Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 182 of 290
Found at i:58595069 original size:30 final size:30
Alignment explanation
Indices: 58595034--58595107 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
58595024 AGTTTTTCCC
58595034 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
58595064 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
58595094 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
58595108 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:58595097 original size:20 final size:20
Alignment explanation
Indices: 58595034--58595098 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
58595024 AGTTTTTCCC
* * * *
58595034 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
58595054 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
58595073 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
58595094 AGCTC
1 AGCTC
58595099 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:58597308 original size:30 final size:30
Alignment explanation
Indices: 58597274--58597358 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 30
58597264 AGCTGGAGCT
* *
58597274 ATCCCTTTTCATAATTTAATGGTCGTCACC
1 ATCCCTTTTCATAATTCAATAGTCGTCACC
** * *
58597304 ATCCCTTTTCATTGTTCCATAGTTGTCACC
1 ATCCCTTTTCATAATTCAATAGTCGTCACC
58597334 ATCCCTTTTCATAATTCAATAGTCG
1 ATCCCTTTTCATAATTCAATAGTCG
58597359 AAGCTATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCAATAGTCGTCACC
Found at i:58600690 original size:29 final size:30
Alignment explanation
Indices: 58600653--58600723 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
58600643 GGTCATCACC
*
58600653 ATCCGTTTTCATAATCGATAG-CCAAAGCT
1 ATCCATTTTCATAATCGATAGCCCAAAGCT
* * * * *
58600682 ATCCCTTTTCGTATTCGTTAGCCCGAAGCT
1 ATCCATTTTCATAATCGATAGCCCAAAGCT
58600712 ATCCATTTTCAT
1 ATCCATTTTCAT
58600724 TTGTTGATGG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.37
Consensus pattern (30 bp):
ATCCATTTTCATAATCGATAGCCCAAAGCT
Found at i:58602565 original size:25 final size:25
Alignment explanation
Indices: 58602537--58602586 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
58602527 CCATCTTTAT
* * *
58602537 GCTCGACTGATAACTGTTATTATAC
1 GCTCAACTGATAACTATTACTATAC
*
58602562 GCTCAATTGATAACTATTACTATAC
1 GCTCAACTGATAACTATTACTATAC
58602587 ACGAATTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (25 bp):
GCTCAACTGATAACTATTACTATAC
Found at i:58607140 original size:54 final size:54
Alignment explanation
Indices: 58607029--58607141 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
58607019 TTCTGTGCCT
* **
58607029 GTGTAACTCTCTAACTTGGTCACATAGCCAAGCCACTCACCCATGTCCATTCTC
1 GTGTAACTCTCTAACTTGGTCACATAGCCAAGCCACACACCCATGTCCAGGCTC
* * *
58607083 GTGTAACTCTCTAACTTGGTCACATGGCCAAGCCACACGCCCATGTGCTAGGC-C
1 GTGTAACTCTCTAACTTGGTCACATAGCCAAGCCACACACCCATGT-CCAGGCTC
58607137 GTGTA
1 GTGTA
58607142 CCCTTCGAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (54 bp):
GTGTAACTCTCTAACTTGGTCACATAGCCAAGCCACACACCCATGTCCAGGCTC
Found at i:58608230 original size:30 final size:30
Alignment explanation
Indices: 58608196--58608447 Score: 147
Period size: 30 Copynumber: 8.4 Consensus size: 30
58608186 TGGTTAACCC
* *
58608196 ATCCCTTTTCATAATTTGATAACTGAAGTT
1 ATCCCTTTTCATAATTTGATAGCTGAAGCT
* * *
58608226 ATCCCTTTTTCATAGTTCGATAGTTGAAGCT
1 ATCCC-TTTTCATAATTTGATAGCTGAAGCT
* * * * *
58608257 GTCCCTTTTCATAACTTGAT-GGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATAGCT-G-AAGCT
* * *
58608287 ATCTCTTTTCATAAATTGATAGCTGAAGTT
1 ATCCCTTTTCATAATTTGATAGCTGAAGCT
* * * *
58608317 ATCCCTTTTCATAAATCGATAGCCGAAGCC
1 ATCCCTTTTCATAATTTGATAGCTGAAGCT
* * * * * * *
58608347 ATCTCTATTCATAGTTTGATGGCCGTCA-CC
1 ATCCCTTTTCATAATTTGATAGCTG-AAGCT
* *
58608377 ATCCCTTTTCATAA-TCGATAG-TCGAAGTT
1 ATCCCTTTTCATAATTTGATAGCT-GAAGCT
* *
58608406 ATCCTTTTTCAT-ATTTGTTAGCTTGAAGCT
1 ATCCCTTTTCATAATTTGATAGC-TGAAGCT
*
58608436 ATCCATTTTCAT
1 ATCCCTTTTCAT
58608448 TTGTCGATGA
Statistics
Matches: 166, Mismatches: 45, Indels: 22
0.71 0.19 0.09
Matches are distributed among these distances:
28 2 0.01
29 25 0.15
30 110 0.66
31 29 0.17
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGCTGAAGCT
Found at i:58608366 original size:90 final size:90
Alignment explanation
Indices: 58608194--58608418 Score: 274
Period size: 90 Copynumber: 2.5 Consensus size: 90
58608184 GATGGTTAAC
* * ** ** **
58608194 CCATCCCTTTTCATAATTTGATAACTGAAGTTATCCCTTTTTCATAGTTCGATAGTTGAAGCTGT
1 CCATCCCTTTTCATAAATTGATAGCTGAAGTTATCCC-TTTTCATAAATCGATAGCCGAAGCCAT
* *
58608259 CCCTTTTCATAACTTGATGGTCGTCA
65 CCCTATTCATAACTTGATGGCCGTCA
*
58608285 CCATCTCTTTTCATAAATTGATAGCTGAAGTTATCCCTTTTCATAAATCGATAGCCGAAGCCATC
1 CCATCCCTTTTCATAAATTGATAGCTGAAGTTATCCCTTTTCATAAATCGATAGCCGAAGCCATC
* **
58608350 TCTATTCATAGTTTGATGGCCGTCA
66 CCTATTCATAACTTGATGGCCGTCA
* *
58608375 CCATCCCTTTTCAT-AATCGATAG-TCGAAGTTATCCTTTTTCATA
1 CCATCCCTTTTCATAAATTGATAGCT-GAAGTTATCCCTTTTCATA
58608419 TTTGTTAGCT
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 1 0.01
89 26 0.22
90 55 0.47
91 34 0.29
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (90 bp):
CCATCCCTTTTCATAAATTGATAGCTGAAGTTATCCCTTTTCATAAATCGATAGCCGAAGCCATC
CCTATTCATAACTTGATGGCCGTCA
Found at i:58609913 original size:43 final size:44
Alignment explanation
Indices: 58609864--58610028 Score: 128
Period size: 43 Copynumber: 3.9 Consensus size: 44
58609854 GGTTATCGAG
* * *
58609864 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTAATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * ** *
58609908 -TGTGATCATGTGTAAGACCATGT-T-GGACATTGGCATCGT-T
1 ATGTAATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * *
58609948 CT-TCAATTTCGTGTAAGACCCTATCTGGGACAGTGCCATCG-AT
1 ATGT-AATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
58609991 ATGTAATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTAATTACATGTAAGACCATATCTGGGACATTGGCAT
58610029 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
40 2 0.02
41 29 0.30
42 7 0.07
43 57 0.59
44 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGTAATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:58613743 original size:37 final size:37
Alignment explanation
Indices: 58613693--58613771 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58613683 TTATTACGAA
* *
58613693 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
58613730 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
58613767 GTCTT
1 GTCTT
58613772 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:58613968 original size:47 final size:47
Alignment explanation
Indices: 58613890--58614755 Score: 1531
Period size: 47 Copynumber: 18.4 Consensus size: 47
58613880 CCCTTCGGGA
* * * * * * *
58613890 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58613937 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58613984 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614078 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614125 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58614172 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58614219 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614266 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58614315 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58614362 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58614409 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614456 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614505 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58614551 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614598 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614643 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58614690 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58614737 CTTATCACATATATACACT
1 CTTATCACATATATACACT
58614756 GTCTTGGCTG
Statistics
Matches: 790, Mismatches: 22, Indels: 14
0.96 0.03 0.02
Matches are distributed among these distances:
45 44 0.06
46 45 0.06
47 609 0.77
49 92 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58621446 original size:42 final size:42
Alignment explanation
Indices: 58621389--58621548 Score: 171
Period size: 42 Copynumber: 3.8 Consensus size: 42
58621379 ACATTAGGGT
* * * *
58621389 TATGAG-TTTACATGTAAGACCATATCTGAGATATGGCATCGT
1 TATGAGATTT-CATGTAAAACCATATCTGGGATATAGCATCGA
* *
58621431 TATGAGATTTCATGTAAAACCATGTCTGGGACATAGCATCGA
1 TATGAGATTTCATGTAAAACCATATCTGGGATATAGCATCGA
* * * *
58621473 TATGAGA-ATCGTGTAAAACCATAGCTGGGCTATTAGCATCGA
1 TATGAGATTTCATGTAAAACCATATCTGGGATA-TAGCATCGA
** *
58621515 TATGAGATCCCATGTAAGACCATATCTGGGATAT
1 TATGAGATTTCATGTAAAACCATATCTGGGATAT
58621549 GACATTGGTA
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 19 0.20
42 56 0.58
43 22 0.23
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
TATGAGATTTCATGTAAAACCATATCTGGGATATAGCATCGA
Found at i:58627084 original size:27 final size:26
Alignment explanation
Indices: 58627049--58627160 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
58627039 AGCATGGCTG
*
58627049 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
58627075 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
58627103 CCAGAACAGATATATGTGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
58627130 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
58627157 CCAG
1 CCAG
58627161 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:58627113 original size:54 final size:54
Alignment explanation
Indices: 58627049--58627160 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
58627039 AGCATGGCTG
*
58627049 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* *
58627103 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
58627157 CCAG
1 CCAG
58627161 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 35 0.65
55 19 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:58634976 original size:27 final size:26
Alignment explanation
Indices: 58634914--58635025 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
58634904 AGCATGGCTT
* * *
58634914 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
58634940 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
58634968 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
58634995 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
58635022 CCAG
1 CCAG
58635026 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.07
27 53 0.72
28 16 0.22
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:58634979 original size:54 final size:54
Alignment explanation
Indices: 58634914--58635025 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
58634904 AGCATGGCTT
* * *
58634914 CCAGAATAGATA-ATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
58634968 CCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
58635022 CCAG
1 CCAG
58635026 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:58635192 original size:28 final size:26
Alignment explanation
Indices: 58635131--58635193 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
58635121 AAAGTAACCC
* * *
58635131 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
*
58635157 TAGGGGTATAGTAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
58635185 TAGGGGTAT
1 TAGGGGTAT
58635194 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:58639907 original size:46 final size:44
Alignment explanation
Indices: 58639854--58640029 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 44
58639844 TATTTGGGCA
58639854 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
** * *
58639900 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGT-TGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-A-CTTATG-GA-T-GGAAG
* * *
58639947 TCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
58639993 -CCCAAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58640030 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 5 0.05
46 60 0.58
47 29 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:58640009 original size:93 final size:93
Alignment explanation
Indices: 58639850--58640021 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
58639840 AGGATATTTG
* * * *
58639850 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
58639915 TTGAGTCCGAGTTCGAGAGTTGTAACTA
66 TTGAGTCCGAGTTCGAGAGTTGTAACTA
* *
58639943 GGCATCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGGATGTGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGA
*
58640007 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
58640022 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGTTGTAACTA
Found at i:58645375 original size:20 final size:20
Alignment explanation
Indices: 58645352--58645405 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
58645342 AGTTTTTCCC
*
58645352 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
58645372 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
58645392 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
58645406 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:58645387 original size:30 final size:30
Alignment explanation
Indices: 58645352--58645425 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
58645342 AGTTTTTCCC
58645352 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
58645382 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
58645412 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
58645426 TGGATTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:58645415 original size:20 final size:20
Alignment explanation
Indices: 58645352--58645416 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
58645342 AGTTTTTCCC
* * * *
58645352 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
58645372 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
58645391 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
58645412 AGCTC
1 AGCTC
58645417 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:58647043 original size:13 final size:12
Alignment explanation
Indices: 58647011--58647044 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
58647001 TTGGAGTAAC
58647011 AAAAAAAA-TCA
1 AAAAAAAATTCA
58647022 AAAAAAAATTCGA
1 AAAAAAAATTC-A
58647035 AAAAAAAATT
1 AAAAAAAATT
58647045 GATTGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.38
12 2 0.10
13 11 0.52
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:58648126 original size:15 final size:15
Alignment explanation
Indices: 58648108--58648141 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
58648098 AAAAGAAATT
58648108 GAAAGAAAACAAAAA
1 GAAAGAAAACAAAAA
*
58648123 GAAAGAAAAGAAAAA
1 GAAAGAAAACAAAAA
58648138 GAAA
1 GAAA
58648142 TTGCAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (15 bp):
GAAAGAAAACAAAAA
Found at i:58648137 original size:6 final size:6
Alignment explanation
Indices: 58648124--58648213 Score: 56
Period size: 6 Copynumber: 14.7 Consensus size: 6
58648114 AAACAAAAAG
** * ** **
58648124 AAAG-A AAAGAA AAAGAA ATTGCA AAAGAA AAAGAA ATCGAA AAAGTG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* * *
58648171 AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA AAAGAA AAAG
58648214 CGAAAAAAGA
Statistics
Matches: 61, Mismatches: 20, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
5 4 0.07
6 46 0.75
7 7 0.11
8 4 0.07
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:58648167 original size:18 final size:18
Alignment explanation
Indices: 58648128--58648168 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
58648118 AAAAAGAAAG
* *
58648128 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
58648146 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAATCGA
58648164 AAAAG
1 AAAAG
58648169 TGAGAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:58648195 original size:14 final size:13
Alignment explanation
Indices: 58648174--58648211 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
58648164 AAAAGTGAGA
58648174 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
58648186 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
58648201 GAAAAAGAAAA
1 GAAAAAGAAAA
58648212 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:58648225 original size:21 final size:21
Alignment explanation
Indices: 58648175--58648225 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
58648165 AAAGTGAGAG
*
58648175 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
58648196 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
58648217 AAAAAGAAA
1 AAAAAGAAA
58648226 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:58648265 original size:33 final size:33
Alignment explanation
Indices: 58648228--58648290 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
58648218 AAAAGAAATT
58648228 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
58648261 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
58648291 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:58650085 original size:20 final size:20
Alignment explanation
Indices: 58650062--58650115 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
58650052 AGTTTTTCCC
*
58650062 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
58650082 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
58650102 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
58650116 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:58650097 original size:30 final size:30
Alignment explanation
Indices: 58650062--58650135 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
58650052 AGTTTTTCCC
58650062 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
58650092 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
58650122 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
58650136 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:58650125 original size:20 final size:20
Alignment explanation
Indices: 58650062--58650126 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
58650052 AGTTTTTCCC
* * * *
58650062 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
58650082 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
58650101 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
58650122 AGCTC
1 AGCTC
58650127 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:58653577 original size:45 final size:45
Alignment explanation
Indices: 58653513--58653735 Score: 178
Period size: 45 Copynumber: 5.0 Consensus size: 45
58653503 TAGGATTCCG
* * * *
58653513 ATATGTGTTTTTGTATAAGACCTTGTCTAAGACGTCGACATTGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTAAGACGTCGACATCGAT
** * * *
58653558 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCGTCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTAAGACGTCGACATCGAT
* ** * * *
58653603 ATATATGTTTTCGTGTAAGACCACATC-AGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTA-AGACGTCGACATCGAT
* * * ** * * *
58653648 ATATCTATTTTCGTGTAAGACCATGTTTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTAAGACGTCGACATCGAT
* * * * *
58653693 ATATGTGGTTACGTGTAAGACCATGTCTAGGACATCGGCATCG
1 ATATGTGTTTTCGTGTAAGACCATGTCTAAGACGTCGACATCG
58653736 TATTGATTCA
Statistics
Matches: 148, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
45 148 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCATGTCTAAGACGTCGACATCGAT
Found at i:58653733 original size:90 final size:90
Alignment explanation
Indices: 58653528--58653735 Score: 256
Period size: 90 Copynumber: 2.3 Consensus size: 90
58653518 TGTTTTTGTA
* * * * * * *
58653528 TAAGACCTTGTCTAAGACGTCGACATTGATATATGTGTTTTCGTGTAAGACCATGTCTGGGACGT
1 TAAGACCATGTCTAGGACGTCGGCATCGATATATCTATTTTCGTGTAAGACCATGTCTGGGACAT
* * *
58653593 TGGCGTCGATATATATGTTTTCGTG
66 TGGCATCGATATATATGGTTACGTG
** * *
58653618 TAAGACCACATC-AGGGACGTTGGCATCGATATATCTATTTTCGTGTAAGACCATGTTTGGGACA
1 TAAGACCATGTCTA-GGACGTCGGCATCGATATATCTATTTTCGTGTAAGACCATGTCTGGGACA
*
58653682 TTGGCATCGATATATGTGGTTACGTG
65 TTGGCATCGATATATATGGTTACGTG
*
58653708 TAAGACCATGTCTAGGACATCGGCATCG
1 TAAGACCATGTCTAGGACGTCGGCATCG
58653736 TATTGATTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
89 1 0.01
90 95 0.98
91 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (90 bp):
TAAGACCATGTCTAGGACGTCGGCATCGATATATCTATTTTCGTGTAAGACCATGTCTGGGACAT
TGGCATCGATATATATGGTTACGTG
Found at i:58653795 original size:16 final size:17
Alignment explanation
Indices: 58653774--58653812 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
58653764 ACTGTAACGC
58653774 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
*
58653790 CCCAAAAATCTCGAAAT
1 CCCAAAAATCCCGAAAT
58653807 CCCAAA
1 CCCAAA
58653813 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:58655396 original size:29 final size:29
Alignment explanation
Indices: 58655364--58655450 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
58655354 TTTATAAATA
58655364 TGATTTGGGCTTAATGGGCCATATACAGG
1 TGATTTGGGCTTAATGGGCCATATACAGG
* **
58655393 TGATTTGGGCCTAATGGGCCATATGA-ATA
1 TGATTTGGGCTTAATGGGCCATAT-ACAGG
*
58655422 TGA-TTGGGCTTAATGGGCCAGATACAGG
1 TGATTTGGGCTTAATGGGCCATATACAGG
58655450 T
1 T
58655451 ATGTGAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 1 0.02
28 20 0.41
29 27 0.55
30 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
TGATTTGGGCTTAATGGGCCATATACAGG
Found at i:58667140 original size:192 final size:190
Alignment explanation
Indices: 58666807--58667180 Score: 491
Period size: 192 Copynumber: 2.0 Consensus size: 190
58666797 CAAATAAAGT
* * * *
58666807 GCCAATGCCATGTCCCTGACATGGTCTTACATGAATTCACATATCTTCGTTGATGCCAAGTCCCA
1 GCCAATGCCATGTCCCAGACATGGCCTTACATGAA-TCACATATCATCGCTGATGCCAAGTCCCA
** * * **
58666872 GACATGGTCTTACACTGGCACACATATCATCGCTGATGCCATGTCCCAAACATGGTTTACATTGG
65 GACATAATCTTACACAGGCACACATATCATCGCCGATGCCATGTCCCAAACATGGTTTACACAGG
* *
58666937 CACACATATCATCATAGATGCCTTTATCCCAGACACGGTCTTACACAGGCACACATATCATC
130 CACACATATCATCACAGATGCC-ATATCCCAGACACGGTCTTACACAGGCACACATATCATC
* * *
58666999 GCCAATGCCATGTCCCAGACATGGCCTTACATAGGCA-CACATATCATCGCTGCTGCCATGTCCC
1 GCCAATGCCATGTCCCAGACATGGCCTTACAT--GAATCACATATCATCGCTGATGCCAAGTCCC
* * *
58667063 AGACATAATCTTACACAGGCACACATATCA-CGCCGATGTCATGTCCCAGACTTGGTCTTACACA
64 AGACATAATCTTACACAGGCACACATATCATCGCCGATGCCATGTCCCAAACATGGT-TTACACA
* * * *
58667127 GGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACA
128 GGCACACATATCATCACAGATGCCATATCCCAGACACGGTCTTACACAGGCACA
58667181 TTCAGCACAA
Statistics
Matches: 157, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
191 49 0.31
192 106 0.68
194 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (190 bp):
GCCAATGCCATGTCCCAGACATGGCCTTACATGAATCACATATCATCGCTGATGCCAAGTCCCAG
ACATAATCTTACACAGGCACACATATCATCGCCGATGCCATGTCCCAAACATGGTTTACACAGGC
ACACATATCATCACAGATGCCATATCCCAGACACGGTCTTACACAGGCACACATATCATC
Found at i:58667181 original size:48 final size:48
Alignment explanation
Indices: 58666811--58667180 Score: 424
Period size: 48 Copynumber: 7.7 Consensus size: 48
58666801 TAAAGTGCCA
* * * * **
58666811 ATGCCATGTCCCTGACATGGTCTT--ACATGAATTCACATATCTTCGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCA--CACATATCATCGCCG
* * *
58666859 ATGCCAAGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* ** ***
58666907 ATGCCATGTCCCAAACATGGT-TTACATTGGCACACATATCATCATAG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* * * *
58666954 ATGCCTTTATCCCAGACACGGTCTTACACAGGCACACATATCATCGCCA
1 ATGCC-ATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* * *
58667003 ATGCCATGTCCCAGACATGGCCTTACATAGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* **
58667051 CTGCCATGTCCCAGACATAATCTTACACAGGCACACATATCA-CGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* * * *
58667098 ATGTCATGTCCCAGACTTGGTCTTACACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
58667146 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
58667181 TTCAGCACAA
Statistics
Matches: 272, Mismatches: 45, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
47 67 0.25
48 176 0.65
49 25 0.09
50 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
Found at i:58670244 original size:30 final size:30
Alignment explanation
Indices: 58670198--58670258 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58670188 TTTCCGATCC
58670198 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
58670228 TAGGGGCAAAATTGTAATTGTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
58670258 T
1 T
58670259 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:58670843 original size:68 final size:66
Alignment explanation
Indices: 58670768--58670975 Score: 187
Period size: 67 Copynumber: 3.2 Consensus size: 66
58670758 CATCATGTGT
*
58670768 ACAAGAGAGCTACGAGACATTATGATATAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAGA-A-TATGATATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
58670833 TAG
64 TAG
* * * * * * *
58670836 ACAAGAGAGCTACGGGATATATG-TA-A-CTAGGTCGCATGCGTGGTTCCAGGTGAAGGACAACA
1 ACAAGAGAGCTACGAGA-ATATGATATAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCA
58670898 TGTAG
62 TGTAG
* * * * *
58670903 ACAAGAGAGCTACGAG-ATA-GA-CTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-
1 ACAAGAGAGCTACGAGAATATGATATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTA
58670964 G
66 G
58670965 TACAAGAGAGC
1 -ACAAGAGAGC
58670976 CAAAATTATG
Statistics
Matches: 112, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 20 0.18
65 4 0.04
66 22 0.20
67 30 0.27
68 17 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAATATGATATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTA
G
Found at i:58672429 original size:27 final size:26
Alignment explanation
Indices: 58672389--58672492 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
58672379 AGGAAGCGTC
* *
58672389 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
58672416 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
58672443 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
58672471 CTGGTGACTCTGTCACATTATC
1 CTGGTGGCTCTGCCACATTATC
58672493 CGTTCTGGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.03
27 48 0.73
28 16 0.24
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:58672498 original size:54 final size:54
Alignment explanation
Indices: 58672389--58672500 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
58672379 AGGAAGCGTC
* * *
58672389 CTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCCGTT
* * * *
58672443 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCCGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCCGTT
58672497 CTGG
1 CTGG
58672501 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCCGTT
Found at i:58673400 original size:30 final size:30
Alignment explanation
Indices: 58673356--58673444 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
58673346 CAAAGATAAC
*
58673356 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
58673385 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
58673415 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
58673445 TGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:58673404 original size:15 final size:14
Alignment explanation
Indices: 58673356--58673438 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
58673346 CAAAGATAAC
*
58673356 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
58673370 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
58673385 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
58673400 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
58673415 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
58673430 AAGAAACCC
1 AAGAAACCC
58673439 AAGATATGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:58673444 original size:15 final size:15
Alignment explanation
Indices: 58673367--58673444 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
58673357 AGAAAACCGA
58673367 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
58673382 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
58673396 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
58673411 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
58673427 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
58673442 ATA
1 ATA
58673445 TGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:58678024 original size:42 final size:40
Alignment explanation
Indices: 58677873--58678025 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 40
58677863 ATGAGTTACG
* * *
58677873 TGTAAGACCATACCTGGGATATGACATCGTTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA--TCA
* *
58677915 TGTAAGACCATGTCTAGGG-CATGGCATCGATATGAGAATCA
1 TGTAAGACCATATCT-GGGATATGGCATCGATATGAG-ATCA
* *
58677956 TGTAA-AGCCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGA-CCATATCTGGGATA-TGGCATCGATATGAGAT--CA
* *
58677999 TGTAAGACCACATCTTGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
58678026 TGGTATGATT
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
40 4 0.04
41 17 0.19
42 48 0.53
43 21 0.23
44 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (40 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCA
Found at i:58680037 original size:68 final size:69
Alignment explanation
Indices: 58679915--58680045 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 69
58679905 AAAAATTAAT
* * * * * * *
58679915 CACTTTAATATTAAATTAATATAATACTTATCGAGATAAATATTATATTAAATTTAATATTAAGA
1 CACTTTAACATTAAATTAACAAAATACTTATCAAGATAAAGATTAAACTAAATTTAATATTAAGA
58679980 TAAC
66 TAAC
*
58679984 CACTTTAACATTAAATTAACAAAATA-TTATCAAGATAAGGATTAAACTAAATTTAATATTAA
1 CACTTTAACATTAAATTAACAAAATACTTATCAAGATAAAGATTAAACTAAATTTAATATTAA
58680046 ATCTATTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
68 31 0.57
69 23 0.43
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (69 bp):
CACTTTAACATTAAATTAACAAAATACTTATCAAGATAAAGATTAAACTAAATTTAATATTAAGA
TAAC
Found at i:58683046 original size:21 final size:22
Alignment explanation
Indices: 58683020--58683070 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
58683010 CCTGCAGCAT
**
58683020 GGGCGTGTCCC-GGGGTCACAC
1 GGGCGTGTCCCTGGGACCACAC
*
58683041 GGGCGTGTCCCTTGGACCACAC
1 GGGCGTGTCCCTGGGACCACAC
58683063 GGGCGTGT
1 GGGCGTGT
58683071 AAACCCTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.10, C:0.31, G:0.41, T:0.18
Consensus pattern (22 bp):
GGGCGTGTCCCTGGGACCACAC
Found at i:58684924 original size:39 final size:40
Alignment explanation
Indices: 58684842--58685025 Score: 198
Period size: 39 Copynumber: 4.7 Consensus size: 40
58684832 GCTACTCGTT
* *
58684842 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATT-TAGTAACTCGCA
58684882 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * *
58684921 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * * * *
58684960 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAAC-TCGCA
* *
58685001 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
58685026 AATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 6 0.05
39 58 0.47
40 50 0.40
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:58685025 original size:40 final size:40
Alignment explanation
Indices: 58684823--58685025 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
58684813 CAGAATTTAA
** *
58684823 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58684863 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA-A
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58684902 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58684941 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
58684981 CCGGATATGGTCACTTAGCATAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58685021 CCGGA
1 CCGGA
58685026 AATCATTCAA
Statistics
Matches: 138, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
38 6 0.04
39 59 0.43
40 62 0.45
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58692873 original size:79 final size:82
Alignment explanation
Indices: 58692762--58692946 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
58692752 GCTACTCGTT
* *
58692762 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
58692825 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
58692842 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
58692905 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
58692922 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58692947 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:58692946 original size:40 final size:40
Alignment explanation
Indices: 58692743--58692946 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
58692733 CGGAATTTAA
** *
58692743 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58692783 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58692823 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58692862 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
58692902 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58692942 CCGGA
1 CCGGA
58692947 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58696916 original size:26 final size:27
Alignment explanation
Indices: 58696887--58696946 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
58696877 CCACATATAT
*
58696887 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
58696913 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
58696940 ATATCTG
1 ATATCTG
58696947 GCAGCTTCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:58705345 original size:25 final size:25
Alignment explanation
Indices: 58705316--58705365 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
58705306 AGTGTCTCAG
* * *
58705316 TACTACCTATAATAGTTTCAGAATA
1 TACTACCAAAAATAGTTTCAAAATA
*
58705341 TACTATCAAAAATAGTTTCAAAATA
1 TACTACCAAAAATAGTTTCAAAATA
58705366 ATTCACAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (25 bp):
TACTACCAAAAATAGTTTCAAAATA
Found at i:58706480 original size:18 final size:19
Alignment explanation
Indices: 58706443--58706480 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
58706433 AATGCAATAT
*
58706443 ACATATATGACATGCTAAA
1 ACATATATGACATGCAAAA
*
58706462 ACATA-ATGTCATGCAAAA
1 ACATATATGACATGCAAAA
58706480 A
1 A
58706481 ATCAGGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (19 bp):
ACATATATGACATGCAAAA
Found at i:58706711 original size:17 final size:18
Alignment explanation
Indices: 58706677--58706713 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58706667 GCCCATGTTG
*
58706677 CATGCTCGTGTAGGCCCA
1 CATGCCCGTGTAGGCCCA
58706695 CATGCCCGTGT-GGCCCA
1 CATGCCCGTGTAGGCCCA
58706712 CA
1 CA
58706714 CAGCCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.38, G:0.27, T:0.19
Consensus pattern (18 bp):
CATGCCCGTGTAGGCCCA
Found at i:58709621 original size:5 final size:5
Alignment explanation
Indices: 58709611--58709643 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
58709601 AAATCAGCTG
58709611 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTC
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTC
58709644 GTATGACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:58711058 original size:34 final size:34
Alignment explanation
Indices: 58711016--58711085 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
58711006 CTTTGAGATA
*
58711016 ATATATATCATACCAACACATCATCTGTATAAAT
1 ATATATATCATACCAACACATCATCTGCATAAAT
*
58711050 ATATATATCATACCAACACATCATGTGCATAAAT
1 ATATATATCATACCAACACATCATCTGCATAAAT
58711084 AT
1 AT
58711086 GTGCAAGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (34 bp):
ATATATATCATACCAACACATCATCTGCATAAAT
Found at i:58711856 original size:43 final size:43
Alignment explanation
Indices: 58711802--58711927 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
58711792 TATCATACAG
** * *
58711802 TGCCAACGTCCCAGGTGTGGTCTTACATGTAACCTCATATCGA
1 TGCCAACGTCCCAGAAGTGGTCTTACATGTAAACACATATCGA
* *
58711845 TGCC-ACTGTCCCAAACAG-GGTCTTACTTGTAAACACATATCGA
1 TGCCAAC-GTCCCAGA-AGTGGTCTTACATGTAAACACATATCGA
* * *
58711888 TGCCAACGTCCCAGACGTGGTCTTACAGGTAATCACATAT
1 TGCCAACGTCCCAGAAGTGGTCTTACATGTAAACACATAT
58711928 ACATCCATGT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.04
43 62 0.91
44 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
TGCCAACGTCCCAGAAGTGGTCTTACATGTAAACACATATCGA
Found at i:58714254 original size:27 final size:27
Alignment explanation
Indices: 58714224--58714300 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
58714214 GGCATAATCA
*
58714224 TCATTCTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* * *
58714251 TCATTTTACCCTACAGAGGCATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
*
58714278 TCATTTTA-CACTACAAGGGTATT
1 TCATTTTACCA-TACAGGGGTATT
58714301 TTAGTAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:58719417 original size:27 final size:26
Alignment explanation
Indices: 58719316--58719420 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
58719306 ATGAAGCGTC
* * *
58719316 CTGGTGGTTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTTAT
*
58719343 CTGGTGGCTTTGCCACATATATCTCT-T
1 CTGGTGGCTCTGCCACAT-TATCT-TAT
58719370 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-TAT
* *
58719398 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
58719421 GTTATGGCAG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 2 0.03
27 48 0.72
28 17 0.25
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTTAT
Found at i:58719420 original size:54 final size:54
Alignment explanation
Indices: 58719316--58719420 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
58719306 ATGAAGCGTC
* * *
58719316 CTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTCTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTCTT
* * * *
58719370 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCT
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTGCCACATATATCT
58719421 GTTATGGCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 26 0.60
55 17 0.40
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTCTT
Found at i:58722861 original size:47 final size:47
Alignment explanation
Indices: 58722807--58723260 Score: 637
Period size: 47 Copynumber: 9.6 Consensus size: 47
58722797 TATTTGAATA
* *
58722807 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
58722854 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
58722903 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
58722950 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
58722999 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
58723046 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
58723093 AATGTGAACA-TGTGTATGTGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
58723140 AATGTGAACA-TGCATATATGAGATAAGGCTGAATGACCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
58723187 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
58723234 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58723261 TCCCGAGGGG
Statistics
Matches: 372, Mismatches: 29, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 278 0.75
49 92 0.25
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:58726173 original size:54 final size:54
Alignment explanation
Indices: 58726069--58726181 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
58726059 AGGAAGCGTC
* *
58726069 CTGGTGGTTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATATCTGTT
* * * **
58726123 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTGACTCTACCACATATATCTGTT
58726177 CTGGT
1 CTGGT
58726182 CGCCATGCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATATCTGTT
Found at i:58726174 original size:27 final size:26
Alignment explanation
Indices: 58726069--58726181 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
58726059 AGGAAGCGTC
* * **
58726069 CTGGTGGTTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
58726096 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
58726123 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
58726151 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
58726177 CTGGT
1 CTGGT
58726182 CGCCATGCTG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 50 0.67
28 17 0.23
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:58735422 original size:15 final size:15
Alignment explanation
Indices: 58735402--58735456 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
58735392 ACTCTCCTCA
*
58735402 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
58735417 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
58735432 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
58735446 TTCTTTT-TCTC
1 TTCTTTTCTCTC
58735457 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:58741603 original size:22 final size:22
Alignment explanation
Indices: 58741575--58741697 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
58741565 ACATGCATAT
58741575 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
* *
58741597 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCTG-A-ATGGC-CA
*
58741621 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
* *
58741644 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCTG-A-ATGGC-CA
*
58741668 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
58741691 ATGTGAT
1 ATGTGAT
58741698 GAACGTGAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
22 24 0.32
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:58741735 original size:47 final size:47
Alignment explanation
Indices: 58741268--58741720 Score: 728
Period size: 47 Copynumber: 9.6 Consensus size: 47
58741258 TTAGGATTTT
** * *
58741268 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58741315 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58741362 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58741409 ATGTGATGAATGTGAGCATACATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58741456 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58741503 ATGTGATGAATGTGAGCATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58741550 ATGTGATGAATATGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58741597 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58741644 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58741691 ATGTGATGAACGTGAA-AGTGTATATATGTG
1 ATGTGATGAATGTGAACA-TGCATATATGTG
58741721 GCGAAGCCGA
Statistics
Matches: 376, Mismatches: 29, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
46 1 0.00
47 375 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58741767 original size:46 final size:46
Alignment explanation
Indices: 58741714--58741802 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
58741704 GAAAGTGTAT
* * *
58741714 ATATGTGGCGAAGCCGAATGGCTAATGCGAAACGTGTATGAGACGG
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
* * *
58741760 ATATGTGGTAAAGCCAAATGGCTAATGTGAGACATGTATGAGA
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGA
58741803 TGTATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (46 bp):
ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
Found at i:58743794 original size:42 final size:43
Alignment explanation
Indices: 58743681--58743804 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
58743671 AGTACCGTAC
58743681 CGATGCC-ATATCCCAGATATGGTCTTACATGTAATCTCATAT
1 CGATGCCAATATCCCAGATATGGTCTTACATGTAATCTCATAT
* * * *
58743723 CGATGCCAATAGCCCAGCTATGGTCTTACATG-AAGTTTCTTAT
1 CGATGCCAATATCCCAGATATGGTCTTACATGTAA-TCTCATAT
* * **
58743766 CGATG-TAGTATCCCAGATATGGTCTTACACATAATCTCA
1 CGATGCCAATATCCCAGATATGGTCTTACATGTAATCTCA
58743805 GTAACCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (43 bp):
CGATGCCAATATCCCAGATATGGTCTTACATGTAATCTCATAT
Found at i:58746348 original size:27 final size:27
Alignment explanation
Indices: 58746320--58746451 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
58746310 TATCACACAG
* ** *
58746320 GGGCAAAACAGTCAATTTACCATGTAG
1 GGGCAAAACAGTCATTTTACCACATAA
*** *
58746347 GGGCATTTCAGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* *
58746374 GGGCAAAAAAATCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
58746401 GGGCAAAATAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* *
58746428 GGGAAAAATAGTCATTTTACCACA
1 GGGCAAAACAGTCATTTTACCACA
58746452 AAGAGGGCTT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACATAA
Found at i:58747412 original size:23 final size:21
Alignment explanation
Indices: 58747382--58747423 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
58747372 GCAGAGGAAG
58747382 ATTCGGCTACCAGATAATAGGGT
1 ATTCGGCTACCA-AT-ATAGGGT
58747405 ATTCGGCTACCAATATAGG
1 ATTCGGCTACCAATATAGG
58747424 AGGGAAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 12 0.63
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (21 bp):
ATTCGGCTACCAATATAGGGT
Found at i:58749013 original size:50 final size:49
Alignment explanation
Indices: 58748898--58749025 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 49
58748888 TATAATGTTG
* *
58748898 ATGCCATGTCCCAAACATGGTCTTACACTAACTATCGAAATTGAGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAACTATCGAAATTCAGGCCA
* * * * * * *
58748947 ACGTCATGTCCCAAACATAGTCTTACACTAGCTCTC-ACATATCCGTGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAACTATCGAAAT-TCAG-GCCA
58748997 ATGCCATGTCCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
58749026 GACACCTTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.05
49 33 0.51
50 29 0.45
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAACTATCGAAATTCAGGCCA
Found at i:58749104 original size:46 final size:45
Alignment explanation
Indices: 58749046--58749209 Score: 179
Period size: 46 Copynumber: 3.5 Consensus size: 45
58749036 ATAGCTGATA
58749046 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGG-CGATG
* * * * *
58749092 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC-GATG
* * *
58749138 CCATGTCCCAGACATGGTCTTACACTGCCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGG-CGATG
58749186 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
58749210 AGCACACAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 47 0.47
47 28 0.28
48 21 0.21
49 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCGATG
Found at i:58755857 original size:37 final size:37
Alignment explanation
Indices: 58755803--58755903 Score: 184
Period size: 37 Copynumber: 2.7 Consensus size: 37
58755793 GCTCAGACGA
*
58755803 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
58755840 AATCTCCACACGTAGTCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
58755877 AATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGTAGTCATCGGGTCTT
58755904 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:58756011 original size:78 final size:78
Alignment explanation
Indices: 58755911--58756078 Score: 327
Period size: 78 Copynumber: 2.2 Consensus size: 78
58755901 CTTTAGAGCT
*
58755911 CGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTTATAATATTCTCGCATAAAGCCTG
1 CGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAGCCTG
58755976 CGGGGTTTTAACC
66 CGGGGTTTTAACC
58755989 CGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAGCCTG
1 CGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAGCCTG
58756054 CGGGGTTTTAACC
66 CGGGGTTTTAACC
58756067 CGGATATAGTAC
1 CGGATATAGTAC
58756079 TGACACAAAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 89 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (78 bp):
CGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAGCCTG
CGGGGTTTTAACC
Found at i:58756368 original size:49 final size:47
Alignment explanation
Indices: 58756100--58756949 Score: 1304
Period size: 47 Copynumber: 17.7 Consensus size: 47
58756090 CCCTTCGGGA
* * * * * *
58756100 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58756147 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58756194 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58756241 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58756288 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58756335 CTTATCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
58756384 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58756431 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
58756478 CTTATCACATATATAGACACTTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
58756527 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58756574 CTTATCACATATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58756625 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58756674 CTTATCACATATATACACTTTCACATTAATCACATCGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58756721 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58756770 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58756819 CGTATCACATATATACACTTTCACATTCATCACATCGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58756866 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58756915 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
58756950 AGAATCCTAA
Statistics
Matches: 747, Mismatches: 44, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
47 432 0.58
49 270 0.36
51 45 0.06
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58756386 original size:96 final size:94
Alignment explanation
Indices: 58756100--58756949 Score: 1304
Period size: 96 Copynumber: 8.9 Consensus size: 94
58756090 CCCTTCGGGA
* * * * * * * *
58756100 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58756165 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
58756194 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
58756259 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
58756288 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--AC
* *
58756353 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58756384 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58756449 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
** *
58756478 CTTATCACATATATAGACACTTTCACATTCATCACATTAGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58756543 ACTTTCACATTCATCATATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58756574 CTTATCACATATATATATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
* *
58756639 ATACACTTTCACATTCATCACATTGGCCATTCGGC
60 ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58756674 CTTATCACATATATACACTTTCACATTAATCACATCGGCTATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
58756739 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58756770 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCGTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
58756835 ACTTTCACATTCATCACATCGGCTATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
58756866 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58756931 ACTTTCACATTCATCACAT
64 ACTTTCACATTCATCACAT
58756950 AGAATCCTAA
Statistics
Matches: 700, Mismatches: 44, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
94 189 0.27
96 381 0.54
98 80 0.11
100 50 0.07
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:58760800 original size:40 final size:40
Alignment explanation
Indices: 58760768--58761039 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
58760758 CCAGCATGAT
* * * *
58760768 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
58760808 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
58760848 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
58760888 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
58760928 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
58760968 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
58761008 TGCTCCTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
58761040 CTCAATTCTC
Statistics
Matches: 216, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:58762363 original size:37 final size:37
Alignment explanation
Indices: 58762309--58762409 Score: 193
Period size: 37 Copynumber: 2.7 Consensus size: 37
58762299 GCTCAGACGA
*
58762309 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
58762346 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
58762383 AATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGTAGTCATCGGGTCTT
58762410 TAGAGCTCGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:58762606 original size:47 final size:47
Alignment explanation
Indices: 58762528--58763322 Score: 1320
Period size: 47 Copynumber: 16.7 Consensus size: 47
58762518 CCCTTCGGGA
* * * * * *
58762528 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58762575 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58762622 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58762669 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58762716 CTTATAACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58762763 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58762810 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58762857 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58762904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58762951 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58762998 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58763045 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58763092 CTTATCACACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTAT--CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58763143 CTTATCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58763192 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58763239 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58763288 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
58763323 AGAATCCTAA
Statistics
Matches: 706, Mismatches: 34, Indels: 16
0.93 0.04 0.02
Matches are distributed among these distances:
47 569 0.81
49 95 0.13
51 42 0.06
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58768480 original size:27 final size:28
Alignment explanation
Indices: 58768371--58768493 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
58768361 GAGATTGGCG
* * * *
58768371 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
58768400 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58768428 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58768456 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58768483 CTGAGTGTGCG
1 CTAAGTGTGCG
58768494 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 47 0.55
29 15 0.18
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:58768483 original size:55 final size:57
Alignment explanation
Indices: 58768371--58768493 Score: 169
Period size: 55 Copynumber: 2.2 Consensus size: 57
58768361 GAGATTGGCG
* * * *
58768371 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* *
58768428 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
58768483 CTGAGTGTGCG
1 CTAAGTGTGCG
58768494 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.39
56 21 0.36
57 15 0.25
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:58768504 original size:27 final size:27
Alignment explanation
Indices: 58768396--58768506 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
58768386 TAAATTGTAC
** * *
58768396 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
** *
58768424 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
58768452 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
58768479 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
58768506 A
1 A
58768507 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 31 0.41
28 44 0.59
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:58776513 original size:27 final size:28
Alignment explanation
Indices: 58776404--58776526 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
58776394 GAGATTGGCG
* * * *
58776404 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
58776433 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58776461 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58776489 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58776516 CTGAGTGTGCG
1 CTAAGTGTGCG
58776527 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 47 0.55
29 15 0.18
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:58776516 original size:55 final size:57
Alignment explanation
Indices: 58776404--58776526 Score: 169
Period size: 55 Copynumber: 2.2 Consensus size: 57
58776394 GAGATTGGCG
* * * *
58776404 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* *
58776461 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
58776516 CTGAGTGTGCG
1 CTAAGTGTGCG
58776527 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.39
56 21 0.36
57 15 0.25
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:58776537 original size:27 final size:27
Alignment explanation
Indices: 58776429--58776539 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
58776419 TAAATTGTAC
** * *
58776429 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
** *
58776457 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
58776485 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
58776512 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
58776539 A
1 A
58776540 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 31 0.41
28 44 0.59
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:58786998 original size:55 final size:52
Alignment explanation
Indices: 58786818--58787064 Score: 211
Period size: 55 Copynumber: 4.7 Consensus size: 52
58786808 ACCTTACCAT
* * ** * *
58786818 TGCCATGACTTGGCATGGTCTTATGTGGTATCCTT--CTGA--AACTTACCAT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTTA-CAA
* *
58786867 TGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACTAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTTAC-AA
* *
58786920 TGCCATGCCTTGGCATGGTCTTACATAGG-A-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACAT-GGTATCC-TTGCCTTAT-G-AACTTA-CAA
58786975 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTTA-CAA
* * * * *
58787029 TTGCCTTGCCTTGGCATGGTCTTACGTTGTATCCTT
1 -TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
58787065 AAACCCTAAT
Statistics
Matches: 163, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
49 30 0.18
51 3 0.02
52 3 0.02
53 42 0.26
54 12 0.07
55 70 0.43
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (52 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTTACAA
Found at i:58787001 original size:108 final size:110
Alignment explanation
Indices: 58786857--58787053 Score: 310
Period size: 108 Copynumber: 1.8 Consensus size: 110
58786847 ATCCTTCTGA
* *
58786857 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACTAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
58786920 -TGCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATAGT
* * *
58786965 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
*
58787030 TGCCTTGCCTTGGCATGGTCTTAC
66 TGCCATGCCTTGGCATGGTCTTAC
58787054 GTTGTATCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.62
109 6 0.08
110 23 0.29
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATAGT
Found at i:58809429 original size:39 final size:40
Alignment explanation
Indices: 58809324--58809510 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
58809314 GCTACTCGTT
* *
58809324 CAAATGCCTTCGGGACATAAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGAC-TTAGCCCGGATT-TAGTAACTCGCA
*
58809365 CACAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CA-AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
58809406 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
58809445 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
58809486 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58809511 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 42 0.33
41 33 0.26
42 16 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58815450 original size:55 final size:55
Alignment explanation
Indices: 58815197--58815453 Score: 200
Period size: 55 Copynumber: 4.8 Consensus size: 55
58815187 ATACACGGGT
* * *
58815197 ACCTTACC-ATTTCCATGACC-TGTCATGGTCTCACATGGTATCCTT---TT-GAA
1 ACCTTACCAATTGCCATG-CCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAA
* * *
58815247 A-CTTACC-ATTGCCATGTCTCGACATCGTCTTACATGGTATCCTTGCCTTATG--
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAA
* * * * * * *
58815299 AGCTCACCAA-TGTCATGCCTTGGCATGGCCTTACACAGG-A-CCTTTGCCTTATAA
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACA-TGGTATCC-TTGCCTTAGAA
* * ** **
58815353 TAACTTATCAA-TGCCATGTTTTGACATGGTCTTACACCGTATCCTTGCCTTAGAA
1 -ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAA
58815408 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
58815454 AAACCCTAAT
Statistics
Matches: 159, Mismatches: 32, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 1 0.01
52 5 0.03
53 33 0.21
54 13 0.08
55 69 0.43
56 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (55 bp):
ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAA
Found at i:58820944 original size:47 final size:47
Alignment explanation
Indices: 58820875--58820979 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
58820865 TAGTATTAAT
*
58820875 TATGTGATAAGGCCAAATGGCCAATGTGATGGATGAGAAAGTGTATA
1 TATGTGATAAGGCCAAATGGCCAATGTGATGAATGAGAAAGTGTATA
* *
58820922 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCAAATGGCCAATGTGATGAATGAGAAAGTGTATA
*
58820969 AATGTGATAAG
1 TATGTGATAAG
58820980 TCCCGAAGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCAAATGGCCAATGTGATGAATGAGAAAGTGTATA
Found at i:58831577 original size:20 final size:21
Alignment explanation
Indices: 58831529--58831579 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
58831519 TTTAAGGGCC
*
58831529 ACAC-GCCCATGTGGCATGGG
1 ACACTGCCCGTGTGGCATGGG
*
58831549 ACACT-CCCGTGTGGCTTGGG
1 ACACTGCCCGTGTGGCATGGG
58831569 ACA-TGCCCGTG
1 ACACTGCCCGTG
58831580 CGAGCAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.20
Consensus pattern (21 bp):
ACACTGCCCGTGTGGCATGGG
Found at i:58836751 original size:18 final size:18
Alignment explanation
Indices: 58836730--58836779 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
58836720 AAACTCTTTT
58836730 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
58836748 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
58836766 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
58836780 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:58836769 original size:24 final size:24
Alignment explanation
Indices: 58836705--58836786 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
58836695 CTTGTTCACA
*
58836705 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
58836729 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
58836753 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
58836777 TTCTTTTTCT
1 TTCTTTTTCT
58836787 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:58836838 original size:42 final size:42
Alignment explanation
Indices: 58836783--58836879 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
58836773 CTTTTTCTTT
* * *
58836783 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
58836824 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
58836866 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
58836880 CTTATAATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 7 0.14
42 44 0.86
ACGTcount: A:0.14, C:0.24, G:0.05, T:0.57
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:58836857 original size:21 final size:21
Alignment explanation
Indices: 58836790--58836857 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
58836780 TTTTTCTTTC
*
58836790 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
* *****
58836811 ATTTCATTCAAGATTCTCTC-
1 ATTTCTTTGTTTCTTCTCTCG
58836831 ATTTTCTTTGTTTCTTCTCTCG
1 A-TTTCTTTGTTTCTTCTCTCG
58836853 ATTTC
1 ATTTC
58836858 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCG
Found at i:58839316 original size:10 final size:10
Alignment explanation
Indices: 58839297--58839331 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
58839287 ATGCTTGGTT
58839297 GAGCTCAAAC
1 GAGCTCAAAC
*
58839307 GAGCTAAAAC
1 GAGCTCAAAC
*
58839317 GAGCTCAAAT
1 GAGCTCAAAC
58839327 GAGCT
1 GAGCT
58839332 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:58839340 original size:20 final size:20
Alignment explanation
Indices: 58839294--58839341 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
58839284 AGTATGCTTG
58839294 GTTGAGCTCAAACGAGCTAA
1 GTTGAGCTCAAACGAGCTAA
*** * *
58839314 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTAA
58839334 GTTGAGCT
1 GTTGAGCT
58839342 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTAA
Found at i:58843616 original size:132 final size:130
Alignment explanation
Indices: 58843355--58843770 Score: 399
Period size: 132 Copynumber: 3.2 Consensus size: 130
58843345 TCATTCATTC
* * * *
58843355 AAAAATCCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTTGCGAAATCGTGCCCTAACATG
1 AAAAATCCTTCAAAACGAAGACGAGACTC-ATGTTTGACAATTCGCGAAATCGTGCCCTAACGTG
* * ** *
58843420 TTGGGTTGCAATTCTGCGTTTGCTCAAAATAATCGAATA-TCAC-TTCGAAATTTCACTCACGTC
65 TTGGGTTGCAATTC-GCGTTTGCTCAAAACAATCGAATATTC-CTTTAG-GTTTTCACTCATGTC
58843483 TTTT
127 TTTT
* * * ** * *
58843487 TAAAATCCTTCAAAATGAAGACGAGACCCTATACTTAACAATTCGCGAAATTGTGCCCTAACGTG
1 AAAAATCCTTCAAAACGAAGACGAGACTC-ATGTTTGACAATTCGCGAAATCGTGCCCTAACGTG
*
58843552 TTGGGTTGCAATTTCGCGTCTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTCTT
65 TTGGGTTGCAA-TTCGCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTCTT
*
58843617 CT
129 TT
** * * * * * * * * *
58843619 AAAAATATTTTAAAACAAAGGCAATACTCAGTGTTTGATAATTCGAG-AATCATGCCCTATCGTG
1 AAAAATCCTTCAAAACGAAGACGAGACTCA-TGTTTGACAATTCGCGAAATCGTGCCCTAACGTG
* * * *
58843683 TTGGGTTGTGACTTCTCGTTTGCTCAAAACAATTGAATATTCCTTTTAGGTTTTCACTCATGT-T
65 TTGGGTTG-CAATTCGCGTTTGCTCAAAACAATCGAATATTCC-TTTAGGTTTTCACTCATGTCT
58843747 TATT
128 T-TT
* *
58843751 AAAAATCTTTCAAAGCGAAG
1 AAAAATCCTTCAAAACGAAG
58843771 GCGATGTTCG
Statistics
Matches: 230, Mismatches: 47, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
131 53 0.23
132 169 0.73
133 8 0.03
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (130 bp):
AAAAATCCTTCAAAACGAAGACGAGACTCATGTTTGACAATTCGCGAAATCGTGCCCTAACGTGT
TGGGTTGCAATTCGCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTCTTTT
Found at i:58843819 original size:132 final size:131
Alignment explanation
Indices: 58843572--58843822 Score: 301
Period size: 132 Copynumber: 1.9 Consensus size: 131
58843562 ATTTCGCGTC
*
58843572 TGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTCTTCTAAAAATATTTTAAAACAA
1 TGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTCTTCTAAAAATATTTCAAAACAA
* * *
58843637 AGGCAATACTCAGTGTTTGATAATTCGAGAATCATGCCCTATCGTGTTGGGTTGTGACTTCTCGT
66 AGGCAATACTCAGTGTTTGACAATTCGAGAATCATGCCCTATCATATTGGGTTGTGACTTCTCGT
58843702 T
131 T
* * * *
58843703 TGCTCAAAACAATTGAATATTCCTTTTAGGTTTTCACTCATGT-TTATTAAAAATCTTTCAAAGC
1 TGCTCAAAACAATCGAATATTCC-TTTAGGTTTTCACTCATGTCTT-CTAAAAATATTTCAAAAC
* * ** * * * *
58843767 GAAGGCGATGTTC-GATGTTTGGCGATTTGAGAACTGA-GCCCTATCATATTGGGTTG
64 AAAGGCAATACTCAG-TGTTTGACAATTCGAGAA-TCATGCCCTATCATATTGGGTTG
58843823 CGCTTTTTCA
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
131 25 0.25
132 73 0.73
133 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (131 bp):
TGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTCTTCTAAAAATATTTCAAAACAA
AGGCAATACTCAGTGTTTGACAATTCGAGAATCATGCCCTATCATATTGGGTTGTGACTTCTCGT
T
Found at i:58853075 original size:20 final size:19
Alignment explanation
Indices: 58853052--58853116 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
58853042 AAGCTCAAAC
58853052 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
58853072 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
58853092 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
58853112 GAGCT
1 GAGCT
58853117 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:58857282 original size:132 final size:132
Alignment explanation
Indices: 58857045--58857440 Score: 612
Period size: 133 Copynumber: 3.0 Consensus size: 132
58857035 TGAATCCTAC
* * * * *
58857045 AGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGACCGAAGACGGCGATTCTTGGCTTCCTGAAGT
1 AGATCATGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
**
58857110 TGTTGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
58857175 TT
131 TT
58857177 AGATCATGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
1 AGATCATGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
*
58857242 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAATTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAA-T
58857307 TTT
130 TTT
* * * * *
58857310 AGATCTTGTTTCCATGAAGTTGCAGTAGAGCAGATCGAAGGCGACAAATCTTGGCTTCCTGAAGT
1 AGATCATGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
* * * * *
58857375 TACAGTTAAGAAGATTTAAGCCACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGACAAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGA-AAT
58857440 T
130 T
58857441 GCAGATCTCG
Statistics
Matches: 243, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
132 120 0.49
133 121 0.50
134 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
AGATCATGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
TT
Found at i:58859823 original size:130 final size:131
Alignment explanation
Indices: 58859556--58859833 Score: 346
Period size: 130 Copynumber: 2.1 Consensus size: 131
58859546 TCATTAATTC
* ** **
58859556 AAAAATCCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTG
1 AAAAATCCTTCAAAACGAAGA-GAGACTCGATACTTAACAATTCACGGAATCGTGCCCTAACGTG
* * * *
58859621 TTGGGTTGCAATTTCGCGTTTGCTTAAAATAATCGAATATCACTTCGAAATTTCACTCACGTCTT
65 TTGGGTTGCAATTTCGCGTCTGCTCAAAACAATCGAATATCACTTAGAAATTTCACTCACGTCTT
*
58859686 TT
130 CT
* * *
58859688 TAAAATCCTTCAAAATGAAG-GAGACTCGATACTTAACAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAAATCCTTCAAAACGAAGAGAGACTCGATACTTAACAATTCACGGAATCGTGCCCTAACGTGT
** *
58859752 TGGGTTGCAATTTCGCGTCTGCTCAAAACAATCGAATATTC-CTTTAG-GTTTTCACTCATGTCT
66 TGGGTTGCAATTTCGCGTCTGCTCAAAACAATCGAATA-TCAC-TTAGAAATTTCACTCACGTCT
58859815 TCT
129 TCT
* *
58859818 AAAAATCTTTTAAAAC
1 AAAAATCCTTCAAAAC
58859834 AAAGGCAATA
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 101 0.81
131 5 0.04
132 18 0.15
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (131 bp):
AAAAATCCTTCAAAACGAAGAGAGACTCGATACTTAACAATTCACGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCGCGTCTGCTCAAAACAATCGAATATCACTTAGAAATTTCACTCACGTCTTC
T
Found at i:58859920 original size:131 final size:132
Alignment explanation
Indices: 58859771--58860021 Score: 319
Period size: 132 Copynumber: 1.9 Consensus size: 132
58859761 ATTTCGCGTC
*
58859771 TGCTCAAAACAATCGAATATTCC-TTTAGGTTTTCACTCATGTCTT-CTAAAAATCTTTTAAAAC
1 TGCTCAAAACAATCGAATATTCCTTTTAGGTTTTCACTCATGT-TTACTAAAAATCTTTCAAAAC
* * *
58859834 AAAGGCAATACTCGGTGTTTGATAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTGTGACTTTT
65 AAAGGCAATACTCGATGTTTGACAATTCGAGAACCGA-GCCCTATCGTGCTGGGTTGTGACTTTT
58859898 GATT
129 GATT
* * * * * *
58859902 TGCTTAAAACAATTGAATATTCCTTTTAGGTTTTCACTTATGTTTATTAAAAATCTTTCAAAGCG
1 TGCTCAAAACAATCGAATATTCCTTTTAGGTTTTCACTCATGTTTACTAAAAATCTTTCAAAACA
* ** * * *
58859967 AAGGCGATGTTCGATGTTTGGCGATTTGAGAACCGAGCCCTATCGTGCTGGGTTG
66 AAGGCAATACTCGATGTTTGACAATTCGAGAACCGAGCCCTATCGTGCTGGGTTG
58860022 CTCTTTTTCA
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
131 23 0.23
132 77 0.76
133 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (132 bp):
TGCTCAAAACAATCGAATATTCCTTTTAGGTTTTCACTCATGTTTACTAAAAATCTTTCAAAACA
AAGGCAATACTCGATGTTTGACAATTCGAGAACCGAGCCCTATCGTGCTGGGTTGTGACTTTTGA
TT
Found at i:58875935 original size:23 final size:23
Alignment explanation
Indices: 58875892--58875935 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
58875882 CATCATAATT
*
58875892 TCATCTATTTCATATCACAAAAC
1 TCATCTATATCATATCACAAAAC
*
58875915 TCATCT-TATCATCATCTCAAA
1 TCATCTATATCAT-ATCACAAA
58875936 CCAAACCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (23 bp):
TCATCTATATCATATCACAAAAC
Found at i:58882740 original size:47 final size:46
Alignment explanation
Indices: 58882666--58882934 Score: 199
Period size: 46 Copynumber: 5.7 Consensus size: 46
58882656 GTAAGGTGCT
* * *
58882666 GATGCCATGTCCTAGACACGGTTTTACACTGGCTCAT-ATCTCAAGTC
1 GATG-CATGTCCCAGACA-TGTCTTACACTGGCTCATCATCTCAAGTC
* ** * *
58882713 GATGCCATGTCCCACACATGGTCTTACACTAACT-ATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTC-AAGTC
* * * * *
58882761 GATGCATGTCTCAGACATGTCTTACACTGGCTTA-CGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTC-AAGTC
* * *
58882807 GATGCATGTCCCAGACATGTCTTACACTAGC-CCTCGTCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GTC
* * * * *
58882853 GATGCCATGTCCCAGAAATGGTCTTACACTAGATCTCATAATGT--GGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACT-G-GCTCATCATCTCAAGTC
*
58882901 GATGCATGTCCCAGACATGTCTTACACTCGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCA
58882935 CACACGAATG
Statistics
Matches: 179, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
44 4 0.02
45 1 0.01
46 74 0.41
47 71 0.40
48 24 0.13
50 1 0.01
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGTC
Found at i:58885031 original size:40 final size:40
Alignment explanation
Indices: 58884953--58885171 Score: 273
Period size: 40 Copynumber: 5.4 Consensus size: 40
58884943 ACCCAAGTAT
* *
58884953 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
58884992 CTTCGGGTCTTAGCCCGAATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
58885032 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
58885072 CTTCGGGACTTAGCCTGGGTATAG-CAACTACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
58885115 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
58885155 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
58885172 TGTGACACCC
Statistics
Matches: 155, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 12 0.08
40 108 0.70
41 1 0.01
43 34 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:58885138 original size:83 final size:80
Alignment explanation
Indices: 58884953--58885171 Score: 273
Period size: 83 Copynumber: 2.7 Consensus size: 80
58884943 ACCCAAGTAT
* * *
58884953 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGAATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
* **
58885016 TCACTAGCATGAATGC
65 TCACTAACACAAATGC
* **
58885032 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCTGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGT
58885096 CAACTACTCACACAAATGC
66 C-ACTA---ACACAAATGC
* *
58885115 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
58885172 TGTGACACCC
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
79 13 0.11
80 47 0.39
81 1 0.01
83 61 0.50
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGT
CACTAACACAAATGC
Found at i:58887793 original size:47 final size:47
Alignment explanation
Indices: 58887739--58888298 Score: 931
Period size: 47 Copynumber: 11.7 Consensus size: 47
58887729 TTAGGATTCT
*
58887739 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58887786 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58887833 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
58887880 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
58887929 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
58887976 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
58888025 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58888072 ATGTGATGGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGAT-GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
58888120 ACGTGATGATATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGA-ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
58888168 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * * *
58888217 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
58888264 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58888299 TCCCGAAGGG
Statistics
Matches: 485, Mismatches: 20, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
47 256 0.53
48 91 0.19
49 138 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:58887799 original size:96 final size:92
Alignment explanation
Indices: 58887739--58888298 Score: 781
Period size: 96 Copynumber: 5.9 Consensus size: 92
58887729 TTAGGATTCT
*
58887739 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
58887804 TG--TATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGG-C--AT-ACCG
58887833 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58887898 TGTATATATATGTGATAAGGCCTAATAGCCG
66 TGTATATATATGTGATAAGG-C--ATA-CCG
58887929 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58887994 TGTATATATATGTGATAAGGCCTAATAGCCG
66 TGTATATATATGTGATAAGG-C--ATA-CCG
58888025 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGAATGTGAAA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT-GAATGTGAAA
*
58888090 GTG--TATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATATGTGATAAGG-C--AT-ACCG
* *
58888120 ACGTGATGATATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGA-ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
58888185 GTGTATATATATGTGATAAGGCCTAATAGCCG
65 GTGTATATATATGTGATAAGG-C--ATA-CCG
* * * * * *
58888217 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAATGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58888282 TGTATA-A-ATGTGATAAG
66 TGTATATATATGTGATAAG
58888299 TCCCGAAGGG
Statistics
Matches: 443, Mismatches: 14, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
94 76 0.17
95 47 0.11
96 274 0.62
97 46 0.10
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (92 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCATACCG
Found at i:58888045 original size:192 final size:192
Alignment explanation
Indices: 58887739--58888298 Score: 961
Period size: 192 Copynumber: 2.9 Consensus size: 192
58887729 TTAGGATTCT
*
58887739 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
58887804 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
58887867 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
58887929 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58887994 TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
58888059 GGCCTAATGGCCGATGTGATGGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
131 GGCCTAATGGCCGATGTGAT-GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
* *
58888120 ACGTGATGATATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGA-ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
58888185 GTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACA
65 GTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* * * * *
58888250 GGGCCGAATGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
130 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
58888299 TCCCGAAGGG
Statistics
Matches: 353, Mismatches: 11, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
190 66 0.19
191 56 0.16
192 216 0.61
193 15 0.04
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (192 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
Found at i:58897311 original size:40 final size:40
Alignment explanation
Indices: 58897233--58897456 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
58897223 ACCCAAGTAT
* *
58897233 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
58897272 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
58897312 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
58897352 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
58897395 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
58897435 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58897457 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.07
40 115 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:58897429 original size:83 final size:80
Alignment explanation
Indices: 58897233--58897456 Score: 308
Period size: 83 Copynumber: 2.8 Consensus size: 80
58897223 ACCCAAGTAT
* * * *
58897233 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
58897297 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * *
58897312 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
58897376 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
58897395 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
58897457 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
83 66 0.52
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:58903314 original size:20 final size:20
Alignment explanation
Indices: 58903277--58903314 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
58903267 CAAAGCAACG
*
58903277 ATCACAAAAACATAAAAATA
1 ATCACAAAAACAAAAAAATA
58903297 ATCA-AAAAACAAACAAAA
1 ATCACAAAAACAAA-AAAA
58903315 ATTACATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.74, C:0.16, G:0.00, T:0.11
Consensus pattern (20 bp):
ATCACAAAAACAAAAAAATA
Found at i:58905334 original size:29 final size:30
Alignment explanation
Indices: 58905274--58905347 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
58905264 ATGTTTAGGT
* * *
58905274 ATGAATCTAGAATTTGTTTTTTAGAAAAAG
1 ATGAATCCACAATTTATTTTTTAGAAAAAG
* *
58905304 ATGAATCCATAATTTATTTTTTA-AAATAG
1 ATGAATCCACAATTTATTTTTTAGAAAAAG
*
58905333 ATGAACCCACAATTT
1 ATGAATCCACAATTT
58905348 CGAATTTTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (30 bp):
ATGAATCCACAATTTATTTTTTAGAAAAAG
Found at i:58905811 original size:29 final size:30
Alignment explanation
Indices: 58905727--58905815 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
58905717 GATTAAATCA
*
58905727 AAATTAAAGTTTCA-AGTATACATTTGA-ACC
1 AAATTAAAGTTTCATA-TATACAATT-ACACC
* * * *
58905757 ACAATTAGAGTTTCATGTGTATAATTACACC
1 A-AATTAAAGTTTCATATATACAATTACACC
58905788 AAATTAAAG-TTCATATATACAATTACAC
1 AAATTAAAGTTTCATATATACAATTACAC
58905816 ATTAAATCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 16 0.34
30 9 0.19
31 22 0.47
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (30 bp):
AAATTAAAGTTTCATATATACAATTACACC
Found at i:58907579 original size:23 final size:23
Alignment explanation
Indices: 58907553--58907601 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
58907543 TGAAAAAAGA
58907553 ATTTTTAAAATAAGATGA-ATTTT
1 ATTTTTAAAA-AAGATGATATTTT
**
58907576 ATTTTTGGAAAAGATGATATTTT
1 ATTTTTAAAAAAGATGATATTTT
58907599 ATT
1 ATT
58907602 GTATTTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTTTAAAAAAGATGATATTTT
Found at i:58907790 original size:23 final size:24
Alignment explanation
Indices: 58907763--58907807 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
58907753 AAACTTAAAC
58907763 AAATATTCATATTTT-TATTATTA
1 AAATATTCATATTTTATATTATTA
*
58907786 AAATATTTATATTTTATATTAT
1 AAATATTCATATTTTATATTAT
58907808 GTAATATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
AAATATTCATATTTTATATTATTA
Found at i:58926735 original size:21 final size:21
Alignment explanation
Indices: 58926706--58926775 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
58926696 CGTATACATC
58926706 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
* * *
58926727 ATGAGCTCAGATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
58926751 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
58926772 ATGA
1 ATGA
58926776 GTTCATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 4 0.11
23 4 0.11
24 11 0.29
25 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Done.