 Score: 160
Period size: 21 Copynumber: 10.8 Consensus size: 20
2001618 CGCAACACAG
*
2001628 AAGTCAAATTCGCAATGCGA
1 AAGTCAAATTCGCAACGCGA
* *
2001648 TAGTCAAATTCGCAACGCTA
1 AAGTCAAATTCGCAACGCGA
* * *
2001668 TAGTCAAATTCGCAACACAA
1 AAGTCAAATTCGCAACGCGA
*
2001688 AAGTCAAATTCGTAACGCGA
1 AAGTCAAATTCGCAACGCGA
*
2001708 AATTTCAAATTTCGCAACGCGA
1 AA-GTCAAA-TTCGCAACGCGA
2001730 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* ** *
2001750 ATAGTAAAAACCGCGACGCGA
1 A-AGTCAAATTCGCAACGCGA
* ** *
2001771 ATAGTAAAAACCGCAACGTGA
1 A-AGTCAAATTCGCAACGCGA
* * * *
2001792 ATAGTAAAAATCGCAATGTGA
1 A-AGTCAAATTCGCAACGCGA
* * *
2001813 ATAGTAAAAATCGCAACGTGA
1 A-AGTCAAATTCGCAACGCGA
*
2001834 ATAGT-AAAATCGCAACG
1 A-AGTCAAATTCGCAACG
2001851 AATCTATATG
Statistics
Matches: 179, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
20 78 0.44
21 88 0.49
22 13 0.07
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:2001742 original size:62 final size:60
Alignment explanation
Indices: 2001617--2001745 Score: 177
Period size: 60 Copynumber: 2.1 Consensus size: 60
2001607 ATTCTGTAAA
* * * * *
2001617 TCGCAACACAGAAGTCAAATTCGCAATGCGATAGTCAAATTCGCAACGCTATAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGAAAGTCAAAT
* *
2001677 TCGCAACACAAAAGTCAAATTCGTAACGCGAAATTTCAAATTTCGCAACGCGAAAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGAAA-GTCAAA-TTCGCAACGCGAAAGTCAAAT
2001739 TCGCAAC
1 TCGCAAC
2001746 GCGAATAGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 29 0.48
61 5 0.08
62 26 0.43
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.21
Consensus pattern (60 bp):
TCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGAAAGTCAAAT
Found at i:2002251 original size:20 final size:20
Alignment explanation
Indices: 2002223--2002296 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
2002213 GCTTTTCTAA
* *
2002223 ATTCGCGTTGTGATTTTACT
1 ATTCACGTTGCGATTTTACT
2002243 ATTCACGTTGCGATTTTACT
1 ATTCACGTTGCGATTTTACT
*
2002263 ATTCACGTTACGATTTTTACT
1 ATTCACGTTGCGA-TTTTACT
2002284 ATTCACGTTGCGA
1 ATTCACGTTGCGA
2002297 AATTGGAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 30 0.61
21 19 0.39
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (20 bp):
ATTCACGTTGCGATTTTACT
Found at i:2004852 original size:14 final size:16
Alignment explanation
Indices: 2004824--2004856 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
2004814 TTTCAGATAT
2004824 TTTGATAAATATATCA
1 TTTGATAAATATATCA
2004840 TTTGAT-AAT-TATCA
1 TTTGATAAATATATCA
2004854 TTT
1 TTT
2004857 CGAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTGATAAATATATCA
Found at i:2007517 original size:31 final size:30
Alignment explanation
Indices: 2007450--2007532 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
2007440 TTTGGCTAGT
* *
2007450 GACTAAAATATAAGTTTTGAAAGTTTGAGG
1 GACTAAAATATAACTTTTAAAAGTTTGAGG
*
2007480 G-TTAAAATATAAACTTTATAAAAGTTT-AGG
1 GACTAAAATAT-AACTTT-TAAAAGTTTGAGG
* *
2007510 GACTAAAAATATTATTTTTAAAA
1 GACT-AAAATATAACTTTTAAAA
2007533 AGTTAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
29 8 0.19
30 15 0.35
31 13 0.30
32 7 0.16
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (30 bp):
GACTAAAATATAACTTTTAAAAGTTTGAGG
Found at i:2019082 original size:85 final size:85
Alignment explanation
Indices: 2018973--2019215 Score: 283
Period size: 85 Copynumber: 2.9 Consensus size: 85
2018963 ACGACACACG
* * * * *
2018973 AATGTGTGTCATCTT-TTTTAATGACGTGTGCAACAATGACACACAATGCAAGTTATACATGTGT
1 AATGTGTGTCATCTTCATTT-ATGACGGGGGCAACAATGACACACAATGCAAGTCATACATGCGT
*
2019037 GTCATAAATTTATGACACAAA
65 GTCATAAATTTATGAAACAAA
* ** * *
2019058 AATGTGTGTCAACTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGTG
1 AATGTGTGTCATCTTCATTTATGACGGGGGCAACAATGACACACAATGCAAGTCATACATGCGTG
*
2019123 TCATAAATTTATGAAACACA
66 TCATAAATTTATGAAACAAA
** * * * * *
2019143 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCTCAATG-AGCGTCATAAATGTGT
1 AATGTGTGTCATCTTCATTTATGACGGGGGCAACAATGACACACAATGCA-AGTCATACATGCGT
2019207 GTCATAAAT
65 GTCATAAAT
2019216 GCACATCATA
Statistics
Matches: 138, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
84 1 0.01
85 134 0.97
86 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (85 bp):
AATGTGTGTCATCTTCATTTATGACGGGGGCAACAATGACACACAATGCAAGTCATACATGCGTG
TCATAAATTTATGAAACAAA
Found at i:2021735 original size:25 final size:25
Alignment explanation
Indices: 2021706--2021758 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
2021696 AATTAAGTTG
2021706 AAATAGAAAATGTTTAATAAGGAAC
1 AAATAGAAAATGTTTAATAAGGAAC
2021731 AAATAGAAAATGTTTAATAAGGAAC
1 AAATAGAAAATGTTTAATAAGGAAC
2021756 AAA
1 AAA
2021759 AAAAAAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (25 bp):
AAATAGAAAATGTTTAATAAGGAAC
Found at i:2021765 original size:25 final size:25
Alignment explanation
Indices: 2021712--2021765 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
2021702 GTTGAAATAG
* *
2021712 AAAATGTTTAATAAGGAACAAATAG
1 AAAATGTTTAATAAGGAACAAAAAA
2021737 AAAATGTTTAATAAGGAACAAAAAA
1 AAAATGTTTAATAAGGAACAAAAAA
2021762 AAAA
1 AAAA
2021766 CACGTGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.63, C:0.04, G:0.13, T:0.20
Consensus pattern (25 bp):
AAAATGTTTAATAAGGAACAAAAAA
Found at i:2024058 original size:16 final size:17
Alignment explanation
Indices: 2024023--2024066 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
2024013 ATTCATTTTC
*
2024023 ATTATTTTAAGAATTGA
1 ATTATTTTAAGAATTAA
2024040 ATTATTTTAA-AATTAA
1 ATTATTTTAAGAATTAA
*
2024056 ATTAATTTAAG
1 ATTATTTTAAG
2024067 TTAGAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (17 bp):
ATTATTTTAAGAATTAA
Found at i:2024117 original size:20 final size:20
Alignment explanation
Indices: 2024089--2024133 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2024079 CATCTCTTAT
*
2024089 AATTAAAATTAGTT-AAATTA
1 AATTCAAATT-GTTAAAATTA
*
2024109 AATTCAAATTTTTAAAATTA
1 AATTCAAATTGTTAAAATTA
2024129 AATTC
1 AATTC
2024134 TCAAATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
AATTCAAATTGTTAAAATTA
Found at i:2029887 original size:44 final size:46
Alignment explanation
Indices: 2029839--2029949 Score: 145
Period size: 48 Copynumber: 2.4 Consensus size: 46
2029829 GTAACCATGC
*
2029839 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACGGAATTAAATGGCAAGTATATTGGAA
* * * *
2029883 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACGGAA--TTAAATGGCAAGTATATTGGAA
2029931 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
2029950 TAGGATAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.38
47 1 0.02
48 35 0.60
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACGGAATTAAATGGCAAGTATATTGGAA
Found at i:2037002 original size:44 final size:46
Alignment explanation
Indices: 2036954--2037063 Score: 134
Period size: 48 Copynumber: 2.4 Consensus size: 46
2036944 GTAACCATGC
*
2036954 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACGGAATTAAATGGCAAGTATATTGGAA
* * * * *
2036998 AAATAAGCTTACAAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACGGAA--TTAAATGGCAAGTATATTGGAA
2037046 AAATAAGCTTACGAGCTT
1 AAATAAGCTTACGAGCTT
2037064 GATGGGATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 21 0.38
47 1 0.02
48 33 0.60
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACGGAATTAAATGGCAAGTATATTGGAA
Found at i:2039022 original size:57 final size:57
Alignment explanation
Indices: 2038931--2039084 Score: 227
Period size: 57 Copynumber: 2.7 Consensus size: 57
2038921 TATTTTTTAG
* * *
2038931 TTTTTGCACATAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCATAAC
* *
2038988 TTTTTGCACACAAAGTGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAAC
1 TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCATAAC
* ** *
2039045 TTTTTGTACACAAAGTGGTCATACGGAAATTTATAAACTA
1 TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTA
2039085 GCTTTTTGCA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 86 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (57 bp):
TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCATAAC
Found at i:2039091 original size:42 final size:42
Alignment explanation
Indices: 2039044--2039126 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
2039034 AATTTCATAA
* ** *
2039044 CTTTTTGTACACAAAGTGGTCATACGGAAATTTATAAACTAG
1 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAG
2039086 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTA
1 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTA
2039127 ATTATGAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (42 bp):
CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAG
Found at i:2039101 original size:99 final size:99
Alignment explanation
Indices: 2038987--2039183 Score: 306
Period size: 99 Copynumber: 2.0 Consensus size: 99
2038977 AATTTCTTAA
* *
2038987 CTTTTTGCACACAAAGTGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTTGT
1 CTTTTTGCACACAAAGTGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTCGC
* **
2039052 ACACAAAGTGGTCATACGGAAATT-TATAAACTAG
66 ACACAAAATGCCCATACGGAAATTCT-TAAACTAG
* * *
2039086 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTCGC
1 CTTTTTGCACACAAAGTGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTCGC
2039151 ACACAAAATGCCCATACGGAAATTCTTAAACTA
66 ACACAAAATGCCCATACGGAAATTCTTAAACTA
2039184 ATTATGAATT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 88 0.99
100 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (99 bp):
CTTTTTGCACACAAAGTGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTCGC
ACACAAAATGCCCATACGGAAATTCTTAAACTAG
Found at i:2039156 original size:57 final size:57
Alignment explanation
Indices: 2039086--2039280 Score: 336
Period size: 57 Copynumber: 3.4 Consensus size: 57
2039076 TATAAACTAG
2039086 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAA
1 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAA
* * *
2039143 CTTTTCGCACACAAAATGCCCATACGGAAATTCTTAAACTAATTATGAATTTCTTAA
1 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAA
** *
2039200 CTTTTTGCACACAAAGTGCCCATATAGAAATTCATAAATTAATTATGAATTTCTTAA
1 CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAA
2039257 CTTTTTGCACACAAAGTGCCCATA
1 CTTTTTGCACACAAAGTGCCCATA
2039281 ATTATGAATT
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 129 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (57 bp):
CTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAA
Found at i:2039215 original size:156 final size:156
Alignment explanation
Indices: 2038931--2039217 Score: 493
Period size: 156 Copynumber: 1.8 Consensus size: 156
2038921 TATTTTTTAG
* * *
2038931 TTTTTGCACATAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCA
1 TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTCGCA
* *
2038996 CACAAAGTGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTTGTACACAAAGT
66 CACAAAATGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTTGCACACAAAGT
2039061 GGTCATACGGAAATTTATAAACTAGC
131 GGTCATACGGAAATTTATAAACTAGC
2039087 TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTCGCA
1 TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTCGCA
* * * *
2039152 CACAAAATGCCCATACGGAAATTCTTAAACTAATTATGAATTTCTTAACTTTTTGCACACAAAGT
66 CACAAAATGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTTGCACACAAAGT
2039217 G
131 G
2039218 CCCATATAGA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
156 122 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (156 bp):
TTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTCGCA
CACAAAATGCCCATACGAAAACTCATAAACTAATTATGAATTTCATAACTTTTTGCACACAAAGT
GGTCATACGGAAATTTATAAACTAGC
Found at i:2039294 original size:40 final size:40
Alignment explanation
Indices: 2039239--2039316 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
2039229 ATTCATAAAT
2039239 TAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 TAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
2039279 TAATTATGAATTTCTTAGCTTTTTGCACACAAAGTGCC
1 TAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
2039317 TATACGAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (40 bp):
TAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:2039854 original size:21 final size:21
Alignment explanation
Indices: 2039827--2039921 Score: 163
Period size: 21 Copynumber: 4.5 Consensus size: 21
2039817 CCCCCTTTTG
2039827 GTATCGATACTCCTTGCATCA
1 GTATCGATACTCCTTGCATCA
*
2039848 TTATCGATACTCCTTGCATCA
1 GTATCGATACTCCTTGCATCA
*
2039869 GTATCGATACTACTTGCATCA
1 GTATCGATACTCCTTGCATCA
2039890 GTATCGATACTCCTTGCATCA
1 GTATCGATACTCCTTGCATCA
*
2039911 ATATCGATACT
1 GTATCGATACT
2039922 TCCCAACTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (21 bp):
GTATCGATACTCCTTGCATCA
Found at i:2044453 original size:24 final size:24
Alignment explanation
Indices: 2044426--2044478 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
2044416 TAGAAGGTGG
2044426 AGTAGAAGATGAAGTACCGTGGTA
1 AGTAGAAGATGAAGTACCGTGGTA
*
2044450 AGT---AGATGAAGTACCTTGGTA
1 AGTAGAAGATGAAGTACCGTGGTA
*
2044471 ACTAGAAG
1 AGTAGAAG
2044479 TACCTTGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 19 0.79
24 5 0.21
ACGTcount: A:0.38, C:0.09, G:0.30, T:0.23
Consensus pattern (24 bp):
AGTAGAAGATGAAGTACCGTGGTA
Found at i:2044458 original size:21 final size:21
Alignment explanation
Indices: 2044432--2044476 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2044422 GTGGAGTAGA
*
2044432 AGATGAAGTACCGTGGTAAGT
1 AGATGAAGTACCGTGGTAACT
*
2044453 AGATGAAGTACCTTGGTAACT
1 AGATGAAGTACCGTGGTAACT
2044474 AGA
1 AGA
2044477 AGTACCTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (21 bp):
AGATGAAGTACCGTGGTAACT
Found at i:2046283 original size:13 final size:13
Alignment explanation
Indices: 2046265--2046296 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2046255 ATGGATAACT
2046265 GTCCTATCAAACC
1 GTCCTATCAAACC
2046278 GTCCTATCAAACC
1 GTCCTATCAAACC
*
2046291 ATCCTA
1 GTCCTA
2046297 GTCGCAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (13 bp):
GTCCTATCAAACC
Found at i:2050690 original size:3 final size:3
Alignment explanation
Indices: 2050682--2050754 Score: 69
Period size: 3 Copynumber: 24.0 Consensus size: 3
2050672 CCAGTCTTAC
* * *
2050682 TTA TTA TTA TTA TATA TAA TTA TATA TTA -TA CTA CTA TTA TTA -TA
1 TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
2050727 TGTA TTA TTA TTA GTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA
2050755 AATAATACAA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
2 4 0.07
3 47 0.78
4 9 0.15
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:2050885 original size:15 final size:15
Alignment explanation
Indices: 2050865--2050917 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
2050855 AATACAAAAA
*
2050865 AACCCGAGAAGATTC
1 AACCCGAGAAGATAC
**
2050880 AACCCGAGAA-ACCC
1 AACCCGAGAAGATAC
*
2050894 AACCTGAGAAGATAC
1 AACCCGAGAAGATAC
*
2050909 GACCCGAGA
1 AACCCGAGA
2050918 GGCCCAGAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.42, C:0.30, G:0.21, T:0.08
Consensus pattern (15 bp):
AACCCGAGAAGATAC
Found at i:2051550 original size:18 final size:18
Alignment explanation
Indices: 2051527--2051569 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
2051517 AAGAGTCTGA
2051527 GAAGCTTACCCAACCGCT
1 GAAGCTTACCCAACCGCT
2051545 GAAGCTTACCCAACCGCT
1 GAAGCTTACCCAACCGCT
2051563 GAAGCTT
1 GAAGCTT
2051570 CAACGTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (18 bp):
GAAGCTTACCCAACCGCT
Found at i:2053611 original size:20 final size:18
Alignment explanation
Indices: 2053566--2053606 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
2053556 TTAACCAATG
*
2053566 AAAAAGAGACTCGTGCAC
1 AAAAAGAGACTCATGCAC
2053584 AAAAAGAGACTCATGCAC
1 AAAAAGAGACTCATGCAC
2053602 AAAAA
1 AAAAA
2053607 AAGAGGGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.10
Consensus pattern (18 bp):
AAAAAGAGACTCATGCAC
Found at i:2055980 original size:17 final size:17
Alignment explanation
Indices: 2055958--2055991 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2055948 CACCAAACCC
2055958 TTCTGCTTATAGTTATG
1 TTCTGCTTATAGTTATG
2055975 TTCTGCTTATAGTTATG
1 TTCTGCTTATAGTTATG
2055992 ATCAGGATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (17 bp):
TTCTGCTTATAGTTATG
Found at i:2060127 original size:99 final size:99
Alignment explanation
Indices: 2059997--2060435 Score: 736
Period size: 99 Copynumber: 4.4 Consensus size: 99
2059987 CACGAATTTG
* * *
2059997 TAAATCCT-CGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACTTGAAAATGAGGAAGCGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
2060061 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
* * *
2060095 TAAATCCTCCGGGTCATATGTAAAATCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
2060160 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
* * * *
2060194 TAAATGCTCCAGGTCATCTGTAAAACCTTAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCAA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
2060259 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
* *
2060293 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGATAGGATGTTTTCGTATGAAAATGAGAAAGCGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
2060358 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
** *
2060392 TAAATCCTTTGGGTCATCTGTAAAACCTCAGGGTAAGATGTTTT
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
2060436 TATTCTTTCC
Statistics
Matches: 317, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
98 8 0.03
99 309 0.97
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (99 bp):
TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
Found at i:2060567 original size:3 final size:3
Alignment explanation
Indices: 2060559--2060656 Score: 96
Period size: 3 Copynumber: 33.0 Consensus size: 3
2060549 TTGCCCGGTC
* *
2060559 TTA TTA TTA TTA TTA TTA TTA -CA TTA TTA TTA TTA TTA TATA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * *
2060604 TTA TATA TTA -TA CTA CTA TTA TTA -GA TATA TTA TTA TTA -TA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
2060648 TTA TTA TTA
1 TTA TTA TTA
2060657 AATAATTCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.07
3 67 0.83
4 8 0.10
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:2060589 original size:23 final size:22
Alignment explanation
Indices: 2060559--2060656 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 22
2060549 TTGCCCGGTC
2060559 TTATTATTATTATTATTATTACA
1 TTATTATTATTATTATTATTA-A
2060582 TTATTATTATTATTA-TATATAA
1 TTATTATTATTATTATTAT-TAA
*
2060604 TTATATATTATACTACTATTATTAGA
1 TTAT-TATTAT--TATTATTATTA-A
2060630 TATATTATTATTA-TATTATT-A
1 T-TATTATTATTATTATTATTAA
2060651 TTATTA
1 TTATTA
2060657 AATAATTCAA
Statistics
Matches: 67, Mismatches: 1, Indels: 17
0.79 0.01 0.20
Matches are distributed among these distances:
20 5 0.07
21 2 0.03
22 8 0.12
23 30 0.45
24 2 0.03
25 6 0.09
26 11 0.16
27 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
TTATTATTATTATTATTATTAA
Found at i:2061184 original size:22 final size:22
Alignment explanation
Indices: 2061159--2061209 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2061149 GTCTATGGTA
2061159 AGTCACCACCATAGGTCCAGTG
1 AGTCACCACCATAGGTCCAGTG
*
2061181 AGTCACCACCATAGGTCCGGTG
1 AGTCACCACCATAGGTCCAGTG
*
2061203 ACTCACC
1 AGTCACC
2061210 GGATTTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.35, G:0.22, T:0.18
Consensus pattern (22 bp):
AGTCACCACCATAGGTCCAGTG
Found at i:2069330 original size:19 final size:19
Alignment explanation
Indices: 2069302--2069344 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2069292 AAATAGAGAT
* *
2069302 ATCA-AAATCAGAGCAGAG
1 ATCAGAAATCAGAACAGAA
2069320 ATCAGAAATCAGAACAGAA
1 ATCAGAAATCAGAACAGAA
2069339 ATCAGA
1 ATCAGA
2069345 GAAAGCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.53, C:0.16, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCAGAAATCAGAACAGAA
Found at i:2080238 original size:172 final size:172
Alignment explanation
Indices: 2079948--2080294 Score: 637
Period size: 172 Copynumber: 2.0 Consensus size: 172
2079938 AAACTCAATA
2079948 AAACATCGATCTGTAGTAAGGGGATCATTTCAGTACTTTACCCAAGAAAACTACATACACAATTT
1 AAACATCGATCTGTAGTAAGGGGATCATTTCAGTACTTTACCCAAGAAAACTACATACACAATTT
2080013 CATTAACATGCTACTTTTAGATATAATAATCTATACAATACAATTAATAAATAT-AAAAAATATT
66 CATTAACATGCTACTTTTAGATATAATAATCTATACAATACAATTAATAAATATAAAAAAATATT
2080077 TTAAAAATGAATTCAAATGATTTTTTT-ATGTGGTATACACCG
131 TT-AAAATGAATTCAAATGATTTTTTTAATGTGGTATACACCG
*
2080119 AAACATCGATCTGTAGTAAGGGGATCATTTCAGTACTTTACCCAAGAAAATACTACATACA-ATT
1 AAACATCGATCTGTAGTAAGGGGATCATTTCAGTACTTTACCCAAG-AAA-ACTACATACACAAT
2080183 TTCATTAACATGCTACTTTTAGATATAATAATCTATACAATACAATTAATAAATATAAAAAAATA
64 TTCATTAACATGCTACTTTTAGATATAATAATCTATACAATACAATTAATAAATATAAAAAAATA
2080248 TTTTAAAATGAATTCAAATGATTTTTTTAATGTGGTATACACCG
129 TTTTAAAATGAATTCAAATGATTTTTTTAATGTGGTATACACCG
2080292 AAA
1 AAA
2080295 TATATAAAGT
Statistics
Matches: 171, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
171 46 0.27
172 85 0.50
173 40 0.23
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (172 bp):
AAACATCGATCTGTAGTAAGGGGATCATTTCAGTACTTTACCCAAGAAAACTACATACACAATTT
CATTAACATGCTACTTTTAGATATAATAATCTATACAATACAATTAATAAATATAAAAAAATATT
TTAAAATGAATTCAAATGATTTTTTTAATGTGGTATACACCG
Found at i:2081154 original size:93 final size:93
Alignment explanation
Indices: 2080995--2081180 Score: 327
Period size: 93 Copynumber: 2.0 Consensus size: 93
2080985 CAAAGGAGTG
* *
2080995 ATCCGTTTTATACTATTAATGTTTTAATAGATCGATTTTCTTTTTGAATTGCACTCAATAACTGT
1 ATCCGTTTTATACTATTAATGTTTTAATAGAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
*
2081060 AAAGTTTGAATTTGATCAATCAAGCATT
66 AAAGCTTGAATTTGATCAATCAAGCATT
*
2081088 ATCCGTTTTATACTATTAATGTTTTAATATAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
1 ATCCGTTTTATACTATTAATGTTTTAATAGAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
*
2081153 AAAGCTTGAATTTTATCAATCAAGCATT
66 AAAGCTTGAATTTGATCAATCAAGCATT
2081181 TTTTTAATTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (93 bp):
ATCCGTTTTATACTATTAATGTTTTAATAGAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
AAAGCTTGAATTTGATCAATCAAGCATT
Found at i:2082340 original size:176 final size:177
Alignment explanation
Indices: 2081995--2082372 Score: 532
Period size: 176 Copynumber: 2.1 Consensus size: 177
2081985 ATAAAATTTT
*
2081995 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATAATTTA
1 AAATATT-AA-ATA-TATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATAATTTA
* *
2082060 AGATCCAATAACTTTTAAAACTAAATCAATATTAAATACTTAAATAATTTATATAAATTTTTATT
63 AGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTTTATT
*
2082125 TTATAATTATATATTATTTAAATTAATTGTAAATTG-TTTTTATGAATTACA
128 TTATAA-TATATATTATTTAAATTAATTATAAATTGTTTTTTATGAATTA-A
* *
2082176 AAATATTAAATATATATATAACATATGATCTCAGCCCAAACCATTTAAAACCAATTAATAATTTA
1 AAATATTAAATATATATATAACATATGAGCTCAGCCCAAACCATTTAAAACC---CAATAATTTA
* *
2082241 AGATCCAATAAC-TTTAAACCTAAATCAATATTAATTAATTAAA-AATTTATATAAAATTTTATT
63 AGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTTTATT
* *
2082304 TTAT-A-ATATATTATTTAAATTAATTATAAATTGTTTTTTTTGAATTAT
128 TTATAATATATATTATTTAAATTAATTATAAATTGTTTTTTATGAATTAA
* * *
2082352 AAATATTTAATTTTTATATAA
1 AAATATTAAATATATATATAA
2082373 ATTAGAAAAT
Statistics
Matches: 180, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
176 45 0.25
177 12 0.07
178 39 0.22
179 26 0.14
180 30 0.17
181 28 0.16
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (177 bp):
AAATATTAAATATATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATAATTTAAGA
TCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTTTATTTTA
TAATATATATTATTTAAATTAATTATAAATTGTTTTTTATGAATTAA
Found at i:2082738 original size:27 final size:27
Alignment explanation
Indices: 2082677--2082746 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 27
2082667 ATTATTTTTT
* * *
2082677 TATATATTTATA-TATTATAATTAATT
1 TATATATTTTTATTTTTATAATTAATA
*
2082703 TAT-TAATTTTTATTTTTATTATTAATA
1 TATAT-ATTTTTATTTTTATAATTAATA
*
2082730 TATATA-TTTAATTTTTA
1 TATATATTTTTATTTTTA
2082747 AAAATATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 1 0.03
26 19 0.53
27 15 0.42
28 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TATATATTTTTATTTTTATAATTAATA
Found at i:2082835 original size:9 final size:9
Alignment explanation
Indices: 2082807--2082839 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2082797 AATATAAATA
2082807 ATTTTAATT
1 ATTTTAATT
*
2082816 ATATT-ATT
1 ATTTTAATT
2082824 ATTTTAATT
1 ATTTTAATT
2082833 ATTTTAA
1 ATTTTAA
2082840 AATATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:2084970 original size:24 final size:24
Alignment explanation
Indices: 2084943--2085013 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
2084933 AAACGGAGAT
*
2084943 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
2084967 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
2084991 ATCATAAATCAGAACAGAATTCA
1 ATCAGAAATCAGAACAGAATTCA
2085014 TGTAATGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:2084972 original size:12 final size:12
Alignment explanation
Indices: 2084945--2085013 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
2084935 ACGGAGATAT
* *
2084945 CAGAAATCAAAA
1 CAGAATTCAGAA
*
2084957 CAGAATTCAGAT
1 CAGAATTCAGAA
2084969 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
2084981 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
2084993 CATAAATCAGAA
1 CAGAATTCAGAA
2085005 CAGAATTCA
1 CAGAATTCA
2085014 TGTAATGTAT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2089727 original size:19 final size:19
Alignment explanation
Indices: 2089703--2089741 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2089693 CTGGAATTAA
* *
2089703 ATGTTAGAATGTTGATTTG
1 ATGTTAGAAGGTTAATTTG
2089722 ATGTTAGAAGGTTAATTTG
1 ATGTTAGAAGGTTAATTTG
2089741 A
1 A
2089742 ATCATTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.44
Consensus pattern (19 bp):
ATGTTAGAAGGTTAATTTG
Found at i:2091610 original size:147 final size:148
Alignment explanation
Indices: 2091397--2091687 Score: 527
Period size: 147 Copynumber: 2.0 Consensus size: 148
2091387 CAATAAGAAT
2091397 CCACATTACCTCAATCAAACCCAGAGTTCAACATACATTAGTAAATGTTACTTGCTTGATCACCA
1 CCACATTACCTCAATCAAACCCAGAGTTCAACATACATTAGTAAATGTTACTTGCTTGATCACCA
2091462 CCGTATGCTCCCCTCTCAAGCT-CGAATAAACATCTAA-TCTCTGAAAATGGTAAACGAGTGTGA
66 CCGTATGCTCCCCTCTCAAGCTCCGAATAAACATCTAATTCTCTGAAAATGGTAAACGAGTGTGA
2091525 GATTAG-AGGCTCAAATC
131 GATTAGAAGGCTCAAATC
2091542 CCACATTACCTCAAAATCAAA-CCAGAGTTCAACATACATTAGTAAATGTTTACTTGCTTGATCA
1 CCACATTACCTC--AATCAAACCCAGAGTTCAACATACATTAGTAAATG-TTACTTGCTTGATCA
2091606 CCACCGTATGCTCCCCTCTCAAGCTCCGAATAAACATCTAATTCTCTGAAAATGGTAAACGAGTG
63 CCACCGTATGCTCCCCTCTCAAGCTCCGAATAAACATCTAATTCTCTGAAAATGGTAAACGAGTG
2091671 TGAGATTAGAAGGCTCA
128 TGAGATTAGAAGGCTCA
2091688 GTGAATGATT
Statistics
Matches: 140, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
145 12 0.09
146 27 0.19
147 47 0.34
148 15 0.11
149 32 0.23
150 7 0.05
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (148 bp):
CCACATTACCTCAATCAAACCCAGAGTTCAACATACATTAGTAAATGTTACTTGCTTGATCACCA
CCGTATGCTCCCCTCTCAAGCTCCGAATAAACATCTAATTCTCTGAAAATGGTAAACGAGTGTGA
GATTAGAAGGCTCAAATC
Found at i:2097136 original size:54 final size:51
Alignment explanation
Indices: 2097075--2097195 Score: 125
Period size: 54 Copynumber: 2.3 Consensus size: 51
2097065 GCGGGTTCAC
* *
2097075 TCCCTATTTTTCAAGGTGCATGGAACTCGCACAATCTTCAACAAACGTCTCTG
1 TCCCTATTTTTCAAGGTGCA-AG-ACTCGAACAATCTTCAACAAACGTCTCTG
* * * * *
2097128 CTCTCTATTCTTTTCAGGGTGTAAGACTCGAACAATCTTCAGCAAACGTGTCTG
1 -TCCCTA-T-TTTTCAAGGTGCAAGACTCGAACAATCTTCAACAAACGTCTCTG
2097182 TCCCTATTCTTTCA
1 TCCCTATT-TTTCA
2097196 GGGAATGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
51 1 0.02
52 6 0.11
53 5 0.09
54 31 0.55
55 2 0.04
56 11 0.20
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (51 bp):
TCCCTATTTTTCAAGGTGCAAGACTCGAACAATCTTCAACAAACGTCTCTG
Found at i:2097701 original size:36 final size:37
Alignment explanation
Indices: 2097506--2098807 Score: 847
Period size: 36 Copynumber: 35.7 Consensus size: 37
2097496 CTCATACTTC
*
2097506 GGTGAAGG--TAAAATTGATTTGCTTCACTATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* * * * *
2097541 GGTGAAGGCTTCAGATGGAATTGCTTCACTCCTT-TCC
1 GGTGAAGGCTTAAGATTGATTTGCTTCACT-ATTCTCA
* * * *
2097578 GGTGAAGGCTT-AGATTGCCTTGAGGACTTAACATCATGCTC-
1 GGTGAAGGCTTAAGATTG-ATT--TG-CTTCAC-T-ATTCTCA
** * *
2097619 -G-GAAGGCTTGCTGATGGA-TTGCTTCACTACTCTTC-
1 GGTGAAGGCTT-AAGATTGATTTGCTTCACTATTC-TCA
*
2097654 GGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT-A
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
*
2097690 GGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* * * *
2097727 GGTGAAGGCTTAAGATGGA-ATGCTTCACTCCTT-TCC
1 GGTGAAGGCTTAAGATTGATTTGCTTCACT-ATTCTCA
*** *** *
2097763 GGTGAAGGCTTAAGATTGCCCTG-GGGACTTAATCATCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCAC-TATTC-TCA
* ** * *
2097801 TGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTC-
1 -GGT--GAAGGCTT-AAGATTGATTTGCTTCACTATTCTCA
* * *
2097841 GGTGAAGGCTTAAGATT-AATTACTTCACTACTCTTC-
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTC-TCA
* *
2097877 -GAGAAGGCTTAAGATTGATTTGCTTCAATATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* ** *
2097913 TGTGAAGGCTTTAAGACGGA-TTGCTTCACTACT-TC-
1 GGTGAAGGC-TTAAGATTGATTTGCTTCACTATTCTCA
* *
2097948 GGTGAAGGCTTAAGATGGA-TTG-TTCACTAATCTCTA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTC-A
*
2097984 -GTGAAGGCTTAAGATTGATTTGCTT--CTATTCTTA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
*
2098018 GGTGAAGGCTTAAGA-TG-GTTGCTTCACTATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
*** *** *
2098053 GGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATC-
1 GGTGAAGGCTTAAGATTGATTTGCTTCAC-TATTC-TCA
** * * **
2098090 GTGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTT
1 G-G-T--GAAGGCTT-AAGATTGATTTGCTTCACTATTCTCA
* *
2098132 GGTGAAGACTTAAAATTGA-TTGCTTCACTATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* *
2098168 GGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCC
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* *
2098205 GGTGAAGGCTTAGGA-TGGTTTGCTTCACTATTCTCCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CA
2098242 -GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* *
2098278 GGTGAAGGCTTAAGATGGAGTTGCTTCA-TATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
*** *** *
2098314 GGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCAC-TATTC-TCA
* ** * * *
2098352 TGCTCGGAAGGCTTGCTGATGGATTTTCTTCACTACTCTTC-
1 -GGT--GAAGGCTT-AAGATTGATTTGCTTCACTATTC-TCA
* *
2098393 GGTGAAGGCTTAA-AATGATTTGCTTCACCATTCTCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* *
2098429 AGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTC-
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* * *
2098465 GGTGAAGGCTTAGGA-TGGTTTGCTTCACTTTTCTCTA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTC-A
* *
2098502 -GTGAAAGGCTTAAGA-TGGTTTGCTTCAC--TTCTCC
1 GGTG-AAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* *
2098536 GGTGAAGGCTTAGGA-TG-GTTGCTTCACTATTCTCCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CA
*
2098572 -GTGAAGGCTTAAGA-TGGTTTGCTTCACTATTCTCCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CA
* *
2098608 -GTAAAGGCTTAAGA-TG-GTTGCTTCACTACTTC-C-
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTA-TTCTCA
*
2098641 GGTGAAGGCTTAAGA-TGA-TTACTTCACTATTCTCCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CA
* *
2098677 -GTGAAAGC-TAAGATTGA-TTACTTCACTACTAT-TCA
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTA-T-TCTCA
* * *
2098712 -GTGAAGG-GTAAGA-TG-GTTGCTTCACTATTCTCC
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
* * **
2098745 GGTGAAGGCTTCAGATTGATCTGCTTCACTCCTCTGC-
1 GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CA
2098782 GGTGAAGGCTTAAGATTGACTTTGCT
1 GGTGAAGGCTTAAGATTGA-TTTGCT
2098808 CTAATCTCAT
Statistics
Matches: 1004, Mismatches: 172, Indels: 179
0.74 0.13 0.13
Matches are distributed among these distances:
32 1 0.00
33 29 0.03
34 81 0.08
35 207 0.21
36 279 0.28
37 267 0.27
38 39 0.04
39 17 0.02
40 9 0.01
41 35 0.03
42 34 0.03
43 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (37 bp):
GGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCA
Found at i:2097731 original size:73 final size:74
Alignment explanation
Indices: 2097486--2098807 Score: 886
Period size: 73 Copynumber: 18.2 Consensus size: 74
2097476 AAAGAGTGCT
* *
2097486 GATGGATTTGC-TCA-TACT-TC-GGTGAAGG--TAAAATTGATTTGCTTCACTATTCTCAGGTG
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTG
*
2097545 AAGGCTTCA
66 AAGGCTTAA
* * * * * * *
2097554 GATGGAATTGCTTCACTCCTT-TCCGGTGAAGGCTT-AGATTGCCTTGAGGACTTAACATCATGC
1 GATGGATTTGCTTCACT-ATTCTCAGGTGAAGGCTTAAGATTG-ATT--TG-CTTCAC-T-ATTC
**
2097617 TC--G-GAAGGCTTGCT
59 TCAGGTGAAGGCTT-AA
* *
2097631 GATGGA-TTGCTTCACTACTCTTC-GGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT-AGGT
1 GATGGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGT
2097693 GAAGGCTTAA
65 GAAGGCTTAA
* * * *
2097703 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGA-ATGCTTCACTCCTT-TCCGGT
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACT-ATTCTCAGGT
2097766 GAAGGCTTAA
65 GAAGGCTTAA
* *** *** * * ** * *
2097776 GATTGCCCTG-GGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCT
1 GATGGATTTGCTTCAC-TATTC-TCA-GGT--GAAGGCTT-AAGATTGATTTGCTTCACTATTCT
2097840 C-GGTGAAGGCTTAA
60 CAGGTGAAGGCTTAA
* * * * * * *
2097854 GAT-TAATTACTTCACTACTCTTC--GAGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGT
1 GATGGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGT
2097916 GAAGGCTTTAA
65 GAAGGC-TTAA
* * * *
2097927 GACGGA-TTGCTTCACTACT-TC-GGTGAAGGCTTAAGATGGA-TTG-TTCACTAATCTCTA-GT
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTC-AGGT
2097986 GAAGGCTTAA
65 GAAGGCTTAA
* * *
2097996 GATTGATTTGCTT--CTATTCTTAGGTGAAGGCTTAAGA-TG-GTTGCTTCACTATTCTCAGGTG
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTG
2098057 AAGGCTTAA
66 AAGGCTTAA
* *** *** * ** * *
2098066 GATTGCCCTG-AGGACTTAATCATC-GTGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTC
1 GATGGATTTGCTTCAC-TATTC-TCAG-G-T--GAAGGCTT-AAGATTGATTTGCTTCACTATTC
** *
2098129 TTTGGTGAAGACTTAA
59 TCAGGTGAAGGCTTAA
* * * *
2098145 AATTGA-TTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCCGGTG
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTG
*
2098209 AAGGCTTAG
66 AAGGCTTAA
2098218 GATGG-TTTGCTTCACTATTCTCCA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGT
1 GATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGT
2098281 GAAGGCTTAA
65 GAAGGCTTAA
* *** *** *
2098291 GATGGAGTTGCTTCA-TATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATG
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCAC-TATTC-TCA-G
* **
2098354 CTCGGAAGGCTTGCT
63 GT--GAAGGCTT-AA
* * * * *
2098369 GATGGATTTTCTTCACTACTCTTC-GGTGAAGGCTTAA-AATGATTTGCTTCACCATTCTCAAGT
1 GATGGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGT
2098432 GAAGGCTTAA
65 GAAGGCTTAA
* * * *
2098442 GATAGATTTGCTTCACTATTCTC-GGTGAAGGCTTAGGA-TGGTTTGCTTCACTTTTCTCTA-GT
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTC-AGGT
2098504 GAAAGGCTTAA
65 G-AAGGCTTAA
* * *
2098515 GATGG-TTTGCTTCAC--TTCTCCGGTGAAGGCTTAGGA-TG-GTTGCTTCACTATTCTCCA-GT
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CAGGT
2098574 GAAGGCTTAA
65 GAAGGCTTAA
* *
2098584 GATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGA-TG-GTTGCTTCACTACTTC-C-GG
1 GATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTA-TTCTCAGG
2098643 TGAAGGCTTAA
64 TGAAGGCTTAA
* * *
2098654 GAT-GA-TTACTTCACTATTCTCCA-GTGAAAGC-TAAGATTGA-TTACTTCACTACTAT-TCA-
1 GATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTA-T-TCTCAG
*
2098712 GTGAAGG-GTAA
63 GTGAAGGCTTAA
* * * **
2098723 GATGG--TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGATCTGCTTCACTCCTCTGC-GGT
1 GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CAGGT
2098785 GAAGGCTTAA
65 GAAGGCTTAA
*
2098795 GATTGACTTTGCT
1 GATGGA-TTTGCT
2098808 CTAATCTCAT
Statistics
Matches: 1000, Mismatches: 158, Indels: 185
0.74 0.12 0.14
Matches are distributed among these distances:
68 20 0.02
69 107 0.11
70 128 0.13
71 98 0.10
72 126 0.13
73 256 0.26
74 38 0.04
75 10 0.01
76 42 0.04
77 51 0.05
78 55 0.05
79 67 0.07
80 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (74 bp):
GATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTG
AAGGCTTAA
Found at i:2098358 original size:261 final size:258
Alignment explanation
Indices: 2097863--2098797 Score: 1102
Period size: 261 Copynumber: 3.7 Consensus size: 258
2097853 AGATTAATTA
* * *
2097863 CTTCACTACTCTTC-GAGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGGCTTTAA
1 CTTCACTACTCTTCGGTGAAGGCTTAA-AATGATTTGCTTCACTATTCTCA-GTGAAGGC-TTAA
* * * *
2097927 GACGGATTGCTTCACTA--CTTCGGTGAAGGCTTAAGATGGATTG-TTCACTAATCTCTAGTGAA
63 GATGGATTGCTTCACTATTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
*
2097989 GGCTTAAGATTGATTTGCTT--CTATTCTTAGGTGAAGGCTTAAGATGGTTGCTTCACTATTCTC
128 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTGCTTCACTATTCTC
*
2098052 AGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCGTGCTCGGAAGGCTTGCTGATGGATTT
193 AGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTT
2098117 G
258 G
* *
2098118 CTTCACTACTCTTTGGTGAAGACTTAAAATTGA-TTGCTTCACTATTCTCAGGTGAAGGCTTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAAA-TGATTTGCTTCACTATTCTCA-GTGAAGGCTTAAG
* *
2098182 ATGGATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGTGAA
64 ATGGA-TTGCTTCACTATTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
2098247 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAGTTGCTTCA-TATTC
128 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGAT-G-GTTGCTTCACTATTC
2098311 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
191 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
*
2098376 TTT
256 TTG
*
2098379 CTTCACTACTCTTCGGTGAAGGCTTAAAATGATTTGCTTCACCATTCTCAAGTGAAGGCTTAAGA
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATGATTTGCTTCACTATTCTC-AGTGAAGGCTTAAGA
* * * *
2098444 TAGATTTGCTTCACTATTC-TCGGTGAAGGCTTAGGATGGTTTGCTTCACTTTTCTCTAGTGAAA
65 TGGA-TTGCTTCACTATTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTG-AA
* * *
2098508 GGCTTAAGA-TGGTTTGCTTCAC--TTCTCCGGTGAAGGCTTAGGATGGTTGCTTCACTATTCTC
128 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTGCTTCACTATTCT-
* ** * * * **
2098570 CA-GTGAAGGCTTAAGA-TG--GT-TTG-CTTCA-C-T-ATTCTCCAGTAAAGGCTT-AAGATGG
192 CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATGG
2098625 --TTG
254 ATTTG
* * * *
2098628 CTTCACTACT-TCCGGTGAAGGCTTAAGATGA-TTACTTCACTATTCTCCAGTGAAAGC-TAAGA
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATGATTTGCTTCACTATTCT-CAGTGAAGGCTTAAGA
* * * * * * *
2098690 TTGATTACTTCACTACTATTCAGTGAAGG-GTAAGATGG-TTGCTTCACTATTCTCCGGTGAAGG
65 TGGATTGCTTCACTATTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAAGG
* * **
2098753 CTTCAGATTGATCTGCTTCACTCCTCTGC-GGTGAAGGCTTAAGAT
130 CTTAAGATTGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGAT
2098798 TGACTTTGCT
Statistics
Matches: 602, Mismatches: 54, Indels: 57
0.84 0.08 0.08
Matches are distributed among these distances:
243 10 0.02
244 29 0.05
245 18 0.03
246 35 0.06
247 22 0.04
248 20 0.03
249 16 0.03
250 2 0.00
251 7 0.01
252 11 0.02
253 1 0.00
254 10 0.02
255 49 0.08
256 24 0.04
257 44 0.07
258 59 0.10
260 78 0.13
261 157 0.26
262 10 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (258 bp):
CTTCACTACTCTTCGGTGAAGGCTTAAAATGATTTGCTTCACTATTCTCAGTGAAGGCTTAAGAT
GGATTGCTTCACTATTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAAGGC
TTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTGCTTCACTATTCTCAGG
TGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTG
Found at i:2100861 original size:2 final size:2
Alignment explanation
Indices: 2100854--2100920 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
2100844 TTGTATACAC
2100854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2100896 AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2100921 TTGGGTATTC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2103276 original size:21 final size:21
Alignment explanation
Indices: 2103252--2103297 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2103242 CCATGCAAAG
*
2103252 TGGTCTTTATGTCTTTATAAA
1 TGGTCTTCATGTCTTTATAAA
*
2103273 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATAAA
2103294 TGGT
1 TGGT
2103298 ATTCTCGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATAAA
Found at i:2107598 original size:15 final size:15
Alignment explanation
Indices: 2107581--2107636 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
2107571 TAACCGGTTT
*
2107581 CGGTTTTAAAAAAAT
1 CGGTTTTAAAAAAAC
*
2107596 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
2107613 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
2107628 CGATTTTAA
1 CGGTTTTAA
2107637 TATTCCAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.61
17 13 0.39
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:2107609 original size:17 final size:17
Alignment explanation
Indices: 2107584--2107634 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
2107574 CCGGTTTCGG
*
2107584 TTTTAAAAAAATCGGTT
1 TTTTAAAAAAACCGGTT
*
2107601 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
2107616 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
2107633 TT
1 TT
2107635 AATATTCCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 12 0.44
17 15 0.56
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:2108053 original size:13 final size:13
Alignment explanation
Indices: 2108032--2108086 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2108022 AAGTTCGATA
*
2108032 AATTCAAATACTT
1 AATTGAAATACTT
2108045 AATTGAAATACTT
1 AATTGAAATACTT
* *
2108058 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
2108072 AATTGAAATACTT
1 AATTGAAATACTT
2108085 AA
1 AA
2108087 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:2108168 original size:32 final size:33
Alignment explanation
Indices: 2108072--2108170 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2108062 AACTCAACAT
* * *
2108072 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2108105 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2108138 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2108170 A
1 A
2108171 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:2108189 original size:21 final size:21
Alignment explanation
Indices: 2108165--2108204 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2108155 ACTTCAAGTT
2108165 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
2108186 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
2108205 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:2112933 original size:17 final size:15
Alignment explanation
Indices: 2112913--2112955 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
2112903 CATTTTGACC
2112913 TTAAACCCATTAATATT
1 TTAAACCCATT-A-ATT
2112930 TTAAAACCCAATTAATT
1 TT-AAACCC-ATTAATT
2112947 TTAAACCCA
1 TTAAACCCA
2112956 AATAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 6 0.25
17 7 0.29
18 7 0.29
19 3 0.12
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAACCCATTAATT
Found at i:2112954 original size:16 final size:18
Alignment explanation
Indices: 2112913--2112956 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
2112903 CATTTTGACC
2112913 TTAAACCC-ATTAATATT
1 TTAAACCCAATTAATATT
2112930 TTAAAACCCAATT-A-ATT
1 TT-AAACCCAATTAATATT
2112947 TTAAACCCAA
1 TTAAACCCAA
2112957 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 7 0.28
18 7 0.28
19 3 0.12
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAACCCAATTAATATT
Found at i:2117127 original size:22 final size:21
Alignment explanation
Indices: 2117102--2117152 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
2117092 GACCTGACCG
*
2117102 TTGACCAGTGTTGACTTTAAAT
1 TTGACCAG-ATTGACTTTAAAT
* *
2117124 TTGACCAAGATTGACTTTGACT
1 TTGACC-AGATTGACTTTAAAT
2117146 TTGACCA
1 TTGACCA
2117153 AAAGTTGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.88
23 2 0.08
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (21 bp):
TTGACCAGATTGACTTTAAAT
Found at i:2117164 original size:23 final size:23
Alignment explanation
Indices: 2117111--2117164 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
2117101 GTTGACCAGT
*
2117111 GTTGACTTTAAATTTGACCAAGA
1 GTTGACTTTAAATTTGACCAAAA
* *
2117134 -TTGACTTTGACTTTGACCAAAA
1 GTTGACTTTAAATTTGACCAAAA
2117156 GTTGACTTT
1 GTTGACTTT
2117165 TTTCAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (23 bp):
GTTGACTTTAAATTTGACCAAAA
Found at i:2118357 original size:21 final size:19
Alignment explanation
Indices: 2118319--2118357 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
2118309 AAAAAAATAT
*
2118319 AAATATGTATAATTTATAG
1 AAATATGTATAATGTATAG
2118338 AAATATGATACTAATGTATA
1 AAATATG-TA-TAATGTATA
2118358 CCATATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (19 bp):
AAATATGTATAATGTATAG
Found at i:2121451 original size:40 final size:40
Alignment explanation
Indices: 2121396--2121473 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 40
2121386 TGATCACTTT
*
2121396 ACCTAATAATACACCGTAGTGCTGAGGTC-GAGCCTTGCTC
1 ACCTAATAATACACCGTAGTGCTAAGGTCAG-GCCTTGCTC
2121436 ACCTAATAATACACCGTAGTGCTAAGGTCAGGCCTTGC
1 ACCTAATAATACACCGTAGTGCTAAGGTCAGGCCTTGC
2121474 CCCACCCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
ACCTAATAATACACCGTAGTGCTAAGGTCAGGCCTTGCTC
Found at i:2130469 original size:39 final size:39
Alignment explanation
Indices: 2130415--2130491 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
2130405 TCTAATAGCT
* *
2130415 TAATATACAATTTTCCATATGACACAGGAATGATACAAA
1 TAATATACAATTTTCCATATAACACAGGAAGGATACAAA
*
2130454 TAATATACAATTTTCCATATAACATAGGAAGGATACAA
1 TAATATACAATTTTCCATATAACACAGGAAGGATACAA
2130492 TTTTCCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (39 bp):
TAATATACAATTTTCCATATAACACAGGAAGGATACAAA
Found at i:2130498 original size:28 final size:28
Alignment explanation
Indices: 2130458--2130526 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
2130448 TACAAATAAT
2130458 ATACAATTTTCCATATAACATAGGAAGG
1 ATACAATTTTCCATATAACATAGGAAGG
2130486 ATACAATTTTCCATATAACATAGGAAGG
1 ATACAATTTTCCATATAACATAGGAAGG
2130514 ATACAATTTTCCA
1 ATACAATTTTCCA
2130527 CTGCCCCTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (28 bp):
ATACAATTTTCCATATAACATAGGAAGG
Found at i:2132252 original size:14 final size:13
Alignment explanation
Indices: 2132234--2132280 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
2132224 AAAATAAATT
2132234 AATGCAAATGCAA
1 AATGCAAATGCAA
*
2132247 AGATGCAAATGCGA
1 A-ATGCAAATGCAA
* *
2132261 AATACAAATGTAA
1 AATGCAAATGCAA
2132274 AATGCAA
1 AATGCAA
2132281 TGGTGTTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (13 bp):
AATGCAAATGCAA
Found at i:2135026 original size:15 final size:14
Alignment explanation
Indices: 2134990--2135054 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
2134980 AAAGTACAAA
*
2134990 AAATTAAA-CATTGG
1 AAATTAAATGATT-G
2135004 AAATTAAATGATTG
1 AAATTAAATGATTG
* *
2135018 AAATGTAAATGCTAG
1 AAAT-TAAATGATTG
*
2135033 AAATTAAAGGATTG
1 AAATTAAATGATTG
*
2135047 GAATTAAA
1 AAATTAAA
2135055 ATTTAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
14 27 0.64
15 15 0.36
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (14 bp):
AAATTAAATGATTG
Found at i:2135094 original size:30 final size:29
Alignment explanation
Indices: 2135004--2135095 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
2134994 TAAACATTGG
* * * *
2135004 AAATTAAATGATTGAAATGTAAATGCTAG
1 AAATTAAAGGATTGAAATGTAAATACAAA
*
2135033 AAATTAAAGGATTGGAAT-TAAAATTTA-AAA
1 AAATTAAAGGATTGAAATGT-AAA--TACAAA
*
2135063 AAATTAAAGGGTTGAAATGTAAATAACAAA
1 AAATTAAAGGATTGAAATGTAAAT-ACAAA
2135093 AAA
1 AAA
2135096 CAAGCGATCG
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
28 2 0.04
29 20 0.40
30 26 0.52
31 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.15, T:0.27
Consensus pattern (29 bp):
AAATTAAAGGATTGAAATGTAAATACAAA
Found at i:2136836 original size:20 final size:20
Alignment explanation
Indices: 2136807--2136860 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2136797 TTTCAAAGGG
*
2136807 ATGCACCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
2136827 ATGCATCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
*
2136847 ATGTATCGATGCAC
1 ATGCATCGATGCAC
2136861 TCAGGCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (20 bp):
ATGCATCGATGCACCAATCC
Found at i:2142607 original size:24 final size:23
Alignment explanation
Indices: 2142575--2142680 Score: 128
Period size: 24 Copynumber: 4.6 Consensus size: 23
2142565 ACACTTAACA
2142575 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA-CCCTTTGAAT
2142599 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA-CCCTTTGAAT
* * *
2142623 GTGCATCGAT--ACACTATGAAG
1 GTGCATCGATGCACCCTTTGAAT
*
2142644 GTGCACCGATGCACGCC-TTGAAT
1 GTGCATCGATGCAC-CCTTTGAAT
2142667 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2142681 AAGGCCATGC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
21 16 0.23
22 1 0.01
23 19 0.27
24 35 0.49
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCACCCTTTGAAT
Found at i:2145351 original size:20 final size:20
Alignment explanation
Indices: 2145322--2145359 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2145312 TTTCAAAGGG
2145322 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
2145342 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
2145360 GAATAAATTG
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:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:2145501 original size:45 final size:46
Alignment explanation
Indices: 2145405--2145511 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 46
2145395 ATGCACATAC
* * * * *
2145405 CATGCATCGATGCACTGAGGGTTTTATGAAAACATCGAATGTATTT
1 CATGCATCGATGCACTCAGGCTTTTATGAAAACATCAAATGCACTT
*
2145451 GATGCATCGATGCACTCAGGCTATTT-TG-AAACATCAAATGCACTT
1 CATGCATCGATGCACTCAGGCT-TTTATGAAAACATCAAATGCACTT
2145496 CATGCATCGATGCACT
1 CATGCATCGATGCACT
2145512 GTTAGTGCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 29 0.55
46 21 0.40
47 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGCTTTTATGAAAACATCAAATGCACTT
Found at i:2147004 original size:26 final size:26
Alignment explanation
Indices: 2146974--2147023 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2146964 AAGTGCCAAT
*
2146974 ACACATGAGGTCGTGCCCACCATAAA
1 ACACATAAGGTCGTGCCCACCATAAA
2147000 ACACATAAGGTCGTGCCCACCATA
1 ACACATAAGGTCGTGCCCACCATA
2147024 TGCACTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (26 bp):
ACACATAAGGTCGTGCCCACCATAAA
Found at i:2147077 original size:61 final size:61
Alignment explanation
Indices: 2147000--2147120 Score: 188
Period size: 61 Copynumber: 2.0 Consensus size: 61
2146990 CCACCATAAA
* * * *
2147000 ACACATAAGGTCGTGCCCACCATATGCACTAAGTGTCTTTTATATACACTATAGTTCTAAT
1 ACACATAAGGTAGTGCCCACCATATGCACTAAGTGCCCTTTATATACACTATAGTACTAAT
**
2147061 ACACATAAGGTAGTGCCCACCATATGCACTAAGTGCCCTTTATATGTACTATAGTACTAA
1 ACACATAAGGTAGTGCCCACCATATGCACTAAGTGCCCTTTATATACACTATAGTACTAA
2147121 ATTAAATATG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (61 bp):
ACACATAAGGTAGTGCCCACCATATGCACTAAGTGCCCTTTATATACACTATAGTACTAAT
Found at i:2149242 original size:18 final size:18
Alignment explanation
Indices: 2149219--2149277 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
2149209 GAGAGTACCT
2149219 ATACCCCCAGGGGTATCC
1 ATACCCCCAGGGGTATCC
*
2149237 ATA--CCCA-GGGTA-CG
1 ATACCCCCAGGGGTATCC
*
2149251 ATACCCCCCAGGGATATCC
1 ATA-CCCCCAGGGGTATCC
2149270 ATACCCCC
1 ATACCCCC
2149278 TGACTGCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 4 0.12
15 5 0.15
16 4 0.12
17 4 0.12
18 12 0.36
19 4 0.12
ACGTcount: A:0.25, C:0.41, G:0.19, T:0.15
Consensus pattern (18 bp):
ATACCCCCAGGGGTATCC
Found at i:2149262 original size:17 final size:19
Alignment explanation
Indices: 2149222--2149277 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
2149212 AGTACCTATA
*
2149222 CCCCCAGGGGTATCCATA-
1 CCCCCAGGGATATCCATAC
*
2149240 --CCCAGGG-TA-CGATAC
1 CCCCCAGGGATATCCATAC
2149255 CCCCCAGGGATATCCATAC
1 CCCCCAGGGATATCCATAC
2149274 CCCC
1 CCCC
2149278 TGACTGCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.13
15 2 0.06
16 7 0.23
17 7 0.23
18 2 0.06
19 9 0.29
ACGTcount: A:0.23, C:0.43, G:0.20, T:0.14
Consensus pattern (19 bp):
CCCCCAGGGATATCCATAC
Found at i:2149347 original size:21 final size:21
Alignment explanation
Indices: 2149308--2149349 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2149298 ATTTGAATTT
* *
2149308 TATGAAGGAGTATCGATACCC
1 TATGAAGGAGTACCAATACCC
*
2149329 TATGAAGGGGTACCAATACCC
1 TATGAAGGAGTACCAATACCC
2149350 CTTATCGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (21 bp):
TATGAAGGAGTACCAATACCC
Found at i:2149409 original size:21 final size:21
Alignment explanation
Indices: 2149378--2149417 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2149368 TTTTAGCATA
*
2149378 AAAATCATCCCTAAATGGCTCC
1 AAAATCATCCC-AAACGGCTCC
2149400 AAAAT-ATCCCAAACGGCT
1 AAAATCATCCCAAACGGCT
2149418 ATATACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:2150569 original size:19 final size:20
Alignment explanation
Indices: 2150545--2150592 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2150535 AATGATTTTC
*
2150545 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
2150564 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
2150584 TTTTGAAAA
1 TTTTGAAAA
2150593 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:2152019 original size:22 final size:21
Alignment explanation
Indices: 2151962--2152020 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
2151952 AAATGTTATA
2151962 GGGTA-CCGATACCCCCTGCAG
1 GGGTATCC-ATACCCCCTGCAG
*
2151983 GGGTATCCATACCCCCTGCAT
1 GGGTATCCATACCCCCTGCAG
2152004 GGGTATCCATACCCCCT
1 GGGTATCCATACCCCCT
2152021 TAAGGCTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 34 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.39, G:0.22, T:0.20
Consensus pattern (21 bp):
GGGTATCCATACCCCCTGCAG
Found at i:2152139 original size:21 final size:21
Alignment explanation
Indices: 2152113--2152154 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2152103 AATTTGAATT
*
2152113 TTATGAAGGAGTACTGATACC
1 TTATGAAGGAGTACCGATACC
*
2152134 TTATGAAGGGGTACCGATACC
1 TTATGAAGGAGTACCGATACC
2152155 CCCTATCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
TTATGAAGGAGTACCGATACC
Found at i:2155812 original size:26 final size:26
Alignment explanation
Indices: 2155776--2155826 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2155766 CTGAAGTGTC
*
2155776 AATACACATAAGGTCGTGCCCACCAT
1 AATACAAATAAGGTCGTGCCCACCAT
*
2155802 AATACAAATAAGGTTGTGCCCACCA
1 AATACAAATAAGGTCGTGCCCACCA
2155827 AAGTGTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (26 bp):
AATACAAATAAGGTCGTGCCCACCAT
Found at i:2157663 original size:18 final size:18
Alignment explanation
Indices: 2157635--2157672 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2157625 AATGTAGGTA
2157635 TTTAAGGATTTGGGT-TT
1 TTTAAGGATTTGGGTGTT
2157652 TTTAATGGATTTGGGTGTT
1 TTTAA-GGATTTGGGTGTT
2157671 TT
1 TT
2157673 CTGGTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (18 bp):
TTTAAGGATTTGGGTGTT
Found at i:2162691 original size:60 final size:60
Alignment explanation
Indices: 2162611--2162726 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
2162601 ATGGTCCTAT
* * * * * *
2162611 GACTATAGAGTGTTGGTTTGTTAAGTCTCTCGACTATTAAAATTTACAAAATGGTCCCTG
1 GACTATAGAGTGTTGCTTTGTTAACTCTCCCGACTAGTAAAAGTTAAAAAATGGTCCCTG
* * *
2162671 GACTATATAGTGTTGCTTTGTTGACTCTCCCGCCTAGTAAAAGTTAAAAAATGGTC
1 GACTATAGAGTGTTGCTTTGTTAACTCTCCCGACTAGTAAAAGTTAAAAAATGGTC
2162727 ACTCGATTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (60 bp):
GACTATAGAGTGTTGCTTTGTTAACTCTCCCGACTAGTAAAAGTTAAAAAATGGTCCCTG
Found at i:2163153 original size:2 final size:2
Alignment explanation
Indices: 2163146--2163204 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
2163136 CATTTGTTGA
2163146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2163188 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
2163205 CAGAGGTAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2172345 original size:23 final size:23
Alignment explanation
Indices: 2172303--2172368 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
2172293 TATATTAAAC
2172303 AAATATAATAA-ATTACATTTT-TA
1 AAATA-AATAATATTA-ATTTTATA
*
2172326 AAATAATTAAATATTAATTTTATA
1 AAATAAAT-AATATTAATTTTATA
2172350 AAATAAATAATATTTAATT
1 AAATAAATAATA-TTAATT
2172369 ATATTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 2 0.05
23 16 0.43
24 19 0.51
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAAATAATATTAATTTTATA
Found at i:2172865 original size:12 final size:12
Alignment explanation
Indices: 2172844--2172886 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2172834 TATATGTAGG
*
2172844 GAGAGGGGGAGA
1 GAGAGAGGGAGA
*
2172856 GAGAGAGGGAGG
1 GAGAGAGGGAGA
*
2172868 GACAGAGGGAGA
1 GAGAGAGGGAGA
*
2172880 GAAAGAG
1 GAGAGAG
2172887 AGAGGATCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.58, T:0.00
Consensus pattern (12 bp):
GAGAGAGGGAGA
Found at i:2172877 original size:24 final size:24
Alignment explanation
Indices: 2172841--2172891 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2172831 ATATATATGT
* * * *
2172841 AGGGAGAGGGGGAGAGAGAGAGGG
1 AGGGACAGAGGGAGAGAAAGAGAG
2172865 AGGGACAGAGGGAGAGAAAGAGAG
1 AGGGACAGAGGGAGAGAAAGAGAG
2172889 AGG
1 AGG
2172892 ATCCACTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (24 bp):
AGGGACAGAGGGAGAGAAAGAGAG
Found at i:2173254 original size:20 final size:21
Alignment explanation
Indices: 2173231--2173279 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
2173221 ATTGGACACG
* *
2173231 CACACACCCAC-CCAGACCCC
1 CACACACACACACCACACCCC
2173251 CACAC-CACACACCACACCCC
1 CACACACACACACCACACCCC
2173271 CAC-CACACA
1 CACACACACA
2173280 TACATGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.35, C:0.63, G:0.02, T:0.00
Consensus pattern (21 bp):
CACACACACACACCACACCCC
Found at i:2173262 original size:111 final size:111
Alignment explanation
Indices: 2173042--2173262 Score: 295
Period size: 111 Copynumber: 2.0 Consensus size: 111
2173032 CTGTGTTAAT
2173042 CTCGACCTTTAATTTCTCGCATCCAATAGTCCTAAAAAGGTGTAAATTAAAAGAGTTTTACACGG
1 CTCGACCTTTAATTTCTCGCATCCAATAGTCCTAAAAAGGTGTAAATTAAAAGAGTTTTACACGG
* * ** * *
2173107 TGTAATTGGACACATACACACGCATGCACGCACGCACCCCCACACA
66 TGTAATTGGACACACACACACCCACCCACGCACCCACCCACACACA
* * *
2173153 CTCGGCCTTTAATTTCTCTCATCCAATGGTCCTAAAAAGGTGTAAAATTAAAAGAG-TTTACACG
1 CTCGACCTTTAATTTCTCGCATCCAATAGTCCTAAAAAGGTGT-AAATTAAAAGAGTTTTACACG
* *
2173217 GT-TAATTGGACACGCACACACCCACCCA-GACCCCCACACCACACAC
65 GTGTAATTGGACACACACACACCCACCCACG-CACCCAC-CCACACAC
2173263 CACACCCCCA
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
109 1 0.01
110 26 0.27
111 57 0.59
112 12 0.12
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (111 bp):
CTCGACCTTTAATTTCTCGCATCCAATAGTCCTAAAAAGGTGTAAATTAAAAGAGTTTTACACGG
TGTAATTGGACACACACACACCCACCCACGCACCCACCCACACACA
Found at i:2174693 original size:21 final size:20
Alignment explanation
Indices: 2174662--2174716 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
2174652 TCAAAATGCA
* *
2174662 TAAAATAAAATAACA-TTAGC
1 TAAATTAAAATAACAGTGA-C
2174682 TAAATTAGAAATAAACAGTGAC
1 TAAATTA-AAAT-AACAGTGAC
2174704 TAAATTAAAATAA
1 TAAATTAAAATAA
2174717 AATAAACTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 8 0.27
21 8 0.27
22 12 0.40
23 2 0.07
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.25
Consensus pattern (20 bp):
TAAATTAAAATAACAGTGAC
Found at i:2176357 original size:58 final size:57
Alignment explanation
Indices: 2176196--2176435 Score: 243
Period size: 58 Copynumber: 4.1 Consensus size: 57
2176186 TATCTATTGG
* * * * *
2176196 AAATGTT-AGTCCTCGAGTGAGGCATTGCTGATTCGAAATGTCGTGAATCGAGCAAAGA
1 AAATGTTGA-TCCTC-AATGAGGCGTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGA
* * * *
2176254 AAATATTGATCCATCAAATGAGGCGTTGCTGATTTGAAGTGTTGTGAATCGAGC-AAGG
1 AAATGTTGATCC-TC-AATGAGGCGTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGA
* * * *
2176312 AAATGTTGATCTCTCAATTGAGGTGTTGTTGATTCAAAGTATTGTGAATTGAGCAAAGA
1 AAATGTTGATC-CTCAA-TGAGGCGTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGA
* * *
2176371 AAATG-TGATCCCTCAAGGAAGACGTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGG
1 AAATGTTGAT-CCTCAATG-AGGCGTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGA
2176429 AAATGTT
1 AAATGTT
2176436 AACCCCTCAA
Statistics
Matches: 151, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
57 3 0.02
58 101 0.67
59 47 0.31
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (57 bp):
AAATGTTGATCCTCAATGAGGCGTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGA
Found at i:2176445 original size:117 final size:117
Alignment explanation
Indices: 2176238--2176450 Score: 295
Period size: 117 Copynumber: 1.8 Consensus size: 117
2176228 TCGAAATGTC
* * * *
2176238 GTGAATCGAGCAAAGAAAATATTGATCCATCAAATGAGGCGTTGCTGATTTGAAGTGTTGTGAAT
1 GTGAATCGAGCAAAGAAAATAGTGATCCATCAAAGGAGACGTTGCTGATTCGAAGTGTTGTGAAT
* * * *
2176303 CGAGCAAGGAAATGTTGATCTCTCAATTGAGGTGTTGTTGATTCAAAGTATT
66 CGAGCAAGGAAATGTTAACCCCTCAAGTGAGGTGTTGTTGATTCAAAGTATT
* * *
2176355 GTGAATTGAGCAAAGAAAAT-GTGATCCCTC-AAGGAAGACGTTGTTGATTCGAAGTGTTGTGAA
1 GTGAATCGAGCAAAGAAAATAGTGATCCATCAAAGG-AGACGTTGCTGATTCGAAGTGTTGTGAA
2176418 TCGAGCAAAGGAAATGTTAACCCCTCAAGTGAG
65 TCGAGC-AAGGAAATGTTAACCCCTCAAGTGAG
2176451 ACGTAGTTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
115 3 0.04
116 39 0.47
117 41 0.49
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (117 bp):
GTGAATCGAGCAAAGAAAATAGTGATCCATCAAAGGAGACGTTGCTGATTCGAAGTGTTGTGAAT
CGAGCAAGGAAATGTTAACCCCTCAAGTGAGGTGTTGTTGATTCAAAGTATT
Found at i:2177692 original size:36 final size:36
Alignment explanation
Indices: 2177595--2178063 Score: 219
Period size: 36 Copynumber: 13.0 Consensus size: 36
2177585 TTCAACAAGT
*
2177595 TTGTTTTAAGAAAAACAATCTCAAGTTAGATAAATC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATC
* * * *
2177631 TTCTGTTTCAAGTGAAAACTATCTCAAGAGAGATAAATC
1 -T-TGTTTTAAG-AAAAACAATCTCAAGTGAGATAAATC
2177670 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATC
* * ** * * *
2177706 TTCTGTTTGAGTGAAACTATCTCAAGCGAGATGAATC
1 TTGT-TTTAAGAAAAACAATCTCAAGTGAGATAAATC
* *
2177743 TTGTTTAAAGAAAAACAATCTCAAGTGAGCTAAATC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATC
* ** ** * * *
2177779 TTATGTTCGAGTGAAACTATCT-AAATCTAGATAAAATC
1 TTGT-TTTAAGAAAAACAATCTCAAGT-GAGAT-AAATC
** * * *
2177817 TTCTGTTTCGAGTAAAACTATCTCAAGCGAGATAAAATC
1 -T-TGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATC
** * * ** *
2177856 TCCTATTT-----CAACTATCTCAACCGAGATTAATC
1 TTGT-TTTAAGAAAAACAATCTCAAGTGAGATAAATC
2177888 -TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-C
** ** * **
2177924 TCTGTTTCGAGTGAAACTATCTCAAGCAAGATAAAATC
1 T-TGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATC
* ** ** * *
2177962 TT-TGTTCGGTGAAACTATCTCAAGCGAGATAAATC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATC
* * * **
2177997 TTCTGTTT-CG----ACTATCTCAACCGAGATTAAA-C
1 TTGT-TTTAAGAAAAACAATCTCAAGTGAGA-TAAATC
2178029 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
2178064 TTCTGTATTA
Statistics
Matches: 332, Mismatches: 72, Indels: 57
0.72 0.16 0.12
Matches are distributed among these distances:
30 3 0.01
31 4 0.01
32 24 0.07
33 21 0.06
35 29 0.09
36 95 0.29
37 57 0.17
38 42 0.13
39 53 0.16
40 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (36 bp):
TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATC
Found at i:2177764 original size:73 final size:73
Alignment explanation
Indices: 2177595--2178069 Score: 483
Period size: 73 Copynumber: 6.6 Consensus size: 73
2177585 TTCAACAAGT
* * *
2177595 TTGTTTTAAGAAAAACAATCTCAAGTTAGATAAATCTTCTGTTTCAAGTGAAAACTATCTCAAGA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTT-GAGTG-AAACTATCTCAAGC
2177660 GAGATAAATC
64 GAGATAAATC
2177670 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTGAGTGAAACTATCTCAAGCGA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTGAGTGAAACTATCTCAAGCGA
*
2177735 GATGAATC
66 GATAAATC
* * * * * * *
2177743 TTGTTTAAAGAAAAACAATCTCAAGTGAGCTAAATCTTATGTTCGAGTGAAACTATCTAAATCTA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTGAGTGAAACTATCTCAAGCGA
2177808 GATAAAATC
66 GAT-AAATC
** * * * * * * *
2177817 TTCTGTTTCGAGTAAAACTATCTCAAGCGAGATAAAATCTCCT-ATT---T-CAACTATCTCAAC
1 -T-TGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATCTTCTGTTTGAGTGAAACTATCTCAAG
*
2177877 CGAGATTAATC
63 CGAGATAAATC
* *
2177888 -TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCCTCTGTTTCGAGTGAAACTATCTCAAGCA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTT-GAGTGAAACTATCTCAAGCG
2177952 AGATAAAATC
65 AGAT-AAATC
* ** ** * * * *
2177962 TT-TGTTCGGTGAAACTATCTCAAGCGAGATAAATCTTCTGTTT---CG--ACTATCTCAACCGA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTGAGTGAAACTATCTCAAGCGA
2178021 GATTAAA-C
66 GA-TAAATC
2178029 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGT
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGT
2178070 ATTAAATGAG
Statistics
Matches: 329, Mismatches: 57, Indels: 36
0.78 0.14 0.09
Matches are distributed among these distances:
67 16 0.05
68 69 0.21
69 1 0.00
70 1 0.00
71 4 0.01
72 16 0.05
73 100 0.30
74 45 0.14
75 45 0.14
76 25 0.08
77 7 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (73 bp):
TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTGAGTGAAACTATCTCAAGCGA
GATAAATC
Found at i:2181377 original size:13 final size:13
Alignment explanation
Indices: 2181361--2181397 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2181351 GCGCAATGAG
2181361 CGTCATAAATGCA
1 CGTCATAAATGCA
*
2181374 CGTCATAAATGCG
1 CGTCATAAATGCA
*
2181387 TGTCATAAATG
1 CGTCATAAATG
2181398 TGCGTCGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCA
Found at i:2181731 original size:32 final size:33
Alignment explanation
Indices: 2181682--2181743 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
2181672 TTAAAAATTT
*
2181682 AGGTACTAAAAATGAAACAAAAAGTTAACAATG
1 AGGTACTAAAAATGAAACAAAAAGTAAACAATG
2181715 AGGTACT-AAAATGAAACAAAAAGTAAACA
1 AGGTACTAAAAATGAAACAAAAAGTAAACA
2181744 TTAGGTATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.16
Consensus pattern (33 bp):
AGGTACTAAAAATGAAACAAAAAGTAAACAATG
Found at i:2181995 original size:2 final size:2
Alignment explanation
Indices: 2181988--2182032 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2181978 AGATAAAATA
2181988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2182030 AT A
1 AT A
2182033 ATTCTTAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2191372 original size:46 final size:45
Alignment explanation
Indices: 2191180--2191435 Score: 326
Period size: 46 Copynumber: 5.8 Consensus size: 45
2191170 ATAAAGTGGC
* * *
2191180 AAATAAGCTAACGAGCTTATG-GAATAATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAATGGTAAGTATATTGGTA
* *
2191224 AAATAAGCTTACGAGC-TATAAGATTAATAGTAAGTATATTGGT-
1 AAATAAGCTTACGAGCTTATGAGATTAATGGTAAGTATATTGGTA
*
2191267 AAA-AAGCTTACGAGCTTATGATATTAATGGTAA--ATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAATGGTAAGTATATTGGTA
*
2191309 AAAAAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATT-AATGGTAAGTATATTGGTA
** *
2191355 AAATAAGCTTAAAAGCTTATGACATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATT-AATGGTAAGTATATTGGTA
* * * *
2191401 AAATAAGCTTCCGAGCTTATGGGATAAATGATAAG
1 AAATAAGCTTACGAGCTTATGAGATTAATGGTAAG
2191436 AGATTTATCT
Statistics
Matches: 185, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
41 8 0.04
42 15 0.08
43 41 0.22
44 42 0.23
45 8 0.04
46 71 0.38
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGAGATTAATGGTAAGTATATTGGTA
Found at i:2192622 original size:14 final size:14
Alignment explanation
Indices: 2192603--2192650 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
2192593 CATTGTTGAT
2192603 TTGAGTAAGAGAAA
1 TTGAGTAAGAGAAA
*
2192617 TTGAGTAAGCG---
1 TTGAGTAAGAGAAA
*
2192628 GTGAGTAAGAGAAA
1 TTGAGTAAGAGAAA
2192642 TTGAGTAAG
1 TTGAGTAAG
2192651 CGGTAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 9 0.33
14 18 0.67
ACGTcount: A:0.42, C:0.02, G:0.33, T:0.23
Consensus pattern (14 bp):
TTGAGTAAGAGAAA
Found at i:2192632 original size:25 final size:25
Alignment explanation
Indices: 2192604--2192654 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2192594 ATTGTTGATT
2192604 TGAGTAAGAGAAATTGAGTAAGCGG
1 TGAGTAAGAGAAATTGAGTAAGCGG
2192629 TGAGTAAGAGAAATTGAGTAAGCGG
1 TGAGTAAGAGAAATTGAGTAAGCGG
2192654 T
1 T
2192655 AAATATGATT
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:0.39, C:0.04, G:0.35, T:0.22
Consensus pattern (25 bp):
TGAGTAAGAGAAATTGAGTAAGCGG
Found at i:2194256 original size:6 final size:6
Alignment explanation
Indices: 2194227--2194305 Score: 126
Period size: 6 Copynumber: 13.5 Consensus size: 6
2194217 TATATAAGAA
* *
2194227 AAAAAG AAACAG AAAAA- AAGAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
2194274 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
2194306 GAAAAAAATG
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
5 9 0.13
6 58 0.87
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2194313 original size:12 final size:11
Alignment explanation
Indices: 2194226--2194313 Score: 90
Period size: 12 Copynumber: 7.6 Consensus size: 11
2194216 TTATATAAGA
2194226 AAAAAAGAAACAG
1 AAAAAA-AAA-AG
*
2194239 AAAAAAAGAAG
1 AAAAAAAAAAG
2194250 AAAAAGAAAAAG
1 AAAAA-AAAAAG
2194262 AAAAAGAAAAAG
1 AAAAA-AAAAAG
2194274 AAAAAGAAAAAG
1 AAAAA-AAAAAG
2194286 AAAAAGAAAAAG
1 AAAAA-AAAAAG
*
2194298 --AAAAGAAAG
1 AAAAAAAAAAG
2194307 AAAAAAA
1 AAAAAAA
2194314 TGAGACTAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
9 5 0.07
10 3 0.04
11 11 0.16
12 43 0.63
13 6 0.09
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:2198356 original size:46 final size:46
Alignment explanation
Indices: 2198260--2198520 Score: 370
Period size: 46 Copynumber: 5.8 Consensus size: 46
2198250 ATAAAGTGGC
* * *
2198260 AAATAAGCTAACGAGCTTATG-GAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
*
2198304 AAATAAGCTTACGAGCTTATGAGATTAAATAGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
* *
2198350 AAATAAGCTTACGAGCTTATGATATTAAATGGTAAATATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
*
2198396 AAAAAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
* *
2198442 AAATAA-CTTA-AAGCTTATGATATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
* * * *
2198486 TAATAAGCTTCCGAGCTTATGGGA-TAAATGATAAG
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAG
2198521 AGATTTTATC
Statistics
Matches: 194, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
44 57 0.29
45 20 0.10
46 117 0.60
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
Found at i:2198505 original size:90 final size:92
Alignment explanation
Indices: 2198260--2198520 Score: 372
Period size: 90 Copynumber: 2.9 Consensus size: 92
2198250 ATAAAGTGGC
* * *
2198260 AAATAAGCTAACGAGCTTATGGA-A-T-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTT
1 AAATAAGCTTACAAGCTTAT-GATATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTT
*
2198322 ATGAGATTAAATAGTAAGTATATTGGTA
65 ATGAGATTAAATGGTAAGTATATTGGTA
* * *
2198350 AAATAAGCTTACGAGCTTATGATATTAAATGGTAAATATATTGGTAAAAAAAGCTTACGAGCTTA
1 AAATAAGCTTACAAGCTTATGATATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
2198415 TGAGATTAAATGGTAAGTATATTGGTA
66 TGAGATTAAATGGTAAGTATATTGGTA
* *
2198442 AAATAA-CTTA-AAGCTTATGATATTAAATGGTAAGTATATTGGTATAATAAGCTTCCGAGCTTA
1 AAATAAGCTTACAAGCTTATGATATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
* *
2198505 TGGGA-TAAATGATAAG
66 TGAGATTAAATGGTAAG
2198521 AGATTTTATC
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
89 12 0.08
90 72 0.46
91 5 0.03
92 67 0.43
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (92 bp):
AAATAAGCTTACAAGCTTATGATATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
TGAGATTAAATGGTAAGTATATTGGTA
Found at i:2201560 original size:20 final size:20
Alignment explanation
Indices: 2201519--2201562 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2201509 AGAAAATGTC
* *
2201519 TTTTAATATATATTAGATAA
1 TTTTAATATATATTAAAGAA
*
2201539 TTTTAATATATTTTAAAGAA
1 TTTTAATATATATTAAAGAA
2201559 TTTT
1 TTTT
2201563 TTGGATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTAATATATATTAAAGAA
Found at i:2203370 original size:126 final size:124
Alignment explanation
Indices: 2203146--2203395 Score: 319
Period size: 126 Copynumber: 2.0 Consensus size: 124
2203136 AGGAGCATAG
*
2203146 GTACTGTAGAACACAACATCTCTATACTAGTAATTAGGAATACATCACACCATCATCACATACGT
1 GTACTGTAGAACACAACATCTCTATACTAGTAATCAGGAATACATCACACCATCATCACATACGT
* *
2203211 GTAGGCACCAATACCACATACATGCCATAAAATGTATCCCATG-TCACATATAATGCACAA
66 GCAAGCACCAATACCACATACATGCCATAAAATGTAT--CATGCTCACATATAATGCACAA
* * * *
2203271 GTACTGTAGAACACAATATCAATGTAT-CTA-TAAATCAGGAATACAT-AGTACCATCATTACAT
1 GTACTGTAGAACACAACATC--TCTATACTAGT-AATCAGGAATACATCA-CACCATCATCACAT
* * *
2203333 ACGTGCAAGCACTAATATCACATACGTGCCATAAAATGTATCATGTCTCACATATAATGCACA
62 ACGTGCAAGCACCAATACCACATACATGCCATAAAATGTATCATG-CTCACATATAATGCACA
2203396 TGTAGTGCCA
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
124 4 0.04
125 21 0.19
126 80 0.73
127 4 0.04
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (124 bp):
GTACTGTAGAACACAACATCTCTATACTAGTAATCAGGAATACATCACACCATCATCACATACGT
GCAAGCACCAATACCACATACATGCCATAAAATGTATCATGCTCACATATAATGCACAA
Found at i:2204553 original size:21 final size:21
Alignment explanation
Indices: 2204527--2204580 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
2204517 TTATGAGGAG
*
2204527 AGTATCGATACTCCATCAAGA
1 AGTATCAATACTCCATCAAGA
2204548 AGTATCAATACTCCATCAAGA
1 AGTATCAATACTCCATCAAGA
2204569 AGTATCAATACT
1 AGTATCAATACT
2204581 ACTAATGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (21 bp):
AGTATCAATACTCCATCAAGA
Found at i:2204631 original size:21 final size:20
Alignment explanation
Indices: 2204592--2204631 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2204582 CTAATGTGAC
*
2204592 ATCGATACTCGGGAGCCAGT
1 ATCGATACTCGGGACCCAGT
2204612 ATCGATACTCGGGGACCCAG
1 ATCGATACTC-GGGACCCAG
2204632 ATTGGATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (20 bp):
ATCGATACTCGGGACCCAGT
Found at i:2207049 original size:15 final size:15
Alignment explanation
Indices: 2207029--2207174 Score: 179
Period size: 15 Copynumber: 9.5 Consensus size: 15
2207019 TAATAAGGTT
2207029 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2207044 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2207059 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2207074 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
2207089 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
2207104 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
2207119 AATTATTATAAATATGGA
1 ATTTATTTTAAA-AT--A
2207137 TTGATTTA-TTTAAAATA
1 ---ATTTATTTTAAAATA
2207154 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
2207168 ATTTATT
1 ATTTATT
2207175 AGTATGAATT
Statistics
Matches: 116, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
14 17 0.15
15 84 0.72
16 2 0.02
17 1 0.01
18 1 0.01
19 2 0.02
20 5 0.04
21 4 0.03
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2207086 original size:45 final size:45
Alignment explanation
Indices: 2207029--2207200 Score: 195
Period size: 45 Copynumber: 3.7 Consensus size: 45
2207019 TAATAAGGTT
*
2207029 ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
* *
2207074 ATTTATTATAAAATAATTTATTATAAAATAATTTACTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
*
2207119 AATTATTATAAATATGGATTGATTTA-TTTAAAATAATTTATTTT-AAATA
1 ATTTATTATAAA-AT--A---ATTTATTTTAAAATAATTTATTTTAAAATA
* *
2207168 ATTTATTAGTATGAATTGATTTATTTTAAAATA
1 ATTTATTA-TA--AAATAATTTATTTTAAAATA
2207201 TGGATTGATT
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
45 53 0.49
46 7 0.06
47 9 0.08
48 1 0.01
49 12 0.11
50 18 0.17
51 6 0.06
52 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (45 bp):
ATTTATTATAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
Found at i:2207195 original size:32 final size:32
Alignment explanation
Indices: 2207154--2207524 Score: 213
Period size: 32 Copynumber: 12.4 Consensus size: 32
2207144 ATTTAAAATA
*
2207154 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2207186 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2207208 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2207240 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2207262 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
2207294 ATTTATTTTAAAT-ATGGATT-G-ATTTATT-
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * * * * *
2207322 ATTGTAGTTGTATGGATTGATTTATTTTA-AAT-AATTT
1 ATT-TA-TT-T-T-AAATAATTTA--TTAGTATGGATTG
* * * * * *
2207359 ATTACTATGTATTGATTTATTT-TAAAATATGAATTG
1 ATT--TAT-T-TTAAATAATTTAT-TAGTATGGATTG
2207395 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2207427 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2207449 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
2207481 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2207513 ATTTATTTTAAA
1 ATTTATTTTAAA
2207525 ATATGGATTG
Statistics
Matches: 269, Mismatches: 23, Indels: 94
0.70 0.06 0.24
Matches are distributed among these distances:
22 41 0.15
23 12 0.04
25 3 0.01
26 9 0.03
28 12 0.04
29 10 0.04
30 3 0.01
31 18 0.07
32 116 0.43
33 5 0.02
34 7 0.03
35 2 0.01
36 20 0.07
37 7 0.03
38 4 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:2207202 original size:22 final size:22
Alignment explanation
Indices: 2207177--2207219 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2207167 AATTTATTAG
2207177 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
2207199 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2207220 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Done.