Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 136 of 349
Found at i:43672504 original size:82 final size:81
Alignment explanation
Indices: 43672333--43672513 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43672323 GATTAAATTG
* *
43672333 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43672398 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43672414 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43672478 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43672496 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43672514 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43680410 original size:27 final size:27
Alignment explanation
Indices: 43680379--43680556 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43680369 TAAATTGTAC
43680379 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43680406 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43680432 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43680460 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43680488 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43680515 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43680542 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43680557 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43680493 original size:82 final size:81
Alignment explanation
Indices: 43680380--43680535 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43680370 AAATTGTACA
* *
43680380 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43680444 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43680461 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43680526 TGCGAGTTGA
65 TGCGAATTGA
43680536 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43680547 original size:82 final size:81
Alignment explanation
Indices: 43680376--43680556 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43680366 GATTAAATTG
* *
43680376 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43680441 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43680457 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43680521 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43680539 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43680557 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43683114 original size:6 final size:6
Alignment explanation
Indices: 43683103--43683144 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
43683093 AGGTTTCTCA
*
43683103 AAATGG AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
43683145 ATACATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:43685501 original size:28 final size:29
Alignment explanation
Indices: 43685461--43685545 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 29
43685451 CCTCTTGGTC
*
43685461 CAAAAT-A-ATATAAGATAG-ATTTTTTA
1 CAAAATAAGATATAAGAAAGTATTTTTTA
* *
43685487 CGAAATAAGATATAAAGAAAGTATTTTTTG
1 CAAAATAAGATAT-AAGAAAGTATTTTTTA
* *
43685517 CAAAATTAGATATAAAGAAAATATTTTTT
1 CAAAATAAGATAT-AAGAAAGTATTTTTT
43685546 TTGTGAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.10
27 1 0.02
28 4 0.08
29 6 0.12
30 33 0.67
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (29 bp):
CAAAATAAGATATAAGAAAGTATTTTTTA
Found at i:43685555 original size:31 final size:30
Alignment explanation
Indices: 43685479--43685545 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
43685469 TATAAGATAG
* * * *
43685479 ATTTTTTACGAAATAAGATATAAAGAAAGT
1 ATTTTTTGCAAAATTAGATATAAAGAAAAT
43685509 ATTTTTTGCAAAATTAGATATAAAGAAAAT
1 ATTTTTTGCAAAATTAGATATAAAGAAAAT
43685539 ATTTTTT
1 ATTTTTT
43685546 TTGTGAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.40
Consensus pattern (30 bp):
ATTTTTTGCAAAATTAGATATAAAGAAAAT
Found at i:43686471 original size:16 final size:16
Alignment explanation
Indices: 43686441--43686481 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
43686431 AAATAAAATA
43686441 GTATTTATT--TAAGT
1 GTATTTATTAATAAGT
43686455 GTATTTATTAATAAGT
1 GTATTTATTAATAAGT
43686471 GTATTTATTAA
1 GTATTTATTAA
43686482 AACAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.36
16 16 0.64
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (16 bp):
GTATTTATTAATAAGT
Found at i:43689799 original size:46 final size:46
Alignment explanation
Indices: 43689732--43689903 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
43689722 TAACCCGCCA
*
43689732 ATAAGTGAACTTGGACTCAACTCAACGAGCTCGAGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCC
* * *
43689778 ATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-G-C--GTTCGCATCC
* * * * * * *
43689827 -TCA-CGAAATCGGACTTAACTCAACGAGCTCAAACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCC
* *
43689871 ATAAGTGAACTCGAACTCAACTCAACAAGCTCG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCG
43689904 GATGCCCAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 52 0.54
47 24 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCC
Found at i:43696558 original size:40 final size:40
Alignment explanation
Indices: 43696376--43696598 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
43696366 TCCTCGTTCA
* * * * *
43696376 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43696415 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43696455 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43696495 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
43696535 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43696575 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43696599 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43696607 original size:41 final size:41
Alignment explanation
Indices: 43696530--43696607 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43696520 TTAGTATCTC
* * *
43696530 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43696571 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43696608 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43704273 original size:38 final size:40
Alignment explanation
Indices: 43704227--43704339 Score: 142
Period size: 38 Copynumber: 2.9 Consensus size: 40
43704217 TCCTCGTTCA
* * **
43704227 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTC-AAC-
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGAACG
*
43704265 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGAACG
* *
43704305 AATGCCTTCGGGACTTAACCCGGA-TTAATAACTCG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCG
43704340 CCTCGAATGC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 31 0.47
39 12 0.18
40 23 0.35
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGAACG
Found at i:43704324 original size:40 final size:40
Alignment explanation
Indices: 43704227--43704352 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
43704217 TCCTCGTTCA
* * * *
43704227 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTC-AAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
43704265 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
43704305 AATGCCTTCGGGACTTAACCCGGA-TTAATAACTCGCCTCG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCG-CACG
43704345 AATGCCTT
1 AATGCCTT
43704353 ATCTCGGTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 31 0.40
39 12 0.16
40 34 0.44
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:43704460 original size:41 final size:41
Alignment explanation
Indices: 43704383--43704460 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43704373 TTAGTATCTC
* * *
43704383 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43704424 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43704461 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43708069 original size:46 final size:46
Alignment explanation
Indices: 43708000--43708171 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
43707990 TGTAACCCGC
* *
43708000 CCATAAGCGAACTCCGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * * *
43708046 CCATAAGTGAACTCGGACGCAACTCAACGAGCTCGGATGTCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGT-TCGCAT
* * * * *
43708092 ACATATCA-CGAACTCGGACTCAACTAAACGAGTTCAGACATTCGCAT
1 CCATA--AGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
43708139 TCATAAGTGAACTCAGACTCAACTCAACGAGCT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCT
43708172 TGGATGCCCA
Statistics
Matches: 99, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 64 0.65
47 33 0.33
48 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:43708115 original size:93 final size:93
Alignment explanation
Indices: 43708007--43708177 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
43707997 CGCCCATAAG
* * * * *
43708007 CGAACTCCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACGCAACTCA
1 CGAACTCCGACTCAACTAAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACGCAACTCA
43708072 ACGAGCTCGGATGTCTAGTTACATATCA
66 ACGAGCTCGGATGTCTAGTTACATATCA
* * * *
43708100 CGAACTCGGACTCAACTAAACGAGTTCAGACATTCGCATTCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCCGACTCAACTAAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACGCAACTCA
*
43708165 ACGAGCTTGGATG
66 ACGAGCTCGGATG
43708178 CCCAAATATC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCCGACTCAACTAAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACGCAACTCA
ACGAGCTCGGATGTCTAGTTACATATCA
Found at i:43715466 original size:39 final size:39
Alignment explanation
Indices: 43715278--43715459 Score: 183
Period size: 39 Copynumber: 4.6 Consensus size: 39
43715268 TTGAATGATG
* * * *
43715278 TCCGGG-TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43715317 TCCGGACTAAGATCCGAAGGCATTTGTGC-AGAATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAG-TTACTAAA
*
43715357 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43715396 TCCGGGTTAAGTCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
43715436 -CCGGGCTATGTCGGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
43715460 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 83 0.69
40 29 0.24
41 8 0.07
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43719894 original size:40 final size:40
Alignment explanation
Indices: 43719836--43720068 Score: 310
Period size: 40 Copynumber: 5.8 Consensus size: 40
43719826 ACATAACGTC
* *
43719836 AACTCGCAC-AATGCCTTCGGGACATAACCCGGATTTAAC
1 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
43719875 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
1 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
43719915 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
1 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
*
43719955 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGT
1 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
* * * * * *
43719995 ATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATATATT
1 AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAAT
* * * *
43720035 CACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACGAATGCCTTCGGGACTTAACCCGGA
43720069 CAGCATTCAA
Statistics
Matches: 175, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 12 0.07
40 155 0.89
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
Found at i:43727817 original size:40 final size:40
Alignment explanation
Indices: 43727719--43727924 Score: 312
Period size: 40 Copynumber: 5.2 Consensus size: 40
43727709 TCCTCGTTCA
* * * ** *
43727719 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
43727758 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
43727798 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
43727838 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
43727878 AATGCCTTCGGGACTTAACCCGGATTT---AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
43727915 AATGCCTTCG
1 AATGCCTTCG
43727925 CTTAACAAAG
Statistics
Matches: 159, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
37 20 0.13
39 34 0.21
40 105 0.66
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:43731206 original size:20 final size:20
Alignment explanation
Indices: 43731159--43731199 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
43731149 CAAAATGACC
*
43731159 CAGGGCCATTTTAGGCCAAG
1 CAGGGCCATTTGAGGCCAAG
*
43731179 CAGGGCCATTTGGGGCCAAG
1 CAGGGCCATTTGAGGCCAAG
43731199 C
1 C
43731200 TAGGCCAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.34, T:0.17
Consensus pattern (20 bp):
CAGGGCCATTTGAGGCCAAG
Found at i:43734400 original size:78 final size:81
Alignment explanation
Indices: 43734265--43734446 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
43734255 TCGAATGATG
* *
43734265 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
43734329 TGTGCGAG-TACTA-A
66 TGTGCGAGTTACTATA
* * * **
43734343 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
43734405 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
43734423 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43734447 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 44 0.49
79 31 0.35
80 13 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:43734406 original size:40 final size:40
Alignment explanation
Indices: 43734265--43734448 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
43734255 TCGAATGATG
* * * *
43734265 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
43734305 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43734344 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43734383 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43734424 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43734449 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 18 0.14
39 29 0.23
40 68 0.54
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43734479 original size:79 final size:78
Alignment explanation
Indices: 43734317--43734481 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 78
43734307 CGGACTAAGA
* **
43734317 TCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43734382 ATCCGGGTTAAGT
66 ATCCGGGTTAAAT
* * *
43734395 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAG-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-
*
43734458 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
43734474 TCCGAAGG
1 TCCGAAGG
43734482 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 21 0.28
79 29 0.39
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAAT
Found at i:43742332 original size:79 final size:81
Alignment explanation
Indices: 43742196--43742378 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
43742186 TCGAATGATG
* *
43742196 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
43742260 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
43742275 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
43742337 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
43742355 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43742379 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:43742394 original size:40 final size:40
Alignment explanation
Indices: 43742197--43742380 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
43742187 CGAATGATGT
* * * *
43742197 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
43742237 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
43742277 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43742315 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43742356 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43742381 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43742402 original size:79 final size:79
Alignment explanation
Indices: 43742249--43742413 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
43742239 GGACTAAGAT
* **
43742249 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43742314 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43742328 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
43742391 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43742407 CCGAAGG
1 CCGAAGG
43742414 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43745786 original size:20 final size:20
Alignment explanation
Indices: 43745756--43745803 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
43745746 CCTATACACC
* *
43745756 CATGTGCAACCTCACATGCT
1 CATGTGTAACCTCACACGCT
*
43745776 CGTGTGTAACCTCACACGCT
1 CATGTGTAACCTCACACGCT
43745796 CATGTGTA
1 CATGTGTA
43745804 TGGACCGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (20 bp):
CATGTGTAACCTCACACGCT
Found at i:43748000 original size:41 final size:40
Alignment explanation
Indices: 43747943--43748102 Score: 277
Period size: 41 Copynumber: 4.0 Consensus size: 40
43747933 GCGAGATAAC
43747943 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
43747983 TAAATCCGGGTTAAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTT-AAGTCCCGAAGGCATTCGTGCGAGTTGT
43748024 TAAATCCGGGTTAAGTCCCGAAGGCATTCCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT-CGTGCGAGTTGT
*
43748065 TAAATCCGGGTTAAGTCCCCGAAGGCATT-GTGTGAGTT
1 TAAATCCGGGTTAAGT-CCCGAAGGCATTCGTGCGAGTT
43748103 TACTAACCGG
Statistics
Matches: 116, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
40 36 0.31
41 68 0.59
42 12 0.10
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
Found at i:43748130 original size:81 final size:81
Alignment explanation
Indices: 43747943--43748102 Score: 279
Period size: 81 Copynumber: 2.0 Consensus size: 81
43747933 GCGAGATAAC
43747943 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAAGTCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAAGTCCCGAAGG
43748008 CATTCGTGCGAGTTGT
66 CATTCGTGCGAGTTGT
43748024 TAAATCCGGGTTAAGTCCCGAAGGCATTCCGTGCGAGTTGTTAAATCCGGGTT-AAGTCCCCGAA
1 TAAATCCGGGTTAAGTCCCGAAGGCATT-CGTGCGAGTTGTTAAATCCGGGTTAAAGT-CCCGAA
*
43748088 GGCATT-GTGTGAGTT
64 GGCATTCGTGCGAGTT
43748103 TACTAACCGG
Statistics
Matches: 76, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
81 40 0.53
82 36 0.47
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (81 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAAGTCCCGAAGG
CATTCGTGCGAGTTGT
Found at i:43757954 original size:47 final size:47
Alignment explanation
Indices: 43757903--43758077 Score: 171
Period size: 48 Copynumber: 3.7 Consensus size: 47
43757893 TGGTTGAGCA
*
43757903 TCCG-AACTGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAAACT-CGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * ** *
43757950 TCCGAAACCCGTTGAGTTGAGTCCGGAGTTC-GTGAATGTA-ACTAGGCA
1 TCCGAAACTCGTTGAGTTGAGTCC-GAGTTCACT-TATGGATGC-AAACG
*
43757998 TCCGAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
43758045 CCCG-AGCTC-TTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43758078 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
45 24 0.24
46 4 0.04
47 35 0.34
48 39 0.38
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (47 bp):
TCCGAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43760005 original size:1 final size:1
Alignment explanation
Indices: 43759999--43760042 Score: 88
Period size: 1 Copynumber: 44.0 Consensus size: 1
43759989 AATGATGTAA
43759999 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
43760043 TGGATTGTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:43793372 original size:17 final size:18
Alignment explanation
Indices: 43793340--43793374 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
43793330 AAATTTACCA
43793340 AAAATCACAGAAAATCAG
1 AAAATCACAGAAAATCAG
*
43793358 AAAATCCCA-AAAATCAG
1 AAAATCACAGAAAATCAG
43793375 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.20, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAATCACAGAAAATCAG
Found at i:43819660 original size:47 final size:47
Alignment explanation
Indices: 43819436--43819934 Score: 692
Period size: 47 Copynumber: 10.4 Consensus size: 47
43819426 CAGCCAAGAG
43819436 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
43819483 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
43819532 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
43819583 AGTGTATGTATATATGTAATAAGGTCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
43819634 AGTGTATATGTGTGATGAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43819681 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43819728 GGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43819775 AGTGTATATATGTGATAAGGCCTAGTGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
43819822 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTCATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
43819869 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43819916 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
43819935 TCCCGAAAGG
Statistics
Matches: 413, Mismatches: 33, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 275 0.67
49 43 0.10
51 91 0.22
53 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:43820109 original size:37 final size:37
Alignment explanation
Indices: 43820053--43820131 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43820043 CCGAGCTCTA
* * * *
43820053 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43820090 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43820127 AAGAC
1 AAGAC
43820132 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43827810 original size:38 final size:38
Alignment explanation
Indices: 43827767--43827842 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
43827757 TTCATCCTTT
*
43827767 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCAGAAAATTCTAAGGAAGGAGGAA
43827805 TTCATTTCTTTTGGCAGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCAGAAAATTCTAAGGAAGGAGGAA
43827843 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCAGAAAATTCTAAGGAAGGAGGAA
Found at i:43829126 original size:40 final size:40
Alignment explanation
Indices: 43829032--43829176 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
43829022 TACTCGAATG
*
43829032 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
43829073 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
43829113 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
43829153 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43829177 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:43835885 original size:36 final size:38
Alignment explanation
Indices: 43835824--43835897 Score: 134
Period size: 36 Copynumber: 2.0 Consensus size: 38
43835814 TTCATCCTTT
43835824 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
43835862 TTCATTTC-TTTGG-CGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
43835898 GGAGTTCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 23 0.64
37 5 0.14
38 8 0.22
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.31
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:43837178 original size:40 final size:40
Alignment explanation
Indices: 43837084--43837228 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
43837074 TACTCGAATG
*
43837084 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
43837125 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
43837165 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
43837205 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43837229 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:43841263 original size:39 final size:40
Alignment explanation
Indices: 43841165--43841424 Score: 313
Period size: 40 Copynumber: 6.6 Consensus size: 40
43841155 GAATGCTGTC
* *
43841165 CCGGGCTAAGTCCCGAAGGC---TGTGCTAAGTGAC-AATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-AT
* * *
43841203 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
43841243 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
43841282 CCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
43841322 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
43841362 CCGGG-TTAGTCCCGAAGGCATTTGTGCGAATTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
43841401 CCGGGCTATGT-CCGATGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43841425 AACGAGGAGC
Statistics
Matches: 197, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
38 17 0.09
39 82 0.42
40 91 0.46
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:43841298 original size:79 final size:78
Alignment explanation
Indices: 43841215--43841424 Score: 298
Period size: 79 Copynumber: 2.7 Consensus size: 78
43841205 GGACTAAGAT
43841215 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
43841280 ATCCGGGTTAAGTC
66 ATCCGGGTT-AGTC
* * * *
43841294 CCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA
43841359 AATCCGGGTTAGTC
65 AATCCGGGTTAGTC
* * * *
43841373 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCGATGGCATTTG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAGCCCGAAGGCATTTG
43841425 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 13 0.11
79 67 0.58
80 36 0.31
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
ATCCGGGTTAGTC
Found at i:43847573 original size:37 final size:37
Alignment explanation
Indices: 43847514--43847622 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
43847504 AGCTCAGATG
* *
43847514 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
43847551 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
43847588 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
43847623 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:43847825 original size:48 final size:48
Alignment explanation
Indices: 43847748--43848296 Score: 909
Period size: 48 Copynumber: 11.3 Consensus size: 48
43847738 GGTCATTCGG
* *
43847748 CCACAATATACATACATCTCCTACATATTTCACACTAGCCATTCGGCTTTA
1 CCAC-ATATACAT--ATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
43847799 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43847847 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
43847897 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43847945 CCACAGATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43847993 CCACATATACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
43848041 CCACATATACATATCTCATACAAATTTCACATTAGCCATTCGACTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
43848089 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
43848137 CCACATATACATACCTCATACATATTTCACAGTAGACATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
43848185 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
43848233 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCAGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
43848283 CCACATATACATAT
1 CCACATATACATAT
43848297 ATTTATCTTG
Statistics
Matches: 472, Mismatches: 22, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
48 372 0.79
50 96 0.20
51 4 0.01
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:43850668 original size:44 final size:41
Alignment explanation
Indices: 43850620--43850716 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
43850610 ATCTATGACG
43850620 TTGGCATCGACTTATGATTTACGTGTAAAACCATGTCTGAGACA
1 TTGGCATCGA-TT-TGATTT-CGTGTAAAACCATGTCTGAGACA
* * *
43850664 TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGACA
1 TTGGCATCG-ATTTGATTTCGTGTAAAACCATGTCTGAGACA
**
43850706 GAGGCATCGAT
1 TTGGCATCGAT
43850717 ATTTGATTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.04
42 27 0.57
43 6 0.13
44 11 0.23
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (41 bp):
TTGGCATCGATTTGATTTCGTGTAAAACCATGTCTGAGACA
Found at i:43850699 original size:42 final size:41
Alignment explanation
Indices: 43850620--43850755 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 41
43850610 ATCTATGACG
* *
43850620 TTGGCATCG-ACTTATGATTTACGTGTAAAACCATGTCTGAGACA
1 TTGGCATCGTA-TT-TGATTT-CGTGTAAGACCCTGTCTG-GACA
43850664 TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGACA
1 TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCT-GGACA
** * * *
43850706 GAGGCATCGATATTTGATTACATATAAGACCAC-GTCTGGAACA
1 TTGGCATCG-TATTTGATTTCGTGTAAGACC-CTGTCTGG-ACA
43850749 TTGGCAT
1 TTGGCAT
43850756 TGTACAATCT
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
42 28 0.36
43 37 0.47
44 12 0.15
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (41 bp):
TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGACA
Found at i:43850720 original size:43 final size:43
Alignment explanation
Indices: 43850634--43850724 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 43
43850624 CATCGACTTA
**
43850634 TGATTTACGTGTAAAACCATGTCTGAGACATTGGCATCGTATT
1 TGATTTACGTGTAAAACCATGTCTGAGACAGAGGCATCGTATT
* * *
43850677 TGATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 TGATTTACGTGTAAAACCATGTCTGAGACAGAGGCATCG-TATT
43850720 TGATT
1 TGATT
43850725 ACATATAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 27 0.64
43 15 0.36
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTTACGTGTAAAACCATGTCTGAGACAGAGGCATCGTATT
Found at i:43851050 original size:8 final size:8
Alignment explanation
Indices: 43851037--43851061 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43851027 AATTTTGATG
43851037 ATGTTTAT
1 ATGTTTAT
43851045 ATGTTTAT
1 ATGTTTAT
43851053 ATGTTTAT
1 ATGTTTAT
43851061 A
1 A
43851062 AAGTTAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATGTTTAT
Found at i:43852308 original size:43 final size:42
Alignment explanation
Indices: 43852247--43852331 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 42
43852237 TTTGGATGGT
43852247 ATCAGAGCTACGATTTAGTCAATTCT-AGAACTAACGTAGCATA
1 ATCAGAGCTACGATTTAGTCAATT-TAAG-ACTAACGTAGCATA
* * *
43852290 ATCAGAGCTGC-AGTTTAGTCGATTTAAGACTAATGTAGCATA
1 ATCAGAGCTACGA-TTTAGTCAATTTAAGACTAACGTAGCATA
43852332 TGTGAGTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 15 0.41
43 22 0.59
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (42 bp):
ATCAGAGCTACGATTTAGTCAATTTAAGACTAACGTAGCATA
Found at i:43859155 original size:17 final size:17
Alignment explanation
Indices: 43859133--43859186 Score: 99
Period size: 17 Copynumber: 3.2 Consensus size: 17
43859123 ACAATCAGAG
*
43859133 TAAACCCAATATGGACC
1 TAAACCCAATATGGGCC
43859150 TAAACCCAATATGGGCC
1 TAAACCCAATATGGGCC
43859167 TAAACCCAATATGGGCC
1 TAAACCCAATATGGGCC
43859184 TAA
1 TAA
43859187 GCCCTTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.19
Consensus pattern (17 bp):
TAAACCCAATATGGGCC
Found at i:43871817 original size:46 final size:46
Alignment explanation
Indices: 43871764--43871936 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
43871754 TAGTTGAGCA
43871764 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
43871810 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTGGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT--G
* * * *
43871855 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
43871903 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43871937 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 7 0.07
45 5 0.05
46 57 0.54
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:43871920 original size:93 final size:93
Alignment explanation
Indices: 43871761--43871931 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43871751 GGATAGTTGA
*
43871761 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
43871826 TGAGTCCGAGTTCGTGAGATGTAACTGG
66 TGAGTCCGAGTTCGTGAGATGTAACTGG
* * * *
43871854 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
43871918 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
43871932 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTGG
Found at i:43872198 original size:19 final size:20
Alignment explanation
Indices: 43872161--43872198 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43872151 ATAAGGTTGT
43872161 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
43872181 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
43872199 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:43875353 original size:93 final size:93
Alignment explanation
Indices: 43875194--43875365 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43875184 CGCCCATAAG
* * *
43875194 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAAATCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
*
43875259 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGGTCGGATGCCTAGTTACATCTCA
* * *
43875287 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
43875352 ACGAGGTCGGATGC
66 ACGAGGTCGGATGC
43875366 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
ACGAGGTCGGATGCCTAGTTACATCTCA
Found at i:43875355 original size:46 final size:46
Alignment explanation
Indices: 43875187--43875362 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
43875177 TGTAACCCGC
* * * *
43875187 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
43875233 CCATGAGTGAAATCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
43875283 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
43875326 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43875363 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:43877781 original size:29 final size:26
Alignment explanation
Indices: 43877737--43877790 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 26
43877727 GAACAAAGAT
43877737 AACAAGAAAACCGAATAAAGAAATCC
1 AACAAGAAAACCGAATAAAGAAATCC
43877763 AACATAGAGAAACCAGAATAAAGAAATC
1 AACA-AGA-AAACC-GAATAAAGAAATC
43877791 TAGAATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 5 0.20
29 13 0.52
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (26 bp):
AACAAGAAAACCGAATAAAGAAATCC
Found at i:43877797 original size:15 final size:15
Alignment explanation
Indices: 43877740--43877818 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
43877730 CAAAGATAAC
*
43877740 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43877754 AAGAAATCCA-ACATA
1 AAGAAATCCAGA-ATA
*
43877769 GAGAAA-CCAGAATA
1 AAGAAATCCAGAATA
*
43877783 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
43877798 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
43877813 AAGAAA
1 AAGAAA
43877819 GCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 20 0.38
15 33 0.62
ACGTcount: A:0.59, C:0.13, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43880816 original size:93 final size:93
Alignment explanation
Indices: 43880704--43880875 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43880694 CGCCCATAAG
* *
43880704 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43880769 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
43880797 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43880862 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43880876 TAACCATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43880872 original size:46 final size:46
Alignment explanation
Indices: 43880697--43880872 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43880687 TGTAACCCGC
* * *
43880697 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43880743 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43880793 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43880836 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43880873 TGCTAACCAT
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43883389 original size:25 final size:26
Alignment explanation
Indices: 43883361--43883485 Score: 125
Period size: 25 Copynumber: 4.8 Consensus size: 26
43883351 TATTGTACAG
43883361 GCACTAAGTGTGCGATTTGACTAT-T
1 GCACTAAGTGTGCGATTTGACTATGT
** *
43883386 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATG-T
*
43883413 GCAACTAAGTGTGCGA-TTGAC-ATGCG
1 GC-ACTAAGTGTGCGATTTGACTATG-T
43883439 GCACTAAGTGTGCGAGTTTTGACTATGT
1 GCACTAAGTGTGCGA--TTTGACTATGT
43883467 AGCACT-AGTGTGCG-TTTGA
1 -GCACTAAGTGTGCGATTTGA
43883486 TTACGTAGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
25 39 0.46
26 5 0.06
27 6 0.07
28 26 0.31
29 8 0.10
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTTGACTATGT
Found at i:43883493 original size:25 final size:23
Alignment explanation
Indices: 43883456--43883503 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
43883446 GTGTGCGAGT
*
43883456 TTTGACTATGTAGCACTAGTGTGCG
1 TTTGACTACGTAGCA--AGTGTGCG
*
43883481 TTTGATTACGTAGCAAGTGTGCG
1 TTTGACTACGTAGCAAGTGTGCG
43883504 AGTGTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (23 bp):
TTTGACTACGTAGCAAGTGTGCG
Found at i:43892879 original size:27 final size:27
Alignment explanation
Indices: 43892848--43893024 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43892838 TATATGAGTC
* * * *
43892848 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43892875 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43892902 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* * *
43892930 CGCACACTTAGTGC-CCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43892956 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43892983 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43893010 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43893025 GTACAATTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.12
27 99 0.76
28 16 0.12
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43892967 original size:81 final size:80
Alignment explanation
Indices: 43892869--43893023 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 80
43892859 TGCTATATAA
* *
43892869 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
43892933 ACACTTAGTGCCCATGG
64 ACACTTAGTGCCCATGG
* * **
43892950 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
43893015 ACTTAGTGC
66 ACTTAGTGC
43893024 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 15 0.22
81 51 0.76
82 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCCATGG
Found at i:43904123 original size:27 final size:27
Alignment explanation
Indices: 43904093--43904270 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43904083 ATATTGAGTC
* * * *
43904093 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43904120 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43904147 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43904175 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43904202 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43904229 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43904256 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43904271 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43904232 original size:82 final size:81
Alignment explanation
Indices: 43904114--43904269 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43904104 TGCTATATAA
* *
43904114 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43904179 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43904196 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43904260 CACTTAGTGC
65 CACTTAGTGC
43904270 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43912110 original size:27 final size:27
Alignment explanation
Indices: 43912079--43912337 Score: 234
Period size: 27 Copynumber: 9.6 Consensus size: 27
43912069 TATATGAGTC
* *
43912079 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43912106 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43912133 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
43912161 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43912188 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
43912215 CACACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
43912242 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43912269 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
43912296 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
43912323 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43912338 GTACAATTTA
Statistics
Matches: 197, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
27 172 0.87
28 25 0.13
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43912239 original size:54 final size:54
Alignment explanation
Indices: 43912079--43912336 Score: 277
Period size: 54 Copynumber: 4.8 Consensus size: 54
43912069 TATATGAGTC
* * * * *
43912079 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGC-ATCATAGTCAATTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
43912133 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAGTC-AATTCGCACACTTAGTGCAACATAGTCAAAT
* * *
43912188 CGCACACTTAGTGCATCATATTCATTTCACACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAGTCAATTCGCACACTTAGTGCAACATAGTCAAAT
** * * * **
43912242 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCATCATAGTCAATTCGCACACTTAGTGCAACATAGTCAAAT
* *
43912296 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCATCATAGTCAATTCGCACACTTAGTGC
43912337 TGTACAATTT
Statistics
Matches: 171, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
54 123 0.72
55 46 0.27
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAGTCAATTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:43912278 original size:81 final size:81
Alignment explanation
Indices: 43912100--43912336 Score: 395
Period size: 81 Copynumber: 2.9 Consensus size: 81
43912090 TGCTATATAA
* * ** *
43912100 TCAACTCGCACACTTAGTGC-TACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAATTCGCACACTTAGTGCAT-CATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGC
43912164 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
*
43912182 TCAATTCGCACACTTAGTGCATCATATTCATTTCACACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
43912247 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
43912263 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
43912328 ACTTAGTGC
66 ACTTAGTGC
43912337 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
81 95 0.65
82 51 0.35
83 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43921274 original size:24 final size:24
Alignment explanation
Indices: 43921247--43921293 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
43921237 AAGATTTAGT
**
43921247 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAACATAATATATTTGAC
*
43921271 ATTTATTAACATAATTTATTTGA
1 ATTTATTAACATAATATATTTGA
43921294 TTTACGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (24 bp):
ATTTATTAACATAATATATTTGAC
Found at i:43925120 original size:17 final size:17
Alignment explanation
Indices: 43925099--43925200 Score: 69
Period size: 17 Copynumber: 6.0 Consensus size: 17
43925089 CTGTTTATAT
*
43925099 AAAATAATAGTTCATAC
1 AAAATAACAGTTCATAC
* * * *
43925116 CAAATGACAGCTCATGC
1 AAAATAACAGTTCATAC
* * *
43925133 AAAATAATATTTCATAT
1 AAAATAACAGTTCATAC
* **
43925150 GAAATATTAGTTCATAC
1 AAAATAACAGTTCATAC
** * *
43925167 TGAATAACAATTCATGC
1 AAAATAACAGTTCATAC
43925184 AAAATAACAGTTCATAC
1 AAAATAACAGTTCATAC
43925201 TTCATTATAA
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
17 59 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (17 bp):
AAAATAACAGTTCATAC
Found at i:43925161 original size:51 final size:51
Alignment explanation
Indices: 43925095--43925199 Score: 129
Period size: 51 Copynumber: 2.1 Consensus size: 51
43925085 ATATCTGTTT
* * * *
43925095 ATATAAAATAATAGTTCATACCAAATGACAGCTCATGCAAAATAATATTTC
1 ATATAAAATAATAGTTCATACCAAATAACAACTCATGCAAAATAACAGTTC
* * ** *
43925146 ATATGAAATATTAGTTCATACTGAATAACAATTCATGCAAAATAACAGTTC
1 ATATAAAATAATAGTTCATACCAAATAACAACTCATGCAAAATAACAGTTC
43925197 ATA
1 ATA
43925200 CTTCATTATA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (51 bp):
ATATAAAATAATAGTTCATACCAAATAACAACTCATGCAAAATAACAGTTC
Found at i:43925858 original size:18 final size:18
Alignment explanation
Indices: 43925832--43925880 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
43925822 CATAGTTTGG
43925832 CAAATTAATACA-ATTCAC
1 CAAATTAATACAGA-TCAC
*
43925850 CATATTAATACAGATCAC
1 CAAATTAATACAGATCAC
*
43925868 CAAATTAACACAG
1 CAAATTAATACAG
43925881 TTCGCCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (18 bp):
CAAATTAATACAGATCAC
Found at i:43927932 original size:11 final size:11
Alignment explanation
Indices: 43927916--43927944 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43927906 AGGGAATGAA
43927916 GAGAGAAAAGT
1 GAGAGAAAAGT
43927927 GAGAGAAAAGT
1 GAGAGAAAAGT
43927938 GA-AGAAA
1 GAGAGAAA
43927945 TAAATGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (11 bp):
GAGAGAAAAGT
Found at i:43929881 original size:15 final size:15
Alignment explanation
Indices: 43929825--43929881 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
43929815 CTTAACCTAA
43929825 AATTA-TTAATTC-T
1 AATTATTTAATTCTT
*
43929838 AATTATTTTAATATTTT
1 AATTA-TTTAAT-TCTT
* *
43929855 ATTTAATTAATTCTT
1 AATTATTTAATTCTT
43929870 AATTATTTAATT
1 AATTATTTAATT
43929882 ATCTAATCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 5 0.15
15 18 0.53
16 6 0.18
17 5 0.15
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTATTTAATTCTT
Found at i:43929894 original size:32 final size:31
Alignment explanation
Indices: 43929829--43929895 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
43929819 ACCTAAAATT
* * *
43929829 ATTAATTCTAATTATTTTAATATTTTATTTA
1 ATTAATTCTAATTATTTTAATATCTAATCTA
43929860 ATTAATTCTTAATTA-TTTAATTATCTAATCTA
1 ATTAATTC-TAATTATTTTAA-TATCTAATCTA
43929892 ATTA
1 ATTA
43929896 TAGTTTCCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTCTAATTATTTTAATATCTAATCTA
Found at i:43935363 original size:45 final size:45
Alignment explanation
Indices: 43935282--43935525 Score: 245
Period size: 45 Copynumber: 5.3 Consensus size: 45
43935272 AGGTATAAGT
* * * ** * *
43935282 TATATATAATAATTGTCGGTTTTACTAACCAATGCTGGGTACACA
1 TATATATAATATTTGTTGGTTTCACCGACCAGTGCTGGGCACACA
* * * *
43935327 TATATAAAATATTTGCTAGTTTCACCGTCCAGTGCTGGGCACACA
1 TATATATAATATTTGTTGGTTTCACCGACCAGTGCTGGGCACACA
* * *
43935372 CATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGACACACA
1 TATATATAATATTTGTTGGTTTCACCGACCAGTGCTGGGCACACA
* * * *
43935417 TATATATAATAATAATTGTCGGTGTCACCGACCAGTGCTAGGTACACGTA
1 TATATATAAT-AT--TTGTTGGTTTCACCGACCAGTGCTGGGCACAC--A
* * *
43935467 TATATATAATATTTGTTGGTTTCACTGAGCAATGCTGGGCACACA
1 TATATATAATATTTGTTGGTTTCACCGACCAGTGCTGGGCACACA
*
43935512 CATATATAATATTT
1 TATATATAATATTT
43935526 TCCAGTCACA
Statistics
Matches: 161, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
45 95 0.59
46 2 0.01
47 25 0.16
48 26 0.16
49 2 0.01
50 11 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (45 bp):
TATATATAATATTTGTTGGTTTCACCGACCAGTGCTGGGCACACA
Found at i:43935488 original size:95 final size:93
Alignment explanation
Indices: 43935322--43935522 Score: 246
Period size: 95 Copynumber: 2.2 Consensus size: 93
43935312 AATGCTGGGT
* * * * *
43935322 ACACATATATAA-AATATTTG-CTAGTTTCACCGTCCAGTGCTGGGCACACACATATATAATATT
1 ACACATATATAATAATAATTGTC-GGTGTCACCGACCAGTGCTAGGCACACACATATATAATATT
*
43935385 TGTTGGTTTCACCGA-CTAGTGCTGGACAC
65 TGTTGGTTTCACCGAGC-AATGCTGGACAC
* * *
43935414 ACATATATATAATAATAATTGTCGGTGTCACCGACCAGTGCTAGGTACACGTATATATATAATAT
1 ACACATATATAATAATAATTGTCGGTGTCACCGACCAGTGCTAGGCACAC--ACATATATAATAT
* *
43935479 TTGTTGGTTTCACTGAGCAATGCTGGGCAC
64 TTGTTGGTTTCACCGAGCAATGCTGGACAC
43935509 ACACATATATAATA
1 ACACATATATAATA
43935523 TTTTCCAGTC
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
92 11 0.12
93 29 0.32
94 1 0.01
95 50 0.54
96 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (93 bp):
ACACATATATAATAATAATTGTCGGTGTCACCGACCAGTGCTAGGCACACACATATATAATATTT
GTTGGTTTCACCGAGCAATGCTGGACAC
Found at i:43944060 original size:15 final size:15
Alignment explanation
Indices: 43944040--43944088 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
43944030 AGGTAAGATA
43944040 AACATAACACATCCC
1 AACATAACACATCCC
* *
43944055 AACAT-A-AGAT--A
1 AACATAACACATCCC
43944066 AACATAACACATCCC
1 AACATAACACATCCC
43944081 AACATAAC
1 AACATAAC
43944089 TTGGCCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 5 0.19
12 1 0.04
13 6 0.23
14 1 0.04
15 13 0.50
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.14
Consensus pattern (15 bp):
AACATAACACATCCC
Found at i:43944062 original size:26 final size:26
Alignment explanation
Indices: 43944033--43944087 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
43944023 ACAAAATAGG
43944033 TAAGATAAACATAACACATCCCAACA
1 TAAGATAAACATAACACATCCCAACA
43944059 TAAGATAAACATAACACATCCCAACA
1 TAAGATAAACATAACACATCCCAACA
43944085 TAA
1 TAA
43944088 CTTGGCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.55, C:0.25, G:0.04, T:0.16
Consensus pattern (26 bp):
TAAGATAAACATAACACATCCCAACA
Found at i:43945825 original size:14 final size:14
Alignment explanation
Indices: 43945806--43945835 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43945796 TGTTCGGTTG
*
43945806 AATTTTTTAAAAAT
1 AATTTTTGAAAAAT
43945820 AATTTTTGAAAAAT
1 AATTTTTGAAAAAT
43945834 AA
1 AA
43945836 AAATGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
AATTTTTGAAAAAT
Found at i:43946460 original size:26 final size:27
Alignment explanation
Indices: 43946424--43946474 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
43946414 TGTTTTTCAT
*
43946424 TTTTTTTAAAATGAAAATG-AAAATTA
1 TTTTTTGAAAATGAAAATGTAAAATTA
43946450 TTTTTTGAAAATGAAAATGTAAAAT
1 TTTTTTGAAAATGAAAATGTAAAAT
43946475 AAAACTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTTTTGAAAATGAAAATGTAAAATTA
Found at i:43950554 original size:19 final size:19
Alignment explanation
Indices: 43950530--43950577 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
43950520 ATAACAACAT
* *
43950530 AATAGTGAAATGGTAGTAA
1 AATAGTGAAATGATAGCAA
43950549 AATAGTGAAATGATAGCAA
1 AATAGTGAAATGATAGCAA
43950568 AATAGTGAAA
1 AATAGTGAAA
43950578 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.52, C:0.02, G:0.23, T:0.23
Consensus pattern (19 bp):
AATAGTGAAATGATAGCAA
Found at i:43952344 original size:18 final size:19
Alignment explanation
Indices: 43952311--43952346 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
43952301 AATAACGAGG
43952311 AAAACAAAATATGCATAAC
1 AAAACAAAATATGCATAAC
*
43952330 AAAACTAAA-ATGCATAA
1 AAAACAAAATATGCATAA
43952347 AATAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (19 bp):
AAAACAAAATATGCATAAC
Found at i:43955191 original size:20 final size:20
Alignment explanation
Indices: 43955154--43955193 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43955144 TAGATAAGCT
*
43955154 TTTATATTTTTATTAAATAA
1 TTTATATTTCTATTAAATAA
43955174 TTTATA-TTCTATTCAAATAA
1 TTTATATTTCTATT-AAATAA
43955194 GTTCTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATATTTCTATTAAATAA
Found at i:43960023 original size:50 final size:50
Alignment explanation
Indices: 43959958--43960286 Score: 318
Period size: 46 Copynumber: 6.9 Consensus size: 50
43959948 ATGGGGTAAG
* * *
43959958 GTGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGCATATCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
* *
43960008 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
* * *
43960058 GTGCCGATGCCATGTCCTAGACATGGTCTTACACT-G---ACACATCT-T
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
* *
43960103 GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATCTC-
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
* * * * *
43960149 GAGGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCT--CATCTCA
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
** * *
43960196 ACGCCGATGCCATGTCCCAGGCATGGTCTTACACTAG--CTCACATA-AT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
*
43960243 GTGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACACA
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA
43960287 AGTGACCCTA
Statistics
Matches: 240, Mismatches: 24, Indels: 32
0.81 0.08 0.11
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 80 0.33
47 26 0.11
48 26 0.11
49 1 0.00
50 80 0.33
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (50 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
Found at i:43960251 original size:94 final size:92
Alignment explanation
Indices: 43960013--43960284 Score: 309
Period size: 94 Copynumber: 2.9 Consensus size: 92
43960003 TATCTGTGCT
* * *
43960013 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCTGTGCCGATGCCATGTCCTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATGTG-GCCGATG-CATGTCCCAG
* **
43960078 ACATGGTCTTACACTG-ACACATCTTGTAGCC
62 ACAT-GTCTTACACTGCTCACATCTTCAAGCC
* * * * *
43960109 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT-GTGGCCGATGCATGTCCCAGACA
*
43960172 TGTCTTACACTGGCTCTCATC-TCAACGCC
65 TGTCTTACACT-GCTCACATCTTCAA-GCC
*
43960201 GATGCCATGTCCCAGGCATGGTCTTACACTAGCTCACATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATGTGGCCGATGCATGTCCCAGACA
43960266 TGTCTTACACTAGCTCACA
65 TGTCTTACACT-GCTCACA
43960285 CAAGTGACCC
Statistics
Matches: 149, Mismatches: 20, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 25 0.17
93 14 0.09
94 66 0.44
95 15 0.10
96 4 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATGTGGCCGATGCATGTCCCAGACAT
GTCTTACACTGCTCACATCTTCAAGCC
Found at i:43960253 original size:140 final size:141
Alignment explanation
Indices: 43960013--43960276 Score: 372
Period size: 140 Copynumber: 1.9 Consensus size: 141
43960003 TATCTGTGCT
* *** *
43960013 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCTGTGCCGATGCCATGTCCTAG
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-CATATCAACGCCGATGCCATGTCCCAG
**
43960078 ACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
65 ACATGGTCTTACACTGACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
43960143 CATCTCGAGGCC
130 CATCTCGAGGCC
* * *
43960155 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCT-CATCTCAACGCCGATGCCATGTCCCAGG
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCCATATCAACGCCGATGCCATGTCCCAGA
* *
43960217 CATGGTCTTACACTAGCTCACATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
66 CATGGTCTTACACT-G-ACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACT
43960277 AGCTCACACA
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
138 36 0.33
139 1 0.01
140 54 0.50
141 13 0.12
142 4 0.04
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (141 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCCATATCAACGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
ATCTCGAGGCC
Found at i:43962065 original size:22 final size:22
Alignment explanation
Indices: 43962018--43962064 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
43962008 AGATTTAGGA
43962018 TTTTAAAAACAATTTTATTTTC
1 TTTTAAAAACAATTTTATTTTC
43962040 TTTTAAAAACAATTTTA-TTTC
1 TTTTAAAAACAATTTTATTTTC
43962061 TTTT
1 TTTT
43962065 TTTTTAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAAACAATTTTATTTTC
Found at i:43965354 original size:29 final size:29
Alignment explanation
Indices: 43965322--43965380 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
43965312 TAAAGTTGTG
43965322 AAAATTTAGCTTGTTTTAGGTTAATTATC
1 AAAATTTAGCTTGTTTTAGGTTAATTATC
43965351 AAAATTTAGCTTGTTTTAGGTTAATTATC
1 AAAATTTAGCTTGTTTTAGGTTAATTATC
43965380 A
1 A
43965381 TGGTTCTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (29 bp):
AAAATTTAGCTTGTTTTAGGTTAATTATC
Found at i:43966951 original size:39 final size:39
Alignment explanation
Indices: 43966858--43967033 Score: 212
Period size: 39 Copynumber: 4.5 Consensus size: 39
43966848 GATTTTAACA
* * * * *
43966858 GGGCTAAGACCCGCAGGCCTT-GTG-TGAGATTTATGTCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATATCC
* * * **
43966896 AGGCTAAGTCCCGAAGGCATTCGCGCTGGTATTATATTT
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
43966935 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
*
43966974 GGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
* *
43967013 GAGCTAAGTTCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
43967034 TGGGTTGGAA
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 17 0.14
39 98 0.83
40 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
Found at i:43974966 original size:39 final size:39
Alignment explanation
Indices: 43974911--43975095 Score: 289
Period size: 39 Copynumber: 4.7 Consensus size: 39
43974901 TGTGTGAGAT
*
43974911 TTATATCCGCGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * * *
43974950 TTATATTCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
43974989 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
43975028 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
43975067 TTATATCCGGGCTAAGTTCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
43975096 TGGGTTGGAA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 134 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
Found at i:43978904 original size:39 final size:39
Alignment explanation
Indices: 43978857--43979045 Score: 299
Period size: 39 Copynumber: 4.9 Consensus size: 39
43978847 GGTTGTGTAT
* *
43978857 TGAT-TTATATCCGCGCTAAGACCCGAAGGCATTCGTGC
1 TGATATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
43978895 TGATATTATATCTGGGTTAAGTCCCGAAGGCATTCGTGC
1 TGATATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
43978934 TGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGATATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
43978973 TGATATTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
1 TGATATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
43979012 TGATGTTATATCCGGGCTAAGTTCCGAAGGCATT
1 TGATATTATATCCGGGCTAAGTCCCGAAGGCATT
43979046 TGGGTTGGAA
Statistics
Matches: 138, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 4 0.03
39 134 0.97
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (39 bp):
TGATATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:43984649 original size:46 final size:45
Alignment explanation
Indices: 43984475--43984645 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
43984465 TGTAACCCGC
*
43984475 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
43984521 CCATAAGTGAACTCGGACTCAACCTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAA-CTCAACGAGCTCGGCATTCGC-A--T
* *** *
43984568 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
43984615 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
43984646 TTCGAAAGCC
Statistics
Matches: 104, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 45 0.43
47 35 0.34
48 14 0.13
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:44001627 original size:29 final size:29
Alignment explanation
Indices: 44001564--44001680 Score: 182
Period size: 29 Copynumber: 4.1 Consensus size: 29
44001554 AGCATGACTG
*
44001564 TAAATGTGTTTTGGGCCTAAT-GGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
*
44001592 TGAATGTGATTTGGGCCTAATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
*
44001621 TAAATGTGATTTGGGCCTCATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* *
44001650 TAAATGTGATTTGGGCCTAGTGGGCTATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
44001679 TA
1 TA
44001681 CAGGTATGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 19 0.23
29 62 0.77
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (29 bp):
TAAATGTGATTTGGGCCTAATGGGCCATA
Found at i:44005612 original size:27 final size:26
Alignment explanation
Indices: 44005577--44005834 Score: 246
Period size: 27 Copynumber: 9.6 Consensus size: 26
44005567 AAATAGGGGT
* *
44005577 AAAACAGTCATCTTACCATAAAAGGGC
1 AAAACAGTCATTTTACC-TATAAGGGC
* *
44005604 AAAATAGTCATTTTACCTCATAAAGGC
1 AAAACAGTCATTTTACCT-ATAAGGGC
* *
44005631 AAAACAGTCATTTTACCCCATAAGGGA
1 AAAACAGTCATTTTA-CCTATAAGGGC
* *
44005658 AAAACAATCATTTTACCTCATAAGGGA
1 AAAACAGTCATTTTACCT-ATAAGGGC
*
44005685 AAAACAGTCATTTTACCTCATAAAGGC
1 AAAACAGTCATTTTACCT-ATAAGGGC
* *
44005712 AAAACAATCATTTTACCTTATAAGTGC
1 AAAACAGTCATTTTACC-TATAAGGGC
* *
44005739 AAAATAGTCATTTTACCCCATAAGGGC
1 AAAACAGTCATTTTA-CCTATAAGGGC
* * *
44005766 AAAACAATCATTTTCCCTTATAAGAGC
1 AAAACAGTCATTTTACC-TATAAGGGC
* * * *
44005793 AAAACAATTATTTTACCCCATAAGGAC
1 AAAACAGTCATTTTA-CCTATAAGGGC
*
44005820 AAAATAGTCATTTTA
1 AAAACAGTCATTTTA
44005835 TCGATTAAGG
Statistics
Matches: 191, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.03
27 179 0.94
28 7 0.04
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (26 bp):
AAAACAGTCATTTTACCTATAAGGGC
Found at i:44005640 original size:54 final size:54
Alignment explanation
Indices: 44005577--44005834 Score: 311
Period size: 54 Copynumber: 4.8 Consensus size: 54
44005567 AAATAGGGGT
* ** * * *
44005577 AAAACAGTCATCTTACCATAAAAGGGCAAAATAGTCATTTTACCTCATAA-AGGC
1 AAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCTCATAAGA-GC
* * *
44005631 AAAACAGTCATTTTACCCCATAAGGGAAAAACAATCATTTTACCTCATAAGGGA
1 AAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCTCATAAGAGC
* * * *
44005685 AAAACAGTCATTTTACCTCATAAAGGCAAAACAATCATTTTACCTTATAAGTGC
1 AAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCTCATAAGAGC
* * *
44005739 AAAATAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTCCCTTATAAGAGC
1 AAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCTCATAAGAGC
* * * * *
44005793 AAAACAATTATTTTACCCCATAAGGACAAAATAGTCATTTTA
1 AAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTA
44005835 TCGATTAAGG
Statistics
Matches: 176, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 176 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (54 bp):
AAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCTCATAAGAGC
Found at i:44005712 original size:81 final size:81
Alignment explanation
Indices: 44005598--44005834 Score: 316
Period size: 81 Copynumber: 2.9 Consensus size: 81
44005588 CTTACCATAA
* * *
44005598 AAGGGCAAAATAGTCATTTTACCTCATAAAGGCAAAACAGTCATTTTACCCCATAAGGGAAAAAC
1 AAGGGCAAAACAGTCATTTTACCTCATAAAGGCAAAACAATCATTTTACCCCATAAGGGAAAAAT
* *
44005663 AATCATTTTACCTCAT
66 AGTCATTTTACCCCAT
* ** * *
44005679 AAGGGAAAAACAGTCATTTTACCTCATAAAGGCAAAACAATCATTTTACCTTATAAGTGCAAAAT
1 AAGGGCAAAACAGTCATTTTACCTCATAAAGGCAAAACAATCATTTTACCCCATAAGGGAAAAAT
44005744 AGTCATTTTACCCCAT
66 AGTCATTTTACCCCAT
* * * *
44005760 AAGGGCAAAACAATCATTTTCCCTTAT-AAGAGCAAAACAATTATTTTACCCCATAA-GGACAAA
1 AAGGGCAAAACAGTCATTTTACCTCATAAAG-GCAAAACAATCATTTTACCCCATAAGGGA-AAA
44005823 ATAGTCATTTTA
64 ATAGTCATTTTA
44005835 TCGATTAAGG
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.03
81 131 0.97
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (81 bp):
AAGGGCAAAACAGTCATTTTACCTCATAAAGGCAAAACAATCATTTTACCCCATAAGGGAAAAAT
AGTCATTTTACCCCAT
Found at i:44008811 original size:20 final size:20
Alignment explanation
Indices: 44008786--44008835 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
44008776 CCGTGGGGCC
44008786 ACACGGCCCATTTTGGCCCA
1 ACACGGCCCATTTTGGCCCA
* * *
44008806 ACACGGTCGATTTTGGCCTA
1 ACACGGCCCATTTTGGCCCA
*
44008826 ACATGGCCCA
1 ACACGGCCCA
44008836 GATCAGCCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (20 bp):
ACACGGCCCATTTTGGCCCA
Found at i:44010403 original size:20 final size:20
Alignment explanation
Indices: 44010378--44010427 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
44010368 CCGTGGGGCC
44010378 ACACGGCCCATTTTGGCCCA
1 ACACGGCCCATTTTGGCCCA
* * *
44010398 ACACGGTCGATTTTGGCCTA
1 ACACGGCCCATTTTGGCCCA
*
44010418 ACATGGCCCA
1 ACACGGCCCA
44010428 GATCAGCCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (20 bp):
ACACGGCCCATTTTGGCCCA
Found at i:44014696 original size:40 final size:40
Alignment explanation
Indices: 44014659--44014842 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
44014649 GCTACTCGTT
* *
44014659 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44014699 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
44014739 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
44014778 CAAATGCCTTC--GATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44014818 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44014843 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.01
39 53 0.43
40 64 0.52
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44014836 original size:79 final size:80
Alignment explanation
Indices: 44014665--44014842 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
44014655 CGTTCAAATA
* * * *
44014665 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGACTTAACCCGGATATA
* *
44014729 GTAACTCGCACCAATG
65 GTAACTAGCACCAAAG
** *
44014745 CCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GATCTTAGTCCGGATATG
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGA-CTTAACCCGGATATA
*
44014807 GTCACTTAGCA-CAAAG
65 GTAAC-TAGCACCAAAG
44014823 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
44014843 CATCATTCGA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
77 2 0.02
78 27 0.32
79 46 0.55
80 9 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGACTTAACCCGGATATAG
TAACTAGCACCAAAG
Found at i:44016052 original size:56 final size:56
Alignment explanation
Indices: 44015966--44016085 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
44015956 TATTAGTTTA
44015966 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
44016022 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
44016078 TTGCCCAT
1 TTGCCCAT
44016086 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:44025226 original size:31 final size:31
Alignment explanation
Indices: 44025188--44025250 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
44025178 CTTTTCACAC
44025188 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
** *
44025219 TTCATATTTCATATTACTGGGCTGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
44025250 T
1 T
44025251 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:44025521 original size:48 final size:49
Alignment explanation
Indices: 44025435--44025565 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 49
44025425 AGCATAGCTG
*
44025435 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGCCA-AAGCC
1 CTTTAT-A-ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGCCATAAGCC
* *
44025486 CTTT-TAATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTATAATAACTGGGGCATAAGCCCTTT-TAATAACTGGGCCATAAGCC
*
44025535 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATAATAACTGGGGCATAAGCCCTTTTA
44025566 CACTTCCTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
47 8 0.11
48 24 0.34
49 11 0.15
50 24 0.34
51 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (49 bp):
CTTTATAATAACTGGGGCATAAGCCCTTTTAATAACTGGGCCATAAGCC
Found at i:44025526 original size:25 final size:25
Alignment explanation
Indices: 44025435--44025563 Score: 158
Period size: 25 Copynumber: 5.2 Consensus size: 25
44025425 AGCATAGCTG
*
44025435 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
* *
44025462 TCTTT-TAATAACTGGGCCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
*
44025486 CTTT-TAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
44025510 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
44025535 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
44025560 CTTT
1 CTTT
44025564 TACACTTCCT
Statistics
Matches: 93, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
23 17 0.18
24 15 0.16
25 56 0.60
27 1 0.01
28 4 0.04
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:44025639 original size:20 final size:20
Alignment explanation
Indices: 44025614--44025680 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
44025604 TTATGAATAC
44025614 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
44025634 ATCATGTACATATCATAGAT
1 ATCATGTGCATATCATACAT
* **
44025654 GTCACATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44025674 ACCATGT
1 ATCATGT
44025681 TTATCAAAAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44027439 original size:119 final size:120
Alignment explanation
Indices: 44027257--44027472 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 120
44027247 TACTCGTTCA
*
44027257 AATGCCTTCGGGACATAGCCCGGTTATAGTAGCTAGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAGCTAGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
44027322 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
* * * **
44027377 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAGCTAGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
44027439 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
44027473 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 59 0.71
120 20 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAGCTAGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
Found at i:44027463 original size:79 final size:79
Alignment explanation
Indices: 44027255--44027479 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 79
44027245 GCTACTCGTT
* * * * * *
44027255 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTAGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
44027320 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
44027335 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
44027399 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
44027414 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
44027478 GA
64 GA
44027480 CATCATTCGA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 57 0.47
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:44027479 original size:40 final size:39
Alignment explanation
Indices: 44027236--44027479 Score: 253
Period size: 40 Copynumber: 6.1 Consensus size: 39
44027226 CGGAATTTAA
** *
44027236 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* * *
44027276 CCGGTTATAGTAGCTAGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
* *
44027316 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* * *
44027356 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
44027395 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* *
44027435 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
44027475 CCGGA
1 CCGGA
44027480 CATCATTCGA
Statistics
Matches: 175, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.02
39 31 0.18
40 127 0.73
41 14 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44032239 original size:39 final size:40
Alignment explanation
Indices: 44032082--44032299 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
44032072 GCTACTCGTT
* *
44032082 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
44032122 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
44032162 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
44032202 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
44032241 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
44032282 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
44032300 GCCTGAACAT
Statistics
Matches: 157, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 110 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44032266 original size:79 final size:79
Alignment explanation
Indices: 44032082--44032302 Score: 250
Period size: 79 Copynumber: 2.8 Consensus size: 79
44032072 GCTACTCGTT
* * * *
44032082 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCG
*
44032146 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
* *
44032162 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCC-TTCGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
44032226 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
44032241 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCC
44032303 TGAACATCAT
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 5 0.04
79 57 0.47
80 54 0.45
81 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:44032290 original size:119 final size:120
Alignment explanation
Indices: 44032084--44032299 Score: 278
Period size: 119 Copynumber: 1.8 Consensus size: 120
44032074 TACTCGTTCA
* *
44032084 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGAT
* * *
44032149 TTAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
44032204 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCGG
* *
44032266 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTA
44032300 GCCTGAACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 6 0.07
119 56 0.68
120 20 0.24
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:44033252 original size:56 final size:56
Alignment explanation
Indices: 44033166--44033285 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
44033156 TATTAGTTTA
44033166 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
44033222 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
44033278 TTGCCCAT
1 TTGCCCAT
44033286 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:44041241 original size:23 final size:24
Alignment explanation
Indices: 44041192--44041311 Score: 174
Period size: 23 Copynumber: 5.0 Consensus size: 24
44041182 GCTTTATCAT
*
44041192 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
44041217 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44041240 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44041263 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
44041288 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44041312 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
23 41 0.47
24 16 0.18
25 31 0.35
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44041293 original size:48 final size:46
Alignment explanation
Indices: 44041213--44041309 Score: 167
Period size: 48 Copynumber: 2.1 Consensus size: 46
44041203 CCTAGCCTCT
44041213 TTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
44041259 TTTAATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTT-TAATAACTGGGGCATAAGCCC
44041307 TTT
1 TTT
44041310 TACACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 16 0.33
47 9 0.19
48 23 0.48
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:44041379 original size:18 final size:18
Alignment explanation
Indices: 44041356--44041430 Score: 72
Period size: 16 Copynumber: 4.3 Consensus size: 18
44041346 GCATTTATGA
44041356 ATACATCATGTGCATATC
1 ATACATCATGTGCATATC
44041374 ATACATATCATGTGC--ATC
1 ATAC--ATCATGTGCATATC
44041392 ATACATACA--TGCATATC
1 ATACAT-CATGTGCATATC
*
44041409 AT--GTCATGTGCATATC
1 ATACATCATGTGCATATC
44041425 ATACAT
1 ATACAT
44041431 ACCATGTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
14 2 0.04
15 4 0.09
16 12 0.26
17 7 0.15
18 12 0.26
20 9 0.20
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (18 bp):
ATACATCATGTGCATATC
Found at i:44041385 original size:20 final size:18
Alignment explanation
Indices: 44041360--44041437 Score: 67
Period size: 20 Copynumber: 4.4 Consensus size: 18
44041350 TTATGAATAC
44041360 ATCATGTGCATATCATACAT
1 ATCATGTGC--ATCATACAT
44041380 ATCATGTGCATCATACAT
1 ATCATGTGCATCATACAT
44041398 A-CA--TGCAT-AT-CAT
1 ATCATGTGCATCATACAT
*
44041411 GTCATGTGCATATCATACAT
1 ATCATGTGC--ATCATACAT
*
44041431 ACCATGT
1 ATCATGT
44041438 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
13 3 0.06
14 4 0.08
15 5 0.10
16 3 0.06
17 2 0.04
18 12 0.25
19 2 0.04
20 17 0.35
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (18 bp):
ATCATGTGCATCATACAT
Found at i:44041431 original size:33 final size:30
Alignment explanation
Indices: 44041373--44041432 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
44041363 ATGTGCATAT
44041373 CATACATATCATGTGCATCATACATACATG
1 CATACATATCATGTGCATCATACATACATG
*
44041403 CATATCATGTCATGTGCATATCATACATAC
1 CATA-CATATCATGTGC--ATCATACATAC
44041433 CATGTTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 11 0.42
33 11 0.42
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (30 bp):
CATACATATCATGTGCATCATACATACATG
Found at i:44043685 original size:18 final size:17
Alignment explanation
Indices: 44043664--44043697 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44043654 TAACTTGTTT
*
44043664 ATCAATCTCATTATTCAA
1 ATCAATC-CATAATTCAA
44043682 ATCAATCCATAATTCA
1 ATCAATCCATAATTCA
44043698 TGCTTTGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (17 bp):
ATCAATCCATAATTCAA
Found at i:44049377 original size:17 final size:18
Alignment explanation
Indices: 44049355--44049388 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44049345 TAAACTTGGC
*
44049355 ACATAA-TCATTTAATTT
1 ACATAATTCAATTAATTT
44049372 ACATAATTCAATTAATT
1 ACATAATTCAATTAATT
44049389 CACTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (18 bp):
ACATAATTCAATTAATTT
Found at i:44062979 original size:50 final size:50
Alignment explanation
Indices: 44062904--44063004 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
44062894 AGAATGCTCA
*
44062904 GTAGTAAACACATGAGCAGAGACACGGCCGTGTGTCTCAGCCGTGTGGAG
1 GTAGTAAACACATGAGCAGAGACACGGCCGTGTGTCTCAGCCGTGTAGAG
*
44062954 GTAGTAAACACATGGGCAGAGACACGGCCGTGTGTCTCAGCCGTGTAGAG
1 GTAGTAAACACATGAGCAGAGACACGGCCGTGTGTCTCAGCCGTGTAGAG
44063004 G
1 G
44063005 CCACGGCCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.22, G:0.35, T:0.18
Consensus pattern (50 bp):
GTAGTAAACACATGAGCAGAGACACGGCCGTGTGTCTCAGCCGTGTAGAG
Found at i:44064593 original size:39 final size:39
Alignment explanation
Indices: 44064529--44064675 Score: 231
Period size: 39 Copynumber: 3.8 Consensus size: 39
44064519 TTCGAGCACG
* * *
44064529 TAGCCTGCGGACTTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTTCCAGCATA
*
44064568 TAGCCTGCGGACCTCATGTCTGGATATATTTCCAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTTCCAGCATA
* *
44064607 TAGCCTGCGGACCTCATGTCCGGGTATATTCCCAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTTCCAGCATA
*
44064646 TAGCCTGCGGACCTTATGTCCGGATATATT
1 TAGCCTGCGGACCTCATGTCCGGATATATT
44064676 CCCAATATCA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (39 bp):
TAGCCTGCGGACCTCATGTCCGGATATATTTCCAGCATA
Done.