Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 125 of 343
Found at i:41810913 original size:61 final size:61
Alignment explanation
Indices: 41810818--41810939 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
41810808 TGCTTAATAA
41810818 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
1 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
41810879 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
1 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
41810940 TTGCCTCGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (61 bp):
CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
Found at i:41818392 original size:8 final size:9
Alignment explanation
Indices: 41818365--41818394 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
41818355 GACATTTTGG
41818365 TGATAGTTTT
1 TGAT-GTTTT
41818375 TGATGTTTT
1 TGATGTTTT
41818384 TGATGTTTT
1 TGATGTTTT
41818393 TG
1 TG
41818395 CGATCCGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.63
Consensus pattern (9 bp):
TGATGTTTT
Found at i:41823553 original size:28 final size:28
Alignment explanation
Indices: 41823513--41823666 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
41823503 TAAATTGTAC
41823513 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
41823541 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
41823569 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
41823597 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
41823625 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
41823652 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41823667 GACTTAATAT
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 24 0.19
28 100 0.81
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:41823579 original size:56 final size:56
Alignment explanation
Indices: 41823488--41823666 Score: 279
Period size: 56 Copynumber: 3.2 Consensus size: 56
41823478 GAGATTGGCG
* * * *
41823488 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
41823545 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
41823601 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
41823656 CTGAGTGTGCG
1 CTAAGTGTGCG
41823667 GACTTAATAT
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 23 0.20
56 76 0.67
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:41831806 original size:27 final size:28
Alignment explanation
Indices: 41831724--41831818 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
41831714 GAGATTGGCG
* * * *
41831724 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
41831753 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41831781 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41831808 CTGAGTGTGCG
1 CTAAGTGTGCG
41831819 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.39
28 21 0.36
29 15 0.25
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41831829 original size:27 final size:27
Alignment explanation
Indices: 41831749--41831831 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
41831739 TAAATTGTAC
* * *
41831749 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
41831777 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
41831804 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
41831831 A
1 A
41831832 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:41838189 original size:19 final size:18
Alignment explanation
Indices: 41838150--41838192 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
41838140 CTTTGTTATG
*
41838150 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
41838168 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
41838187 TTTTTG
1 TTTTTG
41838193 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:41839938 original size:28 final size:28
Alignment explanation
Indices: 41839875--41840025 Score: 196
Period size: 28 Copynumber: 5.4 Consensus size: 28
41839865 ATATTAAGTC
*
41839875 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41839902 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
41839930 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41839958 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
41839986 CGCACACTTAGTGTTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41840015 CGCACACTTAG
1 CGCACACTTAG
41840026 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 21 0.19
28 73 0.66
29 16 0.15
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41844778 original size:42 final size:43
Alignment explanation
Indices: 41844710--41844832 Score: 131
Period size: 50 Copynumber: 2.7 Consensus size: 43
41844700 TATGTGTTAT
* ** *
41844710 CATGTAAGACCATCTCTGGGGTATGGCATTG-ATATGAGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGAATATGAGACCC
*
41844752 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCGACATATGAGACCC
1 CATGTAAGACCATGTCTGGGACATGGCA-T----T-GA-ATATGAGACCC
41844802 CATGTAAGACCATGTCTGGGACATGGCATTG
1 CATGTAAGACCATGTCTGGGACATGGCATTG
41844833 GCATCGAGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
42 24 0.36
43 1 0.01
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 37 0.55
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGAATATGAGACCC
Found at i:41844796 original size:50 final size:49
Alignment explanation
Indices: 41844733--41844885 Score: 193
Period size: 50 Copynumber: 3.1 Consensus size: 49
41844723 CTCTGGGGTA
* *
41844733 TGGCATTG-ATATGAGATCCCATGTAAGACCATGTTTGGGACATGGCAT
1 TGGCATCGAATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
*
41844781 TGGCATCGACATATGAGACCCCATGTAAGACCATGTCTGGGACATGGCAT
1 TGGCATCGA-ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
* * * * * * *
41844831 TGGCATCGAGT-GGTGATCCCATGTAAGACCATATCTAGGATATGGCGT
1 TGGCATCGAATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
41844879 TGGCATC
1 TGGCATC
41844886 TTATTATGTG
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
48 44 0.48
49 1 0.01
50 47 0.51
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (49 bp):
TGGCATCGAATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
Found at i:41845922 original size:13 final size:13
Alignment explanation
Indices: 41845904--41845937 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
41845894 TTAGAGAGTT
41845904 ACACGGGCTGAGG
1 ACACGGGCTGAGG
41845917 ACACGGGCTGAGG
1 ACACGGGCTGAGG
41845930 ACACGGGC
1 ACACGGGC
41845938 ATATCGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.44, T:0.06
Consensus pattern (13 bp):
ACACGGGCTGAGG
Found at i:41849585 original size:37 final size:37
Alignment explanation
Indices: 41849535--41849611 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
41849525 TTGTAAAAGT
41849535 ATGAATTTTAGGCTAAATTGAATAGCATAAGTATTAA
1 ATGAATTTTAGGCTAAATTGAATAGCATAAGTATTAA
41849572 ATGAATTTTAGGCTAAATTGAATAGCATAAGTATTAA
1 ATGAATTTTAGGCTAAATTGAATAGCATAAGTATTAA
41849609 ATG
1 ATG
41849612 GATTGAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.35
Consensus pattern (37 bp):
ATGAATTTTAGGCTAAATTGAATAGCATAAGTATTAA
Found at i:41850290 original size:6 final size:6
Alignment explanation
Indices: 41850279--41850371 Score: 91
Period size: 6 Copynumber: 15.2 Consensus size: 6
41850269 ATCAGAACTT
* *
41850279 GAATCA GAATCA GAATCA GAATCA GAATTA GGTGAT-A GAATCA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAATCA -G-AATCA GAATCA GAATCA
* * *
41850328 GAATCA GTATCA GGTAA-CA GAATCA AAATCA GAATCA GTATCA G
1 GAATCA GAATCA -G-AATCA GAATCA GAATCA GAATCA GAATCA G
41850372 GTAACAGAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.05
6 61 0.84
7 5 0.07
8 3 0.04
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
GAATCA
Found at i:41850321 original size:31 final size:31
Alignment explanation
Indices: 41850283--41850381 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
41850273 GAACTTGAAT
* *
41850283 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
41850314 TAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
41850345 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
41850376 CAGAAT
1 CAGAAT
41850382 AAAAAATCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:41850573 original size:27 final size:26
Alignment explanation
Indices: 41850531--41850625 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
41850521 GCTCAGTTAT
* *
41850531 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAA-A
*
41850558 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAAAA
*
41850584 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCA-AAA
*
41850612 CAGATAATGTGGCA
1 CAGATATTGTGGCA
41850626 AAACCACTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 7 0.12
27 45 0.75
28 8 0.13
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAAAA
Found at i:41850819 original size:22 final size:22
Alignment explanation
Indices: 41850791--41850855 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
41850781 GCAAATACGT
*
41850791 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
41850813 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
41850835 TTGACATAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
41850856 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:41851311 original size:26 final size:27
Alignment explanation
Indices: 41851282--41851405 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
41851272 GGGGCAAAAT
* * *
41851282 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGAGGTATTTC
* *
41851308 GGTAATTCCACCCTACAGAGGTATTTT
1 GGTAATTCTACCCTACAGAGGTATTTC
* *
41851335 AGTAATTCTACCCTACA-AGGGTATTTT
1 GGTAATTCTACCCTACAGA-GGTATTTC
*
41851362 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATTTC
* *
41851389 GGTATTTCTACCTTACA
1 GGTAATTCTACCCTACA
41851406 TTCTACCCTA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 15 0.18
27 68 0.82
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGAGGTATTTC
Found at i:41851458 original size:27 final size:27
Alignment explanation
Indices: 41851428--41851504 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
41851418 AGGGTATTTC
*
41851428 GGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAT
* * ***
41851455 GGTAATTCTATAAATCGGGGGTACTTT
1 GGTAATTTTATAAATCGAGGGTAAAAT
* *
41851482 GGTAATTTTACAAGTCGAGGGTA
1 GGTAATTTTATAAATCGAGGGTA
41851505 TTTCAGTAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAAAAT
Found at i:41851741 original size:27 final size:27
Alignment explanation
Indices: 41851473--41851732 Score: 304
Period size: 27 Copynumber: 9.6 Consensus size: 27
41851463 TATAAATCGG
* ** *
41851473 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** *** *
41851500 GGGTATTTCAGTAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
41851527 GAGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
41851554 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
41851581 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
41851608 TGGTATTTTAGTATTTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
41851635 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
41851662 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
41851689 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
41851716 GGGTATTTTGGTGATTT
1 GGGTATTTTGGTAATTT
41851733 GGTAAACTAA
Statistics
Matches: 202, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 202 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:41859200 original size:15 final size:15
Alignment explanation
Indices: 41859182--41859211 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41859172 ATAAAAAATT
41859182 CCAATACAAAACATA
1 CCAATACAAAACATA
*
41859197 CCAATCCAAAACATA
1 CCAATACAAAACATA
41859212 TCTTTCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
CCAATACAAAACATA
Found at i:41861410 original size:42 final size:41
Alignment explanation
Indices: 41861350--41861466 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 41
41861340 TAGGGTCATT
*
41861350 TGAGATTACGTGCAAGACCATATCTGGGATATAACATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATAACATCGATA
* * * ** *
41861392 TGAGACTTCGTGTAAGACCATAGCTAGGCTATTGGCATTGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TAACATCGATA
* *
41861435 TGAGATCCCATGTAAGACCATATCTGGGATAT
1 TGAGAT-TCGTGTAAGACCATATCTGGGATAT
41861467 GGCATTGGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATAACATCGATA
Found at i:41863588 original size:27 final size:27
Alignment explanation
Indices: 41863556--41863627 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
41863546 GTCGACTTGT
*
41863556 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
* * *** *
41863583 AGAATTATCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
*
41863610 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
41863628 TTATAGGGTA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCCGATTTAC
Found at i:41863713 original size:27 final size:27
Alignment explanation
Indices: 41863612--41863710 Score: 144
Period size: 27 Copynumber: 3.7 Consensus size: 27
41863602 CGATTTACAA
* *
41863612 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCTTATAAGGTAG
*
41863639 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCTTATAAGGTAG
* * *
41863666 AATTACCGAAATACCCTTGTAAGATAG
1 AATTACTGAAATACCCTTATAAGGTAG
41863693 AATTACTGAAATACCCTT
1 AATTACTGAAATACCCTT
41863711 GTAGTGTAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTATAAGGTAG
Found at i:41864614 original size:27 final size:27
Alignment explanation
Indices: 41864584--41864816 Score: 299
Period size: 27 Copynumber: 8.7 Consensus size: 27
41864574 TAGTTTACTG
41864584 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
** * *
41864611 AATTATTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
41864638 AATCACCAAAATACCCCT-GTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* **
41864664 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTGTAA
41864691 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
41864718 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
41864745 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* ** *
41864772 AATTATCAAAATACCGATAGTTT-TGAA
1 AATTACCAAAATACCCCTGGTTTGT-AA
41864799 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
41864817 CAACCTATAA
Statistics
Matches: 173, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 24 0.14
27 149 0.86
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:41864648 original size:54 final size:54
Alignment explanation
Indices: 41864588--41864816 Score: 345
Period size: 54 Copynumber: 4.3 Consensus size: 54
41864578 TTACTGAATT
**
41864588 ACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCTTGGTTTATAAAATC
1 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
* *
41864642 ACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
*
41864695 ACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
1 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
* ** * *
41864749 ACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCGATAGTTT-TGAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTAT-AAAATC
41864803 ACCAAAATACCCCT
1 ACCAAAATACCCCT
41864817 CAACCTATAA
Statistics
Matches: 160, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
53 50 0.31
54 110 0.69
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
Found at i:41864762 original size:107 final size:108
Alignment explanation
Indices: 41864574--41864816 Score: 398
Period size: 107 Copynumber: 2.3 Consensus size: 108
41864564 TAGAATACTT
** *
41864574 TAGTTTACTGAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCTTGGTTTATAAA
1 TAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAA
*
41864639 ATCACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCT
66 ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCA
*
41864681 TGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAA
1 TAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAA
* *
41864746 ATCACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCGA
66 ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCA
**
41864789 TAGTTTTGAAAATTACCAAAATACCCCT
1 TAGTTTACAAAATTACCAAAATACCCCT
41864817 CAACCTATAA
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
107 78 0.62
108 47 0.38
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (108 bp):
TAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAA
ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCA
Found at i:41864895 original size:27 final size:27
Alignment explanation
Indices: 41864584--41864897 Score: 242
Period size: 27 Copynumber: 11.6 Consensus size: 27
41864574 TAGTTTACTG
41864584 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GGTTTGTAA
** * *
41864611 AATTATTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGGTTTGTAA
* *
41864638 AATCACCAAAATACCC-CTGTTTGTAA
1 AATTACCAAAATACCCTCGGTTTGTAA
* **
41864664 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTCGGTTTGTAA
41864691 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GGTTTGTAA
* * *
41864718 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGGTTTGTAA
*
41864745 AATCACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GGTTTGTAA
* * * *
41864772 AATTATCAAAATACCGATAGTTTTG-AA
1 AATTACCAAAATACC-CTCGGTTTGTAA
**** *
41864799 AATTACCAAAATACCCCTCAACCTATAA
1 AATTACCAAAATA-CCCTCGGTTTGTAA
** ****
41864827 AATTACTGAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTCGGTTTGTAA
*** **
41864854 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGGTTTGTAA
*
41864881 AATTACCAAAGTACCCT
1 AATTACCAAAATACCCT
41864898 TGATTTACGG
Statistics
Matches: 230, Mismatches: 48, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
26 22 0.10
27 188 0.82
28 20 0.09
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGGTTTGTAA
Found at i:41864949 original size:27 final size:27
Alignment explanation
Indices: 41864584--41864950 Score: 199
Period size: 27 Copynumber: 13.6 Consensus size: 27
41864574 TAGTTTACTG
* *
41864584 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTATAA
** * *
41864611 AATTATTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTATAA
* *
41864638 AATCACCAAAATACCC-CTG-TTTGTAA
1 AATTACCAAAATACCCTC-GATTTATAA
* * *
41864664 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTCGATTTATAA
* *
41864691 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTATAA
* * *
41864718 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTATAA
* * *
41864745 AATCACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTATAA
* * *
41864772 AATTATCAAAATACCGATAG-TTT-TGAA
1 AATTACCAAAATACC-CTCGATTTAT-AA
* **
41864799 AATTACCAAAATACCCCTCAACCTATAA
1 AATTACCAAAATA-CCCTCGATTTATAA
** * ** *
41864827 AATTACTGAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTCGATTTATAA
*** * *
41864854 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGATTTATAA
* * ***
41864881 AATTACCAAAGTACCCTTGATTTACGG
1 AATTACCAAAATACCCTCGATTTATAA
**** *
41864908 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCAAAATACCCTCGATTTATAA
*
41864935 AATTACCGAAATACCC
1 AATTACCAAAATACCC
41864951 CTATAGGGTA
Statistics
Matches: 268, Mismatches: 59, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
26 23 0.09
27 227 0.85
28 17 0.06
29 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTATAA
Found at i:41864968 original size:27 final size:27
Alignment explanation
Indices: 41864935--41865157 Score: 275
Period size: 27 Copynumber: 8.3 Consensus size: 27
41864925 CGATTTACAA
*
41864935 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41864962 AAATACCGAAACACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41864989 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
41865016 AATTACTAAAATACTCCTGTAGGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41865043 AATTACCGAAATACCCTTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41865070 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
41865097 AATTACTGAAATACTCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
41865124 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
41865151 AATTACC
1 AATTACC
41865158 ATTTTACCCC
Statistics
Matches: 167, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 167 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:41865069 original size:81 final size:81
Alignment explanation
Indices: 41864943--41865158 Score: 308
Period size: 81 Copynumber: 2.7 Consensus size: 81
41864933 AAAATTACCG
* * * * *
41864943 AAATACCCCTATAGGGTAGAAATACCGAAACACCCCTGTAGGGTAGAAATACCAAAATACCCCTG
1 AAATACTCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTG
41865008 TAGGGTAGAATTACTA
66 TAGGGTAGAATTACTA
* * *
41865024 AAATACTCCTGTAGGGTATAATTACCGAAATACCCTTGTATGGTAGAAATACCGAAATACCCCTG
1 AAATACTCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTG
*
41865089 TAGGGTAGAATTACTG
66 TAGGGTAGAATTACTA
* * *
41865105 AAATACTCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGGGTA-AAATTACCA
1 AAATACTCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
41865159 TTTTACCCCT
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 3 0.03
81 116 0.97
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (81 bp):
AAATACTCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTG
TAGGGTAGAATTACTA
Found at i:41865446 original size:27 final size:26
Alignment explanation
Indices: 41865402--41865453 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
41865392 CTCGCTGCAA
*
41865402 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
41865429 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
41865454 GCAACCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:41865518 original size:33 final size:32
Alignment explanation
Indices: 41865469--41865531 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
41865459 CTCGCTGCAA
* *
41865469 TCTGGTGGCTTCGCCACATATATATATATCTAT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTAT
*
41865502 TCTGGTGGCCTAGCCACAATATCTATATCT
1 TCTGGTGGCCTAGCCACAATATATATATCT
41865532 GGTGACTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTAT
Found at i:41865546 original size:27 final size:26
Alignment explanation
Indices: 41865494--41865552 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
41865484 ACATATATAT
*
41865494 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
41865520 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
41865547 ATATCT
1 ATATCT
41865553 TGCAACCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:41865683 original size:6 final size:6
Alignment explanation
Indices: 41865672--41865870 Score: 151
Period size: 6 Copynumber: 32.3 Consensus size: 6
41865662 TTGCATTGAA
*
41865672 ATTCTG ATTCTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCT- ATTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATT--CTG
* *
41865722 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
41865771 ATTCTG -TTACCG AATTCTG ATTCTG ATTCTA ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT-CTG -ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
41865821 ATTCTG ATTCTG ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
41865869 AT
1 AT
41865871 AATGTTTCTT
Statistics
Matches: 156, Mismatches: 18, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
5 12 0.08
6 121 0.78
7 14 0.09
8 8 0.05
9 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:41865704 original size:25 final size:25
Alignment explanation
Indices: 41865671--41865861 Score: 98
Period size: 25 Copynumber: 7.7 Consensus size: 25
41865661 TTTGCATTGA
41865671 AATTCTGATTCTGATTCTGTTACCT
1 AATTCTGATTCTGATTCTGTTACCT
* *
41865696 GATAT-TGATTCTGATTCTATTACCT
1 AAT-TCTGATTCTGATTCTGTTACCT
*
41865721 AATTCTGATTCTGGTTCTGATT--CT
1 AATTCTGATTCTGATTCTG-TTACCT
* *
41865745 GATTCTG-TTACCTGATACTGATT--CT
1 AATTCTGATT--CTGATTCTG-TTACCT
* *
41865770 GATTCTG-TTACCGAATTCTGATT--CT
1 AATTCTGATT-CTG-ATTCTG-TTACCT
* * * *
41865795 GATTCTAATTTTGATTCTGTCACCT
1 AATTCTGATTCTGATTCTGTTACCT
*
41865820 GATTCTGATTCTGATTCTGATT--CT
1 AATTCTGATTCTGATTCTG-TTACCT
* *
41865844 AATTCTCATTTTGATTCT
1 AATTCTGATTCTGATTCT
41865862 AGTTCTGATA
Statistics
Matches: 135, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.02
24 34 0.25
25 92 0.68
26 6 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (25 bp):
AATTCTGATTCTGATTCTGTTACCT
Found at i:41865742 original size:37 final size:37
Alignment explanation
Indices: 41865701--41865776 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
41865691 TACCTGATAT
* *
41865701 TGATTCTGATTCTATTACCTAATTCTGATTCTGGTTC
1 TGATTCTGATTCTATTACCTAATACTGATTCTGATTC
* *
41865738 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTC
1 TGATTCTGATTCTATTACCTAATACTGATTCTGATTC
41865775 TG
1 TG
41865777 TTACCGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (37 bp):
TGATTCTGATTCTATTACCTAATACTGATTCTGATTC
Found at i:41865770 original size:62 final size:62
Alignment explanation
Indices: 41865672--41865870 Score: 269
Period size: 62 Copynumber: 3.2 Consensus size: 62
41865662 TTGCATTGAA
*
41865672 ATTCTGATTCTGATTCTGTTACCTGATATTGATTCTGATTCTATTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTG
* * *
41865734 GTTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCGAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTG
* * * * * *
41865796 ATTCTAATTTTGATTCTGTCACCTGATTCTGATTCTGATTCTGATT--CTAATTCTCATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT-ATTACCTAATTCTGATTCTG
41865857 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
41865871 AATGTTTCTT
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
60 1 0.01
61 23 0.19
62 95 0.79
63 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTG
Found at i:41866554 original size:27 final size:27
Alignment explanation
Indices: 41866516--41866692 Score: 228
Period size: 27 Copynumber: 6.6 Consensus size: 27
41866506 GTGTTACATT
*
41866516 TAGGGTAGAATTACCAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
41866543 TAGGGTAGAATTATCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
41866570 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
41866597 TAGGGTATAATTACCGAATTACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
41866624 TAGGGTAGAAATATCGAAATGCCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
41866651 TAGGGTAGGATTACCGAGATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
41866678 TGGGGCAAAATTACC
1 TAGGGTAGAATTACC
41866693 ATTTTGCCCC
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTG
Found at i:41867130 original size:22 final size:22
Alignment explanation
Indices: 41867078--41867142 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
41867068 GTCAATTATT
*
41867078 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
41867100 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
41867122 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
41867143 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:41867331 original size:27 final size:27
Alignment explanation
Indices: 41867301--41867434 Score: 141
Period size: 27 Copynumber: 5.0 Consensus size: 27
41867291 ATTCTGTTAA
* *
41867301 GTGGCTTTGCCAC-ATTATCTGTTTCTG
1 GTGGCTATGCCACAAATATCTG-TTCTG
41867328 GTGG-TGATGCCACAAATATCTGTTCTG
1 GTGGCT-ATGCCACAAATATCTGTTCTG
*
41867355 GTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTATGCCACAAATATCTGTTCTG
*
41867382 GTGGCTCTGCCAC-AATATCTGTATCTG
1 GTGGCTATGCCACAAATATCTGT-TCTG
* * **
41867409 GTGACTCTATCAC-AATATCTGTTCTG
1 GTGGCTATGCCACAAATATCTGTTCTG
41867435 ACAGCTATGC
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
26 13 0.14
27 74 0.78
28 8 0.08
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAAATATCTGTTCTG
Found at i:41875952 original size:28 final size:29
Alignment explanation
Indices: 41875921--41875977 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
41875911 GATGCCAACG
41875921 TATAAAAATG-TGGTCTTACTCGCACACA
1 TATAAAAATGCTGGTCTTACTCGCACACA
**
41875949 TATATCAATGCCATGGTCTTACTCGCACA
1 TATAAAAATG-C-TGGTCTTACTCGCACA
41875978 TCAAATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
31 16 0.67
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (29 bp):
TATAAAAATGCTGGTCTTACTCGCACACA
Found at i:41882550 original size:46 final size:45
Alignment explanation
Indices: 41882457--41882542 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
41882447 TACATCTCTC
* * *
41882457 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTAGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
41882503 GAACTAGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTAGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
41882543 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTAGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:41884185 original size:27 final size:27
Alignment explanation
Indices: 41884145--41884214 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
41884135 AGGAAGCGTC
*
41884145 CTGGTGGCTATGCCACA-ATTATCTAAT
1 CTGGTGGCTCTGCCACATA-TATCTAAT
*
41884172 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACATATATCTAAT
*
41884199 TTGGTCGG-TCTGCCAC
1 CTGGT-GGCTCTGCCAC
41884215 GATCTGTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTAAT
Found at i:41891670 original size:39 final size:39
Alignment explanation
Indices: 41891466--41891688 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
41891456 TTGAATGCTG
* * * * * *
41891466 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
41891506 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
41891546 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
41891586 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
41891626 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
41891665 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41891689 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:41891708 original size:79 final size:80
Alignment explanation
Indices: 41891541--41891723 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
41891531 GTGCGAGATA
* * *
41891541 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
41891606 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
41891621 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
41891685 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
41891700 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
41891724 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:41893570 original size:19 final size:19
Alignment explanation
Indices: 41893542--41893585 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
41893532 ATTATCAACC
*
41893542 ATGCATGGGAAACAAGCCT
1 ATGCACGGGAAACAAGCCT
41893561 ATGCACGGGAAACAAGCCT
1 ATGCACGGGAAACAAGCCT
41893580 ATGCAC
1 ATGCAC
41893586 ATCACCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (19 bp):
ATGCACGGGAAACAAGCCT
Found at i:41894836 original size:38 final size:38
Alignment explanation
Indices: 41894793--41894991 Score: 209
Period size: 38 Copynumber: 5.0 Consensus size: 38
41894783 TTTCAAATTA
*
41894793 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
41894831 ACATGTTTAACCGTGGGATATCCACTTAGCACAACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
41894872 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
41894916 ACATGTTTAACCATGGTATATCCACTTAGCACCACATT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
41894954 ACACGTATAACCGTGGTATATCCACTTAGCACAACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
41894992 TTTTCATTCT
Statistics
Matches: 134, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
38 93 0.69
39 1 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 1 0.01
47 27 0.20
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:41897716 original size:15 final size:15
Alignment explanation
Indices: 41897692--41897725 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41897682 GAAAAAGGAT
41897692 ATCCAAGATAAAGAA
1 ATCCAAGATAAAGAA
* *
41897707 ATCCATGATAAGGAA
1 ATCCAAGATAAAGAA
41897722 ATCC
1 ATCC
41897726 CATTTACAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.18
Consensus pattern (15 bp):
ATCCAAGATAAAGAA
Found at i:41900998 original size:38 final size:38
Alignment explanation
Indices: 41900955--41901123 Score: 113
Period size: 38 Copynumber: 4.2 Consensus size: 38
41900945 TTTCAAATTA
* *
41900955 ACATGTATAACCGTGACATGTCCACTTAGCACCACGTT
1 ACATGTATAACCATGACATATCCACTTAGCACCACGTT
* ** *
41900993 ACATGTTTAACCATGGTATATCCACTTAGCACCGCGTTAAT
1 ACATGTATAACCATGACATATCCACTTAGCACCACG-T--T
* * * * *
41901034 GAATCAATATATGTAACCGTGGCATATCAACTTAGCACCATGTT
1 --A-C-ATGTA--TAACCATGACATATCCACTTAGCACCACGTT
* ** *
41901078 ACATGTTTAACCATGGTATATTCACTTAGCACCACGTT
1 ACATGTATAACCATGACATATCCACTTAGCACCACGTT
*
41901116 ACACGTAT
1 ACATGTAT
41901124 CAATATGTGT
Statistics
Matches: 100, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
38 62 0.62
39 1 0.01
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 1 0.01
47 24 0.24
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGACATATCCACTTAGCACCACGTT
Found at i:41901067 original size:85 final size:86
Alignment explanation
Indices: 41900962--41901201 Score: 320
Period size: 86 Copynumber: 2.8 Consensus size: 86
41900952 TTAACATGTA
* * *
41900962 TAACCGTGACATGTCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
*
41901027 CGTTA-ATGAATCAATATATG
66 CGTTACACGAATCAATATATG
* * *
41901047 TAACCGTGGCATATCAACTTAGCACCATGTTACATGTTTAACCATGGTATATTCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
* *
41901112 CGTTACACGTATCAATATGTG
66 CGTTACACGAATCAATATATG
* * * * * * * *
41901133 TAATCATGGTATATCCACTTAGCACCACGTTACACGTATAACCGTGGTGTATCCACTTAGCTCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
41901198 CGTT
66 CGTT
41901202 TTTTCATTCC
Statistics
Matches: 134, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 64 0.48
86 70 0.52
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (86 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
CGTTACACGAATCAATATATG
Found at i:41901145 original size:48 final size:48
Alignment explanation
Indices: 41901080--41901171 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
41901070 ACCATGTTAC
* *
41901080 ATGTTTAACCATGGTATATTCACTTAGCACCACGTTACACGTATCAAT
1 ATGTGTAACCATGGTATATCCACTTAGCACCACGTTACACGTATCAAT
*
41901128 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCATGGTATATCCACTTAGCACCACGTTACACGTAT
41901172 AACCGTGGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (48 bp):
ATGTGTAACCATGGTATATCCACTTAGCACCACGTTACACGTATCAAT
Found at i:41905311 original size:13 final size:13
Alignment explanation
Indices: 41905293--41905318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41905283 TTGAATCCAT
41905293 ACCAAAACAATCA
1 ACCAAAACAATCA
41905306 ACCAAAACAATCA
1 ACCAAAACAATCA
41905319 TGAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:41907502 original size:49 final size:50
Alignment explanation
Indices: 41907430--41907556 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 50
41907420 CTGATACGCA
* * *
41907430 TAGTAGCCT-ACAATTAGTACTACACATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGA-ACTTAGTACTACACACGCGACCTAACAATCCGATACACG
* * * * *
41907479 TAGTAGCCTGAACTTAGAACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGAACTTAGTACTACACACGCGACCTAACAATCCGATACACG
* *
41907529 AAGTAGCCTGCACTTAGTACTACACACG
1 TAGTAGCCTGAACTTAGTACTACACACG
41907557 TGATCGAGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 27 0.42
50 38 0.58
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (50 bp):
TAGTAGCCTGAACTTAGTACTACACACGCGACCTAACAATCCGATACACG
Found at i:41913176 original size:26 final size:26
Alignment explanation
Indices: 41913146--41913197 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
41913136 CACCAATGAA
*
41913146 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41913172 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41913198 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:41913257 original size:102 final size:103
Alignment explanation
Indices: 41912909--41913272 Score: 592
Period size: 103 Copynumber: 3.6 Consensus size: 103
41912899 TAGCCGTTAT
* *
41912909 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
41912973 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
* *
41913011 TGGTGGATATCACACTTAGCACCACCAATGAATCGGAGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41913076 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
41913114 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
41913178 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * **
41913217 TGGTGGATCA-CGCACATAGCACCACC-ATAAATCGGGGAATCAGCACACAGCAACCC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
41913273 TTTTATATAC
Statistics
Matches: 247, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
102 63 0.26
103 183 0.74
104 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:41946403 original size:39 final size:39
Alignment explanation
Indices: 41946284--41946482 Score: 178
Period size: 39 Copynumber: 4.9 Consensus size: 39
41946274 AGCCCGGTTA
* * *
41946284 TAGTAACTCGCACAATTGCC-TCGGGACTTAACCCGG-AT
1 TAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
41946322 TATGTATACTCGGCACAAAGTCGGCCTTCGGGCTTAGCCCGGAAT
1 TA-GTAT-CTC-GCACAAA-T--GCCTTCGGGCTTAGCCCGGAAT
41946367 TAGTATCTCGCACATAATGCCTTCGGGCTTAG-CCGGAAT
1 TAGTATCTCGCACA-AATGCCTTCGGGCTTAGCCCGGAAT
* *
41946406 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-A-
1 TAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT
*
41946444 TAGGTCA-CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TA-GT-ATC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
41946483 CATCATTCAA
Statistics
Matches: 138, Mismatches: 7, Indels: 30
0.79 0.04 0.17
Matches are distributed among these distances:
38 15 0.11
39 50 0.36
40 30 0.22
41 6 0.04
42 7 0.05
43 5 0.04
44 16 0.12
45 9 0.07
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
Found at i:41954310 original size:40 final size:40
Alignment explanation
Indices: 41954255--41954447 Score: 233
Period size: 40 Copynumber: 5.0 Consensus size: 40
41954245 CCTTCGGGAC
*
41954255 TTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 TTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
41954295 TTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 TTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
41954334 -TTAGT-ACTCGCACAAATG-C--CGGG-CTTAGCCCGGA
1 TTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* * *
41954368 ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 TTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA
* * * *
41954408 TATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
41954448 CATCATTCAA
Statistics
Matches: 134, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
34 15 0.11
35 5 0.04
36 13 0.10
37 14 0.10
38 7 0.05
39 11 0.08
40 58 0.43
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
Found at i:41954380 original size:73 final size:78
Alignment explanation
Indices: 41954256--41954447 Score: 225
Period size: 73 Copynumber: 2.5 Consensus size: 78
41954246 CTTCGGGACT
*
41954256 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCG
1 TTAGTAACTCGCACAAATGCC-TCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCG
41954321 G-GCTTAGCCCGGA
65 GAGCTTAGCCCGGA
* *
41954334 TTAGT-ACTCGCACAAATG-C-CGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG
1 TTAGTAACTCGCACAAATGCCTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGG
* *
41954395 ATCTTAGTCCGGA
66 AGCTTAGCCCGGA
* * * *
41954408 TATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 T-TAGTAAC-TCGCACAAATGCC-TCGGGACTTAACCCGGA
41954448 CATCATTCAA
Statistics
Matches: 99, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
73 35 0.35
74 15 0.15
75 3 0.03
76 4 0.04
77 22 0.22
78 5 0.05
79 4 0.04
80 11 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
TTAGTAACTCGCACAAATGCCTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGG
AGCTTAGCCCGGA
Found at i:41956320 original size:22 final size:22
Alignment explanation
Indices: 41956292--41956381 Score: 101
Period size: 22 Copynumber: 3.9 Consensus size: 22
41956282 GGAAAAACAG
41956292 TCATTTTACCTCATGAGGGCAA
1 TCATTTTACCTCATGAGGGCAA
41956314 TCATTTTACCTCATGAGGG-AA
1 TCATTTTACCTCATGAGGGCAA
* *
41956335 GTCATTTTACCACATAAGGGCAAAACTA
1 -TCATTTTACCTCATGAGGGC---A--A
41956363 TCATTTTACCTCATGAGGG
1 TCATTTTACCTCATGAGGG
41956382 AAAAATAGTC
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.04
22 36 0.63
26 1 0.02
27 17 0.30
28 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (22 bp):
TCATTTTACCTCATGAGGGCAA
Found at i:41956355 original size:44 final size:46
Alignment explanation
Indices: 41956290--41956383 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 46
41956280 AAGGAAAAAC
* *
41956290 AGTCATTTTACCTCATGAGGGC-A-ATCATTTTACCTCATGAGGGA
1 AGTCATTTTACCACATAAGGGCAACATCATTTTACCTCATGAGGGA
41956334 AGTCATTTTACCACATAAGGGCAAAACTATCATTTTACCTCATGAGGGA
1 AGTCATTTTACCACATAAGGGC--AAC-ATCATTTTACCTCATGAGGGA
41956383 A
1 A
41956384 AAATAGTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
44 20 0.47
47 1 0.02
49 22 0.51
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (46 bp):
AGTCATTTTACCACATAAGGGCAACATCATTTTACCTCATGAGGGA
Found at i:41956381 original size:27 final size:27
Alignment explanation
Indices: 41956292--41956503 Score: 173
Period size: 27 Copynumber: 8.2 Consensus size: 27
41956282 GGAAAAACAG
41956292 TCATTTTACCTCATGAGGGC-----AA
1 TCATTTTACCTCATGAGGGCAAAAAAA
*
41956314 TCATTTTACCTCATGAGGG-----AAG
1 TCATTTTACCTCATGAGGGCAAAAAAA
* * **
41956336 TCATTTTACCACATAAGGGCAAAACTA
1 TCATTTTACCTCATGAGGGCAAAAAAA
*
41956363 TCATTTTACCTCATGAGGG-AAAAATAG
1 TCATTTTACCTCATGAGGGCAAAAA-AA
* *
41956390 TCATTTAACCTCAAGAGGGCAAAAAAA
1 TCATTTTACCTCATGAGGGCAAAAAAA
* *
41956417 CCATTTTACCTCATGAGGG-AAAAATAG
1 TCATTTTACCTCATGAGGGCAAAAA-AA
*
41956444 TCATTTTACCTCATGAGGGCAAAACAA
1 TCATTTTACCTCATGAGGGCAAAAAAA
* *
41956471 TTATTTTA-C-CATAGAAGGGCAAAACAA
1 TCATTTTACCTCAT-G-AGGGCAAAAAAA
41956498 TCATTT
1 TCATTT
41956504 AGCAACTAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 19
0.79 0.12 0.10
Matches are distributed among these distances:
22 37 0.24
25 3 0.02
26 11 0.07
27 95 0.61
28 9 0.06
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (27 bp):
TCATTTTACCTCATGAGGGCAAAAAAA
Found at i:41956503 original size:54 final size:54
Alignment explanation
Indices: 41956282--41956480 Score: 247
Period size: 54 Copynumber: 3.9 Consensus size: 54
41956272 ACCATATAAA
*
41956282 GGAAAAACAGTCATTTTACCTCATGAGGG-----CAATCATTTTACCTCATGAG
1 GGAAAAATAGTCATTTTACCTCATGAGGGCAAAACAATCATTTTACCTCATGAG
* * *
41956331 GG----A-AGTCATTTTACCACATAAGGGCAAAACTATCATTTTACCTCATGAG
1 GGAAAAATAGTCATTTTACCTCATGAGGGCAAAACAATCATTTTACCTCATGAG
* * * *
41956380 GGAAAAATAGTCATTTAACCTCAAGAGGGCAAAAAAACCATTTTACCTCATGAG
1 GGAAAAATAGTCATTTTACCTCATGAGGGCAAAACAATCATTTTACCTCATGAG
*
41956434 GGAAAAATAGTCATTTTACCTCATGAGGGCAAAACAATTATTTTACC
1 GGAAAAATAGTCATTTTACCTCATGAGGGCAAAACAATCATTTTACC
41956481 ATAGAAGGGC
Statistics
Matches: 125, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
44 19 0.15
45 1 0.01
49 23 0.18
53 1 0.01
54 81 0.65
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
GGAAAAATAGTCATTTTACCTCATGAGGGCAAAACAATCATTTTACCTCATGAG
Found at i:41956503 original size:81 final size:81
Alignment explanation
Indices: 41956336--41956503 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 81
41956326 ATGAGGGAAG
* * *
41956336 TCATTTTACCACATAAGGGCAAAACTATCATTTTACCTCATGAGGGAAAAATAGTCATTTAACCT
1 TCATTTTACCACATAAGGGCAAAAATATCATTTTACCTCATGAGGGAAAAACAATCATTTAACCT
41956401 CAAGAGGGCAAAAAAA
66 CAAGAGGGCAAAAAAA
* * * * * *
41956417 CCATTTTACCTCATGAGGG-AAAAATAGTCATTTTACCTCATGAGGGCAAAACAATTATTTTA-C
1 TCATTTTACCACATAAGGGCAAAAATA-TCATTTTACCTCATGAGGGAAAAACAATCATTTAACC
*
41956480 -CATAGAAGGGCAAAACAA
65 TCA-AG-AGGGCAAAAAAA
41956498 TCATTT
1 TCATTT
41956504 AGCAACTAGC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.03
80 9 0.12
81 62 0.85
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (81 bp):
TCATTTTACCACATAAGGGCAAAAATATCATTTTACCTCATGAGGGAAAAACAATCATTTAACCT
CAAGAGGGCAAAAAAA
Found at i:41963268 original size:18 final size:18
Alignment explanation
Indices: 41963226--41963271 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
41963216 CTTGGCCCAA
41963226 TACAGTAACAATAAATAG
1 TACAGTAACAATAAATAG
*
41963244 TGCAGTAACAAT-AATCAG
1 TACAGTAACAATAAAT-AG
*
41963262 TATAGTAACA
1 TACAGTAACA
41963272 GAATACAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (18 bp):
TACAGTAACAATAAATAG
Found at i:41963681 original size:54 final size:54
Alignment explanation
Indices: 41963594--41963908 Score: 321
Period size: 54 Copynumber: 5.8 Consensus size: 54
41963584 TAAATCACAT
* * * *
41963594 AGGGAAAAACAATCATCTTACCAT-ATAAGGGCAAAACAATCATTTTACCTCATG
1 AGGGCAAAACAATCATTTTACC-TCATAAGGGCAAAATAGTCATTTTACCTCATG
* * * * *
41963648 AGGGCAAAACAATCATTTTACCACATAAAGGCAAAACAGTCATTTTACCTTATA
1 AGGGCAAAACAATCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCTCATG
* * * * * *
41963702 AGGGCAAAACAGTCATTTTTCCTCATGAGGGAAAAATAGACATTTTACCTCAAG
1 AGGGCAAAACAATCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCTCATG
* * * *
41963756 AGTGAAAAACAA-CAATTTTACCTCATGAGGGCAAGATAGTCATTTTACCTCATG
1 AGGGCAAAACAATC-ATTTTACCTCATAAGGGCAAAATAGTCATTTTACCTCATG
* * * *
41963810 AGGGGAAAATAACCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCGT-ATA
1 AGGGCAAAACAATCATTTTACCTCATAAGGGCAAAATAGTCATTTTACC-TCATG
*** * * *
41963864 AGGGCAAAATTGTCATTTTACCTCATGAGGACAAAAAAGTCATTT
1 AGGGCAAAACAATCATTTTACCTCATAAGGGCAAAATAGTCATTT
41963909 ATCAATCTAG
Statistics
Matches: 218, Mismatches: 39, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.00
54 215 0.99
55 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (54 bp):
AGGGCAAAACAATCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCTCATG
Found at i:41963746 original size:81 final size:81
Alignment explanation
Indices: 41963599--41963893 Score: 344
Period size: 81 Copynumber: 3.6 Consensus size: 81
41963589 CACATAGGGA
* * * * * * *
41963599 AAAACAATCATCTTACCATATAAGGGCAAAACAATCATTTTACCTCATGAGGGCAAAACAATCAT
1 AAAACAGTCATTTTACCTTATAAGGGCAAAACAGTCATTTTACCTCATGAGGGAAAAATAACCAT
*
41963664 TTTACCACATAAAGGC
66 TTTACCTCATAAAGGC
*
41963680 AAAACAGTCATTTTACCTTATAAGGGCAAAACAGTCATTTTTCCTCATGAGGGAAAAATAGA-CA
1 AAAACAGTCATTTTACCTTATAAGGGCAAAACAGTCATTTTACCTCATGAGGGAAAAATA-ACCA
* *
41963744 TTTTACCTCA-AGAGTGA
65 TTTTACCTCATAAAG-GC
* * * * * *
41963761 AAAACA-ACAATTTTACCTCATGAGGGCAAGATAGTCATTTTACCTCATGAGGGGAAAATAACCA
1 AAAACAGTC-ATTTTACCTTATAAGGGCAAAACAGTCATTTTACCTCATGAGGGAAAAATAACCA
*
41963825 TTTTACCTCATAAGGGC
65 TTTTACCTCATAAAGGC
* * **
41963842 AAAATAGTCATTTTACCGTATAAGGGCAAAATTGTCATTTTACCTCATGAGG
1 AAAACAGTCATTTTACCTTATAAGGGCAAAACAGTCATTTTACCTCATGAGG
41963894 ACAAAAAAGT
Statistics
Matches: 181, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
80 5 0.03
81 172 0.95
82 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (81 bp):
AAAACAGTCATTTTACCTTATAAGGGCAAAACAGTCATTTTACCTCATGAGGGAAAAATAACCAT
TTTACCTCATAAAGGC
Found at i:41963873 original size:27 final size:27
Alignment explanation
Indices: 41963594--41963908 Score: 287
Period size: 27 Copynumber: 11.7 Consensus size: 27
41963584 TAAATCACAT
* * *
41963594 AGGGAAAAACAATCATCTTACCAT-ATA
1 AGGGCAAAACAGTCATTTTACC-TCATA
* *
41963621 AGGGCAAAACAATCATTTTACCTCATG
1 AGGGCAAAACAGTCATTTTACCTCATA
* *
41963648 AGGGCAAAACAATCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCTCATA
* *
41963675 AAGGCAAAACAGTCATTTTACCTTATA
1 AGGGCAAAACAGTCATTTTACCTCATA
* *
41963702 AGGGCAAAACAGTCATTTTTCCTCATG
1 AGGGCAAAACAGTCATTTTACCTCATA
* * *
41963729 AGGGAAAAATAGACATTTTACCTCA-A
1 AGGGCAAAACAGTCATTTTACCTCATA
* * * *
41963755 GAGTGAAAAACA-ACAATTTTACCTCATG
1 -AGGGCAAAACAGTC-ATTTTACCTCATA
* * *
41963783 AGGGCAAGATAGTCATTTTACCTCATG
1 AGGGCAAAACAGTCATTTTACCTCATA
* * **
41963810 AGGGGAAAATAACCATTTTACCTCATA
1 AGGGCAAAACAGTCATTTTACCTCATA
*
41963837 AGGGCAAAATAGTCATTTTACCGT-ATA
1 AGGGCAAAACAGTCATTTTACC-TCATA
** *
41963864 AGGGCAAAATTGTCATTTTACCTCATG
1 AGGGCAAAACAGTCATTTTACCTCATA
* *
41963891 AGGACAAAAAAGTCATTT
1 AGGGCAAAACAGTCATTT
41963909 ATCAATCTAG
Statistics
Matches: 242, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.02
27 236 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCTCATA
Found at i:41973274 original size:39 final size:39
Alignment explanation
Indices: 41973220--41973402 Score: 208
Period size: 39 Copynumber: 4.7 Consensus size: 39
41973210 TTCAGTGATG
* * * * *
41973220 TATATCTGGATTTAGGGTCTGCAGGGTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
41973259 TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
41973298 TATATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
41973337 TATAACCGGACTTAAGGTCCGCAGGTTACGTGTTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
41973376 TATGTCCGTG--TTAAGGTCCTGCAGGCT
1 TATATCCG-GACTTAAGGTCC-GCAGGCT
41973403 TCGAGCTGGT
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
38 9 0.07
39 115 0.92
40 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:41990633 original size:43 final size:43
Alignment explanation
Indices: 41990540--41990669 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 43
41990530 CATAGGATTT
41990540 TCGATATGTGTTCGCATGTAAGACCACGTCTGGAACGTTGGCA
1 TCGATATGTGTTCGCATGTAAGACCACGTCTGGAACGTTGGCA
* * * *
41990583 TCAATATGTGTTCTCGTGTAAGACC-CTGTCTAGG-ACAG-TGGGA
1 TCGATATGTGTTCGCATGTAAGACCAC-GTCT-GGAAC-GTTGGCA
** * * *
41990626 TCGATATGT-TATTACATGTAAGACCACATTTGGTACGTTGGCA
1 TCGATATGTGT-TCGCATGTAAGACCACGTCTGGAACGTTGGCA
41990669 T
1 T
41990670 TGTACGATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
42 5 0.07
43 60 0.87
44 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATGTGTTCGCATGTAAGACCACGTCTGGAACGTTGGCA
Found at i:41994210 original size:25 final size:25
Alignment explanation
Indices: 41994182--41994248 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
41994172 TCATTAGTGT
41994182 TACCGATTTATAGCTCATGAGAACA
1 TACCGATTTATAGCTCATGAGAACA
* * * *
41994207 TACCAATTAATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTCATGAGAACA
*
41994232 TACAGATCTT-TAGCTCA
1 TACCGAT-TTATAGCTCA
41994249 AATGAGCATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (25 bp):
TACCGATTTATAGCTCATGAGAACA
Found at i:41996774 original size:13 final size:14
Alignment explanation
Indices: 41996746--41996776 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
41996736 GTAATGGTCA
41996746 TTGGACATTAAATT
1 TTGGACATTAAATT
41996760 TTGGACATT-AATT
1 TTGGACATTAAATT
41996773 TTGG
1 TTGG
41996777 TGATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGGACATTAAATT
Found at i:41999182 original size:43 final size:42
Alignment explanation
Indices: 41999057--41999215 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
41999047 TGAGATTACA
* * *
41999057 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-T-CGATTAAG
* *
41999100 TGTAAGACCATGTCTGGGACATTGGAATCATTATACGATTAAG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTAT-CGATTAAG
*
41999143 TGTAAGACCATGTCTGGGACATTGGCATCGTTCATCGATTTCA-
1 TGTAAGACCATGTCTGGGACATTGGCATCGTT-ATCGA-TTAAG
* * * *
41999186 TGTACGACCCTGTTTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
41999216 ATATGTGATA
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 93 0.93
44 7 0.07
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATCGATTAAG
Found at i:41999233 original size:86 final size:87
Alignment explanation
Indices: 41999050--41999247 Score: 201
Period size: 86 Copynumber: 2.3 Consensus size: 87
41999040 ACCGAGATGA
* ** *
41999050 GATT-ACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTATGTGTAAGACCATGTC
1 GATTAACATGTAAGACCATGTCTGGGACATTGGCATCGTATCATGATTATATGTAAGACCATGTC
*
41999114 TGGGACATTGGAATCATTATAC
66 TGGGACAGTGGAATCATTATAC
* * *
41999136 GATTAA-GTGTAAGACCATGTCTGGGACATTGGCATCGT-TCATCGATT-TCATGTACGACCCTG
1 GATTAACATGTAAGACCATGTCTGGGACATTGGCATCGTATCAT-GATTAT-ATGTAAGACCATG
* * **
41999198 TTTGGGACAGTGGCATCGA-TATGT
64 TCTGGGACAGTGGAATC-ATTATAC
* *
41999222 GA-TAACATGTAAGATCATATCTGGGA
1 GATTAACATGTAAGACCATGTCTGGGA
41999248 TATGACATTG
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
85 6 0.07
86 84 0.91
87 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (87 bp):
GATTAACATGTAAGACCATGTCTGGGACATTGGCATCGTATCATGATTATATGTAAGACCATGTC
TGGGACAGTGGAATCATTATAC
Found at i:42005224 original size:22 final size:22
Alignment explanation
Indices: 42005154--42005237 Score: 73
Period size: 22 Copynumber: 3.7 Consensus size: 22
42005144 CCTGAGCTGA
*
42005154 TGAATAGTAAGCTTTAATGAGC
1 TGAATAGTAAGCTCTAATGAGC
* *
42005176 T-AAAACGGTAAGCTCT-ATCGAGA
1 TGAATA--GTAAGCTCTAAT-GAGC
*
42005199 TGAATAGTAAACTCTAATGAGC
1 TGAATAGTAAGCTCTAATGAGC
42005221 TGAAAATAGTAAGCTCT
1 TG--AATAGTAAGCTCT
42005238 TACGAGTAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
21 3 0.06
22 16 0.33
23 14 0.29
24 15 0.31
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (22 bp):
TGAATAGTAAGCTCTAATGAGC
Found at i:42009732 original size:16 final size:16
Alignment explanation
Indices: 42009711--42009741 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42009701 GGAGTGGTAT
42009711 TGATATTTTCTTTAAG
1 TGATATTTTCTTTAAG
42009727 TGATATTTTCTTTAA
1 TGATATTTTCTTTAA
42009742 AATGTTTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
TGATATTTTCTTTAAG
Found at i:42017234 original size:29 final size:29
Alignment explanation
Indices: 42017211--42017394 Score: 176
Period size: 29 Copynumber: 6.3 Consensus size: 29
42017201 GACTATTGAC
* *
42017211 TATGAAAAGGGATGGTGACAACTATTGAA
1 TATGAAAAGGGATGGTGACAACCATCGAA
* ** * * *
42017240 TATGAAAAAGGGATAGTTTCGACTA-CTGAC
1 TATG-AAAAGGGATGGTGACAACCATC-GAA
42017270 TATGAAAAGGGATGGTGACGAA-CATC-AA
1 TATGAAAAGGGATGGTGAC-AACCATCGAA
*
42017298 CTATGAAAAGGGATGGTGACAACCATCGAT
1 -TATGAAAAGGGATGGTGACAACCATCGAA
****
42017328 TAATGAAAAGGGATGGTTTTGACCATCGAA
1 T-ATGAAAAGGGATGGTGACAACCATCGAA
*
42017358 TATGAAAAGGGATGGTGACGACCATCGAA
1 TATGAAAAGGGATGGTGACAACCATCGAA
42017387 TATGAAAA
1 TATGAAAA
42017395 AGGTTTCGGT
Statistics
Matches: 126, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
28 3 0.02
29 74 0.59
30 49 0.39
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACAACCATCGAA
Found at i:42017303 original size:59 final size:57
Alignment explanation
Indices: 42017174--42017311 Score: 190
Period size: 59 Copynumber: 2.4 Consensus size: 57
42017164 TATCGAGGAC
*
42017174 CATCAATTAATGAAAAA-GGATAGTTTCGACTATTGACTATGAAAAGGGATGGTGACAA
1 CATCAA-T-ATGAAAAAGGGATAGTTTCGACTACTGACTATGAAAAGGGATGGTGACAA
*
42017232 CTATTGAATATGAAAAAGGGATAGTTTCGACTACTGACTATGAAAAGGGATGGTGACGAA
1 C-A-TCAATATGAAAAAGGGATAGTTTCGACTACTGACTATGAAAAGGGATGGTGAC-AA
42017292 CATCAACTATG-AAAAGGGAT
1 CATCAA-TATGAAAAAGGGAT
42017312 GGTGACAACC
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
58 21 0.29
59 45 0.62
60 6 0.08
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.25
Consensus pattern (57 bp):
CATCAATATGAAAAAGGGATAGTTTCGACTACTGACTATGAAAAGGGATGGTGACAA
Found at i:42017334 original size:59 final size:58
Alignment explanation
Indices: 42017211--42017394 Score: 185
Period size: 59 Copynumber: 3.1 Consensus size: 58
42017201 GACTATTGAC
* * ** * * *
42017211 TATGAAAAGGGATGGTGAC-AACTATTGAATATGAAAAAGGGATAGTTTCGACTA-CTGAC
1 TATGAAAAGGGATGGTGACGAAC-ATCGAATATG-AAAAGGGATGGTGACAACCATC-GAA
*
42017270 TATGAAAAGGGATGGTGACGAACATC-AACTATGAAAAGGGATGGTGACAACCATCGAT
1 TATGAAAAGGGATGGTGACGAACATCGAA-TATGAAAAGGGATGGTGACAACCATCGAA
*** * *
42017328 TAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGATGGTGACGACCATCGAA
1 T-ATGAAAAGGGATGGTGACGAACATCGAATATGAAAAGGGATGGTGACAACCATCGAA
42017387 TATGAAAA
1 TATGAAAA
42017395 AGGTTTCGGT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
58 27 0.25
59 75 0.70
60 5 0.05
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGAACATCGAATATGAAAAGGGATGGTGACAACCATCGAA
Found at i:42017337 original size:88 final size:89
Alignment explanation
Indices: 42017209--42017394 Score: 254
Period size: 88 Copynumber: 2.1 Consensus size: 89
42017199 TCGACTATTG
* * * *
42017209 ACTATGAAAAGGGATGGTGACAACTATTGAATATGAAAAAGGGATAGTTTCGACTA-CTGACTAT
1 ACTATGAAAAGGGATGGTGACAACCATCGAATATGAAAAAGGGATAGTTTCGACCATC-GAATAT
42017273 GAAAAGGGATGGTGACGAACATC-A
65 GAAAAGGGATGGTGACGAACATCGA
* * *
42017297 ACTATGAAAAGGGATGGTGACAACCATCGATTAATG-AAAAGGGATGGTTTTGACCATCGAATAT
1 ACTATGAAAAGGGATGGTGACAACCATCGAAT-ATGAAAAAGGGATAGTTTCGACCATCGAATAT
*
42017361 GAAAAGGGATGGTGACGACCATCGA
65 GAAAAGGGATGGTGACGAACATCGA
42017386 A-TATGAAAA
1 ACTATGAAAA
42017395 AGGTTTCGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
88 81 0.93
89 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (89 bp):
ACTATGAAAAGGGATGGTGACAACCATCGAATATGAAAAAGGGATAGTTTCGACCATCGAATATG
AAAAGGGATGGTGACGAACATCGA
Found at i:42017847 original size:16 final size:16
Alignment explanation
Indices: 42017826--42017858 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42017816 AGCTCACGTG
*
42017826 AATTATGTTTAATTAT
1 AATTATATTTAATTAT
42017842 AATTATATTTAATTAT
1 AATTATATTTAATTAT
42017858 A
1 A
42017859 TTCAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTATATTTAATTAT
Found at i:42020145 original size:36 final size:35
Alignment explanation
Indices: 42020074--42020145 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
42020064 TCTCTATCAT
* *
42020074 ATGGCATGAAAACATATCCACATATTTACTGTCAC
1 ATGGCATGAAAACATACCCACATATTAACTGTCAC
* * * *
42020109 ATGGCATGAGTAACATACCCTCGTATTAACTTTCAC
1 ATGGCATGA-AAACATACCCACATATTAACTGTCAC
42020145 A
1 A
42020146 ACGGTCATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (35 bp):
ATGGCATGAAAACATACCCACATATTAACTGTCAC
Found at i:42023326 original size:26 final size:26
Alignment explanation
Indices: 42023287--42023353 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
42023277 AACATGTCAG
*
42023287 GAAAGAA-AAGCCTTTGTGG-TGAATAT
1 GAAAGAATAA-CCTTTGTGGAAG-ATAT
42023313 GAAAGAATAACCTTTGTGGAAGATAT
1 GAAAGAATAACCTTTGTGGAAGATAT
* *
42023339 GAATGAATAGCCTTT
1 GAAAGAATAACCTTT
42023354 TTGTCGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 33 0.92
27 3 0.08
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (26 bp):
GAAAGAATAACCTTTGTGGAAGATAT
Found at i:42023411 original size:56 final size:54
Alignment explanation
Indices: 42023291--42023462 Score: 179
Period size: 56 Copynumber: 3.2 Consensus size: 54
42023281 TGTCAGGAAA
* * * * *
42023291 GAAAAGCCTTTGTGGTG-AATATGAAAGAATAA-CCTTTGTGG-AAGATATGAAT
1 GAAAAGCTTTTTTGGAGAAATATAAAAGAA-AAGCCTTTGTGGAAAAATATGAAT
* * ** *
42023343 GAATAGCCTTTTTGTCGAAATATAAATGAAAAGCCTTTGTGGCAAAAAATATGAAT
1 GAAAAGCTTTTTTGGAGAAATATAAAAGAAAAGCCTTTGTGG--AAAAATATGAAT
* * *
42023399 GAAAAGCTTTTTTGGAGAAATATAAAAGGAAAGCCTTTGTGGAGAAATATGAAA
1 GAAAAGCTTTTTTGGAGAAATATAAAAGAAAAGCCTTTGTGGAAAAATATGAAT
42023453 GAAAAGCTTT
1 GAAAAGCTTT
42023463 AGTTGTGTGA
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
52 15 0.15
53 19 0.19
54 20 0.20
56 46 0.46
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (54 bp):
GAAAAGCTTTTTTGGAGAAATATAAAAGAAAAGCCTTTGTGGAAAAATATGAAT
Found at i:42023441 original size:27 final size:27
Alignment explanation
Indices: 42023287--42023459 Score: 165
Period size: 27 Copynumber: 6.4 Consensus size: 27
42023277 AACATGTCAG
*
42023287 GAAAGAAAAGCCTTTGTGGTG-AATAT
1 GAAAGAAAAGCCTTTGTGGAGAAATAT
*
42023313 GAAAGAATAA-CCTTTGTGGA-AGATAT
1 GAAAGAA-AAGCCTTTGTGGAGAAATAT
* * * **
42023339 GAATGAATAGCCTTTTTGTCGAAATAT
1 GAAAGAAAAGCCTTTGTGGAGAAATAT
*
42023366 -AAATGAAAAGCCTTTGTGGCAAAAAATAT
1 GAAA-GAAAAGCCTTTGTGG--AGAAATAT
* * *
42023395 GAATGAAAAGCTTTTTTGGAGAAATAT
1 GAAAGAAAAGCCTTTGTGGAGAAATAT
* *
42023422 AAAAGGAAAGCCTTTGTGGAGAAATAT
1 GAAAGAAAAGCCTTTGTGGAGAAATAT
42023449 GAAAGAAAAGC
1 GAAAGAAAAGC
42023460 TTTAGTTGTG
Statistics
Matches: 114, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
25 1 0.01
26 35 0.31
27 57 0.50
29 19 0.17
30 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.27
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGAGAAATAT
Found at i:42024722 original size:17 final size:18
Alignment explanation
Indices: 42024700--42024738 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
42024690 AATTAGGCCG
42024700 TGTGGG-CCACACGGGCA
1 TGTGGGCCCACACGGGCA
*
42024717 TGTGGGCCCACACGGGCG
1 TGTGGGCCCACACGGGCA
42024735 TGTG
1 TGTG
42024739 AGATTCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.13, C:0.28, G:0.44, T:0.15
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCA
Found at i:42027375 original size:67 final size:67
Alignment explanation
Indices: 42027267--42027397 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 67
42027257 ACCCGAGCGT
* *
42027267 GTCTTGTGGTCACGTGAGTAGGTCAGTATGTATGCCATGTTTTGGCATGACCTAGACACACGGGT
1 GTCTTGTGGTCACGTGAGTAAGTCAGTATGTATGCCATGTTTTGACATGACCTAGACACACGGGT
42027332 GG
66 GG
** * *
42027334 GTCTTGTGGTCGTGTGAGTAAGTCAGTATGTATGCCCTGTTTTGACATGGCCTAGACACACGGG
1 GTCTTGTGGTCACGTGAGTAAGTCAGTATGTATGCCATGTTTTGACATGACCTAGACACACGGG
42027398 CATGTCTAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (67 bp):
GTCTTGTGGTCACGTGAGTAAGTCAGTATGTATGCCATGTTTTGACATGACCTAGACACACGGGT
GG
Found at i:42029749 original size:47 final size:47
Alignment explanation
Indices: 42029690--42029865 Score: 173
Period size: 47 Copynumber: 3.8 Consensus size: 47
42029680 GGTAAAGTGC
42029690 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCACATCTCAAGT
* * * * *
42029737 CGATTCCATGTCCCAGAGATGGTCTTACACTGACT-ATCATCTCGTCA-T
1 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCA-CATCTC--AAGT
* * * *
42029785 CGATG-CAT-TCCCAGAC-ATGTCTTACACTAGCTCTCATCTTAATGT
1 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCACATCTCAA-GT
* * *
42029830 CGATGCCATGTCCGAGTCATGGTCTTACACTGGCTC
1 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTC
42029866 TCAAAATGTG
Statistics
Matches: 101, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
45 23 0.23
46 11 0.11
47 46 0.46
48 19 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCACATCTCAAGT
Found at i:42029833 original size:93 final size:95
Alignment explanation
Indices: 42029690--42029861 Score: 242
Period size: 93 Copynumber: 1.8 Consensus size: 95
42029680 GGTAAAGTGC
* * *
42029690 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCACATCTCAAGTCGATTCCATGTCCCAGAG
1 CGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAGAC
42029755 ATGGTCTTACACTGACTATCATCTCGTCAT
66 ATGGTCTTACACTGACTATCATCTCGTCAT
* * * * *
42029785 CGATG-CAT-TCCCAGAC-ATGTCTTACACTAGCTCTCATCTTAATGTCGATGCCATGTCCGAGT
1 CGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCACATCTCAA-GTCGATGCCATGTCCCAGA
42029847 CATGGTCTTACACTG
65 CATGGTCTTACACTG
42029862 GCTCTCAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 22 0.32
93 38 0.56
94 3 0.04
95 5 0.07
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATCTCGTCAT
Found at i:42031510 original size:40 final size:40
Alignment explanation
Indices: 42031459--42031624 Score: 235
Period size: 40 Copynumber: 4.2 Consensus size: 40
42031449 CCCAGATGTC
*
42031459 ATTCCAGCACGAAGCCTGCGGCTCTTTAAGCCCGAATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
*
42031499 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
* * *
42031539 ATTCCAGCACGAAGCCTGAGGGTCTCTAAGCCC-AGATACG
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGA-ATACA
* * * *
42031579 ATTCCAGCACGAAGCCTACGGGTCTTTAAGCCTGGATACC
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
42031619 ATTCCA
1 ATTCCA
42031625 CATCAAATAA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
Found at i:42034870 original size:24 final size:24
Alignment explanation
Indices: 42034838--42034897 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
42034828 CTGTCAGGAG
42034838 AGGATTTAGGAGTTGATATGGGAT
1 AGGATTTAGGAGTTGATATGGGAT
42034862 AGGATTTAGGAGTTGATATGGGAT
1 AGGATTTAGGAGTTGATATGGGAT
*
42034886 AAGATTTAGGAG
1 AGGATTTAGGAG
42034898 CAGATAAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.32
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATATGGGAT
Found at i:42036369 original size:27 final size:26
Alignment explanation
Indices: 42036329--42036440 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
42036319 AGGAAGCGTC
*
42036329 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
42036356 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
42036383 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* ** *
42036411 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
42036437 CTGG
1 CTGG
42036441 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 8 0.11
27 50 0.67
28 16 0.21
29 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:42036433 original size:54 final size:54
Alignment explanation
Indices: 42036329--42036440 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
42036319 AGGAAGCGTC
* *
42036329 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
* * * *
42036383 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTATT
42036437 CTGG
1 CTGG
42036441 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
Found at i:42037522 original size:11 final size:10
Alignment explanation
Indices: 42037494--42037527 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
42037484 AGCCTGTAAG
42037494 TATTCTGAAT
1 TATTCTGAAT
*
42037504 TTTTCTGAAT
1 TATTCTGAAT
42037514 ATATTCTGAAT
1 -TATTCTGAAT
42037525 TAT
1 TAT
42037528 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:42042726 original size:24 final size:24
Alignment explanation
Indices: 42042694--42042764 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
42042684 CTGTTAGGAG
42042694 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
42042718 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
42042742 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
42042765 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:42042776 original size:48 final size:48
Alignment explanation
Indices: 42042694--42042787 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
42042684 CTGTTAGGAG
** * *
42042694 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
42042742 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
42042788 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:42044224 original size:27 final size:27
Alignment explanation
Indices: 42044184--42044295 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
42044174 AGGAAGCGTC
*
42044184 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
42044211 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
42044238 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
42044266 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
42044292 CTGG
1 CTGG
42044296 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:42044290 original size:54 final size:54
Alignment explanation
Indices: 42044184--42044295 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
42044174 AGGAAGCGTC
* *
42044184 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
42044238 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
42044292 CTGG
1 CTGG
42044296 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:42047788 original size:55 final size:55
Alignment explanation
Indices: 42047729--42047845 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
42047719 AACAGGTTCA
* * *
42047729 ACCACGGGTGTTCCAGACGGGCATGTCGAACGCCCGTACTGTTTTGGCAGGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCCAACGCCCGTACTGTTTTGGCAGGCTCG
* ** * *
42047784 ACCACGGTTCTTCCACACGGGTGTGTCCCACGCCCGTATTGTTTTGGCAGGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCCAACGCCCGTACTGTTTTGGCAGGCTCG
42047839 ACCACGG
1 ACCACGG
42047846 CCATATCGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.15, C:0.32, G:0.30, T:0.23
Consensus pattern (55 bp):
ACCACGGGTCTTCCACACGGGCATGTCCAACGCCCGTACTGTTTTGGCAGGCTCG
Found at i:42053224 original size:21 final size:20
Alignment explanation
Indices: 42053186--42053224 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42053176 TCCTTAAAAC
**
42053186 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCCCTGTGGA
42053206 AGGGCAACACGCCCCTGTG
1 AGGGC-ACACGCCCCTGTG
42053225 ACCAACGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.31, G:0.36, T:0.13
Consensus pattern (20 bp):
AGGGCACACGCCCCTGTGGA
Found at i:42055612 original size:49 final size:49
Alignment explanation
Indices: 42055540--42055716 Score: 255
Period size: 49 Copynumber: 3.6 Consensus size: 49
42055530 ATCTGGTATG
*
42055540 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACA
* * * * *
42055589 CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGTTATCAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACA
* *
42055640 CATAGTAGCCTGCACTTAGTACTACGCATGCGACCAATTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACA
*
42055689 CGTAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
42055717 CGTGACCTCA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 66 0.59
50 6 0.05
51 39 0.35
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACA
Found at i:42055670 original size:100 final size:100
Alignment explanation
Indices: 42055529--42055721 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
42055519 TAGCCGAAGC
* *
42055529 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
42055594 TAGCCTGCACATAGTACTACACACGTGATCAAAGT
66 TAGCCTGCACATAGTACTACACACGTGATCAAAGT
* * *
42055629 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACGCATGCGACCAATTATCTGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
*
42055694 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACATAGTACTACACACGTGA
42055722 CCTCACAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
TAGCCTGCACATAGTACTACACACGTGATCAAAGT
Found at i:42056513 original size:56 final size:55
Alignment explanation
Indices: 42056413--42056528 Score: 187
Period size: 56 Copynumber: 2.1 Consensus size: 55
42056403 GCAAGGGATG
*
42056413 ATGGGCAAAACATGTCATGAACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
1 ATGGGAAAAACATGTCATGAACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
* * *
42056468 ATGGGAAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGAAAAACATGTCATG-AACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
42056524 ATGGG
1 ATGGG
42056529 CAATAAACTA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
55 18 0.32
56 38 0.68
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (55 bp):
ATGGGAAAAACATGTCATGAACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
Found at i:42058033 original size:47 final size:47
Alignment explanation
Indices: 42057976--42058332 Score: 576
Period size: 47 Copynumber: 7.6 Consensus size: 47
42057966 TATTTGAATA
* *
42057976 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
42058023 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
42058070 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
42058119 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
42058166 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
42058213 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
42058260 AATGTGAAAGTGTATATATGTGATAAGG-CGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
42058306 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
42058333 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
46 43 0.15
47 204 0.70
49 45 0.15
50 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:42058233 original size:25 final size:25
Alignment explanation
Indices: 42058205--42058283 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
42058195 CGAATGGCCA
42058205 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
42058230 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
42058252 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
42058277 ATGTGAT
1 ATGTGAT
42058284 AAGGCGAATG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:42065753 original size:25 final size:25
Alignment explanation
Indices: 42065698--42065760 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
42065688 CTGTTAGGAG
*
42065698 AGGATTTGGAGTTTGATCAAGGGAT
1 AGGATTAGGAGTTTGATCAAGGGAT
42065723 ACGGATTAGGAG-TTGCAT-AAGGGATT
1 A-GGATTAGGAGTTTG-ATCAAGGGA-T
42065749 AGGATTTAGGAG
1 AGGA-TTAGGAG
42065761 CAGATAAGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.29
Consensus pattern (25 bp):
AGGATTAGGAGTTTGATCAAGGGAT
Found at i:42067260 original size:27 final size:26
Alignment explanation
Indices: 42067190--42067283 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 26
42067180 GGTATGCACA
*
42067190 ATTATCTGATCCTGGGTGGCTCTGCCAC
1 ATTATCTG-TTCT-GGTGGCTCTGCCAC
*
42067218 A-TATTTCGTTCTTGGTGGCTCTG-CAC
1 ATTATCT-GTTC-TGGTGGCTCTGCCAC
* *
42067244 GATTATCTGTATCTGGTGACTCTGTCAC
1 -ATTATCTGT-TCTGGTGGCTCTGCCAC
42067272 -TTATCTGTTCTG
1 ATTATCTGTTCTG
42067284 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
25 4 0.07
26 11 0.20
27 29 0.52
28 12 0.21
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.40
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGGCTCTGCCAC
Found at i:42076195 original size:21 final size:20
Alignment explanation
Indices: 42076157--42076195 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42076147 GTCCTTAACA
**
42076157 AGGGCACACGCCTGTGTGGC
1 AGGGCACACGCCCCTGTGGC
42076177 AGGGCAACACGCCCCTGTG
1 AGGGC-ACACGCCCCTGTG
42076196 ACCAACGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.18, C:0.33, G:0.36, T:0.13
Consensus pattern (20 bp):
AGGGCACACGCCCCTGTGGC
Found at i:42079469 original size:54 final size:54
Alignment explanation
Indices: 42079368--42079487 Score: 147
Period size: 54 Copynumber: 2.2 Consensus size: 54
42079358 CAAGGGGATG
*
42079368 ATGGGCAAAACAGTATGAAAATGTTGGGGTTAAATAGAAAATAAAATAAGAAGC
1 ATGGGAAAAACAGTATGAAAATGTTGGGGTTAAATAGAAAATAAAATAAGAAGC
* * *
42079422 ATGGGAAAAACATGTATGAAACATGTT-GTGTT-CATGGAAGAAT-AAATAAGAAGC
1 ATGGGAAAAACA-GTATGAAA-ATGTTGGGGTTAAATAGAA-AATAAAATAAGAAGC
*
42079476 ATGGGAATAACA
1 ATGGGAAAAACA
42079488 CTAATAAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
54 38 0.66
55 15 0.26
56 5 0.09
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (54 bp):
ATGGGAAAAACAGTATGAAAATGTTGGGGTTAAATAGAAAATAAAATAAGAAGC
Found at i:42080972 original size:23 final size:24
Alignment explanation
Indices: 42080916--42080985 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
42080906 CTGTCAGGAG
42080916 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
42080940 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
42080964 A-GATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
42080986 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 19 0.43
24 25 0.57
ACGTcount: A:0.36, C:0.01, G:0.37, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:42082394 original size:27 final size:27
Alignment explanation
Indices: 42082354--42082465 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
42082344 AGGAAGCGTC
*
42082354 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
42082381 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
42082408 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
42082436 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
42082462 CTGG
1 CTGG
42082466 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:42082460 original size:54 final size:54
Alignment explanation
Indices: 42082354--42082465 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
42082344 AGGAAGCGTC
* *
42082354 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
42082408 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
42082462 CTGG
1 CTGG
42082466 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:42083543 original size:11 final size:10
Alignment explanation
Indices: 42083515--42083548 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
42083505 AGCCTGTAAG
42083515 TATTCTGAAT
1 TATTCTGAAT
*
42083525 TTTTCTGAAT
1 TATTCTGAAT
42083535 ATATTCTGAAT
1 -TATTCTGAAT
42083546 TAT
1 TAT
42083549 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:42088766 original size:24 final size:24
Alignment explanation
Indices: 42088703--42088771 Score: 106
Period size: 22 Copynumber: 3.0 Consensus size: 24
42088693 CTGTCAGGAG
42088703 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
42088727 A-G-TTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
42088749 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
42088772 GGAAATCTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 21 0.51
23 2 0.05
24 18 0.44
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:42090172 original size:27 final size:27
Alignment explanation
Indices: 42090132--42090243 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
42090122 AGGAAGCGTC
*
42090132 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
42090159 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
42090186 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
42090214 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
42090240 CTGG
1 CTGG
42090244 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:42090238 original size:54 final size:54
Alignment explanation
Indices: 42090132--42090243 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
42090122 AGGAAGCGTC
* *
42090132 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
42090186 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
42090240 CTGG
1 CTGG
42090244 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:42093732 original size:55 final size:55
Alignment explanation
Indices: 42093673--42093789 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
42093663 AACAGGTTCA
* * *
42093673 ACCACGGGTGTTCCAGACGGGCATGTCGAACGCCCGTACTGTTTTGGCAGGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCCAACGCCCGTACTGTTTTGGCAGGCTCG
* ** * *
42093728 ACCACGGTTCTTCCACACGGGTGTGTCCCACGCCCGTATTGTTTTGGCAGGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCCAACGCCCGTACTGTTTTGGCAGGCTCG
42093783 ACCACGG
1 ACCACGG
42093790 CCATATCGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.15, C:0.32, G:0.30, T:0.23
Consensus pattern (55 bp):
ACCACGGGTCTTCCACACGGGCATGTCCAACGCCCGTACTGTTTTGGCAGGCTCG
Found at i:42099156 original size:21 final size:20
Alignment explanation
Indices: 42099118--42099156 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42099108 TCCTTAAAAC
**
42099118 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCCCTGTGGA
42099138 AGGGCAACACGCCCCTGTG
1 AGGGC-ACACGCCCCTGTG
42099157 ACCAACGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.31, G:0.36, T:0.13
Consensus pattern (20 bp):
AGGGCACACGCCCCTGTGGA
Found at i:42101541 original size:49 final size:49
Alignment explanation
Indices: 42101469--42101645 Score: 255
Period size: 49 Copynumber: 3.6 Consensus size: 49
42101459 ATCTGGTATG
*
42101469 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACA
* * * * *
42101518 CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGTTATCAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACA
* *
42101569 CATAGTAGCCTGCACTTAGTACTACGCATGCGACCAATTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACA
*
42101618 CGTAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
42101646 CGTGACCTCA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 66 0.59
50 6 0.05
51 39 0.35
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACA
Found at i:42101599 original size:100 final size:100
Alignment explanation
Indices: 42101458--42101650 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
42101448 TAGCCGAAGC
* *
42101458 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
42101523 TAGCCTGCACATAGTACTACACACGTGATCAAAGT
66 TAGCCTGCACATAGTACTACACACGTGATCAAAGT
* * *
42101558 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACGCATGCGACCAATTATCTGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
*
42101623 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACATAGTACTACACACGTGA
42101651 CCTCACAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
TAGCCTGCACATAGTACTACACACGTGATCAAAGT
Found at i:42102434 original size:56 final size:56
Alignment explanation
Indices: 42102344--42102460 Score: 198
Period size: 56 Copynumber: 2.1 Consensus size: 56
42102334 GCAAGGGATG
*
42102344 ATGGGCAAAACATGTCATGAAACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
1 ATGGGAAAAACATGTCATGAAACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
* * *
42102400 ATGGGAAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGAAAAACATGTCATGAAACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
42102456 ATGGG
1 ATGGG
42102461 CAATAAACTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (56 bp):
ATGGGAAAAACATGTCATGAAACATGTTGGGTTAATAGAAAAATAAAATAAGAAGC
Done.