Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 57 of 345
Found at i:15983732 original size:21 final size:21
Alignment explanation
Indices: 15983708--15983764 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
15983698 GTATCTTTTG
15983708 TAAATTTTAT-TTTATATTCTA
1 TAAATTTTATATTTAT-TTCTA
15983729 TAAATTTATATATTT-TTTCTA
1 TAAATTT-TATATTTATTTCTA
15983750 T--ATTTTATATTTATT
1 TAAATTTTATATTTATT
15983765 CTGTATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 7 0.21
19 6 0.18
21 13 0.39
22 4 0.12
23 3 0.09
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TAAATTTTATATTTATTTCTA
Found at i:15983760 original size:18 final size:18
Alignment explanation
Indices: 15983711--15983783 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
15983701 TCTTTTGTAA
*
15983711 ATTTTATTTTATATTCTAT
1 ATTTTATATT-TATTCTAT
*
15983730 AAATTTATATATTTTTTCTAT
1 --ATTT-TATATTTATTCTAT
*
15983751 ATTTTATATTTATTCTGT
1 ATTTTATATTTATTCTAT
*
15983769 ATTTTTATATATATT
1 A-TTTTATATTTATT
15983784 TTTCTATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 13 0.29
19 16 0.36
21 11 0.24
22 5 0.11
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (18 bp):
ATTTTATATTTATTCTAT
Found at i:15983776 original size:19 final size:19
Alignment explanation
Indices: 15983712--15983783 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
15983702 CTTTTGTAAA
*
15983712 TTTTATTTTATATTCTATAAAT
1 TTTTATATT-TATTCTAT--AT
* *
15983734 TTATATATTTTTTCTATA-
1 TTTTATATTTATTCTATAT
*
15983752 TTTTATATTTATTCTGTAT
1 TTTTATATTTATTCTATAT
*
15983771 TTTTATATATATT
1 TTTTATATTTATT
15983784 TTTCTATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 15 0.36
19 13 0.31
21 7 0.17
22 7 0.17
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTATATTTATTCTATAT
Found at i:15983793 original size:20 final size:20
Alignment explanation
Indices: 15983733--15983793 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
15983723 ATTCTATAAA
15983733 TTTATATAT-TTTTTCTATAT
1 TTTATATATATTTTTCTAT-T
* * *
15983753 TTTATATTTA-TTCTGTATT
1 TTTATATATATTTTTCTATT
15983772 TTTATATATATTTTTCTATT
1 TTTATATATATTTTTCTATT
15983792 TT
1 TT
15983794 GCAGTTGCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 10 0.30
20 23 0.70
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATATATATTTTTCTATT
Found at i:15984602 original size:20 final size:19
Alignment explanation
Indices: 15984565--15984603 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15984555 ATCATCATTA
*
15984565 TATAAAAAAAAATTATAAT
1 TATAAAAAAAAATAATAAT
*
15984584 TATAAACAAAAATAAATAAT
1 TATAAAAAAAAAT-AATAAT
15984604 ATATTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
TATAAAAAAAAATAATAAT
Found at i:15998133 original size:3 final size:3
Alignment explanation
Indices: 15998120--15998204 Score: 72
Period size: 3 Copynumber: 28.3 Consensus size: 3
15998110 GAGGGCATAT
15998120 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
15998164 ATA ATA ATA ATA A-A ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15998205 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
2 9 0.13
3 50 0.74
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15998143 original size:20 final size:19
Alignment explanation
Indices: 15998120--15998203 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 19
15998110 GAGGGCATAT
15998120 ATAATATAATAATAATATAA
1 ATAATATAATAATAATA-AA
15998140 AT-A-ATAATATATACATGAGAA
1 ATAATATAATA-ATA-AT-A-AA
15998161 AT-A-ATAATAATAATAAA
1 ATAATATAATAATAATAAA
*
15998178 ATAATAGTAAAAATAATAAA
1 ATAATA-TAATAATAATAAA
15998198 ATAATA
1 ATAATA
15998204 AAACAAAGCT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.07
18 8 0.14
19 7 0.12
20 25 0.45
21 12 0.21
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAATATAATAATAATAAA
Found at i:15998583 original size:22 final size:22
Alignment explanation
Indices: 15998507--15998583 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 22
15998497 AAACTAGCCT
*
15998507 TTCCAAGAAACAAAAACAACCTTC
1 TTCCAAAAAACAAAAA-AA-CTTC
*
15998531 TTTCCAAAAAAACAAAAAAAC-AC
1 -TTCC-AAAAAACAAAAAAACTTC
* *
15998554 CTCTAAAAAACAAAAAAACTTC
1 TTCCAAAAAACAAAAAAACTTC
15998576 TTCCAAAA
1 TTCCAAAA
15998584 CAAAGAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 15 0.35
22 9 0.21
23 1 0.02
24 1 0.02
25 6 0.14
26 11 0.26
ACGTcount: A:0.57, C:0.25, G:0.01, T:0.17
Consensus pattern (22 bp):
TTCCAAAAAACAAAAAAACTTC
Found at i:15998608 original size:45 final size:46
Alignment explanation
Indices: 15998508--15998615 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 46
15998498 AACTAGCCTT
*
15998508 TCCAAGAAACAAAAACAACCTTCTTTCCAAAAAAACAAAAAAACACC
1 TCCAAAAAACAAAAA-AACCTTCTTTCCAAAAAAACAAAAAAACACC
* * * ** *
15998555 TCTAAAAAACAAAAAAA-CTTC-TTCCAAAACAAAGAATAATCCTCC
1 TCCAAAAAACAAAAAAACCTTCTTTCCAAAA-AAACAAAAAAACACC
*
15998600 TCCAAAAAACCAAAAA
1 TCCAAAAAACAAAAAA
15998616 CCCACCCCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 8 0.16
45 28 0.55
46 2 0.04
47 13 0.25
ACGTcount: A:0.57, C:0.26, G:0.02, T:0.15
Consensus pattern (46 bp):
TCCAAAAAACAAAAAAACCTTCTTTCCAAAAAAACAAAAAAACACC
Found at i:15999153 original size:44 final size:44
Alignment explanation
Indices: 15999063--15999837 Score: 542
Period size: 44 Copynumber: 17.6 Consensus size: 44
15999053 CGATATCCGC
* * * * * * * *
15999063 TATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGA
* *
15999108 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
* * * *
15999152 TATTTTC-AACTTGTTCCCTATAAGCACAGGGATGTC--ATGCTAA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
* * * * * * * *
15999195 AATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCT-GTTCCCTATAAGCACAGGGATGCCAAATCTGA
* *
15999240 TATCTTCGATCCT-TTCCCTATAAGCACTGGGATGCCAAATCTGT
1 TATCTTCGAT-CTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
* * * *
15999284 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATACCAAATCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGA
* * * *
15999328 TGTTTTC-AACTTGTTCCCTACAAGCACAGGGATGCC--ATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
* * * * * * * *
15999371 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGA
*
15999416 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
* * *
15999460 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGA
* * *
15999504 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
* * * * * * * *
15999547 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGA
* *
15999592 TATCTTCGATTTGTTCCCTATAAGCACAGGGATACCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
* * *
15999636 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
* ** * * * * * * *
15999679 AATCTTTAATCTGCTTCACTGTAAGTACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGA
* * *
15999724 TATCTTCGATTTGTTCCTTATAAGCACAGGGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
* * *
15999768 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
* * *
15999811 AATCTTCGATCTGCTTCACTGTAAGCA
1 TATCTTCGATCTG-TTCCCTATAAGCA
15999838 TAGGAATGTC
Statistics
Matches: 578, Mismatches: 122, Indels: 61
0.76 0.16 0.08
Matches are distributed among these distances:
42 11 0.02
43 52 0.09
44 445 0.77
45 60 0.10
46 10 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (44 bp):
TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
Found at i:15999326 original size:176 final size:176
Alignment explanation
Indices: 15999120--15999672 Score: 973
Period size: 176 Copynumber: 3.1 Consensus size: 176
15999110 TCTTCGATCC
* *
15999120 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
* * * *
15999185 GTCATGCTAAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
66 GCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
* *
15999250 CCTTTCCCTATAAGCACTGGGATGCCAAATCTGTTGTTTTCAACTT
131 CCTTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
* *
15999296 GTTCCCTATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTACAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
15999361 GCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
66 GCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
*
15999426 CCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
131 CCTTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
15999472 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
15999537 GCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
66 GCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
* *
15999602 -TTGTTCCCTATAAGCACAGGGATACCAAATCTGATGTTTTCAACTT
131 CCT-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
15999648 GTTCCCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
15999673 TGCTGAAATC
Statistics
Matches: 360, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
176 360 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (176 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
GCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
CCTTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
Found at i:15999673 original size:132 final size:132
Alignment explanation
Indices: 15999470--15999858 Score: 715
Period size: 132 Copynumber: 2.9 Consensus size: 132
15999460 TGTTTTCAAC
15999470 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
15999535 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
15999600 AT
131 AT
*
15999602 TTGTTCCCTATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
* *
15999667 ATGCCATGCTGAAATCTTTAATCTGCTTCACTGTAAGTACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
15999732 AT
131 AT
* *
15999734 TTGTTCCTTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
* *
15999799 ATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTAT
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTAT
15999859 GGCGAATAAA
Statistics
Matches: 247, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 247 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (132 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
AT
Found at i:16000280 original size:44 final size:44
Alignment explanation
Indices: 16000230--16000475 Score: 295
Period size: 44 Copynumber: 5.6 Consensus size: 44
16000220 ACATTCGATC
*
16000230 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
* ** * *
16000274 TGTTCCCTATAAGCACAGGGATGCC--ATGCTAAAATCTTCGA-T
1 TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGTTTTCAACT
* * * * *
16000316 CTGCTTCACC-GTAAGCACAGGGATGCCAAATCTGCTATCTTCGA-T
1 -TG-TTC-CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
* *
16000361 CCGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACT
1 -TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
16000406 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
16000450 TGTTCCCTATAAGCACAGGGATGCCA
1 TGTTCCCTATAAGCACAGGGATGCCA
16000476 TGCTGAAATC
Statistics
Matches: 176, Mismatches: 18, Indels: 16
0.84 0.09 0.08
Matches are distributed among these distances:
42 3 0.02
43 11 0.06
44 144 0.82
45 16 0.09
46 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
Found at i:16000340 original size:88 final size:87
Alignment explanation
Indices: 16000223--16000527 Score: 348
Period size: 88 Copynumber: 3.5 Consensus size: 87
16000213 TTGACGAACA
16000223 TTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGC
1 TTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGC
*
16000288 ACAGGGATGCCATGCTAAAATC
66 ACAGGGATGCCATGCTGAAATC
* * * * *
16000310 TTCGATCTGCTTCACC-GTAAGCACAGGGATGCCAAATCTGCTATCTTCGA-TCCGTTCCCTATA
1 TTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT-TGTTCCCTATA
*** *
16000373 AGCACAGGGATGCCAAAT-CTGTTGTT
63 AGCACAGGGATGCC--ATGCTGAAATC
* *
16000399 TTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAG
1 TTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAG
16000463 CACAGGGATGCCATGCTGAAATC
65 CACAGGGATGCCATGCTGAAATC
* ** * * * *
16000486 TTGGATCTGCTTCATTGTAAGCACAGGAATGTCAGATCTGCT
1 TTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCT
16000528 ATCTTCAGTC
Statistics
Matches: 177, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
86 2 0.01
87 20 0.11
88 142 0.80
89 11 0.06
90 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (87 bp):
TTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGC
ACAGGGATGCCATGCTGAAATC
Found at i:16000671 original size:68 final size:68
Alignment explanation
Indices: 16000587--16000785 Score: 303
Period size: 68 Copynumber: 2.9 Consensus size: 68
16000577 TCTTCTTCCA
* * * * *
16000587 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
16000652 -TT
66 CCT
*
16000654 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
16000719 TCCT
65 TCCT
*
16000723 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
16000786 AATTTGTATT
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
67 6 0.05
68 114 0.94
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:16000915 original size:43 final size:43
Alignment explanation
Indices: 16000841--16001526 Score: 477
Period size: 43 Copynumber: 15.8 Consensus size: 43
16000831 GCCCATCATC
* * * *
16000841 TTCGATCTATTTCCCAACTGCTTAAGGGGTTAAGATCTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * *
16000884 TTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * *
16000927 TCCAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * *
16000970 TCTTC-AGCCTGTTACCCTACTACTTAGGGGTTTAAGGTTTGTAAA
1 --TTCGA-TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * ** *
16001015 TTCG-GCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATAATT
1 TTCGATC-TGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGTAA-A
** * * **
16001059 TTTTATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTATC
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * *
16001102 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTG-CAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * * *
16001144 TTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGT--C
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-T-GTAAA
*
16001188 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* *
16001231 TCTTC-AGCTTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAA
1 --TTCGATC-TGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAA
* * * **
16001276 TTCG-GCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCTATCATC
1 TTCGATC-TGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGT-AAA
* **
16001320 TTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCT-TCATC
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAA
* * * *
16001362 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTG-CAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * * *
16001404 TTCGATTTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGT--C
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-T-GTAAA
* *
16001448 TTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* *
16001491 TCTTC-AGCCTGTTACCCTACTGCTTAGGGGCTTAAG
1 --TTCGA-TCTGTTACCCTACTGCTTAGGGGGTTAAG
16001527 GCTTGTGAAT
Statistics
Matches: 514, Mismatches: 93, Indels: 70
0.76 0.14 0.10
Matches are distributed among these distances:
41 4 0.01
42 88 0.17
43 200 0.39
44 118 0.23
45 104 0.20
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (43 bp):
TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:16001243 original size:218 final size:216
Alignment explanation
Indices: 16000799--16001388 Score: 580
Period size: 218 Copynumber: 2.7 Consensus size: 216
16000789 TTGTATTTTC
* * * * * * *
16000799 CAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTT
1 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATAATTTTCGATCTGTTTCCCTACTGCTT
* ** * * * * * * *
16000864 AAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATC
66 AGGGGGTTAAGATCTGTATCTTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCTG-CAATT
* * * **
16000929 CAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTACT
129 CGATCTGTTACCCTACTGATTAGGGGGTTAAGACCTGTAAATCTTCAGCCTGTTACCCTACTACT
* * *
16000994 TAGGGGTTTAAGGTTTGTAAATT
194 TAGGGGGTTAAGATCTGTAAATT
* * ** *
16001017 CGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATAATTTTTTATCTGTTTCCCTATTGCTT
1 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATAATTTTCGATCTGTTTCCCTACTGCTT
*
16001082 AGGGGGTTAAGATCTGTATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTC
66 AGGGGGTTAAGATCTGTATCTTCGATCTGTTTCCCTACTGCTTAGGG-GTTAAGATCTGCAATTC
* * * ** * * *
16001147 GGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCT-T-CGTCTTC-GATCTGTTTCCCTACTGC
130 GATCTGTTACCCTACTGATTAGGGGGTTAAGA-CCTGTAAATCTTCAG-CCTGTTACCCTACTAC
16001209 TTAGGGGGTTAAGATCTGTAAATCTT
193 TTAGGGGGTTAAGATCTGTAAA--TT
*** * * *
16001235 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAA-ATTCG-GCTTGTTACCCTACTGCT
1 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATAATTTTCGATC-TGTTTCCCTACTGCT
* * * *
16001298 TAGGGGGTTAA-AGCCTATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCATC
65 TAGGGGGTTAAGA-TCTGT-ATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGCA-A
* *
16001362 TTCGATCTGTTTCCCTACTGCTTAGGG
127 TTCGATCTGTTACCCTACTGATTAGGG
16001389 AGATAAGATC
Statistics
Matches: 304, Mismatches: 59, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
215 1 0.00
216 39 0.13
217 74 0.24
218 190 0.62
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (216 bp):
CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATAATTTTCGATCTGTTTCCCTACTGCTT
AGGGGGTTAAGATCTGTATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGCAATTCG
ATCTGTTACCCTACTGATTAGGGGGTTAAGACCTGTAAATCTTCAGCCTGTTACCCTACTACTTA
GGGGGTTAAGATCTGTAAATT
Found at i:16001302 original size:261 final size:260
Alignment explanation
Indices: 16000803--16001538 Score: 1032
Period size: 260 Copynumber: 2.8 Consensus size: 260
16000793 ATTTTCCAGC
* * ** * * *
16000803 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGG
1 CTGTTTCCCTACTGCTTAGGGG-TTAA-GATCTTCATCTTCGATCTGTTTCCCTACTGCTT-AGG
* * * * * * * * * *
16000868 G-GTTAAGATCTGTAAATTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGA---TTTGTAAATC
63 GAGATAAGATCTG-CAATTCGATCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGT--CTT
* * * * * *
16000929 CAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTACT
125 CGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCT
* * *
16000994 TAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATAATT
190 TAGGGGCTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATAATC
**
16001059 TTTTAT
255 TTCGAT
*
16001065 CTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGT-ATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCT-TCATCTTCGATCTGTTTCCCTACTGCTTAGGG
*
16001129 AGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
64 AGATAAGATCTGCAATTCGATCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
*
16001194 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCTTGTTACCCTACTGCTTAGG
129 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * *
16001259 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCG
194 GGCTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATAATCTTCG
16001324 AT
259 AT
16001326 CTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAG
1 CTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAG
*
16001391 ATAAGATCTGCAATTCGATTTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCT
66 ATAAGATCTGCAATTCGATCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCT
*
16001456 GTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
131 GTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
*
16001521 CTTAAGGCTTGTGAATTC
196 CTTAAGGCTTGTAAATTC
16001539 ACTGATTCTA
Statistics
Matches: 427, Mismatches: 40, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
259 1 0.00
260 222 0.52
261 176 0.41
262 20 0.05
263 8 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (260 bp):
CTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAG
ATAAGATCTGCAATTCGATCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCT
GTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
CTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATAATCTTCGAT
Found at i:16001687 original size:66 final size:66
Alignment explanation
Indices: 16001590--16001716 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
16001580 TTTATGCTTA
* *
16001590 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTTCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
16001655 G
66 G
*
16001656 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
16001717 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:16009300 original size:17 final size:16
Alignment explanation
Indices: 16009278--16009316 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16009268 AACAAAAAAG
*
16009278 TTTAGGATTTCGGGATT
1 TTTAGG-TTTCGAGATT
*
16009295 TTTAGGTTTTGAGATT
1 TTTAGGTTTCGAGATT
16009311 TTTAGG
1 TTTAGG
16009317 GAGTTACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (16 bp):
TTTAGGTTTCGAGATT
Found at i:16011132 original size:19 final size:20
Alignment explanation
Indices: 16011108--16011154 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
16011098 AGTGAAAGTT
16011108 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
16011127 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
16011147 -AATGCAAA
1 TAATGCAAA
16011155 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:16014547 original size:32 final size:32
Alignment explanation
Indices: 16014510--16014570 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
16014500 CTTATCATGC
16014510 CCATCATTCATTAACTATTAAAATGCTAATGG
1 CCATCATTCATTAACTATTAAAATGCTAATGG
16014542 CCATCATTCATTAACTATTAAAATGCTAA
1 CCATCATTCATTAACTATTAAAATGCTAA
16014571 AATGCATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (32 bp):
CCATCATTCATTAACTATTAAAATGCTAATGG
Found at i:16019425 original size:12 final size:12
Alignment explanation
Indices: 16019408--16019438 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
16019398 AGTACTACCT
16019408 CGGCCTCGACCA
1 CGGCCTCGACCA
16019420 CGGCCTCGACCA
1 CGGCCTCGACCA
16019432 CGGCCTC
1 CGGCCTC
16019439 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:16022673 original size:32 final size:32
Alignment explanation
Indices: 16022636--16022696 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
16022626 CTTATCATGC
16022636 CCATCATCCATTAACTATTAAAATGCTAATGG
1 CCATCATCCATTAACTATTAAAATGCTAATGG
*
16022668 CCATCATTCATTAACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
16022697 AATGCATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (32 bp):
CCATCATCCATTAACTATTAAAATGCTAATGG
Found at i:16025121 original size:3 final size:3
Alignment explanation
Indices: 16025108--16025190 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
16025098 GAGGGCATAT
16025108 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
16025152 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16025191 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:16025132 original size:12 final size:12
Alignment explanation
Indices: 16025108--16025187 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
16025098 GAGGGCATAT
16025108 ATAATAT-AATA
1 ATAATATAAATA
16025119 ATAATATAAATA
1 ATAATATAAATA
*
16025131 ATAATATATACATG
1 ATAATATA-A-ATA
*
16025145 AGAA-AT-AATA
1 ATAATATAAATA
16025155 ATAATATAAATA
1 ATAATATAAATA
* *
16025167 ATAGTAAAAATA
1 ATAATATAAATA
*
16025179 ATAAAATAA
1 ATAATATAA
16025188 TAAAACAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 10 0.18
12 32 0.58
13 3 0.05
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:16025540 original size:21 final size:22
Alignment explanation
Indices: 16025516--16025612 Score: 94
Period size: 21 Copynumber: 4.5 Consensus size: 22
16025506 CTTCTTTCCA
16025516 AAAAAACAAAAAAA-CACCTCC
1 AAAAAACAAAAAAACCACCTCC
*
16025537 AAAAAACAAAAAAACCTCCTCC
1 AAAAAACAAAAAAACCACCTCC
*
16025559 --AAAACAAAGAACAATCCTCCTCC
1 AAAAAACAAA-AA-AA-CCACCTCC
* *
16025582 AAAAAACCAAAAACCCACC-CC
1 AAAAAACAAAAAAACCACCTCC
*
16025603 TAAAAACAAA
1 AAAAAACAAA
16025613 GTCTTGAATG
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.12
21 26 0.41
22 12 0.19
23 9 0.14
24 2 0.03
25 7 0.11
ACGTcount: A:0.60, C:0.32, G:0.01, T:0.07
Consensus pattern (22 bp):
AAAAAACAAAAAAACCACCTCC
Found at i:16025540 original size:22 final size:22
Alignment explanation
Indices: 16025512--16025594 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
16025502 CAACCTTCTT
*
16025512 TCCAAAAAAACAAAAAAACACC
1 TCCAAAAAAACAAAAAAACTCC
16025534 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAA-CTCC
* * **
16025556 TCCAAAACAAAGAACAATCCTCC
1 TCCAAAA-AAACAAAAAAACTCC
*
16025579 TCCAAAAAACCAAAAA
1 TCCAAAAAAACAAAAA
16025595 CCCACCCCTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 14 0.28
22 15 0.30
23 14 0.28
24 7 0.14
ACGTcount: A:0.60, C:0.30, G:0.01, T:0.08
Consensus pattern (22 bp):
TCCAAAAAAACAAAAAAACTCC
Found at i:16025750 original size:4 final size:4
Alignment explanation
Indices: 16025741--16025771 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
16025731 GGCCAAGGTT
16025741 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
16025772 TTTTTGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:16028735 original size:21 final size:22
Alignment explanation
Indices: 16028702--16028742 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
16028692 CACATGCCCG
16028702 ATTATAATCGATA-AATGTTGA
1 ATTATAATCGATATAATGTTGA
16028723 ATTATAAAT-GATATAATGTT
1 ATTAT-AATCGATATAATGTT
16028743 TTATTTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.41
Consensus pattern (22 bp):
ATTATAATCGATATAATGTTGA
Found at i:16029072 original size:50 final size:50
Alignment explanation
Indices: 16028997--16029125 Score: 222
Period size: 50 Copynumber: 2.6 Consensus size: 50
16028987 GGCAACAAGT
* *
16028997 GATAAGTGATAGCTTCGACTACACTTATTTGATCAAGAACAAGTGAAAGA
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGAAAGA
* *
16029047 GATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGAAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGAAAGA
16029097 GATAAGTGATAGCTTCGGCTACACTTATC
1 GATAAGTGATAGCTTCGGCTACACTTATC
16029126 CGATTAAGGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (50 bp):
GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGAAAGA
Found at i:16029183 original size:31 final size:31
Alignment explanation
Indices: 16029145--16029231 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
16029135 ACTAATGACA
*
16029145 AGTGAAAAGTGGTAGCTTCAGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
16029176 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
16029207 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
16029232 AAGTGACAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:16029310 original size:47 final size:47
Alignment explanation
Indices: 16029233--16029325 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
16029223 TTCGGCTACA
* *
16029233 AGTGACAAGTGATTTCCGTGTAAAATCATATATGGTATATGGCATCAG
1 AGTGACAAGTGATTT-CGTGTAAAACCATATATGGGATATGGCATCAG
* * *
16029281 AGTGATAAGTGCATTT-GTGTAAGACCATATCTGGGATATGGCATC
1 AGTGACAAGTG-ATTTCGTGTAAAACCATATATGGGATATGGCATC
16029326 GATATGATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 25 0.64
48 10 0.26
49 4 0.10
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (47 bp):
AGTGACAAGTGATTTCGTGTAAAACCATATATGGGATATGGCATCAG
Found at i:16029334 original size:47 final size:47
Alignment explanation
Indices: 16029250--16029372 Score: 113
Period size: 47 Copynumber: 2.6 Consensus size: 47
16029240 AGTGATTTCC
* * * * * **
16029250 GTGTAAAATCATATATGGTATATGGCATCAGAGTGATAAGTGCATTT
1 GTGTAAGACCATATCTGGGATATGGCATCAGAATGATAAGTGCATAA
* *
16029297 GTGTAAGACCATATCTGGGATATGGCATC-GATATGATATGTGTATAA
1 GTGTAAGACCATATCTGGGATATGGCATCAGA-ATGATAAGTGCATAA
* * *
16029344 GATGTAAGACCATAGCTGAGCTATGGCAT
1 G-TGTAAGACCATATCTGGGATATGGCAT
16029373 TTTAGTAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
46 2 0.03
47 36 0.58
48 24 0.39
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (47 bp):
GTGTAAGACCATATCTGGGATATGGCATCAGAATGATAAGTGCATAA
Found at i:16037625 original size:26 final size:24
Alignment explanation
Indices: 16037555--16037626 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
16037545 AAAGAAAGAA
*
16037555 AAACAAGAAAAAGAAACAGAG-AAG
1 AAACAAG-AAAAGAAAAAGAGAAAG
*
16037579 AAACAA-AATAGAAAGAA-AGAAAG
1 AAACAAGAAAAGAAA-AAGAGAAAG
16037602 AAGACAAGAAAAGAAAAATGAGAAA
1 AA-ACAAGAAAAGAAAAA-GAGAAA
16037627 TTAGGGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 9 0.23
23 6 0.15
24 12 0.31
25 7 0.18
26 5 0.13
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.03
Consensus pattern (24 bp):
AAACAAGAAAAGAAAAAGAGAAAG
Found at i:16042493 original size:44 final size:44
Alignment explanation
Indices: 16042429--16042743 Score: 393
Period size: 44 Copynumber: 7.2 Consensus size: 44
16042419 GGCGAATCCT
* * * *
16042429 GCAGATTTGGCATCTCTGTGTTGACAGAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
* * * ** *
16042473 ACAGATTTGGCATCTCTGTGTTGACAGAGAATAGATCAAAGGTA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
16042517 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
* * *
16042561 GCATATTTGGCATTTTTGTATTGGCAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
* * * *
16042605 GCAAATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
* * *
16042649 GTAGATTTGGCGTCT-TGGTATTGGCAGAGAGCAAATCAAAGAT-
1 GCAGATTTGGCATCTCT-GTATTGGCAGAGAGCAGATCAAAGATA
16042692 GACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATA
1 G-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC-AAAGATA
*
16042737 ACAGATT
1 GCAGATT
16042744 GGTGTTCCCG
Statistics
Matches: 238, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.01
44 232 0.97
45 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
Found at i:16043940 original size:28 final size:27
Alignment explanation
Indices: 16043888--16043940 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
16043878 CTATTCAGAA
* *
16043888 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
16043915 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
16043941 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:16044025 original size:60 final size:59
Alignment explanation
Indices: 16043902--16044036 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
16043892 GTGTTAACTA
* *
16043902 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
16043963 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
16044023 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
16044037 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:16044072 original size:19 final size:20
Alignment explanation
Indices: 16044029--16044084 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
16044019 ATTGGGCCTT
16044029 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
16044049 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
16044068 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
16044085 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:16049725 original size:133 final size:130
Alignment explanation
Indices: 16049206--16049727 Score: 460
Period size: 132 Copynumber: 4.0 Consensus size: 130
16049196 TAAGTATTCA
** * * *
16049206 TTTAAAAATTCTTTAAAACGAAAACGAGAT-TT-GATATTTGGCAATTCGCAGAATAGTGCCCTA
1 TTTAAAAATTCTTTAAAACGAAGGC-A-ATGTTCGATGTTT-GCAATTCGAAGAATCGTGCCCTA
* * * *
16049269 ACGTGTTGGGTTGCAATTTCGCGTTTGCTCGAAATAATCGAATATCCCTTCAAACTTTCACTCAT
63 ACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCGAAC-TTCACTCAT
*
16049334 GCCT
127 GTCT
* * * * **
16049338 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGAAATTCGCGGAATCGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTT-GCAATTCGAAGAATCGTGCCCTAAC
* * * *
16049403 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCGAGA-TTCCATTCAGG
65 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCGA-ACTT-CACTCATG
16049467 TCT
128 TCT
* * * * ** * * * *
16049470 TCTAAAAATCCTCTAAAATGAAGGCAATACTCGGTGTTTGACAATTC-AGGAATCATGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTG-CAATTCGAAGAATCGTGCCCTAAC
** * * * * * ***
16049534 GTGTTGGGTTGTGATTTTTCGTTTGTTCAAAACGATCGAATATTCCTTTAGGTTTTCACTCATGT
65 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATA-TCCCTTCGAACTTCACTCATGT
*
16049599 TT
129 CT
* *
16049601 TTTAAGAAAATTCTTTAAAACAAAGGCTATGTTCGATGTTTAGCAATTC-AAGAATCGTGCCCTA
1 TTT-A-AAAATTCTTTAAAACGAAGGCAATGTTCGATGTTT-GCAATTCGAAGAATCGTGCCCTA
* * * * *
16049665 TCGTGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAACTTCACTC
63 ACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTC-GAACTTCACTC
16049728 GTATTTTCTA
Statistics
Matches: 315, Mismatches: 64, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
130 1 0.00
131 65 0.21
132 155 0.49
133 93 0.30
134 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGCAATTCGAAGAATCGTGCCCTAACG
TGTTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCGAACTTCACTCATGTCT
Found at i:16052127 original size:394 final size:394
Alignment explanation
Indices: 16051399--16052188 Score: 1422
Period size: 394 Copynumber: 2.0 Consensus size: 394
16051389 ATTTGATCTT
16051399 GACGCATCCAGATGAAAGAAAGGGGGTCGATATATTTGCCTTAAGCATCTACGGATTAGTGATTT
1 GACGCATCCAGATGAAAGAAAGGGGGTCGATATATTTGCCTTAAGCATCTACGGATTAGTGATTT
* * *
16051464 TTCCTAAGGCTTTGAGGCACATGGACGAAGCGGTCATTGATTTGTTCGATCGCCTTGAAAAGGGA
66 TCCCTAAGACTTTGAGGCACATGGACGAAGCGGTCATTGACTTGTTCGATCGCCTTGAAAAGGGA
*
16051529 ATCACACTGGTACCGACGATATTGGCAGAAACGTTCAGATCTTTAAGCTCATGTCGGAAGGCAGG
131 ATCACACTGGTACCGACGATATTGGCAGAAACGTTCAGATCGTTAAGCTCATGTCGGAAGGCAGG
*
16051594 CGATGGGCGGTTTATTGGATGTGCACAATTACTCATAGTATGGTTTCATGGGCACTTTTAGAGGG
196 CGAGGGGCGGTTTATTGGATGTGCACAATTACTCATAGTATGGTTTCATGGGCACTTTTAGAGGG
*
16051659 TAGACAAGGTTTCTTATCGGGTCTTTTCTGAAGGTTACTCCCAGCTGAAAGAGGAGGCAGCTATA
261 TAGACAAGGTTTCTTATCGGGTATTTTCTGAAGGTTACTCCCAGCTGAAAGAGGAGGCAGCTATA
*
16051724 CAAAGGAGAGAGGATATCTCAGAGGTGAAGTGGAT-GAAAATTCTTCAAAACCTCAAGGAAGGGG
326 CAAAGGAGAGAGGATATCTCAGAGGAGAAGTGGATAG-AAATTCTTCAAAACCTCAAGGAAGGGG
16051788 ATATC
390 ATATC
* *
16051793 GACGCATCTAGATGAAAGAAAGGGGGTCGATATATTTGCCTTAAGCATTTACGGATTAGTGATTT
1 GACGCATCCAGATGAAAGAAAGGGGGTCGATATATTTGCCTTAAGCATCTACGGATTAGTGATTT
*
16051858 TCCCTAAGACTTTGAGGCACGTGGACGAAGCGGTCATTGACTTGTTCGATCGCCTTGAAAAGGGA
66 TCCCTAAGACTTTGAGGCACATGGACGAAGCGGTCATTGACTTGTTCGATCGCCTTGAAAAGGGA
* *
16051923 ATCACACTGGTACCGGCGATATTGGCAGAAACGTTCAGATCGTTGAGCTCACT-TCGGAAGGCAG
131 ATCACACTGGTACCGACGATATTGGCAGAAACGTTCAGATCGTTAAGCTCA-TGTCGGAAGGCAG
16051987 GCGAGGGGCGGTTTATTGGATGTGCACAATTACTCATAGTATGGTTTCATGGGCACTTTTAGAGG
195 GCGAGGGGCGGTTTATTGGATGTGCACAATTACTCATAGTATGGTTTCATGGGCACTTTTAGAGG
*
16052052 GTAGACAAGGTTTCTTATCGGGTATTTTCTGAAGGTTACTCCCCGCTGAAAGAGGAGGCAGCTAT
260 GTAGACAAGGTTTCTTATCGGGTATTTTCTGAAGGTTACTCCCAGCTGAAAGAGGAGGCAGCTAT
*
16052117 ACAAAGGAGAGAGGATATCTCAGAGGAGAAGTGGATAGAAATTCTTCAAAACCTCAAGGAGGGGG
325 ACAAAGGAGAGAGGATATCTCAGAGGAGAAGTGGATAGAAATTCTTCAAAACCTCAAGGAAGGGG
16052182 ATATC
390 ATATC
16052187 GA
1 GA
16052189 GTGGAGAGCT
Statistics
Matches: 380, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
394 378 0.99
395 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (394 bp):
GACGCATCCAGATGAAAGAAAGGGGGTCGATATATTTGCCTTAAGCATCTACGGATTAGTGATTT
TCCCTAAGACTTTGAGGCACATGGACGAAGCGGTCATTGACTTGTTCGATCGCCTTGAAAAGGGA
ATCACACTGGTACCGACGATATTGGCAGAAACGTTCAGATCGTTAAGCTCATGTCGGAAGGCAGG
CGAGGGGCGGTTTATTGGATGTGCACAATTACTCATAGTATGGTTTCATGGGCACTTTTAGAGGG
TAGACAAGGTTTCTTATCGGGTATTTTCTGAAGGTTACTCCCAGCTGAAAGAGGAGGCAGCTATA
CAAAGGAGAGAGGATATCTCAGAGGAGAAGTGGATAGAAATTCTTCAAAACCTCAAGGAAGGGGA
TATC
Found at i:16065509 original size:23 final size:22
Alignment explanation
Indices: 16065437--16065524 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
16065427 TACCTGATCA
16065437 GAATACGACACATAA-GTGCCT
1 GAATACGACACATAAGGTGCCT
*
16065458 GAA-ACGACACATGAGGTGCCT
1 GAATACGACACATAAGGTGCCT
* * *
16065479 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACATAAGGTGCCT
* *
16065500 GAAATACGACATATAAAGTGCCT
1 G-AATACGACACATAAGGTGCCT
16065523 GA
1 GA
16065525 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 10 0.19
21 26 0.49
22 1 0.02
23 16 0.30
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GAATACGACACATAAGGTGCCT
Found at i:16065521 original size:44 final size:41
Alignment explanation
Indices: 16065442--16065523 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
16065432 GATCAGAATA
* * *
16065442 CGACACATAAGTGCCTGAAACGACACATGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACATAAAGTGCCTGCTG
*
16065483 CGACACACAAGGTGCCTGAAATACGACATATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACATAAAGTGCCTG
16065524 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACATAAAGTGCCTGCTG
Found at i:16065732 original size:23 final size:24
Alignment explanation
Indices: 16065706--16065800 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
16065696 AAATGTCCAA
16065706 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
16065729 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
16065757 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
16065786 CCAAAACACACCAGA
1 CCAAAACACACCAGA
16065801 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:16065802 original size:29 final size:28
Alignment explanation
Indices: 16065720--16065803 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
16065710 AACACACCAG
* *
16065720 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
16065748 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
16065776 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
16065804 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:16069347 original size:44 final size:44
Alignment explanation
Indices: 16069284--16069631 Score: 477
Period size: 44 Copynumber: 7.9 Consensus size: 44
16069274 GGCGAATCCT
* * *
16069284 GCAGATTTGGAATCTCTGTGTTGACAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
16069328 GCAGATTTGGCATCTCTGTGTTGACAGAGAACAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
16069372 GCAGATTTGGCATCTCTGTATTGGCAGAGTGTAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
16069416 GCAGATTTGGCGTCTCTGTATTGGCAGAAAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
16069460 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
16069504 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
16069548 GCAGATTTGGCGTCT-TGGTATTGG-GGAAGAGCAAATCGAAGAT-
1 GCAGATTTGGCATCTCT-GTATTGGCAG-AGAGCAGATCGAAGATA
*
16069591 GACAGATTTGACATCTCTGTATTGGCAGAGAGCAGATCGAA
1 G-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAA
16069632 AATAATAGAT
Statistics
Matches: 277, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
43 3 0.01
44 272 0.98
45 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:16072639 original size:132 final size:131
Alignment explanation
Indices: 16072400--16072918 Score: 432
Period size: 132 Copynumber: 3.9 Consensus size: 131
16072390 TAAGTATTCA
* ** * * *
16072400 TTTAAAAATTCTTTAAAACGAAAAC-AAGATTTGATATTTGGCAATTTGAGGAATAGTGCCCTAA
1 TTTAAAAATCCTTTAAAACGAAGGCAAAG-TTCGATATTTGGCAATTCG-GGAATCGTGCCCTAA
* * * *
16072464 CGTGTTGGGTTGCAATTT-TGAGTTTGCTCGAAATAATCGAATATCCCTTCAAAATTTCAATCAT
64 CGTGCTGGGTTGCAATTTCT-CGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCAATCAT
*
16072528 GCCT
128 GTCT
* *
16072532 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCG-GGAATCGTGCCCTAAC
* * * * * * * *
16072597 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCGAGATTCCATTCAGGT
65 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCAATCATGT
16072662 CT
130 CT
* * * * * * * * * *
16072664 TCTAAAAATCCTCTAAAATGAAGGCAATA-CTCGGTGTTTGACAATTCGGGAATCATGCTCTATC
1 TTTAAAAATCCTTTAAAACGAAGGCAA-AGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAAC
* ** * * * * * *** *
16072728 ATGCTGGGTTGTGATTTTTCGTTTGTTCAAAACGATCGAATATTCCTTTAGGTTTTCACTCATGT
65 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCAATCATGT
*
16072793 TT
130 CT
* * * * * * * *
16072795 TTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGAAATTCGAGAATCGTGCCCTAT
1 TTT-A-AAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAA
* * * * **
16072860 CGTGCTGGGTTACAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAATTTCA
64 CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCA
16072919 CTCGTATTTT
Statistics
Matches: 310, Mismatches: 71, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
131 64 0.21
132 150 0.48
133 96 0.31
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (131 bp):
TTTAAAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAACG
TGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCAATCATGTC
T
Found at i:16073303 original size:23 final size:23
Alignment explanation
Indices: 16073259--16073303 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
16073249 TTCGTAGACC
* *
16073259 AAAATCGTTGTTTTAATAAACCA
1 AAAATCGTTGTATTAAAAAACCA
16073282 AAAAT-GTTGTATTAAAATAACC
1 AAAATCGTTGTATTAAAA-AACC
16073304 TCATTCTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (23 bp):
AAAATCGTTGTATTAAAAAACCA
Found at i:16078604 original size:30 final size:31
Alignment explanation
Indices: 16078546--16078604 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
16078536 CACCCTTAAA
* * *
16078546 ATATTTACACTATTAGTCCTTTAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTT
16078577 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
16078605 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.51
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTT
Found at i:16078612 original size:30 final size:31
Alignment explanation
Indices: 16078545--16078614 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
16078535 CCACCCTTAA
* * *
16078545 AATATTTACACTATTAGTCCTTTAAATTTTT
1 AATATTTACACTATTAATCCCTCAAATTTTT
*
16078576 TATATTTACACT-TTAATCCCTCAAA-TTTT
1 AATATTTACACTATTAATCCCTCAAATTTTT
16078605 AAGTATTTAC
1 AA-TATTTAC
16078615 TCTTGTGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.49
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAAATTTTT
Found at i:16080556 original size:17 final size:18
Alignment explanation
Indices: 16080522--16080561 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
16080512 TTCCTCAAAT
*
16080522 AAATT-AAAAAATCGGAA
1 AAATTAAAAAAATCAGAA
16080539 AAATTAAAAAAAT-AGAA
1 AAATTAAAAAAATCAGAA
16080556 AAATTA
1 AAATTA
16080562 TCAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATTAAAAAAATCAGAA
Found at i:16080654 original size:20 final size:20
Alignment explanation
Indices: 16080631--16080687 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
16080621 GCAAAAATAC
*
16080631 AAAAATGTCAAAAAAATTTA
1 AAAAATCTCAAAAAAATTTA
* *
16080651 AAAAATCTCAAGAAATTTTA
1 AAAAATCTCAAAAAAATTTA
* **
16080671 ACAAATCAGAAAAAAAT
1 AAAAATCTCAAAAAAAT
16080688 ATGAAAAGTT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAATCTCAAAAAAATTTA
Found at i:16095844 original size:27 final size:26
Alignment explanation
Indices: 16095801--16095854 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
16095791 ATTAATAATT
16095801 ATAAAATTATACTTTAACTCTCTAAAA
1 ATAAAATTATACTTTAA-TCTCTAAAA
* *
16095828 ATAAAATTTTAAC-TTAATCTTTAAAA
1 ATAAAATTAT-ACTTTAATCTCTAAAA
16095854 A
1 A
16095855 ATCATATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 13 0.54
28 2 0.08
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAAAATTATACTTTAATCTCTAAAA
Found at i:16096225 original size:13 final size:14
Alignment explanation
Indices: 16096202--16096232 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
16096192 TTTCGCTTTA
16096202 ATTTAATTTTTTCT
1 ATTTAATTTTTTCT
16096216 ATTT-ATTTTTTCT
1 ATTTAATTTTTTCT
16096229 ATTT
1 ATTT
16096233 TCGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTAATTTTTTCT
Found at i:16097942 original size:22 final size:22
Alignment explanation
Indices: 16097901--16097942 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16097891 AGTGCTTTTT
*
16097901 AACAGTAGGCACTGATGTGTTG
1 AACAGTAGGCACTGAAGTGTTG
16097923 AACAGTAGGCA-TCGAAGTGT
1 AACAGTAGGCACT-GAAGTGT
16097943 AGAGTAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (22 bp):
AACAGTAGGCACTGAAGTGTTG
Found at i:16101219 original size:21 final size:21
Alignment explanation
Indices: 16101181--16101266 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
16101171 CAGAAACAGT
* *
16101181 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
16101202 AAACGATACACAAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
**
16101223 ATACGACACATGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
*
16101244 ATACGACACATATA-GTGCCTG
1 ATACGACACACA-AGGTGCCTG
16101265 AT
1 AT
16101267 CAGCAAAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 54 0.98
22 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTG
Found at i:16101228 original size:42 final size:42
Alignment explanation
Indices: 16101181--16101266 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
16101171 CAGAAACAGT
*
16101181 ATACGACACATAAAGTGCCTGAAACGATACACA-AGGTGCCTG
1 ATACGACACATAAAGTGCCTGAAACGACACACATA-GTGCCTG
* * * *
16101223 ATACGACACATGAGGTGCCTGATACGACACATATAGTGCCTG
1 ATACGACACATAAAGTGCCTGAAACGACACACATAGTGCCTG
16101265 AT
1 AT
16101267 CAGCAAAGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGAAACGACACACATAGTGCCTG
Found at i:16102081 original size:11 final size:11
Alignment explanation
Indices: 16102065--16102092 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
16102055 ATTTTTAAAT
16102065 TTTCTATTCAA
1 TTTCTATTCAA
16102076 TTTCTATTCAA
1 TTTCTATTCAA
16102087 TTTCTA
1 TTTCTA
16102093 CTTTAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTCTATTCAA
Found at i:16102625 original size:3 final size:3
Alignment explanation
Indices: 16102610--16102659 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
16102600 TGTATTAGTT
*
16102610 AAC AAC TAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
16102658 AA
1 AA
16102660 TAATAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.32, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:16102664 original size:3 final size:3
Alignment explanation
Indices: 16102658--16102740 Score: 145
Period size: 3 Copynumber: 28.7 Consensus size: 3
16102648 CAACAACAAC
16102658 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16102706 AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16102741 ATATCTATTT
Statistics
Matches: 77, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
2 6 0.08
3 71 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:16103160 original size:5 final size:5
Alignment explanation
Indices: 16103152--16103206 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
16103142 TATTTCTTTC
* * * *
16103152 ATAAT ATAAT ATAAT ATAAT ATAATT CTAAT ATAAT -TATT ATAAT TTAAC
1 ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT
16103202 ATAAT
1 ATAAT
16103207 TAAATTTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 3 0.08
5 33 0.82
6 4 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:16112086 original size:18 final size:18
Alignment explanation
Indices: 16112063--16112134 Score: 99
Period size: 18 Copynumber: 4.0 Consensus size: 18
16112053 CCCAACTACT
*
16112063 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
16112081 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * *
16112099 ATATACATGAATAGTACT
1 GTATACGTGAATAGTACC
*
16112117 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
16112135 ATAAACGGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:16112115 original size:36 final size:36
Alignment explanation
Indices: 16112064--16112137 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
16112054 CCAACTACTG
* *
16112064 TATACGTGAACAGTACCGTATACGTGAATAGTACCA
1 TATACATGAACAGTACCGTATACGTAAATAGTACCA
* *
16112100 TATACATGAATAGTACTGTATACGTAAATAGTACCA
1 TATACATGAACAGTACCGTATACGTAAATAGTACCA
16112136 TA
1 TA
16112138 AACGGTCGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (36 bp):
TATACATGAACAGTACCGTATACGTAAATAGTACCA
Found at i:16112694 original size:21 final size:22
Alignment explanation
Indices: 16112668--16112709 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16112658 TGACCTTTCC
*
16112668 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
16112689 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
16112710 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:16112695 original size:11 final size:10
Alignment explanation
Indices: 16112668--16112709 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
16112658 TGACCTTTCC
16112668 AAGGTATGGG
1 AAGGTATGGG
*
16112678 TAGGTATGGG
1 AAGGTATGGG
16112688 AAAGGTATGGG
1 -AAGGTATGGG
16112699 CAAGGTATGGG
1 -AAGGTATGGG
16112710 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:16114718 original size:26 final size:27
Alignment explanation
Indices: 16114671--16114736 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
16114661 TTATTACATA
16114671 TTATTTTAAATTATTTT-ATATATTAT
1 TTATTTTAAATTATTTTAATATATTAT
* *
16114697 TTATTTTACATT-TTTGTGTATATATTAT
1 TTATTTTAAATTATTT-T-AATATATTAT
16114725 TTATTTTAAATT
1 TTATTTTAAATT
16114737 CTTACACATC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 3 0.09
26 12 0.34
28 20 0.57
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (27 bp):
TTATTTTAAATTATTTTAATATATTAT
Found at i:16114727 original size:28 final size:26
Alignment explanation
Indices: 16114671--16114937 Score: 97
Period size: 24 Copynumber: 10.4 Consensus size: 26
16114661 TTATTACATA
16114671 TTATTTTAAATTATTTTATATATTAT
1 TTATTTTAAATTATTTTATATATTAT
* *
16114697 TTATTTTACATTTTTGTGTATATATTAT
1 TTATTTTAAATTATT-T-TATATATTAT
* * * *
16114725 TTATTTTAAA-T-TCTTACACATCAT
1 TTATTTTAAATTATTTTATATATTAT
** * * *
16114749 AGACTTTAAA-T-TTTCATATATCAT
1 TTATTTTAAATTATTTTATATATTAT
* * * * *
16114773 GTAGTTTAAACTA-TTTGTATGTTAT
1 TTATTTTAAATTATTTTATATATTAT
* * *
16114798 TTA-TTTAAAGTT-TTTTTTATACT-G
1 TTATTTTAAA-TTATTTTATATATTAT
* *
16114822 TTATTTCAAACTATTTTAT-TATTAT
1 TTATTTTAAATTATTTTATATATTAT
* *
16114847 TTACTTTAAGTT-TTTATATATGTATTAT
1 TTATTTTAAATTATTT-TATA--TATTAT
* * * *
16114875 TTATTTGAGACTATTTT-TTTATTTAT
1 TTATTTTAAATTATTTTATATA-TTAT
** * * *
16114901 TCGTTTTGAATTGTTCTTATACATTAT
1 TTATTTTAAATTATT-TTATATATTAT
16114928 TTATTTTAAA
1 TTATTTTAAA
16114938 CCATTATCTA
Statistics
Matches: 170, Mismatches: 54, Indels: 33
0.66 0.21 0.13
Matches are distributed among these distances:
24 47 0.28
25 43 0.25
26 26 0.15
27 16 0.09
28 35 0.21
29 3 0.02
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTATTTTAAATTATTTTATATATTAT
Found at i:16117324 original size:16 final size:15
Alignment explanation
Indices: 16117298--16117332 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16117288 TGATGTGAAT
16117298 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16117313 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16117329 AATA
1 AATA
16117333 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16117504 original size:20 final size:20
Alignment explanation
Indices: 16117447--16117506 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
16117437 AATACTACAT
16117447 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
16117466 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
16117489 AAATATGTACATAATATA
1 AAATATGTACATAATATA
16117507 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:16117596 original size:25 final size:25
Alignment explanation
Indices: 16117483--16117699 Score: 114
Period size: 25 Copynumber: 8.9 Consensus size: 25
16117473 TACGTGATAA
* *
16117483 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
16117508 TGTAAAAAATACATACATAATATA-
1 TATTAAAGATATATACATAATATAG
*
16117532 -ATTAAA-ATATATACATAAGATAACATG
1 TATTAAAGATATATACAT-A-AT-ATA-G
** * *
16117559 TAAAAAAATATATATAAATAATATAG
1 T-ATTAAAGATATATACATAATATAG
*
16117585 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
16117610 TA-TAATATATATATACGTAATATAG
1 TATTAA-AGATATATACATAATATAG
* * *
16117635 AATTTAA-A-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
16117657 T-TAAAAGA-ATATATATAATATAA
1 TATTAAAGATATATACATAATATAG
*
16117680 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
16117700 ACAAAAAAAG
Statistics
Matches: 149, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
21 3 0.02
22 22 0.15
23 29 0.19
24 12 0.08
25 61 0.41
26 4 0.03
27 2 0.01
28 2 0.01
29 5 0.03
30 9 0.06
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:16117681 original size:50 final size:50
Alignment explanation
Indices: 16117484--16117682 Score: 140
Period size: 50 Copynumber: 3.9 Consensus size: 50
16117474 ACGTGATAAT
* * * * * *
16117484 ATTAAAAATATGTACATAATATAGTGTAAAAA-ATACATACATAATAT--A
1 ATTAAAGATATATACATAAAATAGT-AAAAAATATATATAAATAATATAGA
* *
16117532 ATTAAA-ATATATACATAAGATAACATGTAAAAAAATATATATAAATAATATAGT
1 ATTAAAGATATATACAT-A-A-AATA-GT-AAAAAATATATATAAATAATATAGA
* * **
16117586 ATTAAAGATATATACATAAAATAGTATAATATATATATACGTAATATAGA
1 ATTAAAGATATATACATAAAATAGTAAAAAATATATATAAATAATATAGA
* * * *
16117636 ATTTAA-A-ATATACCTAATATATTAAAAGAATATATATAATATAATAT
1 ATTAAAGATATATACATAAAATAGTAAAA-AATATATATAA-ATAATAT
16117683 TAAGAAATAT
Statistics
Matches: 119, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
47 9 0.08
48 23 0.19
49 11 0.09
50 33 0.28
51 9 0.08
52 16 0.13
53 1 0.01
54 7 0.06
55 10 0.08
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.34
Consensus pattern (50 bp):
ATTAAAGATATATACATAAAATAGTAAAAAATATATATAAATAATATAGA
Found at i:16118222 original size:30 final size:30
Alignment explanation
Indices: 16118188--16118273 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
16118178 GTCGTGGTGG
* * *
16118188 AGTGTGGCTAGTAGAGTAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
16118218 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
*
16118248 AGTGTGGCCAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTGGTGG
16118274 CAAAGGCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.19, C:0.07, G:0.49, T:0.26
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:16119057 original size:87 final size:88
Alignment explanation
Indices: 16118956--16119122 Score: 230
Period size: 87 Copynumber: 1.9 Consensus size: 88
16118946 CTAGACATTA
* *
16118956 AAAACAGAAATTGAAAATAGCTC-AGCACGTGAACCAAGGCTCAACTCACTTCTCGCAAAATGAG
1 AAAACAGAAATTGAAAATACCTCGA-CACGTGAACCAAGGCTCAACTCACCTCTCGCAAAATGAG
16119020 TTGATTTTT-AAAACAAAATTTGT
65 TTGATTTTTGAAAACAAAATTTGT
** * * * * *
16119043 AAAACAGATTTTGAAAATACCTCGACATGTGATCCGAGGCTCCACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCGACACGTGAACCAAGGCTCAACTCACCTCTCGCAAAATGAGT
16119108 TGATTTTTGAAAACA
66 TGATTTTTGAAAACA
16119123 GAGATCAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
87 62 0.90
88 7 0.10
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (88 bp):
AAAACAGAAATTGAAAATACCTCGACACGTGAACCAAGGCTCAACTCACCTCTCGCAAAATGAGT
TGATTTTTGAAAACAAAATTTGT
Found at i:16119222 original size:75 final size:74
Alignment explanation
Indices: 16119078--16119488 Score: 524
Period size: 75 Copynumber: 5.5 Consensus size: 74
16119068 CATGTGATCC
* * *
16119078 GAGGCTCCACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGAGA-TCAAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAA-TACCTC
*
16119140 AACGTGTCCT
65 AACGTGTCTT
* * *
16119150 GAGGTTCAACTCACCTCTCACAATATGAGTTGATTATTTTGAAAGACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAGACAGAAATTGAAAATACCTC
**
16119215 AGTGTGTCTT
65 AACGTGTCTT
*
16119225 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
16119290 ACGTGTCTT
66 ACGTGTCTT
* *** * *
16119299 AAGGCTCAACTCGTTTCTTGCAGTATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTGAAAGACAGAAATTGAAAATACCT
16119364 CAACGTGTCTT
64 CAACGTGTCTT
* * * *
16119375 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGA-TTTTTGAAAGGCAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
* *
16119439 ACATGTCAGTC
66 ACGTGTC--TT
* *
16119450 AAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
16119489 TGAACTGTAG
Statistics
Matches: 299, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
72 30 0.10
73 37 0.12
74 71 0.24
75 82 0.27
76 79 0.26
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
ACGTGTCTT
Found at i:16131275 original size:16 final size:15
Alignment explanation
Indices: 16131249--16131283 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16131239 TGATGTGAAT
16131249 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16131264 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16131280 AATA
1 AATA
16131284 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16131481 original size:2 final size:2
Alignment explanation
Indices: 16131474--16131543 Score: 51
Period size: 2 Copynumber: 36.5 Consensus size: 2
16131464 AACATGTAAA
* *
16131474 AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT AGT AT -T AA AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
16131514 AT AT AC AT A- AA AT AGT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A
16131544 CGTAATATAG
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
1 5 0.09
2 46 0.84
3 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (2 bp):
AT
Found at i:16131529 original size:25 final size:25
Alignment explanation
Indices: 16131488--16131620 Score: 102
Period size: 25 Copynumber: 5.6 Consensus size: 25
16131478 ATATATATAT
16131488 ATATATA-ATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
16131512 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
16131537 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
16131561 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
16131583 AATATATATATAATATAATATT-AAG
1 -ATATATACATAATATAGTATTAAAG
*
16131608 AAATATA-ATAATA
1 ATATATACATAATA
16131621 ACAAAAAAAG
Statistics
Matches: 86, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 20 0.23
24 30 0.35
25 31 0.36
26 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:16131537 original size:51 final size:47
Alignment explanation
Indices: 16131470--16131618 Score: 140
Period size: 47 Copynumber: 3.1 Consensus size: 47
16131460 AGATAACATG
16131470 TAAAATATATATATATATATATATAATAATATAGTATTAAAGATATATACA
1 TAAAATATATA-ATATATATATAT-ATAATATAGTATT-AAGA-ATATACA
** * * *
16131521 TAAAATAGTATAATATATATATACGTAATATAGAATTTAGAATATACC
1 TAAAATA-TATAATATATATATATATAATATAGTATTAAGAATATACA
* * * *
16131569 TAATATAT-TAAAAGAATATATATATAATATAATATTAAGAAATATA-A
1 TAAAATATATAATA-TATATATATATAATATAGTATTAAG-AATATACA
16131616 TAA
1 TAA
16131619 TAACAAAAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
46 4 0.05
47 23 0.28
48 18 0.22
49 3 0.04
50 11 0.14
51 18 0.22
52 4 0.05
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (47 bp):
TAAAATATATAATATATATATATATAATATAGTATTAAGAATATACA
Found at i:16131540 original size:47 final size:46
Alignment explanation
Indices: 16131470--16131618 Score: 129
Period size: 48 Copynumber: 3.1 Consensus size: 46
16131460 AGATAACATG
*
16131470 TAAAATATATATATATATATATATAATAATATAGTATTAAAGATATATACA
1 TAAAATA-GTATA-ATATATATAT-ATAATATAGTATT-AAGA-ATATACA
* * *
16131521 TAAAATAGTATAATATATATATACGTAATATAGAATTTAGAATATACC
1 TAAAATAGTATAATATATATATA--TAATATAGTATTAAGAATATACA
* * * * *
16131569 TAATATATTAAAAGAATATATATATAATATAATATTAAGAAATATA-A
1 TAAAATAGTATAA-TATATATATATAATATAGTATTAAG-AATATACA
16131616 TAA
1 TAA
16131619 TAACAAAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
47 15 0.18
48 23 0.28
49 22 0.27
50 15 0.18
51 7 0.09
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (46 bp):
TAAAATAGTATAATATATATATATAATATAGTATTAAGAATATACA
Found at i:16133678 original size:21 final size:21
Alignment explanation
Indices: 16133654--16133720 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
16133644 GGAAATGATT
16133654 TTATGAGATATTGATATTTCA
1 TTATGAGATATTGATATTTCA
*
16133675 TTAT-AAACTA-TGATATTTCA
1 TTATGAGA-TATTGATATTTCA
*
16133695 TTATAAGATATTGATATTTCA
1 TTATGAGATATTGATATTTCA
16133716 TTATG
1 TTATG
16133721 CCCTATGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 18 0.45
21 22 0.55
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (21 bp):
TTATGAGATATTGATATTTCA
Found at i:16133690 original size:20 final size:20
Alignment explanation
Indices: 16133665--16133733 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
16133655 TATGAGATAT
16133665 TGATATTTCATTATAAACTA
1 TGATATTTCATTATAAACTA
16133685 TGATATTTCATTATAAGA-TA
1 TGATATTTCATTATAA-ACTA
***
16133705 TTGATATTTCATTATGCCCTA
1 -TGATATTTCATTATAAACTA
16133726 TGATATTT
1 TGATATTT
16133734 TGGTGTCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (20 bp):
TGATATTTCATTATAAACTA
Found at i:16133706 original size:41 final size:41
Alignment explanation
Indices: 16133654--16133733 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
16133644 GGAAATGATT
*
16133654 TTATGAGATATTGATATTTCATTATAAACTATGATATTTCA
1 TTATAAGATATTGATATTTCATTATAAACTATGATATTTCA
***
16133695 TTATAAGATATTGATATTTCATTATGCCCTATGATATTT
1 TTATAAGATATTGATATTTCATTATAAACTATGATATTT
16133734 TGGTGTCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (41 bp):
TTATAAGATATTGATATTTCATTATAAACTATGATATTTCA
Found at i:16140970 original size:21 final size:20
Alignment explanation
Indices: 16140922--16140970 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
16140912 TTTAGTCAAC
* *
16140922 TATTTATATTAAATTTTAAAT
1 TATTTA-ATGAAATTTAAAAT
16140943 T-TTTAATGAAATATTAAAAT
1 TATTTAATGAAAT-TTAAAAT
16140963 TATTTAAT
1 TATTTAAT
16140971 ATGATATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TATTTAATGAAATTTAAAAT
Found at i:16141356 original size:30 final size:30
Alignment explanation
Indices: 16141320--16141378 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
16141310 TAAAAATTTT
*
16141320 AAATTAAATTAAAATTTTATTATTT-TTAAA
1 AAATTAAAATAAAATTTTATT-TTTATTAAA
*
16141350 AAATTAAAATATAATTTTATTTTTATTAA
1 AAATTAAAATAAAATTTTATTTTTATTAA
16141379 TTTAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
AAATTAAAATAAAATTTTATTTTTATTAAA
Found at i:16141392 original size:35 final size:35
Alignment explanation
Indices: 16141312--16141402 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 35
16141302 AATAAATATA
* *
16141312 AAAATTTTAAATTAAATTAAAATTTTATTATTTTT
1 AAAATTTTAAAATAAATTAAAATTTTATTATATTT
** ** *
16141347 AAAAAATTAAAATATAATTTTATTTTTATTA-ATTT
1 AAAATTTTAAAATA-AATTAAAATTTTATTATATTT
*
16141382 AAAATTTTAAAA-ATATTAAAA
1 AAAATTTTAAAATAAATTAAAA
16141403 AACATAAATA
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
33 4 0.10
34 1 0.02
35 24 0.57
36 13 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (35 bp):
AAAATTTTAAAATAAATTAAAATTTTATTATATTT
Found at i:16142663 original size:3 final size:3
Alignment explanation
Indices: 16142657--16142741 Score: 82
Period size: 3 Copynumber: 27.7 Consensus size: 3
16142647 GAACAACAAC
* * *
16142657 AAT AAT AAA AAT AAT GAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
16142705 AAT GAAA AGAT CAAG AAA AAT AAT AAT -AT AAT AAT AA
1 AAT -AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AA
16142742 AATCTAAAGT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.03
3 60 0.90
4 4 0.06
5 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:16142801 original size:17 final size:17
Alignment explanation
Indices: 16142769--16142801 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16142759 TTATAAAAAG
16142769 GATATAAATAAATAAAT
1 GATATAAATAAATAAAT
16142786 GATA-AAATAAAGTAAA
1 GATATAAATAAA-TAAA
16142802 ATAAACGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (17 bp):
GATATAAATAAATAAAT
Found at i:16142904 original size:3 final size:3
Alignment explanation
Indices: 16142896--16143131 Score: 79
Period size: 3 Copynumber: 76.7 Consensus size: 3
16142886 TTATAAGAAA
* * *
16142896 AAT AAT AAT AAAT AAAT AAA AAT AAT AAT AAT AGT AAT AAT AGAA AAT
1 AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * ** * *
16142944 AAT AAG AAT AAC ACT ACATT AAT AAT AAT AAT ATAT GTT AAT AAC AAA
1 AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * * * *
16142992 AAT AAT -AT AAA AAT AGGA- AAC AAT AAT -TT ACT AAC AAG AAT AAT
1 AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
16143036 AAT AGGTT GAT AAT AAT AAT AGT AAC AAT AAT AA- AATT ATT GAT AAT
1 AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * *
16143083 AAAT AAT AAT AAT AAG AAC ATT GAT AAT AAT AA- AA- AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
16143127 GAT AA
1 AAT AA
16143132 AAACATAATA
Statistics
Matches: 168, Mismatches: 49, Indels: 32
0.67 0.20 0.13
Matches are distributed among these distances:
2 10 0.06
3 137 0.82
4 17 0.10
5 4 0.02
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:16143097 original size:28 final size:28
Alignment explanation
Indices: 16143048--16143125 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 28
16143038 TAGGTTGATA
* *
16143048 ATAATAATAGTAACAATAATAA-AATTATTG
1 ATAATAA-A-TAAAAATAATAAGAA-CATTG
*
16143078 ATAATAAATAATAATAATAAGAACATTG
1 ATAATAAATAAAAATAATAAGAACATTG
16143106 ATAAT-AATAAAAAATAATAA
1 ATAATAAAT-AAAAATAATAA
16143126 TGATAAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
27 3 0.07
28 30 0.70
29 3 0.07
30 7 0.16
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
ATAATAAATAAAAATAATAAGAACATTG
Found at i:16143113 original size:31 final size:31
Alignment explanation
Indices: 16143042--16143126 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
16143032 TAATAATAGG
* * *
16143042 TTGATAATAAT-AATAGTAACAATAATAAAA
1 TTGATAATAATAAATAATAATAATAAGAAAA
* *
16143072 TT-ATTGATAATAAATAATAATAATAAGAACA
1 TTGA-TAATAATAAATAATAATAATAAGAAAA
*
16143103 TTGATAATAATAAAAAATAATAAT
1 TTGATAATAATAAATAATAATAAT
16143127 GATAAAAACA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 1 0.02
30 8 0.18
31 35 0.78
32 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (31 bp):
TTGATAATAATAAATAATAATAATAAGAAAA
Found at i:16143272 original size:3 final size:3
Alignment explanation
Indices: 16143266--16143311 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
16143256 AAATACTAGT
* *
16143266 ATA ATA ATA ATG ATA ATA ATA ATAA ATA ATA AT- ATA TTA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
16143310 AT
1 AT
16143312 TAATTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:16144761 original size:18 final size:19
Alignment explanation
Indices: 16144727--16144778 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
16144717 TATCTTAATC
16144727 TATTTTATATGTATTAT-T
1 TATTTTATATGTATTATAT
*
16144745 TATTTTATAT-TCTTTATAT
1 TATTTTATATGT-ATTATAT
*
16144764 TATATATATATGTAT
1 TAT-TTTATATGTAT
16144779 ACATATAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 1 0.04
18 14 0.52
19 4 0.15
20 7 0.26
21 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TATTTTATATGTATTATAT
Found at i:16145107 original size:27 final size:26
Alignment explanation
Indices: 16145077--16145147 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
16145067 TGTAATATAG
* *
16145077 ATTTTAAAATGCTTTTATACATTATTT
1 ATTTTAAATTG-TTTTATACATTATTC
**
16145104 ATTTTAAACTTGTTTTATGTATTATTC
1 ATTTTAAA-TTGTTTTATACATTATTC
16145131 ATTTTAAATTGTTTTAT
1 ATTTTAAATTGTTTTAT
16145148 TATTTACTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
26 9 0.23
27 28 0.72
28 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (26 bp):
ATTTTAAATTGTTTTATACATTATTC
Found at i:16145149 original size:22 final size:22
Alignment explanation
Indices: 16145123--16145169 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16145113 TTGTTTTATG
*
16145123 TATTATTCATTTTAAATTGTTT
1 TATTATTCACTTTAAATTGTTT
* *
16145145 TATTATTTACTTTAAATTTTTT
1 TATTATTCACTTTAAATTGTTT
16145167 TAT
1 TAT
16145170 ATATATTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTATTCACTTTAAATTGTTT
Found at i:16151326 original size:33 final size:33
Alignment explanation
Indices: 16151289--16151405 Score: 139
Period size: 33 Copynumber: 3.6 Consensus size: 33
16151279 ATGGACCTTT
* * *
16151289 CCTTTTCTAA-TTGTACACCCGAGGTGCACATTC
1 CCTTTTC-AAGTTGTACACACGAAGTGCACATAC
* *
16151322 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
* * *
16151355 CCTTTTCAATTTGTACACACAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
16151388 CCTTTTCAAG-TGTACACA
1 CCTTTTCAAGTTGTACACA
16151406 TATAGTGTAC
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
32 10 0.14
33 62 0.86
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACACGAAGTGCACATAC
Found at i:16151369 original size:66 final size:64
Alignment explanation
Indices: 16151289--16151444 Score: 170
Period size: 65 Copynumber: 2.4 Consensus size: 64
16151279 ATGGACCTTT
* * * **
16151289 CCTTTTCTAATTGTACACCCGAGGTGCACATTCCCTTTTCAAGTGGTACACACGA-AGTGTACAT
1 CCTTTTC-AATTGTACACACAAAGTGCACATAACCTTTTCAAGT-GTACACA-GATAGTGTACAT
16151353 AC
63 AC
* **
16151355 CCTTTTCAATTTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACATATAGTGTACATTT
1 CCTTTTCAA-TTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACAGATAGTGTACATAC
* *
16151420 CCTTTTCAAGTGGTATACACAAAGT
1 CCTTTTCAA-TTGTACACACAAAGT
16151445 ATACATTTCC
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 1 0.01
65 40 0.52
66 36 0.47
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (64 bp):
CCTTTTCAATTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACAGATAGTGTACATAC
Found at i:16151440 original size:65 final size:66
Alignment explanation
Indices: 16151312--16151494 Score: 174
Period size: 65 Copynumber: 2.8 Consensus size: 66
16151302 TACACCCGAG
** * *
16151312 GTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACACAA
1 GTGCACATAACCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAAGTGGTACACACAA
16151377 A
66 A
* ** *
16151378 GTGCACATAACCTTTTCAAGT-GTACACA-TATAGTGTACATTTCCTTTTCAAGTGGTATACACA
1 GTGCACATAACCTTTTCAAGTGGTACACACGA-AGTGTACATACCCTTTTCAAGTGGTACACACA
16151441 AA
65 AA
** ** * * * * *
16151443 GTATACATTTCCTTTTCATA-TGGTATACACAAAGTATACCTAACCTTTTCAA
1 GTGCACATAACCTTTTCA-AGTGGTACACACGAAGTGTACATACCCTTTTCAA
16151495 ATTGTATCAT
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
64 1 0.01
65 51 0.54
66 42 0.44
67 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (66 bp):
GTGCACATAACCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAAGTGGTACACACAA
A
Found at i:16151455 original size:33 final size:33
Alignment explanation
Indices: 16151316--16151477 Score: 175
Period size: 33 Copynumber: 4.9 Consensus size: 33
16151306 CCCGAGGTGC
*
16151316 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATTCCCTTTTCAAGTGGTACACACAAAGTGT
* * * *
16151349 ACATACCCTTTTCAATTTGTACACACAAAGTGC
1 ACATTCCCTTTTCAAGTGGTACACACAAAGTGT
** * *
16151382 ACATAACCTTTTCAAGT-GTACACATATAGTGT
1 ACATTCCCTTTTCAAGTGGTACACACAAAGTGT
* * *
16151414 ACATTTCCTTTTCAAGTGGTATACACAAAGTAT
1 ACATTCCCTTTTCAAGTGGTACACACAAAGTGT
* *
16151447 ACATTTCCTTTTCATA-TGGTATACACAAAGT
1 ACATTCCCTTTTCA-AGTGGTACACACAAAGT
16151478 ATACCTAACC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
32 27 0.24
33 83 0.75
34 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
ACATTCCCTTTTCAAGTGGTACACACAAAGTGT
Found at i:16151473 original size:98 final size:98
Alignment explanation
Indices: 16151316--16151494 Score: 243
Period size: 98 Copynumber: 1.8 Consensus size: 98
16151306 CCCGAGGTGC
* * * *
16151316 ACATTCCCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACACAAAGTG
1 ACATTCCCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCAATTGGTACACACAAAGTA
16151381 CACATAACCTTTTCAAGTGTACACATATAGTGT
66 CACATAACCTTTTCAAGTGTACACATATAGTGT
* * ** *
16151414 ACATTTCCTTTTCAAGTGGTATACACAAAGTATACATTTCCTTTTC-ATATGGTATACACAAAGT
1 ACATTCCCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCAAT-TGGTACACACAAAGT
* *
16151478 ATACCTAACCTTTTCAA
65 ACACATAACCTTTTCAA
16151495 ATTGTATCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
97 2 0.03
98 67 0.97
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.34
Consensus pattern (98 bp):
ACATTCCCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCAATTGGTACACACAAAGTA
CACATAACCTTTTCAAGTGTACACATATAGTGT
Found at i:16158120 original size:2 final size:2
Alignment explanation
Indices: 16158113--16158142 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16158103 CTTACACCAA
16158113 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
16158143 TAGCCCTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16163767 original size:26 final size:26
Alignment explanation
Indices: 16163731--16163814 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
16163721 TGATACAAAT
16163731 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16163757 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16163783 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16163809 TGATAA
1 TGATAA
16163815 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16169519 original size:26 final size:26
Alignment explanation
Indices: 16169483--16169541 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
16169473 TGATACAAAT
16169483 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16169509 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16169535 TGATAAT
1 TGATAAT
16169542 TAGAGCTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16169865 original size:22 final size:22
Alignment explanation
Indices: 16169826--16169884 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
16169816 GTTTTAAGAA
*
16169826 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
16169847 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
16169869 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
16169885 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:16169901 original size:26 final size:24
Alignment explanation
Indices: 16169855--16169914 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
16169845 ATTTGTTTTA
*
16169855 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
16169879 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
16169905 TTTTTTATTT
1 ATATTTATTT
16169915 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:16182671 original size:19 final size:19
Alignment explanation
Indices: 16182649--16182687 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16182639 AAAATGGTAG
16182649 CAAAACAACAAAATAGCAA
1 CAAAACAACAAAATAGCAA
* **
16182668 CAAAATAACAGCATAGCAA
1 CAAAACAACAAAATAGCAA
16182687 C
1 C
16182688 TTATTTGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.23, G:0.08, T:0.08
Consensus pattern (19 bp):
CAAAACAACAAAATAGCAA
Found at i:16187202 original size:46 final size:46
Alignment explanation
Indices: 16187135--16187435 Score: 413
Period size: 46 Copynumber: 6.7 Consensus size: 46
16187125 TGGCAACCTG
16187135 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
16187181 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
16187219 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
16187265 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * *
16187311 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
16187357 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
16187403 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
16187436 TCACGTCAAA
Statistics
Matches: 231, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
45 1 0.00
46 190 0.82
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:16187221 original size:84 final size:84
Alignment explanation
Indices: 16187086--16187391 Score: 486
Period size: 84 Copynumber: 3.5 Consensus size: 84
16187076 AGTGTGCTCT
16187086 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
16187151 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
16187170 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
16187235 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
16187254 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
16187319 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * * **
16187346 GTAACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16187392 ATGACAGAAA
Statistics
Matches: 208, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
84 131 0.63
89 1 0.00
91 1 0.00
92 75 0.36
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:16187741 original size:23 final size:25
Alignment explanation
Indices: 16187696--16187742 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16187686 AATAAATATA
*
16187696 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
16187721 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
16187743 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:16191178 original size:68 final size:68
Alignment explanation
Indices: 16191102--16191253 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 68
16191092 CATCATGTGT
* * * *
16191102 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTAATGCTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTAATGCTAGTGAAGGACACCA
16191165 TGTAG
64 TGTAG
* ** *
16191170 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTAATGCTA-GTGAAGGACACCAT
16191233 GTAG
65 GTAG
16191237 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
16191254 TAAACTAGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 3 0.04
67 27 0.38
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTAATGCTAGTGAAGGACACCATG
TAG
Found at i:16193801 original size:62 final size:62
Alignment explanation
Indices: 16193502--16193784 Score: 503
Period size: 62 Copynumber: 4.6 Consensus size: 62
16193492 CAATGTACCT
*
16193502 AATTTATATTACAAAGTTTGTTCCAATTTTTATTGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
16193564 AATTTATATTACAAAGTTTGTTCCAATTTTTATTGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* *
16193626 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTTATATATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
16193688 AATTTATATTACAAAGTTTGGTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* *
16193750 AATTTATATTATAAAGTTTGTTCCAAGTTTTAATG
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATG
16193785 CTGCAATTAA
Statistics
Matches: 212, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 212 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
Found at i:16195714 original size:93 final size:93
Alignment explanation
Indices: 16195601--16195772 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16195591 CGCCCATAAG
* *
16195601 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16195666 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
16195694 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16195759 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
16195773 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16195769 original size:46 final size:46
Alignment explanation
Indices: 16195594--16195769 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
16195584 TGTAACCCGC
* * *
16195594 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
16195640 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
16195690 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16195733 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
16195770 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16198117 original size:26 final size:26
Alignment explanation
Indices: 16198080--16198214 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
16198070 TGATACAAAT
*
16198080 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16198106 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16198132 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16198158 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16198183 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16198209 TGATAA
1 TGATAA
16198215 GAATTCATGT
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 24 0.23
26 79 0.77
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16198195 original size:51 final size:52
Alignment explanation
Indices: 16198080--16198214 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
16198070 TGATACAAAT
16198080 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
16198132 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
16198183 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
16198215 GAATTCATGT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 48 0.59
52 33 0.41
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:16199744 original size:25 final size:25
Alignment explanation
Indices: 16199696--16199744 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16199686 ACAGTTTTAC
16199696 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
16199721 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
16199745 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:16203872 original size:26 final size:26
Alignment explanation
Indices: 16203835--16203969 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
16203825 TGATACAAAT
*
16203835 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16203861 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16203887 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16203913 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16203938 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16203964 TGATAA
1 TGATAA
16203970 GAATATCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 24 0.23
26 79 0.77
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16203950 original size:51 final size:52
Alignment explanation
Indices: 16203835--16203969 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
16203825 TGATACAAAT
16203835 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
16203887 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
16203938 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
16203970 GAATATCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 48 0.59
52 33 0.41
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:16205496 original size:25 final size:25
Alignment explanation
Indices: 16205448--16205496 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16205438 ACAGTTTTAC
16205448 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
16205473 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
16205497 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:16211622 original size:93 final size:93
Alignment explanation
Indices: 16211509--16211678 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
16211499 CCCATAAGCT
* *
16211509 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
16211574 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
16211602 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
16211667 GAGTTCGGATGC
66 GAGTTCGGATGC
16211679 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:16211675 original size:46 final size:46
Alignment explanation
Indices: 16211500--16211675 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
16211490 TGTAACCCGC
* * *
16211500 CCATAAGCT-AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16211546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
16211596 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16211639 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16211676 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Done.