Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 235 of 276
Found at i:77804404 original size:19 final size:19
Alignment explanation
Indices: 77804380--77804424 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
77804370 TAACTGAAAA
77804380 TGTCATGTCATTATTGACT
1 TGTCATGTCATTATTGACT
77804399 TGTCATGTCATTATTGACT
1 TGTCATGTCATTATTGACT
77804418 TGTCATG
1 TGTCATG
77804425 GCACATTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (19 bp):
TGTCATGTCATTATTGACT
Found at i:77805298 original size:111 final size:113
Alignment explanation
Indices: 77805170--77805384 Score: 292
Period size: 113 Copynumber: 1.9 Consensus size: 113
77805160 ATAAGAAACA
** *** *
77805170 AATAACTATAAATATCTT-AATTAGGTTTTCCAAATAAACACTCAA-ATATATATGGTGAAATAA
1 AATAACTATAAATATCTTAAAAAACAATTTCCAAATAAACACTAAATATATATATGGTGAAATAA
* * * *
77805233 TTAATATTTATATTTTTTAAAACCTCACCTTATCAAATAAAGGAAAAT
66 TTAATAGTGATATTTTCTAAAACCTCACCTTACCAAATAAAGGAAAAT
77805281 AATAACTATAGAA-ATCTTAAAAAACAATTTCCAAATAAACACTAAATATATATATGGTGAAATA
1 AATAACTATA-AATATCTTAAAAAACAATTTCCAAATAAACACTAAATATATATATGGTGAAATA
* *
77805345 ATTAATAGTGATATTTTCTAAAATCTTACCTTACCAAATA
65 ATTAATAGTGATATTTTCTAAAACCTCACCTTACCAAATA
77805385 GAGGGAGATA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
111 15 0.17
112 23 0.26
113 51 0.57
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (113 bp):
AATAACTATAAATATCTTAAAAAACAATTTCCAAATAAACACTAAATATATATATGGTGAAATAA
TTAATAGTGATATTTTCTAAAACCTCACCTTACCAAATAAAGGAAAAT
Found at i:77806539 original size:27 final size:26
Alignment explanation
Indices: 77806491--77806550 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
77806481 GCGAGGCTGC
*
77806491 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
77806518 CAGATATTGTGGCTAAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
77806544 CAAATAT
1 CAGATAT
77806551 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:77806913 original size:8 final size:8
Alignment explanation
Indices: 77806900--77806930 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
77806890 AAGTGGGCCG
77806900 TTGGCCCA
1 TTGGCCCA
*
77806908 TTGGCCCG
1 TTGGCCCA
77806916 TTGGCCCA
1 TTGGCCCA
77806924 TTGGCCC
1 TTGGCCC
77806931 GTTTCCGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.06, C:0.39, G:0.29, T:0.26
Consensus pattern (8 bp):
TTGGCCCA
Found at i:77806918 original size:16 final size:16
Alignment explanation
Indices: 77806897--77806933 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
77806887 CCAAAGTGGG
77806897 CCGTTGGCCCATTGGC
1 CCGTTGGCCCATTGGC
77806913 CCGTTGGCCCATTGGC
1 CCGTTGGCCCATTGGC
77806929 CCGTT
1 CCGTT
77806934 TCCGGCCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.30, T:0.27
Consensus pattern (16 bp):
CCGTTGGCCCATTGGC
Found at i:77807282 original size:26 final size:27
Alignment explanation
Indices: 77807253--77807306 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
77807243 TCACACAAGT
*
77807253 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
77807279 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
77807306 T
1 T
77807307 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:77807338 original size:27 final size:27
Alignment explanation
Indices: 77807307--77807452 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
77807297 GGGGCAAAAT
* * *
77807307 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
77807334 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
77807361 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
77807388 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
77807415 GATAATTCTACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
77807442 AGTAATTCTAC
1 GGTAATTCTAC
77807453 AACTTATCCA
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:77813611 original size:27 final size:27
Alignment explanation
Indices: 77813554--77813612 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
77813544 TTTACGTACG
* *
77813554 AGGGGCAAAATAGTCATTTAACACCCT
1 AGGGGCAAAATAGTAATTTAACACCCC
* *
77813581 AGGGGCAAAATGGTAATTTTAC-CCCGC
1 AGGGGCAAAATAGTAATTTAACACCC-C
77813608 AGGGG
1 AGGGG
77813613 TATTTTGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
AGGGGCAAAATAGTAATTTAACACCCC
Found at i:77813621 original size:27 final size:27
Alignment explanation
Indices: 77813591--77813709 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
77813581 AGGGGCAAAA
* **
77813591 TGGTAATTTTACCCCGCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
77813618 TGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
** *
77813645 CAGTAATTCTATCCTACA-GGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
77813671 CGGTAATTCTACCCTACAGGGATATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
77813698 TAGTAATTCTAC
1 TGGTAATTCTAC
77813710 AACTTATCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 24 0.31
27 53 0.69
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:77817215 original size:26 final size:26
Alignment explanation
Indices: 77817184--77817291 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
77817174 TGAAATGCCC
*
77817184 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
77817210 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
77817236 ATAATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
77817262 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77817288 ATCA
1 ATCA
77817292 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77818730 original size:22 final size:24
Alignment explanation
Indices: 77818686--77818732 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
77818676 CATAAAAAAT
* *
77818686 AAATTATGTACATAAGTATATTAA
1 AAATTATGTACACAAGTAAATTAA
77818710 AAATTATGTA-ACAA-TAAATTAA
1 AAATTATGTACACAAGTAAATTAA
77818732 A
1 A
77818733 TTAAAATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 3 0.14
24 10 0.48
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
AAATTATGTACACAAGTAAATTAA
Found at i:77818867 original size:18 final size:18
Alignment explanation
Indices: 77818844--77818882 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
77818834 TAAAACTCTA
77818844 AAAAATTTCTATGAAAAG
1 AAAAATTTCTATGAAAAG
77818862 AAAAATTTCTATGAAAAG
1 AAAAATTTCTATGAAAAG
77818880 AAA
1 AAA
77818883 GATATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (18 bp):
AAAAATTTCTATGAAAAG
Found at i:77819316 original size:18 final size:18
Alignment explanation
Indices: 77819293--77819330 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
77819283 GTACATAGAA
77819293 GTAACTACAAAGTACATT
1 GTAACTACAAAGTACATT
*
77819311 GTAACTACGAAGTACATT
1 GTAACTACAAAGTACATT
77819329 GT
1 GT
77819331 TCTTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (18 bp):
GTAACTACAAAGTACATT
Found at i:77820483 original size:23 final size:22
Alignment explanation
Indices: 77820457--77820499 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
77820447 ATCCTTCTGT
77820457 ATTT-TTTAATATTTATAATTTCA
1 ATTTATTT-ATATTT-TAATTTCA
*
77820480 ATTTATTTTTATTTTAATTT
1 ATTTATTTATATTTTAATTT
77820500 GGCCCCGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.33
23 9 0.50
24 3 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTATTTATATTTTAATTTCA
Found at i:77843442 original size:45 final size:45
Alignment explanation
Indices: 77843393--77844156 Score: 401
Period size: 45 Copynumber: 17.1 Consensus size: 45
77843383 TCACCGGTGA
* *
77843393 CAGATTTGGCGTCTCTATATTAGACAGGGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * * * *
77843438 CAGATCTGGCAT-TCATGTATT-TACATCGAAGCAGATCGAAGA-CG
1 CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATAG
* *
77843482 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAA
1 -CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * * * *
77843528 CAGATCTGACAT-TCGTGTGTTTACATCA--AAGCAGATCGAAGAT-G
1 CAGATTTGGCATCTC-TGT-ATTAGA-CAGGGAGCAGATCGAAGATAG
** *
77843572 ACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATCAAAGATAG
1 -CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * * * *
77843616 CAGATCTGACAT-TCGTGTGTTTACATCA--AAGCAGATCGAAGAT-G
1 CAGATTTGGCATCTC-TGT-ATTAGA-CAGGGAGCAGATCGAAGATAG
* *
77843660 ATAGATTTGGCATCTCTGTATTAGAC-GAGGAGCAGATCAAAGATAG
1 -CAGATTTGGCATCTCTGTATTAGACAG-GGAGCAGATCGAAGATAG
* *** * * * * * *
77843706 CAGATCTAATAT-TCGTGTGTT-TACATCGAAGTAGATCGAAGA-CG
1 CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATAG
* *
77843750 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAG
1 -CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * * * *
77843796 CAGATCTGACAT-TCGTGTGTTTACATCA--AAGCAGATCGAAGAT-G
1 CAGATTTGGCATCTC-TGT-ATTAGA-CAGGGAGCAGATCGAAGATAG
** *
77843840 ACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATCAAAGATAG
1 -CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * * * *
77843884 CAGATCTGACAT-TCGTGTGTTTACATCA--AAGCAGATCGAAGAT-G
1 CAGATTTGGCATCTC-TGT-ATTAGA-CAGGGAGCAGATCGAAGATAG
** *
77843928 ACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATCAAAGATAG
1 -CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * * * * * *
77843972 CAGATCTGACAT-TCGTGTGTT-TACATCGAAGCAAATCGAAGAT-G
1 CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATAG
**
77844016 ACAGATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGATAG
1 -CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * * * * *
77844062 CAGATCTGACAT-TCGTGTGTT-TACATCGAAGCAGATCGAAGAT-G
1 CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATAG
* *
77844106 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAG
1 -CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
77844152 CAGAT
1 CAGAT
77844157 CTGATATTCG
Statistics
Matches: 527, Mismatches: 134, Indels: 116
0.68 0.17 0.15
Matches are distributed among these distances:
42 12 0.02
43 76 0.14
44 43 0.08
45 357 0.68
46 37 0.07
47 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
Found at i:77843533 original size:90 final size:90
Alignment explanation
Indices: 77843390--77844180 Score: 1279
Period size: 90 Copynumber: 8.9 Consensus size: 90
77843380 AGATCACCGG
* * * * * *
77843390 TGACAGATTTGGCGTCTCTATATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGGCATTCATG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843455 TATTTACATCGAAGCAGATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
* * *
77843480 CGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATCTGACATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843545 TGTTTACATCAAAGCAGATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
*
77843570 TGACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843633 TGTTTACATCAAAGCAGATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
* * * *
77843658 TGATAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATCTAATATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843723 TGTTTACATCGAAGTAGATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
*
77843748 CGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843813 TGTTTACATCAAAGCAGATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
*
77843838 TGACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843901 TGTTTACATCAAAGCAGATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
*
77843926 TGACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843989 TGTTTACATCGAAGCAAATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
* *
77844014 TGACAGATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
77844079 TGTTTACATCGAAGCAGATCGAAGA
66 TGTTTACATCGAAGCAGATCGAAGA
* * *
77844104 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
77844169 TGTTTACATCGA
66 TGTTTACATCGA
77844181 GGTACAGATT
Statistics
Matches: 661, Mismatches: 36, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
88 257 0.39
90 404 0.61
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (90 bp):
TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
TGTTTACATCGAAGCAGATCGAAGA
Found at i:77843712 original size:178 final size:179
Alignment explanation
Indices: 77843390--77844395 Score: 1388
Period size: 178 Copynumber: 5.8 Consensus size: 179
77843380 AGATCACCGG
* * * * * *
77843390 TGACAGATTTGGCGTCTCTATATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGGCATTCATG
1 TGACAGATTTGGC-ACTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
* *
77843455 TATTTACATCGAAGCAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
65 TGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
* *
77843520 GAAGATAACAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
130 AAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
*
77843570 TGACAGATTTGGCA-TCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGT
1 TGACAGATTTGGCACTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGT
* * *
77843634 GTTTACATCAAAGCAGATCGAAGATGATAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCA
66 GTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCA
* * * *
77843699 AAGATAGCAGATCTAATATTCGTGTGTTTACATCGAAGTAGATCGAAGA
131 AAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
*
77843748 CGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
1 TGACAGATTTGGCA-CTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
* *
77843813 TGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATC
65 TGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
77843876 AAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
130 AAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
*
77843926 TGACAGATTTGGCA-TCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGT
1 TGACAGATTTGGCACTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGT
* * *
77843990 GTTTACATCGAAGCAAATCGAAGATGACAGATTTGGCATCTCTGTATTAGATGGGGAGCAGATCG
66 GTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCA
*
77844055 AAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGA
131 AAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
* * *
77844104 TGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTG
1 TGACAGATTTGGCA-CTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
77844169 TGTTTACAT-----C-GA--G--G-T-ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
65 TGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
* * *
77844222 GAAGGTAGCAGATCTGATATTCGTGTGTTTACAT-----C-GA--G--G-
130 AAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
* * *
77844261 T-ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAGCAGATCTGACATTCGTA
1 TGACAGATTTGGCA-CTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
* * * * *
77844325 T-ATTACATCGAAGCAGATCAAAGAT-AGCAGATTTGGCGTCTCTGTATTTGACGAGGAGCAGAT
65 TGTTTACATCGAAGCAGATCGAAGATGA-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
*
77844388 CAAGGATA
129 CAAAGATA
77844396 TTAACATGGT
Statistics
Matches: 755, Mismatches: 53, Indels: 49
0.88 0.06 0.06
Matches are distributed among these distances:
155 6 0.01
156 60 0.08
157 1 0.00
158 1 0.00
160 2 0.00
161 2 0.00
162 2 0.00
163 1 0.00
165 1 0.00
166 2 0.00
167 38 0.05
168 69 0.09
169 1 0.00
170 1 0.00
172 1 0.00
174 1 0.00
175 1 0.00
176 85 0.11
178 327 0.43
180 153 0.20
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (179 bp):
TGACAGATTTGGCACTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGT
GTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCA
AAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGA
Found at i:77843871 original size:268 final size:268
Alignment explanation
Indices: 77843390--77844395 Score: 1431
Period size: 268 Copynumber: 3.8 Consensus size: 268
77843380 AGATCACCGG
* * * * *
77843390 TGACAGATTTGGCGTCTCTATATTAGAC-AGGGAGCAGATCGAAGATAGCAGATCTGGCATTCAT
1 TGACAGATTTGGCATCTCTGTATTAGACGA-GGAGCAGATCAAAGATAGCAGATCTGACATTCGT
*
77843454 GTATTTACATCGAAGCAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
65 GTGTTTACATCGAAGCAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
*
77843519 CGAAGATAACAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCA
130 CGAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCA
*
77843584 TCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCA
195 TCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCA
77843649 GATCGAAGA
260 GATCGAAGA
* * *
77843658 TGATAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATCTAATATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77843723 TGTTTACATCGAAGTAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
66 TGTTTACATCGAAGCAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
*
77843788 AAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCAT
131 GAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCAT
*
77843853 CTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAG
196 CTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAG
77843918 ATCGAAGA
261 ATCGAAGA
* *
77843926 TGACAGATTTGGCA--TCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
* * *
77843989 TGTTTACATCGAAGCAAATCGAAGATGACAGATTTGGCATCTCTGTATTAGATGGGGAGCAGATC
66 TGTTTACATCGAAGCAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
*
77844054 GAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCAT
131 GAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCA-
* * *
77844119 CTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTGTGTTTACAT-----C
195 -TCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGC
77844179 -GA--G--G-
259 AGATCGAAGA
* * * *
77844183 T-ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTG
1 TGACAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
*
77844247 TGTTTACATCG-AG--G-T--------ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATC
66 TGTTTACATCGAAGCAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
* * * *
77844300 GAAGATAGCAGATCTGACATTCGTAT-ATTACATCGAAGCAGATCAAAGAT-AGCAGATTTGGCG
131 GAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGA-CAGATTTGGC-
* * * *
77844363 TCTCTGTATTTGACGAGGAGCAGATCAAGGATA
194 -ATCTGTATTAGACGGGGAGCAGATCAAAGATA
77844396 TTAACATGGT
Statistics
Matches: 687, Mismatches: 43, Indels: 39
0.89 0.06 0.05
Matches are distributed among these distances:
244 1 0.00
245 58 0.08
246 61 0.09
254 1 0.00
256 12 0.02
257 3 0.00
258 57 0.08
260 1 0.00
262 2 0.00
263 1 0.00
266 168 0.24
268 321 0.47
269 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (268 bp):
TGACAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATCTGACATTCGTG
TGTTTACATCGAAGCAGATCGAAGACGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
GAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCAT
CTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAG
ATCGAAGA
Found at i:77844198 original size:78 final size:78
Alignment explanation
Indices: 77844106--77844323 Score: 409
Period size: 78 Copynumber: 2.8 Consensus size: 78
77844096 ATCGAAGATG
77844106 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTGTG
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTGTG
77844171 TTTACATCGAGGT
66 TTTACATCGAGGT
77844184 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTGTG
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTGTG
77844249 TTTACATCGAGGT
66 TTTACATCGAGGT
* * *
77844262 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAGCAGATCTGACATTCGT
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGT
77844324 ATATTACATC
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 137 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (78 bp):
ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGATATTCGTGTG
TTTACATCGAGGT
Found at i:77844312 original size:45 final size:44
Alignment explanation
Indices: 77844263--77844395 Score: 117
Period size: 45 Copynumber: 3.0 Consensus size: 44
77844253 CATCGAGGTA
*
77844263 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTAGAC-GGGAGCAAATCAAAGATAG
* * * * * *
77844308 CAGATCTGACAT-TCGTATATTACATC-GAAGCAGATCAAAGATAG
1 CAGATTTGGCATCTC-TGTATTAGA-CGGGAGCAAATCAAAGATAG
* * * *
77844352 CAGATTTGGCGTCTCTGTATTTGACGAGGAGCAGATCAAGGATA
1 CAGATTTGGCATCTCTGTATTAGACG-GGAGCAAATCAAAGATA
77844396 TTAACATGGT
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 32 0.47
45 34 0.50
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
CAGATTTGGCATCTCTGTATTAGACGGGAGCAAATCAAAGATAG
Found at i:77845901 original size:20 final size:21
Alignment explanation
Indices: 77845872--77845915 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
77845862 TTAATCCTTT
*
77845872 TTTTATATATAATT-TAT-TTA
1 TTTTAAATAT-ATTATATATTA
77845892 TTTTAAATATATTATATATTA
1 TTTTAAATATATTATATATTA
77845913 TTT
1 TTT
77845916 ATTTTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 12 0.57
21 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAAATATATTATATATTA
Found at i:77846022 original size:10 final size:10
Alignment explanation
Indices: 77845987--77846041 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
77845977 GCATTGTTTC
*
77845987 TTATATTGT-
1 TTATATTTTA
77845996 TTATATTTTA
1 TTATATTTTA
77846006 TGATATATTTTA
1 T--TATATTTTA
*
77846018 TTATATATTA
1 TTATATTTTA
77846028 -TATTATTTTA
1 TTA-TATTTTA
77846038 TTAT
1 TTAT
77846042 TGTAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 10 0.26
10 16 0.42
11 2 0.05
12 10 0.26
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (10 bp):
TTATATTTTA
Found at i:77846031 original size:12 final size:12
Alignment explanation
Indices: 77845997--77846033 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
77845987 TTATATTGTT
*
77845997 TATATTTTATGA
1 TATATTTTATTA
77846009 TATATTTTATTA
1 TATATTTTATTA
*
77846021 TATATTATATTA
1 TATATTTTATTA
77846033 T
1 T
77846034 TTTATTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:77846883 original size:71 final size:71
Alignment explanation
Indices: 77846808--77847014 Score: 215
Period size: 71 Copynumber: 3.1 Consensus size: 71
77846798 TATTTTTCAA
77846808 TATTATTAAACATACATATTTATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAAT
1 TATTATTAAACATACATATTTATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAAT
77846873 AAAATT
66 AAAATT
* * * *** ** * *
77846879 TATTATT---TATA-ATTTTTATT-TTTATTTTTAAAAATAT-TTAAAATGTT-ATAT--T--TT
1 TATTATTAAACATACATATTTATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAAT
**
77846933 TCAA--
66 AAAATT
77846937 TATTATTAAACATACATATTTATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAAT
1 TATTATTAAACATACATATTTATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAAT
77847002 AAAATT
66 AAAATT
77847008 TATTATT
1 TATTATT
77847015 TTAATAAATT
Statistics
Matches: 99, Mismatches: 24, Indels: 26
0.66 0.16 0.17
Matches are distributed among these distances:
58 7 0.07
60 3 0.03
61 3 0.03
62 9 0.09
63 13 0.13
64 11 0.11
65 11 0.11
66 13 0.13
67 9 0.09
68 3 0.03
69 3 0.03
71 14 0.14
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (71 bp):
TATTATTAAACATACATATTTATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAAT
AAAATT
Found at i:77846964 original size:65 final size:65
Alignment explanation
Indices: 77846765--77846970 Score: 195
Period size: 65 Copynumber: 3.2 Consensus size: 65
77846755 NNNNNNNNTT
77846765 TTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATTTA
1 TTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATTTA
* *** ** * ** * ** * ** **
77846830 TTA--TTTATATTTAGTCATATAAAAAAATATTA-ATATAATAAATAAAATTTATTATTTATAAT
1 TTATTTTTATTTTTAAAAATAT-TTAAAATGTTATAT-TTTTCAATATTATTAAACATACAT-AT
77846892 TT-
63 TTA
77846894 TTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATTTA
1 TTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATTTA
*
77846959 TTATTTATATTT
1 TTATTTTTATTT
77846971 AGTCATATAA
Statistics
Matches: 99, Mismatches: 35, Indels: 14
0.67 0.24 0.09
Matches are distributed among these distances:
63 15 0.15
64 29 0.29
65 40 0.40
66 15 0.15
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (65 bp):
TTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATTTA
Found at i:77846991 original size:129 final size:128
Alignment explanation
Indices: 77846763--77847019 Score: 505
Period size: 129 Copynumber: 2.0 Consensus size: 128
77846753 NNNNNNNNNN
77846763 TTTTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATT
1 TTTTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATT
77846828 TATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTTATAAT
66 TATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTT-TAAT
77846892 TTTTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATT
1 TTTTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATT
77846957 TATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTTTAAT
66 TATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTTTAAT
77847020 AAATTATTTA
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
128 4 0.03
129 124 0.97
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (128 bp):
TTTTATTTTTATTTTTAAAAATATTTAAAATGTTATATTTTTCAATATTATTAAACATACATATT
TATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTTTAAT
Found at i:77847027 original size:64 final size:63
Alignment explanation
Indices: 77846829--77847035 Score: 133
Period size: 58 Copynumber: 3.2 Consensus size: 63
77846819 ATACATATTT
77846829 ATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTT-AT-A
1 ATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTTAATAA
* * * * * * * *** *
77846890 ATT-TTTATTTTTA-T-TTTTAAAAATAT-TTAAAAT-GT-TATATTTTTCAATATTATTAAACA
1 ATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATT---TATTATT-TA-A
77846949 TACA
61 TA-A
*
77846953 TATTTATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTTTA
1 -A-TTA-T-TTA-TATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTA-TTTA
77847018 ATAA
60 ATAA
77847022 ATTATTTAATATTT
1 ATTATTT-ATATTT
77847036 TAATTTTATT
Statistics
Matches: 101, Mismatches: 24, Indels: 38
0.62 0.15 0.23
Matches are distributed among these distances:
55 5 0.05
56 1 0.01
57 6 0.06
58 16 0.16
59 1 0.01
60 9 0.09
61 5 0.05
63 1 0.01
64 1 0.01
65 9 0.09
66 1 0.01
67 4 0.04
68 3 0.03
69 6 0.06
70 4 0.04
71 15 0.15
72 8 0.08
73 1 0.01
74 5 0.05
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (63 bp):
ATTATTTATATTTAGTCATATAAAAAAATATTAATATAATAAATAAAATTTATTATTTAATAA
Found at i:77847138 original size:15 final size:15
Alignment explanation
Indices: 77847118--77847174 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
77847108 ATTCAATATT
77847118 AATATTTTAATAATA
1 AATATTTTAATAATA
*
77847133 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
77847152 AATATATTAATAATA
1 AATATTTTAATAATA
*
77847167 AATGTTTT
1 AATATTTT
77847175 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:77847644 original size:13 final size:14
Alignment explanation
Indices: 77847616--77847644 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77847606 CAAAAAAGTA
77847616 AATCATTTTCCAAT
1 AATCATTTTCCAAT
77847630 AATCATTTT-CAAT
1 AATCATTTTCCAAT
77847643 AA
1 AA
77847645 AACAAACGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (14 bp):
AATCATTTTCCAAT
Found at i:77851931 original size:21 final size:20
Alignment explanation
Indices: 77851888--77851942 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
77851878 ACATCATATT
*
77851888 CAAAAGCCCA-AAGGCTGAA
1 CAAAAGCCCATAAGGCTAAA
*
77851907 CAAAAGCACATAAGTGCTAAA
1 CAAAAGCCCATAAG-GCTAAA
*
77851928 CAAAAACCCATAAGG
1 CAAAAGCCCATAAGG
77851943 GTTGAACGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 17 0.57
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.09
Consensus pattern (20 bp):
CAAAAGCCCATAAGGCTAAA
Found at i:77861380 original size:26 final size:26
Alignment explanation
Indices: 77861330--77861380 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
77861320 ACGCTTACTG
* *
77861330 TTACTGGCAGCTATGCTGTGTTATTA
1 TTACTGGCAGCTATGCTGGGATATTA
*
77861356 TTACTGGCAGCTTTGCTGGGATATT
1 TTACTGGCAGCTATGCTGGGATATT
77861381 GGTGTGCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (26 bp):
TTACTGGCAGCTATGCTGGGATATTA
Found at i:77869371 original size:33 final size:33
Alignment explanation
Indices: 77869328--77869392 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
77869318 CCCACAATGC
*
77869328 TACTGTATAGGGCTAAGGCCCAGACTGTACTGT
1 TACTGAATAGGGCTAAGGCCCAGACTGTACTGT
**
77869361 TACTGAATAGGGCTTTGGCCCAGACTGTACTG
1 TACTGAATAGGGCTAAGGCCCAGACTGTACTG
77869393 AAACTGTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (33 bp):
TACTGAATAGGGCTAAGGCCCAGACTGTACTGT
Found at i:77871730 original size:14 final size:15
Alignment explanation
Indices: 77871706--77871736 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
77871696 TAATAAATAT
77871706 TTATCTTGTTCTTAA
1 TTATCTTGTTCTTAA
77871721 TTAT-TTGTTCTTAA
1 TTATCTTGTTCTTAA
77871735 TT
1 TT
77871737 CTTGTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATCTTGTTCTTAA
Found at i:77874853 original size:24 final size:24
Alignment explanation
Indices: 77874826--77874889 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
77874816 GTAATTTTTC
* *
77874826 GTCAATTCCTCCTTTGTATTTACT
1 GTCAATTCATCCTTTGCATTTACT
*
77874850 GTCAATTCATCATTTGCATTTACT
1 GTCAATTCATCCTTTGCATTTACT
* *
77874874 ATCGATTCATCCTTTG
1 GTCAATTCATCCTTTG
77874890 ACATAGAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.47
Consensus pattern (24 bp):
GTCAATTCATCCTTTGCATTTACT
Found at i:77881625 original size:111 final size:111
Alignment explanation
Indices: 77881501--77881702 Score: 291
Period size: 111 Copynumber: 1.8 Consensus size: 111
77881491 AATAAAATAA
** ***
77881501 GAAAAAAATAACTATA-AATATC-TTAATTAAATTTTCCAAATAAACACTCAAATATATATGGTA
1 GAAAAAAATAACTATAGAA-ATCTTTAAAAAAAAAATCCAAATAAACACT-AAATATATATGGTA
* *
77881564 AAATAATTAATACTTATATTTTTTAAAACCTCACCTTACCAAATAAAG
64 AAATAATTAATACTGATATTTTCTAAAACCTCACCTTACCAAATAAAG
* *
77881612 GAAAATAATAACTATAGAAATCTTTAAAAAAAAAATCCAAATAAACACTAAATATATATGGTGAA
1 GAAAAAAATAACTATAGAAATCTTTAAAAAAAAAATCCAAATAAACACTAAATATATATGGTAAA
77881677 ATAATTAATACTGATATTTTCTAAAA
66 ATAATTAATACTGATATTTTCTAAAA
77881703 TCTTACCCTA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
111 57 0.71
112 23 0.29
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (111 bp):
GAAAAAAATAACTATAGAAATCTTTAAAAAAAAAATCCAAATAAACACTAAATATATATGGTAAA
ATAATTAATACTGATATTTTCTAAAACCTCACCTTACCAAATAAAG
Found at i:77884032 original size:25 final size:24
Alignment explanation
Indices: 77884000--77884058 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
77883990 GCAACCCATT
77884000 TTTTAATAATATATATAATA-TATA
1 TTTTAATAATAT-TATAATATTATA
* **
77884024 TTTTAAATATTATTATTTTATTATA
1 TTTT-AATAATATTATAATATTATA
77884049 TTTTAATAAT
1 TTTTAATAAT
77884059 TTTTAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAATAATATTATAATATTATA
Found at i:77884498 original size:3 final size:3
Alignment explanation
Indices: 77884483--77884539 Score: 89
Period size: 3 Copynumber: 18.7 Consensus size: 3
77884473 GGCAGCAGCA
77884483 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
77884528 AAGG AAG AAG AA
1 AA-G AAG AAG AA
77884540 AAAAATGTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:77885632 original size:11 final size:11
Alignment explanation
Indices: 77885597--77885624 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
77885587 GAGAGTAAGA
77885597 AATTTTAATGT
1 AATTTTAATGT
77885608 AATTTTAATGT
1 AATTTTAATGT
77885619 AATTTT
1 AATTTT
77885625 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:77887940 original size:24 final size:21
Alignment explanation
Indices: 77887909--77888105 Score: 93
Period size: 21 Copynumber: 9.0 Consensus size: 21
77887899 AAATTATCAG
77887909 AATTATTAAAATAATAATATTAAA
1 AATTATTAAAAT--TAAT-TTAAA
* *
77887933 AATTATTAAACTTAATTTCAA
1 AATTATTAAAATTAATTTAAA
*
77887954 AATTATTAAAA--AATTTAAG
1 AATTATTAAAATTAATTTAAA
* * *
77887973 CA-TA-AAAAATAATAAATTAATA
1 AATTATTAAAAT--TAATTTAA-A
77887995 ACATTATTAAAATAATAATATTAAAA
1 A-ATTATTAAAAT--TAAT-TT-AAA
* *
77888021 AATTATTAAACA-TAATTTCAG
1 AATTATTAAA-ATTAATTTAAA
*
77888042 AATTATTCAAATAATAATATTAAAA
1 AATTATT-AAA-ATTAAT-TT-AAA
* * *
77888067 AATTATGAAACTTAATTTCAA
1 AATTATTAAAATTAATTTAAA
77888088 AATTATTAAAA--AATTTAA
1 AATTATTAAAATTAATTTAA
77888106 GTATAAAAAA
Statistics
Matches: 134, Mismatches: 24, Indels: 35
0.69 0.12 0.18
Matches are distributed among these distances:
17 4 0.03
18 2 0.01
19 13 0.10
21 39 0.29
22 12 0.09
23 13 0.10
24 18 0.13
25 26 0.19
26 5 0.04
27 2 0.01
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTATTAAAATTAATTTAAA
Found at i:77888006 original size:25 final size:25
Alignment explanation
Indices: 77887978--77888072 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 25
77887968 TTAAGCATAA
*
77887978 AAAATAATAA-ATTAATAACATTATT
1 AAAATAATAATATTAA-AAAATTATT
77888003 AAAATAATAATATTAAAAAATTATT
1 AAAATAATAATATTAAAAAATTATT
* * *
77888028 -AAA-CATAAT-TT-CAGAATTATT
1 AAAATAATAATATTAAAAAATTATT
*
77888049 CAAATAATAATATTAAAAAATTAT
1 AAAATAATAATATTAAAAAATTAT
77888073 GAAACTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
21 8 0.14
22 5 0.09
23 10 0.17
24 5 0.09
25 25 0.43
26 5 0.09
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (25 bp):
AAAATAATAATATTAAAAAATTATT
Found at i:77888054 original size:46 final size:45
Alignment explanation
Indices: 77887820--77888170 Score: 271
Period size: 46 Copynumber: 7.9 Consensus size: 45
77887810 TTCCAATAAA
* * * *
77887820 AAATTATTAAATTAATAATACTAAAAAATTATTAGACTTAATTTTA
1 AAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAA-TTTC
* *
77887866 AAAATATTAAAA-AATCTAAGCA-TAAAAAA-TA--AAA---AATTATC
1 AAATTATTAAAATAA--TAA-TATTAAAAAATTATTAAACTTAATT-TC
77887907 AGAATTATTAAAATAATAATATT-AAAAATTATTAAACTTAATTTC
1 A-AATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* *
77887952 AAAATTATTAAAA-AATTTAAGCA-TAAAAAA-TAATAAA-TTAA--T-
1 -AAATTATTAAAATAA--TAA-TATTAAAAAATTATTAAACTTAATTTC
*
77887994 AACATTATTAAAATAATAATATTAAAAAATTATTAAACATAATTTC
1 AA-ATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* *
77888040 AGAATTATTCAAATAATAATATTAAAAAATTATGAAACTTAATTTC
1 A-AATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
*
77888086 AAAATTATTAAAA-AATTTAAGTA-TAAAAAA-TAATAAA-TTAA--T-
1 -AAATTATTAAAATAA--TAA-TATTAAAAAATTATTAAACTTAATTTC
*
77888128 AACATTATTAAAATAATAATATTAAATAATTATTAAACTTAAT
1 AA-ATTATTAAAATAATAATATTAAAAAATTATTAAACTTAAT
77888171 AATTTTTTTT
Statistics
Matches: 248, Mismatches: 20, Indels: 76
0.72 0.06 0.22
Matches are distributed among these distances:
40 11 0.04
41 33 0.13
42 42 0.17
43 18 0.07
44 4 0.02
45 26 0.10
46 83 0.33
47 28 0.11
48 3 0.01
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (45 bp):
AAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
Found at i:77888069 original size:87 final size:87
Alignment explanation
Indices: 77887821--77888048 Score: 327
Period size: 87 Copynumber: 2.6 Consensus size: 87
77887811 TCCAATAAAA
* * * * *
77887821 AATTATTAAATTAATAATACTAAAAAATTATTAGACTTAATTTTAAAAATATTAAAAAATCTAAG
1 AATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAAT-TAAG
77887886 CATAAAAAATAAAAAATTATCAG
65 CATAAAAAATAAAAAATTATCAG
77887909 AATTATTAAAATAATAATATT-AAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATTTAAG
1 AATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAA-TTAAG
*
77887973 CATAAAAAATAATAAATTAAT-A-
65 CATAAAAAATAAAAAATT-ATCAG
* *
77887995 ACATTATTAAAATAATAATATTAAAAAATTATTAAACATAATTTCAGAATTATT
1 A-ATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATT
77888049 CAAATAATAA
Statistics
Matches: 128, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
86 1 0.01
87 76 0.59
88 51 0.40
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (87 bp):
AATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATTAAGC
ATAAAAAATAAAAAATTATCAG
Found at i:77888096 original size:134 final size:134
Alignment explanation
Indices: 77887900--77888170 Score: 481
Period size: 134 Copynumber: 2.0 Consensus size: 134
77887890 AAAAATAAAA
*
77887900 AATTATCAGAATTATTAAAATAATAATATTAAAAATTATTAAACTTAATTTCAAAATTATTAAAA
1 AATTATCAGAATTATTAAAATAATAATATTAAAAATTATGAAACTTAATTTCAAAATTATTAAAA
77887965 AATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATTAA
66 AATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATTAA
77888030 ACAT
131 ACAT
*
77888034 AATT-TCAGAATTATTCAAATAATAATATTAAAAAATTATGAAACTTAATTTCAAAATTATTAAA
1 AATTATCAGAATTATTAAAATAATAATATT-AAAAATTATGAAACTTAATTTCAAAATTATTAAA
* *
77888098 AAATTTAAGTATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAATAATTATTA
65 AAATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATTA
*
77888163 AACTT
130 AACAT
77888168 AAT
1 AAT
77888171 AATTTTTTTT
Statistics
Matches: 131, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
133 24 0.18
134 107 0.82
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (134 bp):
AATTATCAGAATTATTAAAATAATAATATTAAAAATTATGAAACTTAATTTCAAAATTATTAAAA
AATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATTAA
ACAT
Found at i:77888140 original size:25 final size:25
Alignment explanation
Indices: 77888112--77888173 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
77888102 TTAAGTATAA
77888112 AAAATAATAA-ATT-AATAACATTATT
1 AAAATAATAATATTAAAT-A-ATTATT
77888137 AAAATAATAATATTAAATAATTATT
1 AAAATAATAATATTAAATAATTATT
*
77888162 AAACTTAATAAT
1 AAA-ATAATAAT
77888174 TTTTTTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 19 0.58
26 11 0.33
27 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
AAAATAATAATATTAAATAATTATT
Found at i:77890657 original size:5 final size:5
Alignment explanation
Indices: 77890636--77890677 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
77890626 AATAATTAAG
*
77890636 TATA- TATAT TATA- TATAT TATAT TATGT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
77890678 AAACAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:77896852 original size:13 final size:13
Alignment explanation
Indices: 77896834--77896860 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77896824 TTCGATGCCA
77896834 ATGTAATCTTTCG
1 ATGTAATCTTTCG
77896847 ATGTAATCTTTCG
1 ATGTAATCTTTCG
77896860 A
1 A
77896861 ATTCGATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (13 bp):
ATGTAATCTTTCG
Found at i:77897655 original size:24 final size:24
Alignment explanation
Indices: 77897620--77897665 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
77897610 AGGGTTAGTG
77897620 TTTAGTGGTTTAAG-GTTTTTAATA
1 TTTAGTGGTTT-AGTGTTTTTAATA
77897644 TTTA-TGGTTTTAGTGTTTTTAA
1 TTTAGTGG-TTTAGTGTTTTTAA
77897666 GGGAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (24 bp):
TTTAGTGGTTTAGTGTTTTTAATA
Found at i:77897701 original size:171 final size:171
Alignment explanation
Indices: 77897132--77898446 Score: 2108
Period size: 171 Copynumber: 7.7 Consensus size: 171
77897122 GGGTTTAAGA
* * * *
77897132 TTTTAGTGTTTTTTAAGGG-AAAATTAATTTAATTTGAGTTGAGGGTTAATTAATTAAATTAACT
1 TTTTAGTG-TTTTTAAGGGAAAAATTAA-TTAATTAGATTTGAGGATTAATTAATCAAATTAACT
* * * * * *
77897196 ATGAAATT-AAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTTATGGTTAGGGTTTTTGATTGT
64 ATGAAATTAAAAAAATTAATTAAATTAGGGTTTAAAG-TTTTTTAAGGTTAGGATTTTTTATTTT
* * * * *
77897260 TTTAGGGCTAGGGTTTAGTGGTTTATGGTTTTTAGA-GTTTAGGG
128 TTTAGGGTTAGTGTTTAGTGGTTTAAGGTTTTTA-ATATTTATGG
* * * *
77897304 TTTCAATGTTTTTAAGGGAAAAATTAATTTAATTAGAGTTT-AGGGTTAATTAATTAAATTAACT
1 TTTTAGTGTTTTTAAGGGAAAAATTAA-TTAATTAGA-TTTGAGGATTAATTAATCAAATTAACT
* * * *
77897368 ATGAAATTTTAAAAAAAAATCAATTAAATTAGGGCTT-AGGGTTTTTAAGGTTAAGG--TTTTTA
64 ATGAAA--TT--AAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTT-AGGATTTTTTA
* * * ***
77897430 TTGTTTTAGGGTTAAG-GTTTAATGGTTTAGGGTTTTTAGGGTTTA-GG
124 TTTTTTTAGGGTT-AGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
* * * *
77897477 ATTTTAATAATTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATCAAATTAAC
1 -TTTTAGT-GTTTTTAAGGGAAAAATTAA-TTAATTAGATTTGAGGATTAATTAATCAAATTAAC
77897542 TATGAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTT
63 TATGAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTT
77897607 TTTAGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
128 TTTAGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
77897651 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
1 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
77897716 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
66 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
77897781 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
131 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
77897822 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
1 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
77897887 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
66 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
77897952 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
131 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
77897993 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
1 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
77898058 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
66 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
77898123 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
131 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
77898164 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
1 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
77898229 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
66 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
77898294 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
131 AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
77898335 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
1 TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
** *
77898400 GAAATTAAAAAAATTAATTAAATTAGGGTTTAGGGTTTTTTAGGGTT
66 GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTT
77898447 TATTAATTAA
Statistics
Matches: 1092, Mismatches: 33, Indels: 37
0.94 0.03 0.03
Matches are distributed among these distances:
171 800 0.73
172 86 0.08
173 54 0.05
174 54 0.05
175 69 0.06
176 6 0.01
177 23 0.02
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (171 bp):
TTTTAGTGTTTTTAAGGGAAAAATTAATTAATTAGATTTGAGGATTAATTAATCAAATTAACTAT
GAAATTAAAAAAATTAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAGGATTTTTTATTTTTTT
AGGGTTAGTGTTTAGTGGTTTAAGGTTTTTAATATTTATGG
Found at i:77897826 original size:24 final size:24
Alignment explanation
Indices: 77897791--77897836 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
77897781 AGGGTTAGTG
77897791 TTTAGTGGTTTAAG-GTTTTTAATA
1 TTTAGTGGTTT-AGTGTTTTTAATA
77897815 TTTA-TGGTTTTAGTGTTTTTAA
1 TTTAGTGG-TTTAGTGTTTTTAA
77897837 GGGAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (24 bp):
TTTAGTGGTTTAGTGTTTTTAATA
Found at i:77897997 original size:24 final size:24
Alignment explanation
Indices: 77897962--77898007 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
77897952 AGGGTTAGTG
77897962 TTTAGTGGTTTAAG-GTTTTTAATA
1 TTTAGTGGTTT-AGTGTTTTTAATA
77897986 TTTA-TGGTTTTAGTGTTTTTAA
1 TTTAGTGG-TTTAGTGTTTTTAA
77898008 GGGAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (24 bp):
TTTAGTGGTTTAGTGTTTTTAATA
Found at i:77898168 original size:24 final size:24
Alignment explanation
Indices: 77898133--77898178 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
77898123 AGGGTTAGTG
77898133 TTTAGTGGTTTAAG-GTTTTTAATA
1 TTTAGTGGTTT-AGTGTTTTTAATA
77898157 TTTA-TGGTTTTAGTGTTTTTAA
1 TTTAGTGG-TTTAGTGTTTTTAA
77898179 GGGAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (24 bp):
TTTAGTGGTTTAGTGTTTTTAATA
Found at i:77898339 original size:24 final size:24
Alignment explanation
Indices: 77898304--77898349 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
77898294 AGGGTTAGTG
77898304 TTTAGTGGTTTAAG-GTTTTTAATA
1 TTTAGTGGTTT-AGTGTTTTTAATA
77898328 TTTA-TGGTTTTAGTGTTTTTAA
1 TTTAGTGG-TTTAGTGTTTTTAA
77898350 GGGAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (24 bp):
TTTAGTGGTTTAGTGTTTTTAATA
Found at i:77898693 original size:125 final size:126
Alignment explanation
Indices: 77898467--77898774 Score: 469
Period size: 125 Copynumber: 2.5 Consensus size: 126
77898457 ATTAACTATT
* *
77898467 AATTACGGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAATAGTATCTGAAAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCATGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
* *
77898532 GAAAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTGTTAGCAA
66 GAAAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTGTCAGCAA
* * *
77898593 AATTACGGAAAAAAATCTCCCACGTGGAC-CTTTTTTTGCTACAGTAGTATCTGAAAAAA-AA-T
1 AATTACGG-AAAAAAGCTCCCATGTGGACAC-TCTTTTGCTACAGTAGTATCTGAAAAAATAATT
* *
77898655 TTGAGAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
64 TTGAAAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTGTCAGCAA
* * *
77898718 AATTACAGAAAAAAGCTCCCATATGGACACTCTTTTGCTATAGTAGTATCTGAAAAA
1 AATTACGGAAAAAAGCTCCCATGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAA
77898775 GCCTTAGACT
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
124 42 0.25
125 68 0.41
126 11 0.07
127 44 0.27
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCATGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
GAAAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTGTCAGCAA
Found at i:77905981 original size:22 final size:22
Alignment explanation
Indices: 77905953--77906000 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
77905943 TGTTATATTG
*
77905953 TTTGTCAATAATTGTAATTTTC
1 TTTGTCAATAATTGTAATTCTC
77905975 TTTGTCAATAATTGTAATTCTC
1 TTTGTCAATAATTGTAATTCTC
77905997 TTTG
1 TTTG
77906001 AACCTCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (22 bp):
TTTGTCAATAATTGTAATTCTC
Found at i:77906261 original size:14 final size:14
Alignment explanation
Indices: 77906238--77906271 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
77906228 TGAATTAAAT
77906238 TAATAAATAATTTA
1 TAATAAATAATTTA
*
77906252 TAATATATAATTTA
1 TAATAAATAATTTA
77906266 -AATAAA
1 TAATAAA
77906272 AATGATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAAATAATTTA
Found at i:77907227 original size:25 final size:25
Alignment explanation
Indices: 77907199--77907246 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
77907189 CGAGTAAATT
77907199 TGAAAAAGATATAGGCTATCCTATC
1 TGAAAAAGATATAGGCTATCCTATC
77907224 TGAAAAAGATATAGGCTATCCTA
1 TGAAAAAGATATAGGCTATCCTA
77907247 GAATGGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (25 bp):
TGAAAAAGATATAGGCTATCCTATC
Found at i:77907579 original size:22 final size:22
Alignment explanation
Indices: 77907554--77907595 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
77907544 CTTAAGCACT
77907554 TCGTATAACATTAA-AACATAGC
1 TCGTAT-ACATTAACAACATAGC
*
77907576 TCGTATACCTTAACAACATA
1 TCGTATACATTAACAACATA
77907596 AGGGGTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (22 bp):
TCGTATACATTAACAACATAGC
Found at i:77908774 original size:41 final size:41
Alignment explanation
Indices: 77908728--77908805 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
77908718 TATCACAAAT
* *
77908728 CTCACAAAAGCCCATGCTCTCAATGAGCACGCAGAGTAAGG
1 CTCACAAAAGCCCATGCTCTCAAAGAACACGCAGAGTAAGG
*
77908769 CTCACAAAAGCTCATGCTCTCAAAGAACACGCAGAGT
1 CTCACAAAAGCCCATGCTCTCAAAGAACACGCAGAGT
77908806 GAGACTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.15
Consensus pattern (41 bp):
CTCACAAAAGCCCATGCTCTCAAAGAACACGCAGAGTAAGG
Found at i:77908937 original size:28 final size:28
Alignment explanation
Indices: 77908906--77909005 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 28
77908896 CAAACTAAAT
77908906 AGAGAGCTCACACAAAGTAGAGCCAAAC
1 AGAGAGCTCACACAAAGTAGAGCCAAAC
* * * ** **
77908934 AGAGAGCTCGCACAAAAT-GAACTTAGT
1 AGAGAGCTCACACAAAGTAGAGCCAAAC
** *
77908961 AGAGAGCTTGCATAAAGTAGAGCCAAAC
1 AGAGAGCTCACACAAAGTAGAGCCAAAC
*
77908989 AAAGAGCTCACACAAAG
1 AGAGAGCTCACACAAAG
77909006 CGAACTTAAC
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
27 19 0.37
28 33 0.63
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (28 bp):
AGAGAGCTCACACAAAGTAGAGCCAAAC
Found at i:77908978 original size:55 final size:55
Alignment explanation
Indices: 77908898--77909030 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 55
77908888 TACTAAGGCA
* ** * * * *
77908898 AACTAAATAGAGAGCTCACACAAAGTAGAGCCAAACAGAGAGCTCGCACAAAATG
1 AACTTAATAGAGAGCTTGCATAAAGTAGAGCCAAACAAAGAGCTCACACAAAACG
* *
77908953 AACTTAGTAGAGAGCTTGCATAAAGTAGAGCCAAACAAAGAGCTCACACAAAGCG
1 AACTTAATAGAGAGCTTGCATAAAGTAGAGCCAAACAAAGAGCTCACACAAAACG
*
77909008 AACTTAACAGA-AGCTTGCATAAA
1 AACTTAATAGAGAGCTTGCATAAA
77909031 TTTGTGCTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 12 0.18
55 55 0.82
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (55 bp):
AACTTAATAGAGAGCTTGCATAAAGTAGAGCCAAACAAAGAGCTCACACAAAACG
Found at i:77911898 original size:34 final size:34
Alignment explanation
Indices: 77911860--77911957 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 34
77911850 TTACTGTTGA
* *
77911860 ATTGATTTATGATAAGCATATTAATTGCTACCAT
1 ATTGATCTATTATAAGCATATTAATTGCTACCAT
* * * * *
77911894 ATTGAACTATTATAAACATATTAATTGTTATCTT
1 ATTGATCTATTATAAGCATATTAATTGCTACCAT
* *
77911928 ATTGATCTGTTATAAGCATATTAAATGCTA
1 ATTGATCTATTATAAGCATATTAATTGCTA
77911958 TCGAATTGAT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (34 bp):
ATTGATCTATTATAAGCATATTAATTGCTACCAT
Found at i:77911966 original size:34 final size:34
Alignment explanation
Indices: 77911871--77911990 Score: 116
Period size: 34 Copynumber: 3.5 Consensus size: 34
77911861 TTGATTTATG
* *
77911871 ATAAGCATATTAATTGCTA-CCATATTGAACTATT
1 ATAAGCATATTAATTGCTATCCA-ATTGATCTGTT
* * **
77911905 ATAAACATATTAATTGTTATCTTATTGATCTGTT
1 ATAAGCATATTAATTGCTATCCAATTGATCTGTT
* * * *
77911939 ATAAGCATATTAAATGCTATCGAATTGATATGCT
1 ATAAGCATATTAATTGCTATCCAATTGATCTGTT
*
77911973 ATAAGCATGTTACATTGC
1 ATAAGCATATTA-ATTGC
77911991 ATTGCATGAG
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
34 64 0.93
35 5 0.07
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (34 bp):
ATAAGCATATTAATTGCTATCCAATTGATCTGTT
Found at i:77914597 original size:17 final size:17
Alignment explanation
Indices: 77914545--77914604 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
77914535 AAAAATTTAA
77914545 TATTT-AAAATAAT-TT
1 TATTTAAAAATAATATT
* ** *
77914560 TAATTAATTACAATA-T
1 TATTTAAAAATAATATT
77914576 TATTTAAAAATAATATT
1 TATTTAAAAATAATATT
77914593 TATTTAAAAATA
1 TATTTAAAAATA
77914605 TTTTAATATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 4 0.12
16 17 0.50
17 13 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTAAAAATAATATT
Found at i:77924564 original size:21 final size:20
Alignment explanation
Indices: 77924534--77924576 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
77924524 TTATATTTAA
77924534 ATAAAATTCTTA-TATTTATTT
1 ATAAAATTC-TAGTATTT-TTT
*
77924555 ATAAATTTCTAGTATTTTTT
1 ATAAAATTCTAGTATTTTTT
77924575 AT
1 AT
77924577 TTCACAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (20 bp):
ATAAAATTCTAGTATTTTTT
Found at i:77938620 original size:53 final size:54
Alignment explanation
Indices: 77938516--77938624 Score: 202
Period size: 53 Copynumber: 2.0 Consensus size: 54
77938506 AGGTATTACT
77938516 TTGAGTTGGAATTCACAAGTTTTTAAACATCAAAAAACCATAATTTTTGTGAGA
1 TTGAGTTGGAATTCACAAGTTTTTAAACATCAAAAAACCATAATTTTTGTGAGA
*
77938570 TTGAGTTGGAATTCACAAGTTTTT-AACATCAAAAAGCCATAATTTTTGTGAGA
1 TTGAGTTGGAATTCACAAGTTTTTAAACATCAAAAAACCATAATTTTTGTGAGA
77938623 TT
1 TT
77938625 TTTGAGCTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 30 0.56
54 24 0.44
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (54 bp):
TTGAGTTGGAATTCACAAGTTTTTAAACATCAAAAAACCATAATTTTTGTGAGA
Found at i:77942128 original size:16 final size:17
Alignment explanation
Indices: 77942096--77942128 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
77942086 ATTGACTAAA
*
77942096 TGTTATATATGTATATT
1 TGTTATATATCTATATT
77942113 TGTTATA-ATCTATATT
1 TGTTATATATCTATATT
77942129 GGATGACCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (17 bp):
TGTTATATATCTATATT
Found at i:77956745 original size:29 final size:29
Alignment explanation
Indices: 77956706--77956784 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
77956696 CTTAATAATC
*
77956706 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
77956736 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
77956765 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77956785 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:77961297 original size:16 final size:16
Alignment explanation
Indices: 77961276--77961315 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
77961266 TCTCAGAATA
77961276 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
77961292 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
77961308 ATAAAGAA
1 ATAAAGAA
77961316 AACCCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.12
Consensus pattern (16 bp):
ATAAAGAATACAAAAC
Found at i:77965313 original size:63 final size:63
Alignment explanation
Indices: 77965238--77965400 Score: 238
Period size: 63 Copynumber: 2.6 Consensus size: 63
77965228 TGAGCCACAC
* * * * *
77965238 GGCCGTGTAACTCGCTATTTTAGAATTAGAGTCACACGGGCCAGGGACATGGGCGTGTGTCCA
1 GGCCGTGTAACTCACTATTTTAGAATTAGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
* * *
77965301 GGCTGTGTAACTCACTATTTTGGAATTGGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
1 GGCCGTGTAACTCACTATTTTAGAATTAGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
77965364 GGCCGTGTAACTCAACT-TTTTAGAATTAGAGTCACAC
1 GGCCGTGTAACTC-ACTATTTTAGAATTAGAGTCACAC
77965401 AAGCGTGTGC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 85 0.97
64 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (63 bp):
GGCCGTGTAACTCACTATTTTAGAATTAGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
Found at i:77966062 original size:12 final size:12
Alignment explanation
Indices: 77966045--77966077 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
77966035 CCAGCCACAC
77966045 ATATTAATTTTT
1 ATATTAATTTTT
77966057 ATATT-ATTTTT
1 ATATTAATTTTT
77966068 ATA-TAATTTT
1 ATATTAATTTT
77966078 CAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:77966239 original size:30 final size:30
Alignment explanation
Indices: 77966205--77966267 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
77966195 ACTTAACAAG
77966205 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
77966235 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
77966265 CAA
1 CAA
77966268 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:77966323 original size:11 final size:11
Alignment explanation
Indices: 77966296--77966343 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
77966286 ATATCCAAAC
*
77966296 AATAACAGCAA
1 AATAATAGCAA
77966307 AATAATAGCAA
1 AATAATAGCAA
* *
77966318 TATAATAGTAA
1 AATAATAGCAA
**
77966329 AATGGTAGCAA
1 AATAATAGCAA
77966340 AATA
1 AATA
77966344 GGGAGAAAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.21
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:77968443 original size:133 final size:136
Alignment explanation
Indices: 77968201--77968445 Score: 286
Period size: 133 Copynumber: 1.8 Consensus size: 136
77968191 GGAAATTGCT
* * * * *
77968201 ACCCAGCACGATAGGGTACTATTCCCCGAATTGCCAAACATCGAACACTTCTTTCGTTTTAAAGG
1 ACCCAGCACGATAGGGTACGATTCCCCAAATCGCCAAACATCGAACACTCCTTTCGTTTTAAAGA
* * * * *
77968266 GCTTTTAGAAAACGTGAATGAAATTCCGAAGGGATCTTCAATTGTTTAGACCAAATGAAAAAAAA
66 GCTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCAATTGTTTAGACCAAATGAAAAAAAA
77968331 AGCGCA
131 AGCGCA
*
77968337 ACCCAGCACGATAGGGTACGATT-CTCAAATCGCCAAACATCGAACA-TCCTTT-GTTTTGAAA-
1 ACCCAGCACGATAGGGTACGATTCCCCAAATCGCCAAACATCGAACACTCCTTTCGTTTT-AAAG
* * * *
77968398 AGTTTTTA-ATAAATATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTT
65 AGCTTTTAGA-AAACATGAATGAAATACC-AAAGGAATATTCAATTGTTT
77968446 TGAGCAAACG
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
132 3 0.03
133 38 0.42
134 8 0.09
135 20 0.22
136 22 0.24
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (136 bp):
ACCCAGCACGATAGGGTACGATTCCCCAAATCGCCAAACATCGAACACTCCTTTCGTTTTAAAGA
GCTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCAATTGTTTAGACCAAATGAAAAAAAA
AGCGCA
Found at i:77969424 original size:19 final size:21
Alignment explanation
Indices: 77969400--77969443 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
77969390 TAAAATGGGT
*
77969400 AATAAATAAA-AAATTTTAA-
1 AATAAATAAATAAAGTTTAAG
77969419 AATAAATAAATAAAGTTTAAG
1 AATAAATAAATAAAGTTTAAG
77969440 AATA
1 AATA
77969444 TATTTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AATAAATAAATAAAGTTTAAG
Found at i:77969755 original size:19 final size:19
Alignment explanation
Indices: 77969728--77969774 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
77969718 TTAATACAAA
* * *
77969728 GTTTAAAATAACTAAAATG
1 GTTTTAAATAAATAAAAAG
77969747 GTTTTAAATAAATAAAAAG
1 GTTTTAAATAAATAAAAAG
77969766 G-TTTAAATA
1 GTTTTAAATA
77969775 TATATGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (19 bp):
GTTTTAAATAAATAAAAAG
Found at i:77971464 original size:131 final size:131
Alignment explanation
Indices: 77971227--77971768 Score: 818
Period size: 131 Copynumber: 4.1 Consensus size: 131
77971217 GCGGCTTCGA
* * * * *
77971227 GGAGATAAGACCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGA-TGGTGGATT
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACT--T-GCTT
* * *
77971291 AAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCTTCGTCTTCGATTTGCCCCACTGCAACT
63 AAATCTGCTTCACTGCAACTTCAGAAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACT
77971356 TCAG
128 TCAG
* *
77971360 GGAGACAAGATCTACAATATTTAGCCTACTTCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
*
77971425 TCTGCTTCACTACAACTTCAGAAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
66 TCTGCTTCACTGCAACTTCAGAAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
77971490 G
131 G
*
77971491 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACATCTTTAGGGAGCTAGGACTTGCTTAAA
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
* * * *
77971556 TCTGCTTTATTGCAACTTCA-AGAAGCCAAGATTCGTCGTCTTCGATTCGCCCCACTATAACTTC
66 TCTGCTTCACTGCAACTTCAGA-AAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTC
77971620 AG
130 AG
* * *
77971622 GAAGACAAGATCTACAATATTCAGTCTACTCCACTACATCTTTAGGGAGCTAGGACTTGCTTAAA
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
* * * **
77971687 TCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCATCTTTGATTTGCCCCACTGGAACTTCA
66 TCTGCTTCACTGCAACTTCAGAAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
77971752 G
131 G
77971753 GGAGACAAGATCTACA
1 GGAGACAAGATCTACA
77971769 TTTTGTTTCA
Statistics
Matches: 376, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
130 1 0.00
131 324 0.86
132 1 0.00
133 49 0.13
134 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (131 bp):
GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
TCTGCTTCACTGCAACTTCAGAAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
G
Found at i:77973831 original size:79 final size:81
Alignment explanation
Indices: 77973695--77973879 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
77973685 TTGAATGATG
*
77973695 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
77973759 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
77973774 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
77973836 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
77973854 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77973880 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:77973893 original size:40 final size:40
Alignment explanation
Indices: 77973696--77973879 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
77973686 TGAATGATGT
* * * *
77973696 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
77973736 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
77973776 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
77973814 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
77973855 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
77973880 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:77973901 original size:79 final size:79
Alignment explanation
Indices: 77973748--77973912 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
77973738 GGACTAAGAT
* **
77973748 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
77973813 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
77973827 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
77973890 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
77973906 CCGAAGG
1 CCGAAGG
77973913 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 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:77976161 original size:12 final size:12
Alignment explanation
Indices: 77976134--77976183 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
77976124 TGGCCTCTCC
77976134 TTTTCTT-TTC-
1 TTTTCTTCTTCT
*
77976144 TTTTCTTCTTAT
1 TTTTCTTCTTCT
77976156 TTTTCTTCTTCT
1 TTTTCTTCTTCT
*
77976168 TCTTCTTCTTCT
1 TTTTCTTCTTCT
77976180 TTTT
1 TTTT
77976184 TTTAAGGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 7 0.21
11 2 0.06
12 25 0.74
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTCTTCT
Found at i:77976164 original size:3 final size:3
Alignment explanation
Indices: 77976136--77976180 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
77976126 GCCTCTCCTT
* *
77976136 TTC TT- TTC TT- TTC TTC TTA TTT TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
77976181 TTTTTTAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:77977459 original size:43 final size:42
Alignment explanation
Indices: 77977412--77977497 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 42
77977402 AAATAATGAT
* * ** * *
77977412 TCTAAGGATGATTATTTGTATGGTATGATCATGAATGAAAGAA
1 TCTAAGGATAATCATTTGTACAGTATGA-AATGAATAAAAGAA
77977455 TCTAAGGATAATCATTTGTACAGTATGAAATGAATAAAAGAA
1 TCTAAGGATAATCATTTGTACAGTATGAAATGAATAAAAGAA
77977497 T
1 T
77977498 ATTTACTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 13 0.35
43 24 0.65
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.33
Consensus pattern (42 bp):
TCTAAGGATAATCATTTGTACAGTATGAAATGAATAAAAGAA
Found at i:77978769 original size:14 final size:14
Alignment explanation
Indices: 77978750--77978777 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77978740 AAATGATGCA
77978750 ATGCAATGCAAATG
1 ATGCAATGCAAATG
77978764 ATGCAATGCAAATG
1 ATGCAATGCAAATG
77978778 TAAATGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (14 bp):
ATGCAATGCAAATG
Found at i:77981922 original size:19 final size:19
Alignment explanation
Indices: 77981895--77981941 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
77981885 TTAATACAAA
* * *
77981895 GTTTAAAATAACTAAAATG
1 GTTTTAAATAAATAAAAAG
77981914 GTTTTAAATAAATAAAAAG
1 GTTTTAAATAAATAAAAAG
77981933 G-TTTAAATA
1 GTTTTAAATA
77981942 TATACGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (19 bp):
GTTTTAAATAAATAAAAAG
Found at i:77983232 original size:18 final size:18
Alignment explanation
Indices: 77983217--77983269 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 18
77983207 TATAAAATGA
77983217 AATAATTATTTCAAATAT
1 AATAATTATTTCAAATAT
* * *
77983235 AATTATTATTTTTATATAT
1 AATAATTA-TTTCAAATAT
77983254 AA-AA-TATTTCAAATAT
1 AATAATTATTTCAAATAT
77983270 CATTGTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 8 0.29
17 2 0.07
18 8 0.29
19 10 0.36
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAATTATTTCAAATAT
Found at i:77985040 original size:20 final size:20
Alignment explanation
Indices: 77985017--77985058 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
77985007 ATTAAAATTG
77985017 ATATCCTAA-AACTAAAAATA
1 ATAT-CTAATAACTAAAAATA
* *
77985037 ATATTTAATAACTAAAATTA
1 ATATCTAATAACTAAAAATA
77985057 AT
1 AT
77985059 CAAACTAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATCTAATAACTAAAAATA
Found at i:77994861 original size:68 final size:68
Alignment explanation
Indices: 77994752--77994887 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
77994742 TTTCGAAGTT
77994752 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
1 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
77994817 GAA
66 GAA
77994820 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
1 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
77994885 GAA
66 GAA
77994888 AGATTCAATC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (68 bp):
GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
GAA
Found at i:77995291 original size:31 final size:31
Alignment explanation
Indices: 77995256--77995322 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
77995246 CTTCGTGCAT
* *
77995256 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
77995287 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
77995318 TAAAA
1 TAAAA
77995323 AATACAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.57, C:0.18, G:0.07, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:77995605 original size:21 final size:21
Alignment explanation
Indices: 77995581--77995635 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
77995571 TCTGCTGCCA
77995581 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
* *
77995602 TCGCTGTTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
**
77995623 TCTTTGCTGCCTC
1 TCGCTGCTGCCTC
77995636 CGCTCTGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.20, T:0.33
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:77999131 original size:90 final size:90
Alignment explanation
Indices: 77998978--77999154 Score: 345
Period size: 90 Copynumber: 2.0 Consensus size: 90
77998968 TAAGATGTGA
77998978 TAATCATGTGATTCTAATGAATATAATCTTCGATCTTTAAGACTCACACATCGAGATATATTTGA
1 TAATCATGTGATTCTAATGAATATAATCTTCGATCTTTAAGACTCACACATCGAGATATATTTGA
77999043 CGCATACGCATCTGGGACCTTTTGG
66 CGCATACGCATCTGGGACCTTTTGG
*
77999068 TAATCATGTGATTTTAATGAATATAATCTTCGATCTTTAAGACTCACACATCGAGATATATTTGA
1 TAATCATGTGATTCTAATGAATATAATCTTCGATCTTTAAGACTCACACATCGAGATATATTTGA
77999133 CGCATACGCATCTGGGACCTTT
66 CGCATACGCATCTGGGACCTTT
77999155 ATATCCTTCA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (90 bp):
TAATCATGTGATTCTAATGAATATAATCTTCGATCTTTAAGACTCACACATCGAGATATATTTGA
CGCATACGCATCTGGGACCTTTTGG
Found at i:77999448 original size:31 final size:31
Alignment explanation
Indices: 77999408--77999467 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
77999398 AAATGTTGTG
*
77999408 CTCCTAATAAGGCAACTAAAAAAAATACTTT
1 CTCCCAATAAGGCAACTAAAAAAAATACTTT
77999439 CTCCCAATAAGGCAACTAAAAAAAATACT
1 CTCCCAATAAGGCAACTAAAAAAAATACT
77999468 CCTTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.50, C:0.22, G:0.07, T:0.22
Consensus pattern (31 bp):
CTCCCAATAAGGCAACTAAAAAAAATACTTT
Found at i:78001038 original size:9 final size:9
Alignment explanation
Indices: 78001020--78001184 Score: 82
Period size: 9 Copynumber: 19.0 Consensus size: 9
78001010 TAAGTATAAT
78001020 TAAGTTATG
1 TAAGTTATG
*
78001029 TAAGTCATG
1 TAAGTTATG
78001038 T-A-TTATG
1 TAAGTTATG
78001045 TAAGTTATG
1 TAAGTTATG
78001054 T-A-TTATG
1 TAAGTTATG
78001061 TAAGTTATG
1 TAAGTTATG
*
78001070 TAAATTATG
1 TAAGTTATG
* *
78001079 TAAATCATG
1 TAAGTTATG
* *
78001088 -AATTTTGATCTT
1 TAA-GTT-A--TG
*
78001100 TAAATTATG
1 TAAGTTATG
78001109 TAAGTTATG
1 TAAGTTATG
78001118 T-A-TTATG
1 TAAGTTATG
78001125 TAAGTTATG
1 TAAGTTATG
*
78001134 -AAATT-TG
1 TAAGTTATG
* **
78001141 -AACTTTAAA
1 TAA-GTTATG
*
78001150 TTA-TTATG
1 TAAGTTATG
78001158 TAAGTTATG
1 TAAGTTATG
*
78001167 TAAATTATG
1 TAAGTTATG
*
78001176 TAACTTATG
1 TAAGTTATG
78001185 AAATTTGGTC
Statistics
Matches: 121, Mismatches: 20, Indels: 30
0.71 0.12 0.18
Matches are distributed among these distances:
7 21 0.17
8 19 0.16
9 73 0.60
10 2 0.02
11 1 0.01
12 3 0.02
13 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:78001130 original size:16 final size:16
Alignment explanation
Indices: 78001024--78001133 Score: 107
Period size: 16 Copynumber: 6.9 Consensus size: 16
78001014 TATAATTAAG
*
78001024 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
78001040 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
78001056 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* * *
78001074 TTATGTAAATCATGAA
1 TTATGTAAGTTATGTA
* ** **
78001090 TTTTG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
78001104 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
78001120 TTATGTAAGTTATG
1 TTATGTAAGTTATG
78001134 AAATTTGAAC
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
14 7 0.09
15 5 0.07
16 51 0.67
18 13 0.17
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:78001232 original size:30 final size:30
Alignment explanation
Indices: 78001168--78001234 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
78001158 TAAGTTATGT
** *
78001168 AAATTATGTAACTTATGAAATTTGGTCTTT
1 AAATTATGTAACTTATGAAATTTGAACTTC
*
78001198 AAATTATGTAAGTTATGAAATTTGAACTTC
1 AAATTATGTAACTTATGAAATTTGAACTTC
78001228 AAATTAT
1 AAATTAT
78001235 TATGTAAATT
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:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (30 bp):
AAATTATGTAACTTATGAAATTTGAACTTC
Found at i:78001247 original size:9 final size:9
Alignment explanation
Indices: 78001233--78001367 Score: 59
Period size: 9 Copynumber: 14.8 Consensus size: 9
78001223 ACTTCAAATT
78001233 ATTATGTAA
1 ATTATGTAA
78001242 ATTATGTAA
1 ATTATGTAA
*
78001251 CTTATG-AA
1 ATTATGTAA
*
78001259 ATTTGATCTTTAA
1 A-TT-A--TGTAA
78001272 ATTATGTAA
1 ATTATGTAA
*
78001281 GTTATGT--
1 ATTATGTAA
*
78001288 ATCATGTAA
1 ATTATGTAA
*
78001297 GTTATG-AA
1 ATTATGTAA
*
78001305 ATTTGATCTTTAA
1 A-TT-A--TGTAA
78001318 ATTATGTAA
1 ATTATGTAA
* *
78001327 GTCATGT--
1 ATTATGTAA
78001334 ATTATGTAA
1 ATTATGTAA
*
78001343 GTTCA-GTAA
1 ATT-ATGTAA
78001352 ATTATGTAA
1 ATTATGTAA
78001361 ATTATGT
1 ATTATGT
78001368 GAGTTGCTGG
Statistics
Matches: 92, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
7 10 0.11
8 5 0.05
9 60 0.65
10 3 0.03
11 2 0.02
12 6 0.07
13 6 0.07
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.45
Consensus pattern (9 bp):
ATTATGTAA
Found at i:78001287 original size:81 final size:81
Alignment explanation
Indices: 78001113--78001288 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 81
78001103 ATTATGTAAG
* *
78001113 TTATGT-ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGT
1 TTATGTAATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAAATTATGT
* **
78001177 AACTTATGAAATTTGG
66 AAATTATGAAATTTAA
*
78001193 TCT-T-TAAATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAACTTAT
1 T-TATGT-AATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAAATTAT
**
78001256 G-AAATT-TGATCTTTAAA
64 GTAAATTATGAAATTT-AA
78001273 TTATGTAAGTTATGTA
1 TTATGTAA-TTATGTA
78001289 TCATGTAAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
79 8 0.10
80 10 0.12
81 63 0.78
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (81 bp):
TTATGTAATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAAATTATGT
AAATTATGAAATTTAA
Found at i:78001306 original size:46 final size:46
Alignment explanation
Indices: 78001200--78001345 Score: 201
Period size: 46 Copynumber: 3.3 Consensus size: 46
78001190 TGGTCTTTAA
* * * *
78001200 ATTATGTAAGTTATGAAATTTGAACTTCAAATTAT-TATG-TA--A
1 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
*
78001242 ATTATGTAACTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
1 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
* *
78001288 ATCATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGT
1 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
78001334 ATTATGTAAGTT
1 ATTATGTAAGTT
78001346 CAGTAAATTA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
42 32 0.35
43 3 0.03
44 2 0.02
46 54 0.59
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (46 bp):
ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
Found at i:78001414 original size:17 final size:17
Alignment explanation
Indices: 78001392--78001425 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
78001382 CTTGAAAAAA
*
78001392 ATATATTACTTTTGAAT
1 ATATATTAATTTTGAAT
78001409 ATATATTAATTTTGAAT
1 ATATATTAATTTTGAAT
78001426 TAGAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATATTAATTTTGAAT
Found at i:78002078 original size:16 final size:17
Alignment explanation
Indices: 78002047--78002079 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
78002037 ATTTTTTAGT
*
78002047 ATTTTACTCAATTTAAA
1 ATTTTACTCAAGTTAAA
78002064 ATTTTA-TCAAGTTAAA
1 ATTTTACTCAAGTTAAA
78002080 CAAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTTACTCAAGTTAAA
Found at i:78002881 original size:183 final size:183
Alignment explanation
Indices: 78002573--78002941 Score: 702
Period size: 183 Copynumber: 2.0 Consensus size: 183
78002563 CCTAGAACAG
78002573 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
78002638 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
*
78002703 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
78002756 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
78002821 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* *
78002886 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
78002939 ATG
1 ATG
78002942 GAACTATATC
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 182 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:78003031 original size:14 final size:13
Alignment explanation
Indices: 78003012--78003041 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
78003002 CAATATAATT
78003012 TTACTTCATATATA
1 TTACTTCATATA-A
78003026 TTACTTCATATAA
1 TTACTTCATATAA
78003039 TTA
1 TTA
78003042 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:78004849 original size:28 final size:28
Alignment explanation
Indices: 78004798--78004894 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
78004788 CAAAACTCTA
*
78004798 AACCTTAAACCATTAAACTATATCCCCAT
1 AACCTTAAACCACTAAACTATATCCCC-T
78004827 AACCTTAAACC-CTAAACTATATCCCCT
1 AACCTTAAACCACTAAACTATATCCCCT
* * * *
78004854 AACCATAAACCACAAAACAATAACCCCT
1 AACCTTAAACCACTAAACTATATCCCCT
78004882 AAGCCTT-AACCAC
1 AA-CCTTAAACCAC
78004895 AAAATGTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 11 0.18
28 35 0.58
29 14 0.23
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (28 bp):
AACCTTAAACCACTAAACTATATCCCCT
Found at i:78005177 original size:202 final size:203
Alignment explanation
Indices: 78004831--78005247 Score: 687
Period size: 202 Copynumber: 2.1 Consensus size: 203
78004821 CCCCATAACC
78004831 TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
1 TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
* * *
78004896 AAATGTATGTATTAATGATAACCCTTAACTATATCCCTTAATCCTTAAACCACAAAATAATAACA
66 AAATGTATGAATTAATCATAACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACA
* * *
78004961 CTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAACGTACCTTAAACT
131 CTAATTAATCAATACTCTAAACCTTAAACCAGTAAACTATATCCCCTACTAAAGTACCCTAAACT
78005026 ATAT-CCG
196 ATATCCCG
* * *
78005033 TTAAACCCTGAACTATATCCCCTAACCATAAACCACAAAATAATAACCCCTAAGCCTTAACCACC
1 TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
* *
78005098 AAATGTATGAATTAATCATAACCCTAAACTATAT-CCTCTGATTCTTAAACCACAAAATAATAAC
66 AAATGTATGAATTAATCATAACCCTAAACTATATCCCT-TAATCCTTAAACCACAAAATAATAAC
*
78005162 ACTAATTAATCAATACTCTAAACCTTAATCCAGTAAACTATATCCCCTACTAAAGTACCCTAAAC
130 ACTAATTAATCAATACTCTAAACCTTAAACCAGTAAACTATATCCCCTACTAAAGTACCCTAAAC
78005227 TATATCCCG
195 TATATCCCG
*
78005236 -TAAACCTTAAAC
1 TTAAACCCTAAAC
78005248 CACAAAATAA
Statistics
Matches: 199, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
201 3 0.02
202 193 0.97
203 3 0.02
ACGTcount: A:0.42, C:0.28, G:0.03, T:0.26
Consensus pattern (203 bp):
TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
AAATGTATGAATTAATCATAACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACA
CTAATTAATCAATACTCTAAACCTTAAACCAGTAAACTATATCCCCTACTAAAGTACCCTAAACT
ATATCCCG
Found at i:78005257 original size:100 final size:99
Alignment explanation
Indices: 78004916--78005257 Score: 268
Period size: 100 Copynumber: 3.4 Consensus size: 99
78004906 ATTAATGATA
* * *
78004916 ACCCTTAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
1 ACCCTAAACTATATCCCGTAAACCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
* *
78004981 ACCTTAAACCATTAAACTATATCCCCTACTAACGT
66 ACCTT-AACCACTAAACTATATCCCCTACTAAAGT
* * * * * * *
78005016 ACCTTAAACTATAT-CCGTTAAACCCTGAACTATATCCCCTAACCATAA-ACCACAAAATAAT-A
1 ACCCTAAACTATATCCCG-TAAA-CCT----TA-AACCAC-AA-AATAATAACACTAATTAATCA
* * * * * **** * *
78005078 A-CCCCTAAGCCTTAACCACCAAA-TGTATGAATTAAT-CA-T
57 ATACTCTAAACCTTAACCACTAAACTATATCCCCTACTAAAGT
* **
78005117 AACCCTAAACTATATCCTC-TGATTCTTAAACCACAAAATAATAACACTAATTAATCAATACTCT
1 -ACCCTAAACTATATCC-CGTAAACCTTAAACCACAAAATAATAACACTAATTAATCAATACTCT
*
78005181 AAACCTTAATCCAGTAAACTATATCCCCTACTAAAGT
64 AAACCTTAA-CCACTAAACTATATCCCCTACTAAAGT
78005218 ACCCTAAACTATATCCCGTAAACCTTAAACCACAAAATAA
1 ACCCTAAACTATATCCCGTAAACCTTAAACCACAAAATAA
78005258 AAACCCCTAA
Statistics
Matches: 174, Mismatches: 48, Indels: 40
0.66 0.18 0.15
Matches are distributed among these distances:
94 4 0.02
95 12 0.07
96 6 0.03
97 13 0.07
98 6 0.03
99 10 0.06
100 51 0.29
101 7 0.04
102 15 0.09
103 8 0.05
104 9 0.05
105 11 0.06
106 6 0.03
107 12 0.07
108 4 0.02
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.27
Consensus pattern (99 bp):
ACCCTAAACTATATCCCGTAAACCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
ACCTTAACCACTAAACTATATCCCCTACTAAAGT
Found at i:78005300 original size:7 final size:7
Alignment explanation
Indices: 78005288--78005368 Score: 67
Period size: 7 Copynumber: 11.4 Consensus size: 7
78005278 CTAAACCATT
78005288 TAACCCA
1 TAACCCA
78005295 TAACCCA
1 TAACCCA
78005302 TAACCCA
1 TAACCCA
*
78005309 TAAACCCC
1 T-AACCCA
78005317 TAA-CCA
1 TAACCCA
78005323 CTAACCCA
1 -TAACCCA
*
78005331 TAACCCT
1 TAACCCA
78005338 TAAACCC-
1 T-AACCCA
* *
78005345 CAACCCT
1 TAACCCA
*
78005352 TAAACCA
1 TAACCCA
*
78005359 TAAGCCA
1 TAACCCA
78005366 TAA
1 TAA
78005369 ACATAATCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
6 7 0.11
7 40 0.66
8 14 0.23
ACGTcount: A:0.42, C:0.41, G:0.01, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:78005330 original size:29 final size:28
Alignment explanation
Indices: 78005289--78005370 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
78005279 TAAACCATTT
*
78005289 AACCCATAACCCATAACCCATAAACCCC
1 AACCCTTAACCCATAACCCATAAACCCC
*
78005317 TAACCAC-TAACCCATAACCCTTAAACCCC
1 -AACC-CTTAACCCATAACCCATAAACCCC
* *
78005346 AACCCTTAAACCATAAGCCATAAAC
1 AACCCTTAACCCATAACCCATAAAC
78005371 ATAATCCTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 20 0.43
29 25 0.53
30 1 0.02
ACGTcount: A:0.43, C:0.41, G:0.01, T:0.15
Consensus pattern (28 bp):
AACCCTTAACCCATAACCCATAAACCCC
Found at i:78005369 original size:14 final size:14
Alignment explanation
Indices: 78005272--78005399 Score: 82
Period size: 14 Copynumber: 8.9 Consensus size: 14
78005262 CCCTAAGCAT
*
78005272 TAACCCCTAAACCA
1 TAACCCATAAACCA
*
78005286 TTTAACCCATAACCCA
1 --TAACCCATAAACCA
*
78005302 TAACCCATAAACCCC
1 TAACCCATAAA-CCA
*
78005317 TAA-CCACTAACCCA
1 TAACCCA-TAAACCA
* *
78005331 TAACCCTTAAACCC
1 TAACCCATAAACCA
* *
78005345 CAACCCTTAAACCA
1 TAACCCATAAACCA
*
78005359 TAAGCCATAAA-CA
1 TAACCCATAAACCA
* *
78005372 TAATCCTTAAACCCA
1 TAACCCATAAA-CCA
78005387 TAAACCC-TAAACC
1 T-AACCCATAAACC
78005400 TTTAAATAGT
Statistics
Matches: 89, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
13 11 0.12
14 45 0.51
15 17 0.19
16 16 0.18
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.18
Consensus pattern (14 bp):
TAACCCATAAACCA
Found at i:78005399 original size:7 final size:8
Alignment explanation
Indices: 78005289--78005399 Score: 52
Period size: 7 Copynumber: 15.5 Consensus size: 8
78005279 TAAACCATTT
78005289 AACCCAT-
1 AACCCATA
78005296 AACCCAT-
1 AACCCATA
78005303 AACCCATA
1 AACCCATA
*
78005311 AACCCCT-
1 AACCCATA
78005318 AA-CCACT-
1 AACCCA-TA
78005325 AACCCAT-
1 AACCCATA
*
78005332 AACCCTTA
1 AACCCATA
*
78005340 AACCC--C
1 AACCCATA
*
78005346 AACCCTTA
1 AACCCATA
78005354 AA-CCAT-
1 AACCCATA
*
78005360 AAGCCATA
1 AACCCATA
78005368 AA--CAT-
1 AACCCATA
* *
78005373 AATCCTTA
1 AACCCATA
78005381 AACCCATA
1 AACCCATA
78005389 AACCC-TA
1 AACCCATA
78005396 AACC
1 AACC
78005400 TTTAAATAGT
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
5 2 0.02
6 12 0.14
7 41 0.49
8 29 0.35
ACGTcount: A:0.43, C:0.40, G:0.01, T:0.16
Consensus pattern (8 bp):
AACCCATA
Found at i:78006586 original size:15 final size:14
Alignment explanation
Indices: 78006568--78006607 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
78006558 ATTTAGATGT
78006568 TTAAAATTTTGATTA
1 TTAAAATTTTG-TTA
*
78006583 TTAAATTTTTGTTA
1 TTAAAATTTTGTTA
78006597 TTAAATATTTT
1 TTAAA-ATTTT
78006608 TAAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TTAAAATTTTGTTA
Found at i:78010857 original size:7 final size:7
Alignment explanation
Indices: 78010845--78010870 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
78010835 TTAATTGATT
78010845 CCTAAAC
1 CCTAAAC
78010852 CCTAAAC
1 CCTAAAC
78010859 CCTAAAC
1 CCTAAAC
78010866 CCTAA
1 CCTAA
78010871 TTCTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAAAC
Found at i:78011517 original size:711 final size:714
Alignment explanation
Indices: 78010149--78011540 Score: 2184
Period size: 711 Copynumber: 1.9 Consensus size: 714
78010139 ATTTTTAGGA
* * * *
78010149 CCTAATTGTGAAAATGTTTGGAATTAAAGTCTATTGCTGAAATTCTGATTCCTAAAGGTTGTAAA
1 CCTAATTCTGAAAATGCTTAGAATTAAAGTCTATTACTGAAATTCTGATTCCTAAAGGTTGTAAA
78010214 CTAGTTTAAGGTGATAGAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTGA
66 CTAGTTTAAGGTGATAGAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTGA
* * *
78010279 GTAGGGACGAAATTGTTATTTATTAAAAGCTTAAGGGAAAAATGGTAATAAACAGCTTGCACTAA
131 GTAGGGACGAAATTATCATTTATTAAAAGCTTAAGGGAAAAATGGTAATAAACAGCTTGCACAAA
*
78010344 AACAATATTGGACAGCAGCAGTAGACTAACTTTGAAAAATCACCATAAATTTTAGAAATCAAATT
196 AACAATATTGGACAGCAGCAGTAGACTAACTTTGAAAAATCACCATAAATTGTAGAAATCAAATT
*
78010409 AGAAGATGAAAAAAAAAATATGAAATTAAAGCTTATTGAATCTAGTTTCTCATAGAAGAAACAGT
261 AGAAGAT---AAAAAAAATATGAAATTAAAGATTATTGAATCTAGTTTCTCATAGAAGAAACAGT
*
78010474 GTAAACAATGGATCTGTAAATCATGAGATATAATGAATTTTGTGAGACAAGGTCAGAATGAATTC
323 GTAAACAATGGATCTGTAAATCATGAGATATAATGAATCTTGTGAGACAAGGTCAGAATGAATTC
* * *
78010539 GAGTTCCCCTATTCTGACTTTGAAAAATCATAAAAAATTTAATAAAAATAATTATGGGCTTAAAT
388 GAGTTCCCCTATTCTAACTTTGAAAAATCATAAAAAATTGAATAAAAATAATTAGGGGCTTAAAT
* * * *
78010604 TTATATCTCTAGAATCCTGAATGAGTCTATTTTCAAGAGAAACAAACAGGAACATTATCTAAATT
453 TTATATCTATAGAATCCTGAATGAGTCTATTTTCAAGAGAAACAAACAAGAACATCATCTAAATC
* *
78010669 CTATATGAAGATATAATTAATTTTTAGTGAAGAAGGGCAGAACTGTCAGACAGCAGAACAGGGGT
518 CTAGATGAAGAGATAATTAATTTTTAGTGAAGAAGGGCAGAACTGTCAGACAGCAGAACAGGGGT
* * *
78010734 GACTTTAAAGAATAAAATGTACTTATTGGCTGAACTAAAAATTCTGAAAATTTTATGATAAGAAA
583 GACTTTAAAGAATAAAATGTACTTATTGGATAAACTAAAAATTATGAAAATTTTATGATAAGAAA
78010799 ATATATGAGTCTAGTTTCAAGGAAAATTAACATATTTTAATTGATTCCTAAACCCTAAACCCTAA
648 ATATATGAGTCTAGTTTCAAGGAAAATTAACATATTTTAATTGATTCCTAAACCCTAAACCCTAA
78010864 AC
713 AC
*
78010866 CCTAATTCTGAAAATGCTTAGAATTAAAGTCTATTACTGAAATTCTGATTCCTAAAGGTTTTAAA
1 CCTAATTCTGAAAATGCTTAGAATTAAAGTCTATTACTGAAATTCTGATTCCTAAAGGTTGTAAA
*
78010931 CTAGTTTAAGGTGATAGAATAAAATGTTAATTGATAAAAATCAGCTCAATTGAGAGGCTAATTGA
66 CTAGTTTAAGGTGATAGAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTGA
*
78010996 GTAGGGACGAAATTATCATTTATTAAAAGCTTAGGGGAAAAATGGTAATAAACAGCTTGCACAAA
131 GTAGGGACGAAATTATCATTTATTAAAAGCTTAAGGGAAAAATGGTAATAAACAGCTTGCACAAA
* * * *
78011061 AACAGT-TTGGACAGCAGCAGTAGACTAATTTTGAAAAATCACCATAAATTGTATAAATCGAATT
196 AACAATATTGGACAGCAGCAGTAGACTAACTTTGAAAAATCACCATAAATTGTAGAAATCAAATT
* * * * * *
78011125 AGAAGAT-TAAAAAATATGGAATTAAATATTATTGAGTTTAGTTTCTCATAGAAGAAATAGTGTA
261 AGAAGATAAAAAAAATATGAAATTAAAGATTATTGAATCTAGTTTCTCATAGAAGAAACAGTGTA
* ** * * *
78011189 AGCAATGGAT-TGTAAATTTTGAGATATAATGAATCTTGTGAGACAGGGTCAGAATGAATTTGGG
326 AACAATGGATCTGTAAATCATGAGATATAATGAATCTTGTGAGACAAGGTCAGAATGAATTCGAG
*
78011253 TTCCCCTGTTCTAACTTTGAAAAATCATAAAAAATTGAA-AACAAATAATTAGGGGCTTAAATTT
391 TTCCCCTATTCTAACTTTGAAAAATCATAAAAAATTGAATAA-AAATAATTAGGGGCTTAAATTT
* * * * * *
78011317 ATATTTATAGAATCCTGAATGATTCTATTTTTAAGAGAAACAAACAAGAATATCATTTGAATCCT
455 ATATCTATAGAATCCTGAATGAGTCTATTTTCAAGAGAAACAAACAAGAACATCATCTAAATCCT
* * *
78011382 -GATGAAGAGATAATTAATTTTTAGTGAAGAAGGGTCAGAACTGTCAGACAGCTGAATAGGGGTT
520 AGATGAAGAGATAATTAATTTTTAGTGAAGAAGGG-CAGAACTGTCAGACAGCAGAACAGGGGTG
** * *
78011446 ACTTTAAAGAATAAAATGTACTTATTTTATAAACTAAAAATTAT-AAGAATTTTATGGTAAGAAT
584 ACTTTAAAGAATAAAATGTACTTATTGGATAAACTAAAAATTATGAA-AATTTTATGATAAGAAA
*
78011510 ATATATGAGTCTAGTTTCAGGGAAAATTAAC
648 ATATATGAGTCTAGTTTCAAGGAAAATTAAC
78011541 GGATCTTAAT
Statistics
Matches: 616, Mismatches: 56, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
710 36 0.06
711 270 0.44
712 59 0.10
716 61 0.10
717 190 0.31
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (714 bp):
CCTAATTCTGAAAATGCTTAGAATTAAAGTCTATTACTGAAATTCTGATTCCTAAAGGTTGTAAA
CTAGTTTAAGGTGATAGAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTGA
GTAGGGACGAAATTATCATTTATTAAAAGCTTAAGGGAAAAATGGTAATAAACAGCTTGCACAAA
AACAATATTGGACAGCAGCAGTAGACTAACTTTGAAAAATCACCATAAATTGTAGAAATCAAATT
AGAAGATAAAAAAAATATGAAATTAAAGATTATTGAATCTAGTTTCTCATAGAAGAAACAGTGTA
AACAATGGATCTGTAAATCATGAGATATAATGAATCTTGTGAGACAAGGTCAGAATGAATTCGAG
TTCCCCTATTCTAACTTTGAAAAATCATAAAAAATTGAATAAAAATAATTAGGGGCTTAAATTTA
TATCTATAGAATCCTGAATGAGTCTATTTTCAAGAGAAACAAACAAGAACATCATCTAAATCCTA
GATGAAGAGATAATTAATTTTTAGTGAAGAAGGGCAGAACTGTCAGACAGCAGAACAGGGGTGAC
TTTAAAGAATAAAATGTACTTATTGGATAAACTAAAAATTATGAAAATTTTATGATAAGAAAATA
TATGAGTCTAGTTTCAAGGAAAATTAACATATTTTAATTGATTCCTAAACCCTAAACCCTAAAC
Found at i:78022884 original size:11 final size:11
Alignment explanation
Indices: 78022868--78022892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78022858 TTCTGGGCCC
78022868 AAACCAAAAAT
1 AAACCAAAAAT
78022879 AAACCAAAAAT
1 AAACCAAAAAT
78022890 AAA
1 AAA
78022893 AAATAACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (11 bp):
AAACCAAAAAT
Found at i:78024315 original size:142 final size:137
Alignment explanation
Indices: 78024139--78024575 Score: 528
Period size: 135 Copynumber: 3.2 Consensus size: 137
78024129 GTTTTATCTA
* * * * *
78024139 TTTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATA-TTAAATTTGATATTACTTATAT
1 TTTATCTATTTATCTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATAT
* *
78024203 TTGTATTATCTATTTATTTATTTGTTATTATTTTACTTTTTAAACATTTTAAATTTGATATTATT
66 TT-TATTATCTATTTATTTATTTATTATTATTTTACTTTTTAAATA-TTTAAATTTGATATTATT
78024268 TATATTTGT
129 TATATTTGT
* * * *
78024277 TTTATTTGTTTATTTGTTTAGCTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
1 TTTATCTATTTATCT-ATT---TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTA-TT
* * *
78024342 ATATTTATTTTATCTATCTATTTATTTATTTACTATTCA-TTTACTTTTTAAATACTTAAATTTA
61 -TA--TATTTTAT-TATCTATTTATTTATTTATTATT-ATTTTACTTTTTAAATATTTAAATTTG
78024406 ATATTATTTATATTTGT
121 ATATTATTTATATTTGT
* *
78024423 TTTATCTATTTATCTATTTATTATTCTTTTACTTTTTAAATACTTGAATTTAATATTTTTTATA-
1 TTTATCTATTTATCTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATAT
* * *
78024487 TTT-TTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTACTTA
66 TTTATTATCTATTTATTTATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATTTA
*
78024551 TATTTCT
131 TATTTGT
*
78024558 TTT-TC-A-TTATCCATTTAT
1 TTTATCTATTTATCTATTTAT
78024576 ATATATATAT
Statistics
Matches: 263, Mismatches: 24, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
132 11 0.04
133 1 0.00
134 2 0.01
135 62 0.24
136 1 0.00
137 3 0.01
138 16 0.06
139 2 0.01
140 2 0.01
141 2 0.01
142 61 0.23
143 14 0.05
144 1 0.00
145 4 0.02
146 40 0.15
147 40 0.15
148 1 0.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.63
Consensus pattern (137 bp):
TTTATCTATTTATCTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATAT
TTTATTATCTATTTATTTATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATTTA
TATTTGT
Found at i:78024353 original size:73 final size:69
Alignment explanation
Indices: 78024139--78024560 Score: 483
Period size: 73 Copynumber: 6.0 Consensus size: 69
78024129 GTTTTATCTA
* * * * *
78024139 TTTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATA-TTAAATTTGATATTACTTATAT
1 TTTATCTATTTATTTTTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATAT
78024203 TTGT
66 TTGT
* * * * * * *
78024207 ATTATCTATTTATTTATTTGTTATTATTTTACTTTTTAAACATTTTAAATTTGATATTATTTATA
1 TTTATCTATTTATTTTTTTATTATTCTTTTACTTTTTAAATA-CTTAAATTTAATATTATTTATA
78024272 TTTGT
65 TTTGT
* *
78024277 TTTATTTGTTTATTTGTTTAGCTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
1 TTTATCTATTTATTT-TTT---TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
*
78024342 ATATTTATTT
62 ATA-TT-TGT
* * *
78024352 TATCTATCTATTTATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTATTTAT
1 T-T-TATCTATTTATTTTTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTAT
78024417 ATTTGT
64 ATTTGT
* * *
78024423 TTTATCTATTTATCTATTTATTATTCTTTTACTTTTTAAATACTTGAATTTAATATT-TTT-TAT
1 TTTATCTATTTATTTTTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATAT
*
78024486 AT-T
66 TTGT
* * * * *
78024489 TTTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTACTTATAT
1 TTTATCTATTTATTTTTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATAT
*
78024554 TTCT
66 TTGT
78024558 TTT
1 TTT
78024561 TCATTATCCA
Statistics
Matches: 308, Mismatches: 33, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
66 53 0.17
67 6 0.02
68 45 0.15
69 55 0.18
70 38 0.12
71 5 0.02
72 2 0.01
73 64 0.21
74 23 0.07
75 3 0.01
76 3 0.01
77 11 0.04
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (69 bp):
TTTATCTATTTATTTTTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATAT
TTGT
Found at i:78024383 original size:15 final size:15
Alignment explanation
Indices: 78024336--78024384 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
78024326 AAATTTAATA
78024336 TTATTTA-TATTTATT
1 TTATTTACTATTTA-T
*
78024351 TTATCTATCTATTTAT
1 TTATTTA-CTATTTAT
*
78024367 TTATTTACTATTCAT
1 TTATTTACTATTTAT
78024382 TTA
1 TTA
78024385 CTTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.55
16 7 0.24
17 6 0.21
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTTACTATTTAT
Found at i:78025211 original size:26 final size:26
Alignment explanation
Indices: 78025154--78025216 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
78025144 CTAATGCCGT
* *
78025154 CGGAGTGTTTGAGTTGGCTTGGGCGC
1 CGGAGTGTTTGAGTTGGCTTGGGAGA
*
78025180 CGGAGTGTTTGAGTTGGCTTGGGATA
1 CGGAGTGTTTGAGTTGGCTTGGGAGA
*
78025206 CTGAGTGTTTG
1 CGGAGTGTTTG
78025217 CAACAACTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.11, C:0.11, G:0.43, T:0.35
Consensus pattern (26 bp):
CGGAGTGTTTGAGTTGGCTTGGGAGA
Found at i:78037030 original size:34 final size:35
Alignment explanation
Indices: 78036987--78037064 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 35
78036977 TGACTGCTAT
78036987 TGATACTGTGATGGGCTAAGGCCCTAATGCATA-C
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATATC
* *
78037021 TGATACTGTGATGGGCTAAGGCCCTACTGCATATT
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATATC
78037056 TGATACTGT
1 TGATACTGT
78037065 ATTGAGATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 32 0.78
35 9 0.22
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (35 bp):
TGATACTGTGATGGGCTAAGGCCCTAATGCATATC
Found at i:78037945 original size:16 final size:17
Alignment explanation
Indices: 78037913--78037946 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
78037903 ATATATACTG
*
78037913 AAAACTGTAGTTAAACT
1 AAAACTATAGTTAAACT
78037930 AAAACTATAG-TAAACT
1 AAAACTATAGTTAAACT
78037946 A
1 A
78037947 CTAGAGACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAACTATAGTTAAACT
Found at i:78041705 original size:17 final size:19
Alignment explanation
Indices: 78041667--78041707 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
78041657 ACGATAATTC
*
78041667 TAAATAAATTATAAAGATA
1 TAAAAAAATTATAAAGATA
78041686 TAAAAAAATT-TAAA-ATA
1 TAAAAAAATTATAAAGATA
78041703 TAAAA
1 TAAAA
78041708 TTATTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAAATTATAAAGATA
Found at i:78043659 original size:21 final size:20
Alignment explanation
Indices: 78043607--78043664 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
78043597 TACTTCGCTT
78043607 AAAGTATTGATACTTTTTTC
1 AAAGTATTGATACTTTTTTC
*
78043627 AAA-TAATCGATACCTTTTTTC
1 AAAGT-ATTGATA-CTTTTTTC
78043648 AAAGTATTGATACTTTT
1 AAAGTATTGATACTTTT
78043665 ATTCTGTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.03
20 14 0.42
21 17 0.52
22 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (20 bp):
AAAGTATTGATACTTTTTTC
Done.