Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold143
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: 1221646
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 8
Found at i:303073 original size:79 final size:79
Alignment explanation
Indices: 302990--303247 Score: 286
Period size: 79 Copynumber: 3.3 Consensus size: 79
302980 TTATTTCATT
* * * *
302990 AGGGATACTCCAACCCCGTTATTTTTGTGGTGATACTCCAACCCCGACCTTA-TTTCTAAA-GCA
1 AGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGACCTTATTTTCAAAATGC-
*
303053 TTAATTTCCCACAATC
65 -CAATTTCCCACAATC
* **
303069 AGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAATGCC
1 AGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGACCTTATTTTCAAAATGCC
* * *
303134 AATTTTCTATAATC
66 AATTTCCCACAATC
* * ** * *
303148 AAGGATACTCCAACCCTGTTATTTTCGAGGAGATACTCCAACCCCGATTTTATTTTCAGAATACC
1 AGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGACCTTATTTTCAAAATGCC
* * *
303213 GATTTTCCATAATC
66 AATTTCCCACAATC
*
303227 AGGGGATACTCCAGCCCCGTT
1 A-GGGATACTCCAACCCCGTT
303248 GTCATCTCCA
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 131 0.84
80 23 0.15
81 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
AGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGACCTTATTTTCAAAATGCC
AATTTCCCACAATC
Found at i:303080 original size:158 final size:158
Alignment explanation
Indices: 302792--303082 Score: 395
Period size: 158 Copynumber: 1.8 Consensus size: 158
302782 AATATTGATT
* * * * *
302792 TTTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCTAATCCCGTTATTTC
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCAGGGATACTCCAACCCCGTTATTTC
** * **
302857 CGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGAGGATACTCC
66 CGAGGGGATACTCCAACCCCGACCTTATTTCTAAAACACCAATTTCCCACAATCGAGGATACTCC
302922 AACTCCGATTTTATTTCCAAAACACCAA
131 AACTCCGATTTTATTTCCAAAACACCAA
* * *
302950 TTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCATTAGGGATACTCCAACCCCGTTATTTT
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCAGGGATACTCCAACCCCGTTATTTC
* * * * **
303015 TGTGGTGATACTCCAACCCCGACCTTATTTCTAAAGCATTAATTTCCCACAATC-AGGGATACTC
66 CGAGGGGATACTCCAACCCCGACCTTATTTCTAAAACACCAATTTCCCACAATCGA-GGATACTC
303079 CAAC
130 CAAC
303083 CCCGTTATTT
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
157 1 0.01
158 112 0.99
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.32
Consensus pattern (158 bp):
TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCAGGGATACTCCAACCCCGTTATTTC
CGAGGGGATACTCCAACCCCGACCTTATTTCTAAAACACCAATTTCCCACAATCGAGGATACTCC
AACTCCGATTTTATTTCCAAAACACCAA
Found at i:305026 original size:863 final size:858
Alignment explanation
Indices: 303355--305032 Score: 2411
Period size: 863 Copynumber: 1.9 Consensus size: 858
303345 ATTCCAAACT
* *
303355 TTTCTCTAGGGCACTCCTAGATCATCTCCTAAAACCTCACAGAATCCAATCAAGTCTCAACATTG
1 TTTCTCTAGGGAACCCCTAGATCATCTCCTAAAACCTCACAGAATCCAATCAAGTCTCAACATTG
*
303420 TTATCACGATTATACATCATAAATCGAAAACAATCATGAGACACACTTTGATCGTCCCTCCTTTT
66 TTATCACGATTATACATCATAAATCGAAAACAATCATGAGACACACTTTGATCGTCCCTCCTTCT
303485 TATGTATTTCCATGCATTTATTTTGTATAAATTTGTCTGTTATTTTCTTTGATTTACTAACATGT
131 TATGTATTTCCATGCATTTATTTTGTATAAATTTGTCTGTTATTTTCTTTGATTTACTAACATGT
* * * *
303550 TTCCTTTCGTAGGGACCTTATGCATTCATGCTTTAAAACTATTTTTAGAAATAGCAAAACGATAT
196 TTCCTTTCATAGGGACCTTACGCATTCATACTTTAAAACTATTTTTAAAAATAGCAAAACGATAT
* * *
303615 TCTGTGTCGGTATCTCTCCAGTACTTGACACGAAATATTTGATTTTTTCCAAACCCAATCCGAAA
261 TCTATGTCGGTATCTCTCCAGTACTTCACACGAAATATTTGA-TTTTCCCAAACCCAATCCGAAA
* * *
303680 ACCTTTTCTATAAATAAAATCATCGTGTCCCTCACTTCTCCGAGGTGCATAGGTGATATAAGTGT
325 ACCTTTTCTAAAAAAAAAATCATCGTGTCCCTCACTTCTCCGAGGCGCATAGGTGATATAAGTGT
* *
303745 TCATCTTAAACCCGGATTTGTAGTTTTCACAAAACTTAATGCATTAGAGGGAATTACATCTAAGT
390 TCATCTTAAACCCGAATTTGTAGTTTTCACAAAACTTAATGCATTAGAGGGAATTACATCTAAAT
* * *
303810 AATGATAAAAATGGAACCGGGAAAATCAAGATTTAAGTAAGACATAGTTAGAAGGTACTGATTTC
455 AATGATAAAAATAGAACCGGG-AAATCAAGATCTAAGTAAGACATAGTTAGAAGGTACCGATTTC
* * *
303875 GAGCGTCGTGGGGGTGCTAATCCTTCCTCACGCGTAACCAACTCCCGAACCCAAACACGAATCTC
519 AAGCGTCATGAGGGTGCTAATCCTTCCTCACGCGTAACCAACTCCCGAACCCAAACACGAATCTC
* * * *
303940 TAAATTACGTAGACTACGGGATTGATGTTTCAAGTTTCGTGACTCAAAACACAGGTCTCAATAGG
584 TAAATCACGTAGACCACGAGATCGATGTTTCAAGTTTCGTGACTCAAAACACAGGTCTCAATAGG
* * *
304005 CATCCGATCTTGCCTAGCCCGAAATGATCAGTGGTGACTCCAAGTTCATGGTCATTTTGTAATGA
649 CATCCGATCATGCCTAGCCCAAAATGATCAGTGGCGACTCCAAGTTCATGGTCATTTTGTAATGA
* * * *
304070 CCACTCGAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCACCCCCGCATATTGACTATCC
714 CCACTCAAGACTTACAGGACGAGCGATTCGTCCGATAGTCTTTCACCCCCGCATATTGACCATCA
* *
304135 CCTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATTGTCCGAAGTACTCGTAACAAGCCGA
779 CCTTTTATTTTAAGTCGAGTCAGCTTTGGCCCTTCGGATTGTCCGAAGTACTCGTAACAAGCCGA
304200 GCACACGTTGCGACA
844 GCACACGTTGCGACA
* *
304215 TTTCTCTAGGGAACCCCTAGATCATTTTCTAAAACCTCACAGAATCCAATCAAGTCTCAACATTG
1 TTTCTCTAGGGAACCCCTAGATCATCTCCTAAAACCTCACAGAATCCAATCAAGTCTCAACATTG
* * * *
304280 TTATCACGATTATACCTCATTAATCGAAAACAATCATGAGGCACACTTTGATCGTCCCTTCTTCT
66 TTATCACGATTATACATCATAAATCGAAAACAATCATGAGACACACTTTGATCGTCCCTCCTTCT
*** * * *
304345 TATGTATTTTTGTGCGTTTATTTTGTGTAAATTTGTTTGTTATTTTCTTT-ATTTTACTAACATG
131 TATGTATTTCCATGCATTTATTTTGTATAAATTTGTCTGTTATTTTCTTTGA-TTTACTAACATG
* * * *
304409 TTTCCTTTTATAGGGACCTTACGCATTCGTACTTTAAAAATTATTTTTAAAAGATCA-CAAAATG
195 TTTCCTTTCATAGGGACCTTACGCATTCATACTTT-AAAACTATTTTTAAAA-AT-AGCAAAACG
* *
304473 ATATTCTATGTCGGTATCTCTCCAGTGCTTCACACGAAATATTTGA-TTTCCCTAAACCCAATCT
257 ATATTCTATGTCGGTATCTCTCCAGTACTTCACACGAAATATTTGATTTTCCC-AAACCCAATCC
* **
304537 GAAAACCTTTTCTAAAAAAAGAAATCATCGTGTTCCTCACTTCTTTGAGGCGCATAGGTGATATA
321 GAAAACCTTTTCTAAAAAAA-AAATCATCGTGTCCCTCACTTCTCCGAGGCGCATAGGTGATATA
* * *
304602 AGCT-TTCGTAC-TAAACCCGAATTTGTAGTTTTCACAAAACTTCATGCATTAGAGGGAATTATA
385 AG-TGTTCAT-CTTAAACCCGAATTTGTAGTTTTCACAAAACTTAATGCATTAGAGGGAATTACA
* * *
304665 TTTAAATAATGATAAAAAATAGAACCGAGG-AATCCAAGATCTAAGTGAGACATATTTAGAAGGT
448 TCTAAATAATGAT-AAAAATAGAACCG-GGAAAT-CAAGATCTAAGTAAGACATAGTTAGAAGGT
* * *
304729 GCCGATTTCAAGCGTCATGAGGGTGGTAATCCTTCAC-CACGCGTAACTAACTCCCGAACCCAAA
510 ACCGATTTCAAGCGTCATGAGGGTGCTAATCCTTC-CTCACGCGTAACCAACTCCCGAACCCAAA
* * * ** * * *
304793 CACGAATCTCTGAATCATGTAGACCATGAGATCGATGTTTTGAGTTTCGTGACTCGAGACATAGG
574 CACGAATCTCTAAATCACGTAGACCACGAGATCGATGTTTCAAGTTTCGTGACTCAAAACACAGG
* * * *
304858 TTTTAATAGGCATCCGATCATGCCTAGCTCAAAATGATCGGTGGCGACTCCAAGTTCATGGTCAT
639 TCTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCAGTGGCGACTCCAAGTTCATGGTCAT
* **
304923 TTTGTAATGACCAC-CTAAGACTTACAGGATGAGCGATTCGTCCGATAGTCTTTCACCCTGGCAT
704 TTTGTAATGACCACTC-AAGACTTACAGGACGAGCGATTCGTCCGATAGTCTTTCACCCCCGCAT
** *
304987 ATTGACCATCATTTTTTATTTTAAGTTGAG-CACGCTTTGGCCCTTC
768 ATTGACCATCACCTTTTATTTTAAGTCGAGTCA-GCTTTGGCCCTTC
305033 AGCTCATTCG
Statistics
Matches: 722, Mismatches: 82, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
859 1 0.00
860 212 0.29
861 42 0.06
862 162 0.22
863 302 0.42
864 3 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (858 bp):
TTTCTCTAGGGAACCCCTAGATCATCTCCTAAAACCTCACAGAATCCAATCAAGTCTCAACATTG
TTATCACGATTATACATCATAAATCGAAAACAATCATGAGACACACTTTGATCGTCCCTCCTTCT
TATGTATTTCCATGCATTTATTTTGTATAAATTTGTCTGTTATTTTCTTTGATTTACTAACATGT
TTCCTTTCATAGGGACCTTACGCATTCATACTTTAAAACTATTTTTAAAAATAGCAAAACGATAT
TCTATGTCGGTATCTCTCCAGTACTTCACACGAAATATTTGATTTTCCCAAACCCAATCCGAAAA
CCTTTTCTAAAAAAAAAATCATCGTGTCCCTCACTTCTCCGAGGCGCATAGGTGATATAAGTGTT
CATCTTAAACCCGAATTTGTAGTTTTCACAAAACTTAATGCATTAGAGGGAATTACATCTAAATA
ATGATAAAAATAGAACCGGGAAATCAAGATCTAAGTAAGACATAGTTAGAAGGTACCGATTTCAA
GCGTCATGAGGGTGCTAATCCTTCCTCACGCGTAACCAACTCCCGAACCCAAACACGAATCTCTA
AATCACGTAGACCACGAGATCGATGTTTCAAGTTTCGTGACTCAAAACACAGGTCTCAATAGGCA
TCCGATCATGCCTAGCCCAAAATGATCAGTGGCGACTCCAAGTTCATGGTCATTTTGTAATGACC
ACTCAAGACTTACAGGACGAGCGATTCGTCCGATAGTCTTTCACCCCCGCATATTGACCATCACC
TTTTATTTTAAGTCGAGTCAGCTTTGGCCCTTCGGATTGTCCGAAGTACTCGTAACAAGCCGAGC
ACACGTTGCGACA
Found at i:306331 original size:30 final size:30
Alignment explanation
Indices: 306297--306468 Score: 112
Period size: 27 Copynumber: 6.0 Consensus size: 30
306287 TCTACACCTC
* *
306297 TTCAAAGTCCACGATTCAGTGGCAT-TTCTT
1 TTCAAAGTCCACAACTCAGTGGCATCTT-TT
* *
306327 TTCAAACTCCACAACTCCGTGGCATCTTTT
1 TTCAAAGTCCACAACTCAGTGGCATCTTTT
* *
306357 TT-AAAGTCCACAACTCCGTGGCATC-CTT
1 TTCAAAGTCCACAACTCAGTGGCATCTTTT
* * * *
306385 TT--AAGTCTATAACTCTGTGGCATC--CT
1 TTCAAAGTCCACAACTCAGTGGCATCTTTT
* * ** *
306411 TTC-AAGTCCATAACTCCGTGTTATC-CTT
1 TTCAAAGTCCACAACTCAGTGGCATCTTTT
* *
306439 TT-AAAGTCCACAACTCCGTGGCATCCTTT
1 TTCAAAGTCCACAACTCAGTGGCATCTTTT
306468 T
1 T
306469 AAGTCCATAA
Statistics
Matches: 118, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.03
27 37 0.31
28 26 0.22
29 25 0.21
30 25 0.21
31 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.35
Consensus pattern (30 bp):
TTCAAAGTCCACAACTCAGTGGCATCTTTT
Found at i:306473 original size:55 final size:55
Alignment explanation
Indices: 306315--306486 Score: 211
Period size: 55 Copynumber: 3.1 Consensus size: 55
306305 CCACGATTCA
* * * *
306315 GTGGCATTTCTTTTCAAACTCCACAACTCCGTGGCATCTTTTTTAAAGTCCACAACTCC
1 GTGGCA-TCCTTTT-AAAGTCCACAACTCCGTGGCATC-CTTTT-AAGTCCATAACTCC
* * * *
306374 GTGGCATCCTTTT-AAGTCTATAACTCTGTGGCATCCTTTCAAGTCCATAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCC
**
306428 GTGTTATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCC
306483 GTGG
1 GTGG
306487 AACCCTTGCA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
54 24 0.25
55 43 0.44
56 18 0.19
58 6 0.06
59 6 0.06
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (55 bp):
GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCC
Found at i:306493 original size:27 final size:27
Alignment explanation
Indices: 306334--306486 Score: 198
Period size: 27 Copynumber: 5.6 Consensus size: 27
306324 CTTTTCAAAC
* *
306334 TCCACAACTCCGTGGCATCTTTTTTAAAG
1 TCCATAACTCCGTGGCATC-CTTTT-AAG
*
306363 TCCACAACTCCGTGGCATCCTTTTAAG
1 TCCATAACTCCGTGGCATCCTTTTAAG
* * *
306390 TCTATAACTCTGTGGCATCCTTTCAAG
1 TCCATAACTCCGTGGCATCCTTTTAAG
**
306417 TCCATAACTCCGTGTTATCCTTTTAAAG
1 TCCATAACTCCGTGGCATCCTTTT-AAG
*
306445 TCCACAACTCCGTGGCATCCTTTTAAG
1 TCCATAACTCCGTGGCATCCTTTTAAG
306472 TCCATAACTCCGTGG
1 TCCATAACTCCGTGG
306487 AACCCTTGCA
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 62 0.57
28 28 0.26
29 19 0.17
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (27 bp):
TCCATAACTCCGTGGCATCCTTTTAAG
Found at i:306515 original size:55 final size:55
Alignment explanation
Indices: 306395--306516 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 55
306385 TTAAGTCTAT
* ** * ** *
306395 AACTCTGTGGCATCCTTTCAAGTCCATAACTCCGTGTTATCCTTTTAAAGTCCAC
1 AACTCAGTGGCATCCTTTCAAGTCCATAACTCCGTGGAACCCTTGCAAAGCCCAC
* * *
306450 AACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGAACCCTTGCAAAGCCCAT
1 AACTCAGTGGCATCCTTTCAAGTCCATAACTCCGTGGAACCCTTGCAAAGCCCAC
*
306505 AAGTCAGTGGCA
1 AACTCAGTGGCA
306517 CCGCTCCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (55 bp):
AACTCAGTGGCATCCTTTCAAGTCCATAACTCCGTGGAACCCTTGCAAAGCCCAC
Found at i:306704 original size:58 final size:57
Alignment explanation
Indices: 306495--306933 Score: 454
Period size: 58 Copynumber: 7.7 Consensus size: 57
306485 GGAACCCTTG
* ** * * * * *
306495 CAAAGCCCATAAGTCAGTGGCA-CCGCTCCAAAGCCGACAAGTTAGTGGCACCCTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCATCTTTT
** ** * * * *
306551 CAAAGCCCATAAGCCAGTGGCAT-AATTTCAAAGTCCATAAATCAGTGGCACCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCATCTTTT
* * * * * * *
306607 CCAAGTCCATAAATTAGCGGTA-CCTTTTCAAAGCCCATAAGTCAATGGCATCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCATCTTTT
* *
306663 CAAAGCCCACAAGTTAGTGGCATCCTTTTCAAAAGCCCATAAGTTAGTGGCATCCTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTTC-AAAGCCCATAAGTTAGTGGCATCTTTT
* * *
306721 CAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCATAAGTGAGTGGCATCCTTTT
1 C-AAAGCCCATAAGTTAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCAT-CTTTT
* *
306780 CAAAGCCCATAAGTTAGTGACATCC-TTTCAAAAGCCCATAAGTTAGTGACATCCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTTC-AAAGCCCATAAGTTAGTGGCAT-CTTTT
* * * * *
306838 CAAAGCCCATAAGTGAGTGGCATCTTTTTCAAAGCACAAAAGTTAGTGGCACCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCATCTTTT
* * *
306895 CAAAGTCCACAAGTTAGTGGCAACCATTTTCAAAGCCCA
1 CAAAGCCCATAAGTTAGTGGCATCC-TTTTCAAAGCCCA
306934 CACAAGTTGG
Statistics
Matches: 320, Mismatches: 54, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
56 102 0.32
57 36 0.11
58 145 0.45
59 37 0.12
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (57 bp):
CAAAGCCCATAAGTTAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCATCTTTT
Found at i:306721 original size:29 final size:29
Alignment explanation
Indices: 306495--306933 Score: 473
Period size: 28 Copynumber: 15.3 Consensus size: 29
306485 GGAACCCTTG
* ** *
306495 CAAAGCCCATAAGTCAGTGGCA-CCGCTC
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
* * *
306523 CAAAGCCGACAAGTTAGTGGCA-CCCTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
** **
306551 CAAAGCCCATAAGCCAGTGGCAT-AATTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
* * *
306579 CAAAGTCCATAAATCAGTGGCA-CCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
* * * * *
306607 CCAAGTCCATAAATTAGCGGTA-CCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
* *
306635 CAAAGCCCATAAGTCAATGGCAT-CTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
*
306663 CAAAGCCCACAAGTTAGTGGCATCCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
306692 CAAAAGCCCATAAGTTAGTGGCATCC-TTT
1 C-AAAGCCCATAAGTTAGTGGCATCCTTTT
* *
306721 CAAAAGCCCACAAGTCAGTGGCATCCTTTT
1 C-AAAGCCCATAAGTTAGTGGCATCCTTTT
*
306751 CAAAGCCCATAAGTGAGTGGCATCCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
*
306780 CAAAGCCCATAAGTTAGTGACATCC-TTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
*
306808 CAAAAGCCCATAAGTTAGTGACATCCTTTT
1 C-AAAGCCCATAAGTTAGTGGCATCCTTTT
* *
306838 CAAAGCCCATAAGTGAGTGGCATCTTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
* *
306867 CAAAGCACAAAAGTTAGTGGCA-CCTTTT
1 CAAAGCCCATAAGTTAGTGGCATCCTTTT
* * *
306895 CAAAGTCCACAAGTTAGTGGCAACCATTTT
1 CAAAGCCCATAAGTTAGTGGCATCC-TTTT
306925 CAAAGCCCA
1 CAAAGCCCA
306934 CACAAGTTGG
Statistics
Matches: 352, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
28 157 0.45
29 152 0.43
30 43 0.12
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
CAAAGCCCATAAGTTAGTGGCATCCTTTT
Found at i:306743 original size:87 final size:84
Alignment explanation
Indices: 306495--306933 Score: 477
Period size: 87 Copynumber: 5.1 Consensus size: 84
306485 GGAACCCTTG
* ** * * *
306495 CAAAGCCCATAAGTCAGTGGCA-CCGCTCCAAAGCCGACAAGTTAGTGGCACCCTTTCAAAGCCC
1 CAAAGCCCATAAGTGAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCA-CCTTTCAAAGCCC
* **
306559 ATAAGCCAGTGGCATAATTT
65 ATAAGTCAGTGGCATCTTTT
* * * * * * * *
306579 CAAAGTCCATAAATCAGTGGCA-CCTTTTCCAAGTCCATAAATTAGCGGTACCTTTTCAAAGCCC
1 CAAAGCCCATAAGTGAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCACC-TTTCAAAGCCC
*
306643 ATAAGTCAATGGCATCTTTT
65 ATAAGTCAGTGGCATCTTTT
* *
306663 CAAAGCCCACAAGTTAGTGGCATCCTTTTCAAAAGCCCATAAGTTAGTGGCATCCTTTCAAAAGC
1 CAAAGCCCATAAGTGAGTGGCATCCTTTTC-AAAGCCCATAAGTTAGTGGCA-CCTTTC-AAAGC
*
306728 CCACAAGTCAGTGGCATCCTTTT
63 CCATAAGTCAGTGGCAT-CTTTT
*
306751 CAAAGCCCATAAGTGAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGACATCCTTTCAAAAGCC
1 CAAAGCCCATAAGTGAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCA-CCTTTC-AAAGCC
* *
306816 CATAAGTTAGTGACATCCTTTT
64 CATAAGTCAGTGGCAT-CTTTT
* * * *
306838 CAAAGCCCATAAGTGAGTGGCATCTTTTTCAAAGCACAAAAGTTAGTGGCACCTTTTCAAAGTCC
1 CAAAGCCCATAAGTGAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCACC-TTTCAAAGCCC
* * *
306903 ACAAGTTAGTGGCAACCATTTT
65 ATAAGTCAGTGGC-ATC-TTTT
306925 CAAAGCCCA
1 CAAAGCCCA
306934 CACAAGTTGG
Statistics
Matches: 305, Mismatches: 41, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
83 2 0.01
84 83 0.27
85 7 0.02
86 40 0.13
87 140 0.46
88 33 0.11
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (84 bp):
CAAAGCCCATAAGTGAGTGGCATCCTTTTCAAAGCCCATAAGTTAGTGGCACCTTTCAAAGCCCA
TAAGTCAGTGGCATCTTTT
Found at i:306947 original size:32 final size:29
Alignment explanation
Indices: 306628--306948 Score: 256
Period size: 29 Copynumber: 11.0 Consensus size: 29
306618 AATTAGCGGT
* * * *
306628 ACCTTTTCAAAGCCCATAAGTCAATGGC-
1 ACCTTTTCAAAGCACACAAGTTAGTGGCA
* *
306656 ATCTTTTCAAAGCCCACAAGTTAGTGGCA
1 ACCTTTTCAAAGCACACAAGTTAGTGGCA
* * *
306685 TCCTTTTCAAAAGCCCATAAGTTAGTGGCA
1 ACCTTTTC-AAAGCACACAAGTTAGTGGCA
* * *
306715 TCC-TTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTTTC-AAAGCACACAAGTTAGTGGCA
* * * *
306744 TCCTTTTCAAAGCCCATAAGTGAGTGGCA
1 ACCTTTTCAAAGCACACAAGTTAGTGGCA
* * * *
306773 TCCTTTTCAAAGCCCATAAGTTAGTGACA
1 ACCTTTTCAAAGCACACAAGTTAGTGGCA
* * * *
306802 TCC-TTTCAAAAGCCCATAAGTTAGTGACA
1 ACCTTTTC-AAAGCACACAAGTTAGTGGCA
* * * *
306831 TCCTTTTCAAAGCCCATAAGTGAGTGGCA
1 ACCTTTTCAAAGCACACAAGTTAGTGGCA
* * *
306860 TCTTTTTCAAAGCACAAAAGTTAGTGGC-
1 ACCTTTTCAAAGCACACAAGTTAGTGGCA
306888 ACCTTTTCAAAGTC-CACAAGTTAGTGGCA
1 ACCTTTTCAAAG-CACACAAGTTAGTGGCA
*
306917 ACCATTTTCAAAGCCCACACAAGTTGGTGGCA
1 ACC-TTTTCAAAG--CACACAAGTTAGTGGCA
306949 CCTATGTCTG
Statistics
Matches: 259, Mismatches: 24, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
28 51 0.20
29 153 0.59
30 40 0.15
31 1 0.00
32 14 0.05
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (29 bp):
ACCTTTTCAAAGCACACAAGTTAGTGGCA
Found at i:308247 original size:32 final size:33
Alignment explanation
Indices: 308188--308250 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
308178 ACTTTCAGAT
*
308188 GTATCGATACATTATGCTTTGTATCGATACAAA
1 GTATCGATACATTATGCATTGTATCGATACAAA
308221 GTATCGATACATGT-T-CATTGTATCGATACA
1 GTATCGATACAT-TATGCATTGTATCGATACA
308251 TGAACAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.50
33 13 0.46
34 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (33 bp):
GTATCGATACATTATGCATTGTATCGATACAAA
Found at i:308264 original size:20 final size:20
Alignment explanation
Indices: 308216--308274 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
308206 TTGTATCGAT
*
308216 ACAAA-GTATCGATACATGT
1 ACAAATGTATCGATACATGA
* *
308235 TC-ATTGTATCGATACATGA
1 ACAAATGTATCGATACATGA
*
308254 ACAAATGTATCGATACCTGA
1 ACAAATGTATCGATACATGA
308274 A
1 A
308275 ACTGGCAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 16 0.50
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
ACAAATGTATCGATACATGA
Found at i:308327 original size:20 final size:20
Alignment explanation
Indices: 308301--308354 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
308291 TTACCATTAT
*
308301 TTGTATCGATACATGGCACAA
1 TTGTATCGATACAT-GAACAA
*
308322 -TGTATCGATACATGAAGAA
1 TTGTATCGATACATGAACAA
308341 TTGTATCGATACAT
1 TTGTATCGATACAT
308355 TACCTCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATGAACAA
Found at i:314505 original size:13 final size:13
Alignment explanation
Indices: 314484--314519 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
314474 ACAATATTTT
314484 TTGTATCGATACA
1 TTGTATCGATACA
*
314497 TTGTTTCGATACA
1 TTGTATCGATACA
*
314510 ATGTATCGAT
1 TTGTATCGAT
314520 GCATGGGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:316063 original size:33 final size:33
Alignment explanation
Indices: 316002--316068 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
315992 TAAGAGTTGA
* * * *
316002 TCACTTCACTTTCGCAGCACATGAATGAGTACT
1 TCACTTCACTCTCGCAACACACGAATGAGCACT
* *
316035 TCACTTCACTCTCGCAACGCACGGATGAGCACT
1 TCACTTCACTCTCGCAACACACGAATGAGCACT
316068 T
1 T
316069 TAGTTCTCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCGCAACACACGAATGAGCACT
Found at i:316407 original size:22 final size:25
Alignment explanation
Indices: 316355--316407 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 25
316345 GAAAGTTTTT
316355 GAAAATAAATTCTTAACAAAGGGGGA
1 GAAAATAAATTCTT-ACAAAGGGGGA
316381 G-AAATAAATT-TT-C-AAGGGGGA
1 GAAAATAAATTCTTACAAAGGGGGA
316402 GAAAAT
1 GAAAAT
316408 TTTGAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 9 0.35
22 5 0.19
24 2 0.08
25 9 0.35
26 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.25, T:0.21
Consensus pattern (25 bp):
GAAAATAAATTCTTACAAAGGGGGA
Found at i:316985 original size:20 final size:20
Alignment explanation
Indices: 316962--317026 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
316952 CACTTTCAGA
316962 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
316982 TGTATCGATACA--A-----
1 TGTATCGATACATTATGCTT
316995 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
317015 TGTATCGATACA
1 TGTATCGATACA
317027 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 12 0.32
15 1 0.03
18 1 0.03
20 24 0.63
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:317000 original size:13 final size:13
Alignment explanation
Indices: 316982--317039 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
316972 CATTATGCTT
316982 TGTATCGATACAA
1 TGTATCGATACAA
316995 TGTATCGATAC-A
1 TGTATCGATACAA
**
317007 T-TAT-G---CTT
1 TGTATCGATACAA
317015 TGTATCGATACAA
1 TGTATCGATACAA
317028 TGTATCGATACA
1 TGTATCGATACA
317040 TGTTCATTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.06
11 3 0.08
12 2 0.06
13 24 0.67
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:317003 original size:33 final size:33
Alignment explanation
Indices: 316961--317058 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
316951 ACACTTTCAG
316961 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATTATGCTTTGTATCGATACA
316994 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATTATGCTTTGTATCGATACA
*
317027 ATGTATCGATACATGT-T-CATTGTATCGATACA
1 ATGTATCGATACAT-TATGCTTTGTATCGATACA
317059 TGAACATTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
32 14 0.22
33 48 0.76
34 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTATGCTTTGTATCGATACA
Found at i:317052 original size:19 final size:19
Alignment explanation
Indices: 317028--317081 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
317018 ATCGATACAA
**
317028 TGTATCGATACATGTTCAT
1 TGTATCGATACATGAACAT
317047 TGTATCGATACATGAACAT
1 TGTATCGATACATGAACAT
317066 TGTATCGATACATGAA
1 TGTATCGATACATGAA
317082 ACTGGTAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATGAACAT
Found at i:317143 original size:13 final size:13
Alignment explanation
Indices: 317125--317153 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
317115 GATACATGGC
317125 ACAATGTATCGAT
1 ACAATGTATCGAT
317138 ACAATGTATCGAT
1 ACAATGTATCGAT
317151 ACA
1 ACA
317154 CGAAGAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:321561 original size:44 final size:44
Alignment explanation
Indices: 321513--321606 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
321503 TGGCATTTAC
321513 ATCATTGCATATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
1 ATCATTGCATATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
*
321557 ATCATTGCATATGCGTTTGCCCTTTTGTTGATTCTTGCATTTGT
1 ATCATTGCATATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
321601 ATCATT
1 ATCATT
321607 TTACATGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.49
Consensus pattern (44 bp):
ATCATTGCATATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
Found at i:321620 original size:44 final size:44
Alignment explanation
Indices: 321513--321620 Score: 162
Period size: 44 Copynumber: 2.5 Consensus size: 44
321503 TGGCATTTAC
*
321513 ATCATTGCATATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
1 ATCATTGCACATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
* *
321557 ATCATTGCATATGCGTTTGCCCTTTTGTTGATTCTTGCATTTGT
1 ATCATTGCACATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
** *
321601 ATCATTTTACATGCATTTGC
1 ATCATTGCACATGCGTTTGC
321621 ATTTAGATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.16, C:0.19, G:0.18, T:0.48
Consensus pattern (44 bp):
ATCATTGCACATGCGTTTGCCCTTTTGTTGATGCTTGCATTTGT
Found at i:322369 original size:52 final size:52
Alignment explanation
Indices: 322286--322386 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
322276 TACCCAACCA
* * * *
322286 TTAGATGGTATTGATGCATCACGAAGTTTGATTTCCTTGGGGCAAGGTATAG
1 TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTATAG
322338 TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTA
1 TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTA
322387 CAGCCCACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (52 bp):
TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTATAG
Found at i:322393 original size:141 final size:141
Alignment explanation
Indices: 322202--322474 Score: 465
Period size: 141 Copynumber: 1.9 Consensus size: 141
322192 AACCCCTAGT
* * * *
322202 TGGTATTGATGCATCACAAAGCTTGATTTCCTGGGGGCAAGGTGCAGCCCACACATTCCCAATTA
1 TGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCA
* *
322267 TATTCTCTTTACCCAACCATTAGATGGTATTGATGCATCACGAAGTTTGATTTCCTTGGGGCAAG
66 TATTCCCTTTACCCAACCATTAGATGGTATTGATGCATCACAAAGTTTGATTTCCTTGGGGCAAG
322332 GTATAGTTAGA
131 GTATAGTTAGA
322343 TGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCA
1 TGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCA
* * *
322408 TATTCCCTTTACCCAACCATTAGATGGTATTGATGTATCACAAAGTTTGATTTCTTTTGGGCAAG
66 TATTCCCTTTACCCAACCATTAGATGGTATTGATGCATCACAAAGTTTGATTTCCTTGGGGCAAG
322473 GT
131 GT
322475 GTAGCCCACA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 123 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (141 bp):
TGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCA
TATTCCCTTTACCCAACCATTAGATGGTATTGATGCATCACAAAGTTTGATTTCCTTGGGGCAAG
GTATAGTTAGA
Found at i:322496 original size:89 final size:89
Alignment explanation
Indices: 322338--322507 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 89
322328 CAAGGTATAG
322338 TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCC
1 TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCC
*
322403 AATCATATTCCCTTTACCCAACCA
66 AATCATATCCCCTTTACCCAACCA
* * * * ** ** * **
322427 TTAGATGGTATTGATGTATCACAAAGTTTGATTTCTTTTGGGCAAGGTGTAGCCCACAGATTCTT
1 TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCC
322492 AATCATATCCCCTTTA
66 AATCATATCCCCTTTA
322508 TCTATCCACT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (89 bp):
TTAGATGGTATTGACGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCC
AATCATATCCCCTTTACCCAACCA
Found at i:322531 original size:89 final size:89
Alignment explanation
Indices: 322355--322536 Score: 211
Period size: 89 Copynumber: 2.0 Consensus size: 89
322345 GTATTGACGC
*
322355 ATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCATATTCCCTTTAC
1 ATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCATATCCCCTTTAC
* * * *
322420 CCAACCATTAGATGGTATTGATGT
66 CCAACCACTACATAGTACTGATGT
* * ** ** * ** *
322444 ATCACAAAGTTTGATTTCTTTTGGGCAAGGTGTAGCCCACAGATTCTTAATCATATCCCCTTTAT
1 ATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCATATCCCCTTTAC
* *
322509 CTATCCACTACATAGTACTGATGT
66 CCAACCACTACATAGTACTGATGT
322533 ATCA
1 ATCA
322537 TAATTCATCT
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
89 76 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (89 bp):
ATCACAAAGCTTGATTTCCTAGGGGCAAGGTACAGCCCACACATTCCCAATCATATCCCCTTTAC
CCAACCACTACATAGTACTGATGT
Found at i:322770 original size:44 final size:44
Alignment explanation
Indices: 322722--323067 Score: 281
Period size: 44 Copynumber: 7.8 Consensus size: 44
322712 CCCCTGCTCT
322722 ATTTGACGTATGGTTACCACCCTGGTCAAATT-TCTCTCATTTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAAATTCT-TCTCATTTTG
* * * *
322766 ATTTGACGTATGGTTACTACCCTGATCAGATTCTTTTCATTTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAAATTCTTCTCATTTTG
* * **
322810 ATTTGATGTATGGTTACCACCCTGGTCAAATCCGCCTCTATTTT-
1 ATTTGACGTATGGTTACCACCCTGGTCAAATTCTTCTC-ATTTTG
*
322854 ATTTGACTGTATTGGTTACCACCCTGGTCAAACTT-TTCTCA-TTTC
1 ATTTGAC-GTA-TGGTTACCACCCTGGTCAAA-TTCTTCTCATTTTG
* * ** * *
322899 AGTCTAATATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
1 A-TTTGACGTATGGTTACCACCCTGGTCAAATTCTTCTCATTTTG
* * * * **
322944 ATTTGACGTATGATTACCACCTTAGTCAAATCCACCT-ATTTTCTG
1 ATTTGACGTATGGTTACCACCCTGGTCAAATTCTTCTCA-TTT-TG
* * * * * * * * *
322989 -TCTGACATATGCTTAACACCCTAGTCAGATTCTTCTTATTCTA
1 ATTTGACGTATGGTTACCACCCTGGTCAAATTCTTCTCATTTTG
* *
323032 ATTTGACGTACGGTTACCAACCTGGTCAAATCTCTT
1 ATTTGACGTATGGTTACCACCCTGGTCAAAT-TCTT
323068 TCCTTTTTTT
Statistics
Matches: 234, Mismatches: 54, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
43 4 0.02
44 179 0.76
45 24 0.10
46 26 0.11
47 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (44 bp):
ATTTGACGTATGGTTACCACCCTGGTCAAATTCTTCTCATTTTG
Found at i:322925 original size:90 final size:88
Alignment explanation
Indices: 322730--322964 Score: 253
Period size: 90 Copynumber: 2.6 Consensus size: 88
322720 CTATTTGACG
** * *
322730 TATGGTTACCACCCTGGTCAAATTTCTCTCATTTTGATTTGACGTATGGTTACTACCCTGATCAG
1 TATGGTTACCACCCTGGTCAAATGCCTCTCATTTTGATTTGACGTATGGTTACCACCCTGATCAA
* * * * *
322795 ATTCTTTTCATTTTGATTTGATG
66 ATTCTTCTCATTTAGATCTAATA
*
322818 TATGGTTACCACCCTGGTCAAATCCGCCTCT-ATTTT-ATTTGACTGTATTGGTTACCACCCTGG
1 TATGGTTACCACCCTGGTCAAAT--GCCTCTCATTTTGATTTGAC-GTA-TGGTTACCACCCTGA
322881 TCAAACTT-TTCTCATTTCAG-TCTAATA
62 TCAAA-TTCTTCTCATTT-AGATCTAATA
* * * * *
322908 TATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGACGTATGATTACCACC
1 TATGGTTACCACCCTGGTCAAATGCCTCTCATTTTGATTTGACGTATGGTTACCACC
322965 TTAGTCAAAT
Statistics
Matches: 124, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
88 43 0.35
89 16 0.13
90 62 0.50
91 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (88 bp):
TATGGTTACCACCCTGGTCAAATGCCTCTCATTTTGATTTGACGTATGGTTACCACCCTGATCAA
ATTCTTCTCATTTAGATCTAATA
Found at i:322937 original size:134 final size:132
Alignment explanation
Indices: 322721--322976 Score: 363
Period size: 134 Copynumber: 1.9 Consensus size: 132
322711 ACCCCTGCTC
* * * * *
322721 TATTTGACGTATGGTTACCACCCTGGTCAAATTTCTCTCATTTTGATTTGACGTATGGTTACTAC
1 TATTTGACGTATGGTTACCACCCTGGTCAAATTTCTCTCATTTAGATCTAACATATGGTTACCAC
* * *
322786 CCTGATCAGATTCTTTTCATTTTGATTTGATGTATGGTTACCACCCTGGTCAAATCCGCCTCTAT
66 CCTGATCAGATTCTTTTCATTTTGATTTGACGTATGATTACCACCCTAGTCAAATCCGCCTCTAT
322851 TT
131 TT
*
322853 TATTTGACTGTATTGGTTACCACCCTGGTCAAACTTT-TCTCATTTCAG-TCTAATATATGGTTA
1 TATTTGAC-GTA-TGGTTACCACCCTGGTCAAA-TTTCTCTCATTT-AGATCTAACATATGGTTA
* *
322916 CCACCCTGGTCAGATTCTTTTCATTTTGATTTGACGTATGATTACCACCTTAGTCAAATCC
62 CCACCCTGATCAGATTCTTTTCATTTTGATTTGACGTATGATTACCACCCTAGTCAAATCC
322977 ACCTATTTTC
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
132 8 0.07
133 3 0.03
134 94 0.86
135 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (132 bp):
TATTTGACGTATGGTTACCACCCTGGTCAAATTTCTCTCATTTAGATCTAACATATGGTTACCAC
CCTGATCAGATTCTTTTCATTTTGATTTGACGTATGATTACCACCCTAGTCAAATCCGCCTCTAT
TT
Found at i:323282 original size:42 final size:42
Alignment explanation
Indices: 323220--324604 Score: 683
Period size: 42 Copynumber: 32.9 Consensus size: 42
323210 TTCAAACTTT
* *
323220 CTCAAGTCTGCCTATTGGCTTTGAACCTAGAGACTTTCCTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTAC
** * * *
323262 CTCAAGTCCACCTGTCGGCTTTGAACTTGGAGACATTT-TTATC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGAC-TTTCCTA-C
* * * * *
323305 CTC-AGTCTACTTGCCGGCTTTG-ACCTTGGAGA-TTGCCTAAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCT-AC
* *
323346 CTCAAGTCTACCTGTCGGCTTT-AACCTAAGAGACTTTCTTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCT-AGAGACTTTCCTAC
* * *
323388 CTTC-AGTCTGCCTGTTGGCTTT-AACCTTGGAGAC-TGCCTAAC
1 C-TCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCT-AC
* * *
323430 CTCAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCTTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTAC
* * * * * * *
323472 C-CTTAGTCTGCTTGTCGACTTTGATCGTGGAGAC-TGCCTCAC
1 CTC-AAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCT-AC
* * *
323514 CTCAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTTCTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTAC
* *
323556 CTTC-AGTCTGCCTGTCGGCTTTG-ACCTTAGAGAC-TGCCTCAT
1 C-TCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCT-AC
* * * **
323598 CTTAAATCTACCTGTTC-GCTTTG-ACCTAGGAGACTTTTTTAC
1 CTCAAGTCTGCCTG-TCGGCTTTGAACCTA-GAGACTTTCCTAC
* * * ** *
323640 TCTCAAGTCTACCTGTCGGCTTTGACCCTAGACACTTTTTTCC
1 -CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTAC
* * * * * *
323683 CTCCAGTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTTATC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTA-C
* * * *
323726 CTTC-AGTCTGCCTGTCAGCTTTGACCCTGGAGACTGCTT--TAT
1 C-TCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACT--TTCCTAC
** * *
323768 CTCAAGTCTATCTGTCAGCTTTG-ACCTTAGAGACTTGCCTCAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCT-AC
* * * * *
323811 CTCAAGTTTACTTGTCGGCTTTG-ACCTTGGAGACTTTCTTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCTAC
** * * * *
323853 CTTTAGTCTACCTGTCGACTTTGACCCTAGAGAC-TACCTCAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCT-AC
* * * * * *
323895 CTCAAGTTTGTCTATCGGCTTTGACCCTGGAGAC-TGCCTCAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCT-AC
* * * *
323937 CTCAAGTCTGCCTGTCGACTTTGACCCTAAAGACTTTCTTACC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTA-C
* * ** * *
323980 CTC-AGTCTGTCTATTAGCTTTG-ACCTTGGAGAC-TACCTAAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCT-AC
* * * **
324021 CTCATGTCTGCCTGTCGGCTTTGACCCTAGAGAATTTTTTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTAC
** ** * * *
324063 CTTTAGTCTGCCCATCGGCTTTGACCCTAGAGAC-TGCCTCAT
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCT-AC
* **
324105 CTCAAGTCTGCCTATCAACTTT-AACCCTAGAGACTTTCCTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAA-CCTAGAGACTTTCCTAC
* * * *
324147 CATTAAGTCTGCTTGTCGGCTTT-AACCTTGGAGACTTTCTTACC
1 C-TCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCTA-C
* * *
324191 CTC-AGTTTGCCTGTCGGCTTTGACCCTAGAGAC-TACCTCAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCT-AC
* ** *
324232 CTCAAGTCTACCTGTCTACTTTG-ACCTTAGAGACTTTCTTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCTAC
** * * * * * *
324274 CTTTAGTCTGCCTGTCAGCCTCG-ACCTTGGAGAC-TGCCTCAT
1 CTCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCT-AC
* * * *
324316 CTTAAGTCTGCCTATCGGCTTTG-ACCTTGGAGAATTTCCTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCTAC
* * * * * *
324358 CTTCAA-TCTGCTTATCGGCTTTGACCCTAGATAC-TGCCTTAT
1 C-TCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCC-TAC
* * * * **
324400 CTCAAGTCTTCCTGTCAGCTTTGACCCTGGAGACTTTTTTAC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTAC
* * *
324442 CTTC-AGTCTGCCTGTCGGCTTT-AACCTTGGAGAC-TGCCTCAT
1 C-TCAAGTCTGCCTGTCGGCTTTGAACC-TAGAGACTTTCCT-AC
* * * * * * *
324484 CTTAAGTTTGTCTGTCAGCTTTGACCCTGGAGACTTTACTACC
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTA-C
* * * * * *
324527 CTC-AGTCTGCTTGTCGGTTTTGACCCTGGAGAC-TACCTCAT
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCT-AC
* * ** *
324568 CTCAAGTCTGCATGACGGCTTTGTCCCTGGAGACTTT
1 CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTT
324605 TTCACCTTTT
Statistics
Matches: 1029, Mismatches: 239, Indels: 149
0.73 0.17 0.11
Matches are distributed among these distances:
40 3 0.00
41 75 0.07
42 739 0.72
43 202 0.20
44 8 0.01
45 2 0.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.34
Consensus pattern (42 bp):
CTCAAGTCTGCCTGTCGGCTTTGAACCTAGAGACTTTCCTAC
Found at i:323518 original size:168 final size:168
Alignment explanation
Indices: 323224--324434 Score: 904
Period size: 168 Copynumber: 7.2 Consensus size: 168
323214 AACTTTCTCA
* * * * *
323224 AGTCTGCCTATTGGCTTTGAACCTAGAGACTTTCCT-ACCTCAAGTCCACCTGTCGGCTTTGAAC
1 AGTCTGCCTATCGGCTTTGACCCTAGAGAC-TGCCTCACCTCAAGTCTACCTGTCGGCTTTGACC
* * * * * *
323288 TTGGAGACATTT-TTATCCTCAGTCTACTTGCCGGCTTTGACCTTGGAGATTGCCTAACCTCAAG
65 CTAGAGAC-TTTCTTACCCTAAGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCTAACCTCAAG
* *
323352 TCTACCTGTCGGCTTT-AACCTAAGAGACTTTCTTACCTTC
129 TCTGCCTGTCGGCTTTGACCCT-AGAGACTTTCTTACCTTC
* * * * * * * *
323392 AGTCTGCCTGTTGGCTTTAACCTTGGAGACTGCCTAACCTCAAGTCTGCCTATCGGCTTTGACCC
1 AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTACCTGTCGGCTTTGACCC
* * * * * *
323457 TAGAGACTTTCTTACCCTTAGTCTGCTTGTCGACTTTGATCGTGGAGACTGCCTCACCTCAAGTC
66 TAGAGACTTTCTTACCCTAAGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCTAACCTCAAGTC
*
323522 TGCCTGTCAGCTTTGACCCTAGAGACTTT-TCTACCTTC
131 TGCCTGTCGGCTTTGACCCTAGAGACTTTCT-TACCTTC
* * * * *
323560 AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTTAAATCTACCTGTTC-GCTTTGA-C
1 AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTACCTG-TCGGCTTTGACC
* * * * * * *** ** *
323623 CTAGGAGACTTTTTTACTCTCAAGTCTACCTGTCGGCTTTGACCCTAGACACTTTTTTCCCTCCA
65 CTA-GAGACTTTCTTACCCT-AAGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCTAACCTCAA
* * *
323688 GTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTTATCCTTC
128 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTA-CCTTC
* * * * * * * * *
323730 AGTCTGCCTGTCAGCTTTGACCCTGGAGACTGCTTTATCTCAAGTCTATCTGTCAGCTTTGACCT
1 AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTACCTGTCGGCTTTGACCC
* * * ** * **
323795 TAGAGACTTGCCT-CACCTCAAGTTTACTTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTTAG
66 TAGAGACTTTCTTAC-CCT-AAGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCTAACCTCAAG
* * ** *
323859 TCTACCTGTCGACTTTGACCCTAGAGACTACCTCACC-TC
129 TCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCTTC
* * * * *
323898 AAGTTTGTCTATCGGCTTTGACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGACTTTGACC
1 -AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTACCTGTCGGCTTTGACC
* * * * * *
323963 CTAAAGACTTTCTTACCCTCAGTCTGTCTAT-T-AGCTTTGACCTTGGAGACTACCTAACCTCAT
65 CTAGAGACTTTCTTACCCTAAGTCT-ACT-TGTCGGCTTTGACCTTGGAGACTGCCTAACCTCAA
* * *
324026 GTCTGCCTGTCGGCTTTGACCCTAGAGAATTTTTTACCTTT
128 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCTTC
* * * * ** *
324067 AGTCTGCCCATCGGCTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTATCAACTTTAACCC
1 AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTACCTGTCGGCTTTGACCC
* * * * * * *
324132 TAGAGACTTTCCTACCATTAAGTCTGCTTGTCGGCTTTAACCTTGGAGACTTTCTTACCCTC-AG
66 TAGAGACTTTCTTACC-CTAAGTCTACTTGTCGGCTTTGACCTTGGAGAC-TGCCTAACCTCAAG
* ** *
324196 TTTGCCTGTCGGCTTTGACCCTAGAGACTACCTCACC-TC
129 TCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCTTC
* * ** * ** * ** * * * *
324235 AAGTCTACCTGTCTACTTTGACCTTAGAGACTTTCTTACCTTTAGTCTGCCTGTCAGCCTCGACC
1 -AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTACCTGTCGGCTTTGACC
* * ** * * * * * * * *
324300 TTGGAGACTGCCTCATCTTAAGTCTGCCTATCGGCTTTGACCTTGGAGAATTTCCT-ACCTTCAA
65 CTAGAGACTTTCTTACCCTAAGTCTACTTGTCGGCTTTGACCTTGGAG-ACTGCCTAACC-TCAA
* * * ** *
324364 -TCTGCTTATCGGCTTTGACCCTAGATACTGCCTTATC-TC
128 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCTTC
* * * *
324403 AAGTCTTCCTGTCAGCTTTGACCCTGGAGACT
1 -AGTCTGCCTATCGGCTTTGACCCTAGAGACT
324435 TTTTTACCTT
Statistics
Matches: 836, Mismatches: 182, Indels: 50
0.78 0.17 0.05
Matches are distributed among these distances:
167 15 0.02
168 421 0.50
169 256 0.31
170 141 0.17
171 3 0.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (168 bp):
AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTACCTGTCGGCTTTGACCC
TAGAGACTTTCTTACCCTAAGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCTAACCTCAAGTC
TGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCTTC
Found at i:324478 original size:84 final size:84
Alignment explanation
Indices: 323220--324635 Score: 812
Period size: 84 Copynumber: 16.8 Consensus size: 84
323210 TTCAAACTTT
* * * * * **
323220 CTCAAGTCTGCCTATTGGCTTTGAACCTAGAGACTTTCCTACC-TCAAGTCCACCTGTCGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTT
* * * ** *
323284 GAACTTGGAGACAT-TTTTATC
65 GACCCTAGAGAC-TGCCTCA-C
* * * * * * *
323305 CTC-AGTCTACTTGCCGGCTTTGACCTTGGAGA-TTGCCTAACC-TCAAGTCTACCTGTCGGCTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-TCTTACCTTC-AGTCTGCCTGTCGGCTT
* ** *
323367 T-AACCTAAGAGACTTTCTTAC
64 TGACCCT-AGAGACTGCCTCAC
* * * ** * *
323388 CTTC-AGTCTGCCTGTTGGCTTTAACCTTGGAGACTGCCTAACC-TCAAGTCTGCCTATCGGCTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTT
** *
323451 TGACCCTAGAGACTTTCTTAC
64 TGACCCTAGAGACTGCCTCAC
* * * * * ** * *
323472 C-CTTAGTCTGCTTGTCGACTTTGATCGTGGAGACTGCCTCACC-TCAAGTCTGCCTGTCAGCTT
1 CTC-AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTT
**
323535 TGACCCTAGAGACT-TTTCTAC
64 TGACCCTAGAGACTGCCTC-AC
* * ** * * * * *
323556 CTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTTAAATCTACCTGTTC-GCTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTG-TCGGCTT
*** *
323619 TGA-CCTAGGAGACTTTTTTAC
64 TGACCCTA-GAGACTGCCTCAC
* * * * * * * *
323640 TCTCAAGTCTACCTGTCGGCTTTGACCCTAGACACTTTTTTCCCTCCAGTCTGCCTATCAGCTTT
1 -CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTT
* ** *
323705 GACCCTGGAGACTTTCTTATC
65 GACCCTAGAGACTGCCTCA-C
* * * ** *
323726 CTTC-AGTCTGCCTGTCAGCTTTGACCCTGGAGAC-TGCTTTATC-TCAAGTCTATCTGTCAGCT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTC-TTACCTTC-AGTCTGCCTGTCGGCT
*
323788 TTGACCTTAGAGACTTGCCTCAC
63 TTGACCCTAGAGAC-TGCCTCAC
* * * * * * *
323811 CTCAAGTTTACTTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTACCTGTCGACTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTG
*
323876 ACCCTAGAGACTACCTCAC
66 ACCCTAGAGACTGCCTCAC
* * * ** * *
323895 CTCAAGTTTGTCTATCGGCTTTGACCCTGGAGACTGCCTCACC-TCAAGTCTGCCTGTCGACTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTT
* ** *
323959 GACCCTAAAGACTTTCTTACC
65 GACCCTAGAGACTGCCTCA-C
* * ** * ** *
323980 CTC-AGTCTGTCTATTAGCTTTGACCTTGGAGACTACCTAACC-TCATGTCTGCCTGTCGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCA-GTCTGCCTGTCGGCTTT
* *** *
324043 GACCCTAGAGAATTTTTTAC
65 GACCCTAGAGACTGCCTCAC
** ** * ** * * * **
324063 CTTTAGTCTGCCCATCGGCTTTGACCCTAGAGACTGCCTCATC-TCAAGTCTGCCTATCAACTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTT
* *
324127 AACCCTAGAGACTTTCCT-AC
65 GACCCTAGAGAC-TGCCTCAC
* * * * * *
324147 CATTAAGTCTGCTTGTCGGCTTTAACCTTGGAGACTTTCTTACCCTCAGTTTGCCTGTCGGCTTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTT
*
324212 GACCCTAGAGACTACCTCAC
65 GACCCTAGAGACTGCCTCAC
* ** * * * * * *
324232 CTCAAGTCTACCTGTCTACTTTGACCTTAGAGACTTTCTTACCTTTAGTCTGCCTGTCAGCCTCG
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTG
* * *
324297 ACCTTGGAGACTGCCTCAT
66 ACCCTAGAGACTGCCTCAC
* * * * * * * *
324316 CTTAAGTCTGCCTATCGGCTTTGACCTTGGAGAATTTCCTACCTTCAATCTGCTTATCGGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTG
* * *
324381 ACCCTAGATACTGCCTTAT
66 ACCCTAGAGACTGCCTCAC
* * * *
324400 CTCAAGTCTTCCTGTCAGCTTTGACCCTGGAGACTTTTTTACCTTCAGTCTGCCTGTCGGCTTTA
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTG
* * *
324465 ACCTTGGAGACTGCCTCAT
66 ACCCTAGAGACTGCCTCAC
* * * * * * *
324484 CTTAAGTTTGTCTGTCAGCTTTGACCCTGGAGACTTTAC-TACCCTCAGTCTGCTTGTCGGTTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-CTTACCTTCAGTCTGCCTGTCGGCTTT
* * *
324548 GACCCTGGAGACTACCTCAT
65 GACCCTAGAGACTGCCTCAC
* * * * * *
324568 CTCAAGTCTGCATGACGGCTTTGTCCCTGGAGACTTT-TTCACCTTTTA-TTTGCCTGTTGGCTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTT-ACC-TTCAGTCTGCCTGTCGGCTT
324631 TGACC
64 TGACC
324636 TGGGAGAATC
Statistics
Matches: 1066, Mismatches: 225, Indels: 81
0.78 0.16 0.06
Matches are distributed among these distances:
82 1 0.00
83 21 0.02
84 776 0.73
85 252 0.24
86 16 0.02
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (84 bp):
CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTG
ACCCTAGAGACTGCCTCAC
Found at i:325245 original size:26 final size:27
Alignment explanation
Indices: 325200--325258 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
325190 ACAAAAAAAT
325200 AAAAATAATTAATAAATAATTAAATA-A
1 AAAAATAATTAATAAATAATTAAA-AGA
* *
325227 AAAAATAA-TATTAATTAATTAAAAGA
1 AAAAATAATTAATAAATAATTAAAAGA
325253 AAAAAT
1 AAAAAT
325259 TCATGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 20 0.69
27 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAATAATTAATAAATAATTAAAAGA
Found at i:325357 original size:17 final size:17
Alignment explanation
Indices: 325335--325417 Score: 121
Period size: 17 Copynumber: 4.9 Consensus size: 17
325325 TTAGGTGGTG
*
325335 TTTCATGCATACTTTTA
1 TTTCATGCATGCTTTTA
325352 TTTCATGCATGCTTTTA
1 TTTCATGCATGCTTTTA
* * *
325369 CTTCATGCGTACTTTTA
1 TTTCATGCATGCTTTTA
325386 TTTCATGCATGCTTTTA
1 TTTCATGCATGCTTTTA
*
325403 CTTCATGCATGCTTT
1 TTTCATGCATGCTTT
325418 CATGCAAATG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (17 bp):
TTTCATGCATGCTTTTA
Found at i:325374 original size:34 final size:34
Alignment explanation
Indices: 325336--325417 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
325326 TAGGTGGTGT
325336 TTCATGCATACTTTTATTTCATGCATGCTTTTAC
1 TTCATGCATACTTTTATTTCATGCATGCTTTTAC
*
325370 TTCATGCGTACTTTTATTTCATGCATGCTTTTAC
1 TTCATGCATACTTTTATTTCATGCATGCTTTTAC
*
325404 TTCATGCATGCTTT
1 TTCATGCATACTTT
325418 CATGCAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (34 bp):
TTCATGCATACTTTTATTTCATGCATGCTTTTAC
Found at i:325822 original size:20 final size:18
Alignment explanation
Indices: 325789--325832 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
325779 CTGATGCAGC
*
325789 AAAAAGAAATAACAATAAA
1 AAAAAGAAAAAACAA-AAA
325808 AAAAGAGAAAAAACAAAAA
1 AAAA-AGAAAAAACAAAAA
325827 AGAAAA
1 A-AAAA
325833 CAAGCAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.82, C:0.05, G:0.09, T:0.05
Consensus pattern (18 bp):
AAAAAGAAAAAACAAAAA
Found at i:325958 original size:23 final size:23
Alignment explanation
Indices: 325919--325988 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
325909 ACAAGCAATG
*
325919 GCAA-CAAAC-CCAACAAAAATA
1 GCAAGCAAACACCAGCAAAAATA
* * *
325940 GCAAGCAAATACTAGCAAAAACA
1 GCAAGCAAACACCAGCAAAAATA
325963 GCAAGCAAACACCAGC-AAAATA
1 GCAAGCAAACACCAGCAAAAATA
325985 GCAA
1 GCAA
325989 TCAAGGAAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 4 0.10
22 13 0.32
23 23 0.57
ACGTcount: A:0.57, C:0.26, G:0.11, T:0.06
Consensus pattern (23 bp):
GCAAGCAAACACCAGCAAAAATA
Found at i:331572 original size:20 final size:19
Alignment explanation
Indices: 331543--331581 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
331533 AGGTCAAAAC
331543 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
331562 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
331582 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:331609 original size:13 final size:13
Alignment explanation
Indices: 331591--331615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
331581 ATAATGCACA
331591 GTATCGATACATT
1 GTATCGATACATT
331604 GTATCGATACAT
1 GTATCGATACAT
331616 GACCAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:331733 original size:13 final size:13
Alignment explanation
Indices: 331715--331740 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
331705 TATACACAAG
331715 ATGTATCGATACA
1 ATGTATCGATACA
331728 ATGTATCGATACA
1 ATGTATCGATACA
331741 TCCCTAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:335926 original size:13 final size:13
Alignment explanation
Indices: 335908--335933 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
335898 AGGGTAGCTT
335908 TTGTATCGATACA
1 TTGTATCGATACA
335921 TTGTATCGATACA
1 TTGTATCGATACA
335934 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:337459 original size:28 final size:27
Alignment explanation
Indices: 337427--337495 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
337417 TAATCTTCAA
337427 TGGAATCAAGAAAAGTGCCAATCCCTAG
1 TGGAATCAAGAAAAGTG-CAATCCCTAG
* * *
337455 TGGAATCAGGACAAATTGCAATTCCTAG
1 TGGAATCAAGA-AAAGTGCAATCCCTAG
*
337483 TAGAATCAAGAAA
1 TGGAATCAAGAAA
337496 CTTGCAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.06
28 28 0.80
29 5 0.14
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (27 bp):
TGGAATCAAGAAAAGTGCAATCCCTAG
Found at i:338185 original size:35 final size:33
Alignment explanation
Indices: 338110--338189 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
338100 TCATCCTTTT
* *
338110 AAGCCCACACAAGTTGGTGGCATCTTTTCTCAA
1 AAGCCCACATAAGTCGGTGGCATCTTTTCTCAA
* *
338143 AAGCCCACATAAGTCGGTGGCATCCTTTTTTTCCA
1 AAGCCCACATAAGTCGGTGGCAT-C-TTTTCTCAA
338178 AAGCCCACATAA
1 AAGCCCACATAA
338190 ACCGATAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 21 0.51
34 1 0.02
35 19 0.46
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (33 bp):
AAGCCCACATAAGTCGGTGGCATCTTTTCTCAA
Found at i:338725 original size:156 final size:158
Alignment explanation
Indices: 338495--338889 Score: 483
Period size: 156 Copynumber: 2.5 Consensus size: 158
338485 TTTTCTTTCT
* * * ** * *
338495 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCCTTATCATCTTTAAGTCTAATATC
1 TAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
** * * *
338560 ATTGGCCTTGAATCAACATATTGCCACTTTTGT-TATTTTTAAGTCCGATATCGCTGGCCTTGAA
66 ACGGGCCTTGAATCAACACATTGCCACATTTGTCT-TCTTTAAGTCCGATATCGCTGGCCTTGAA
*
338624 TTAGCATATTGGCA-TCT-TTAACAT-TCC
130 TCAGCATATTGGCACTCTATTAACATGT-C
* *
338651 TAAGCCCAATGTCGCTAACCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
1 TAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
* * *
338716 GCGGGCCTTGAATCAGCACATTGGCACATTTGTCTTCTTTAAGTCCGATATCGCTGGCCTTGAAT
66 ACGGGCCTTGAATCAACACATTGCCACATTTGTCTTCTTTAAGTCCGATATCGCTGGCCTTGAAT
* *
338781 CAGCATATTGGCACTTCTATTATCATGTT
131 CAGCATATTGGCAC-TCTATTAACATGTC
* * * * *
338810 TAAGTCCAATATTGCTAGCCTTGAATCAACACATTGGCATTCTTGTCATCTTTAAGTCCATTGTC
1 TAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
** *
338875 ATTGGCTTTGAATCA
66 ACGGGCCTTGAATCA
338890 GCTTATTGGT
Statistics
Matches: 203, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
156 123 0.61
157 1 0.00
158 3 0.01
159 75 0.37
160 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (158 bp):
TAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
ACGGGCCTTGAATCAACACATTGCCACATTTGTCTTCTTTAAGTCCGATATCGCTGGCCTTGAAT
CAGCATATTGGCACTCTATTAACATGTC
Found at i:338898 original size:52 final size:53
Alignment explanation
Indices: 338432--338869 Score: 394
Period size: 52 Copynumber: 8.4 Consensus size: 53
338422 TCTTCTCATC
* * *
338432 CTTATCATCTTTAAGTCCAATGTCAG-TAGCCTTGAATCAGCACATTAGCACTT
1 CTTATCATCTTTAAGTCCAATATC-GCTGGCCTTGAATCAGCACATTGGCACTT
* * * * * *
338485 -TTTTC-TTTCTTAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCAC-C
1 CTTATCATCT-TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
* ** * * *
338536 CTTATCATCTTTAAGTCTAATATCATTGGCCTTGAATCAACATATTGCCACTT
1 CTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
* * * * * *
338589 -TTGTTATTTTTAAGTCCGATATCGCTGGCCTTGAATTAGCATATTGGCA--T
1 CTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
* * * * **
338639 CTTTAACAT-TCCTAAGCCCAATGTCGCTAACCTTGAATCAGCACATTGGCA-TT
1 C-TTATCATCT-TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
* * *
338692 CTTATCATCTTTAAGTCCAATGTCGCGGGCCTTGAATCAGCACATTGGCACAT
1 CTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
* * * *
338745 -TTGTCTTCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACTT
1 CTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
* * * *
338797 CTATTATCATGTTTAAGTCCAATATTGCTAGCCTTGAATCAACACATTGGCA-TT
1 C--TTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
*
338851 CTTGTCATCTTTAAGTCCA
1 CTTATCATCTTTAAGTCCA
338870 TTGTCATTGG
Statistics
Matches: 307, Mismatches: 64, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
50 1 0.00
51 4 0.01
52 252 0.82
53 6 0.02
54 3 0.01
55 41 0.13
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTT
Found at i:339599 original size:21 final size:20
Alignment explanation
Indices: 339570--339621 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
339560 TCTACAATTC
*
339570 GTATCGATACAAACAGTAAAT
1 GTATTGATACAAA-AGTAAAT
* *
339591 GTATTGATACATAAGTGAAT
1 GTATTGATACAAAAGTAAAT
*
339611 TTATTGATACA
1 GTATTGATACA
339622 TGCCTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
GTATTGATACAAAAGTAAAT
Found at i:344559 original size:52 final size:52
Alignment explanation
Indices: 344411--344539 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
344401 CGAAATATGA
344411 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
344463 AAATTTGCCTGTATATATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
344515 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
344540 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:344635 original size:13 final size:13
Alignment explanation
Indices: 344617--344700 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
344607 AGCTTCGTAG
344617 CGATACATTGTAT
1 CGATACATTGTAT
344630 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
344649 CGATACATTGTAT
1 CGATACATTGTAT
344662 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
344681 CGATACATTGTAT
1 CGATACATTGTAT
344694 CGATACA
1 CGATACA
344701 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:344649 original size:19 final size:18
Alignment explanation
Indices: 344625--344687 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
344615 AGCGATACAT
344625 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
344644 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
344657 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
344676 TGTATCGATACA
1 TGTATCGATACA
344688 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:344658 original size:32 final size:32
Alignment explanation
Indices: 344617--344702 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
344607 AGCTTCGTAG
344617 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
344649 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
344681 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
344703 TCGTTGAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:345761 original size:20 final size:20
Alignment explanation
Indices: 345736--345832 Score: 87
Period size: 20 Copynumber: 5.5 Consensus size: 20
345726 GTTATAAGCA
345736 ATGTATCGATACGATGTACC
1 ATGTATCGATACGATGTACC
345756 ATGTATCGATAC-A--T---
1 ATGTATCGATACGATGTACC
345770 -TGTATCGATACGATGTACC
1 ATGTATCGATACGATGTACC
345789 ATGTATCGATAC-A--T---
1 ATGTATCGATACGATGTACC
345803 -TGTATCGATACGATGTACC
1 ATGTATCGATACGATGTACC
*
345822 ATGGATCGATA
1 ATGTATCGATA
345833 TAAATAGTGG
Statistics
Matches: 62, Mismatches: 1, Indels: 28
0.68 0.01 0.31
Matches are distributed among these distances:
13 22 0.35
14 2 0.03
16 2 0.03
17 2 0.03
19 2 0.03
20 32 0.52
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACGATGTACC
Found at i:345775 original size:13 final size:12
Alignment explanation
Indices: 345755--345819 Score: 59
Period size: 13 Copynumber: 5.5 Consensus size: 12
345745 TACGATGTAC
345755 CATGTATCGATA
1 CATGTATCGATA
345767 CATTGTATCGATA
1 CA-TGTATCGATA
345780 C--G-AT-G-TA
1 CATGTATCGATA
345787 CCATGTATCGATA
1 -CATGTATCGATA
345800 CATTGTATCGATA
1 CA-TGTATCGATA
345813 CGATGTA
1 C-ATGTA
345820 CCATGGATCG
Statistics
Matches: 44, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 5 0.11
13 28 0.64
14 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:345779 original size:33 final size:33
Alignment explanation
Indices: 345737--345832 Score: 183
Period size: 33 Copynumber: 2.9 Consensus size: 33
345727 TTATAAGCAA
345737 TGTATCGATACGATGTACCATGTATCGATACAT
1 TGTATCGATACGATGTACCATGTATCGATACAT
345770 TGTATCGATACGATGTACCATGTATCGATACAT
1 TGTATCGATACGATGTACCATGTATCGATACAT
*
345803 TGTATCGATACGATGTACCATGGATCGATA
1 TGTATCGATACGATGTACCATGTATCGATA
345833 TAAATAGTGG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (33 bp):
TGTATCGATACGATGTACCATGTATCGATACAT
Found at i:345908 original size:19 final size:19
Alignment explanation
Indices: 345864--345919 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
345854 CTACCAGTTT
* **
345864 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
345884 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
345903 CATGTATCGATATAATG
1 CATGTATCGATACAATG
345920 TATCTATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:347182 original size:94 final size:96
Alignment explanation
Indices: 346964--347201 Score: 216
Period size: 94 Copynumber: 2.5 Consensus size: 96
346954 TTTCCTTGGG
* *** *
346964 GATACTCCAACCCCATTTTTTTGAGGGGATACTCCAACCTCGTTTTTAAAAATTATGAAGATTTA
1 GATACTCCAACCCCA-TATTCCAAGGGGATACTCCAACCTCATTTTTAAAAATTATGAAGA-TTA
* *
347029 AATCTTAATTTTGCTTAAATTATCATCATTGTA
64 AATCTTAATTTTGCTTAAATTATCATCATCGGA
* * * * *
347062 GATACTCCAACCCCATATTCCGAGGGGATACTCCAACCTCATTTTT-AAACTTGTTAAGA-TAAT
1 GATACTCCAACCCCATATTCCAAGGGGATACTCCAACCTCATTTTTAAAAATTATGAAGATTAAA
* * ** *
347125 TTTTATTTTTGCTTAAATTATCATTGTCGGG
66 TCTTAATTTTGCTTAAATTATCATCATCGGA
** *
347156 GATACT-CAA-CCC-TATTCCTCTAAGGGGATACTTTAGCCTCATTTTT
1 GATACTCCAACCCCATATT-C-C-AAGGGGATACTCCAACCTCATTTTT
347202 TGACCAAATT
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
91 4 0.03
92 4 0.03
93 4 0.03
94 54 0.46
96 10 0.08
97 27 0.23
98 15 0.13
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (96 bp):
GATACTCCAACCCCATATTCCAAGGGGATACTCCAACCTCATTTTTAAAAATTATGAAGATTAAA
TCTTAATTTTGCTTAAATTATCATCATCGGA
Found at i:349734 original size:20 final size:20
Alignment explanation
Indices: 349709--349748 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
349699 TAATTTTTGG
*
349709 GTTAAACCAAGAAAGTGGTC
1 GTTAAAACAAGAAAGTGGTC
*
349729 GTTAAAACAAGCAAGTGGTC
1 GTTAAAACAAGAAAGTGGTC
349749 TTGTTTGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (20 bp):
GTTAAAACAAGAAAGTGGTC
Found at i:354730 original size:165 final size:165
Alignment explanation
Indices: 354459--354858 Score: 393
Period size: 165 Copynumber: 2.4 Consensus size: 165
354449 CAAAATACGG
* * *** * * *
354459 AGTTTTCTACTTCATAAATTTTTTCG-GGAGGA-TTTTCATTAATTCAAATTTTTTAAAATTTAT
1 AGTTTTCTACTCCATAAATGTTTTCGAGGA-GATTTTTC-TCGGTTTAAAATTTTTAAAATTCAT
* * * * * *
354522 CAAATATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATTCATTTTT
64 CAAATATAATCATTGAATTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCA-TCAGTTTT
* *
354587 CATTTTTT-TCTTAAAATTT-TCTTGTTTTTGAAATA-CA
128 CATTTTTTCT-TTAAAATTTCTC-TATTTTTGAAAAATCA
* ** **
354624 GAGTTTTCTACTCCGTAAATGTTTTCAGAGG-GATTTTT-TTTGTTTTTAATTTTTAAAATTCAT
1 -AGTTTTCTACTCCATAAATGTTTTC-GAGGAGATTTTTCTCGGTTTAAAATTTTTAAAATTCAT
* * *
354687 CAAATATAATCATTGAATTCATACTT-AATCAGTTTTGAAAAATTAATTTATTTTCATGAGTTTT
64 CAAATATAATCATTGAATTCATA-TTAAATCAGTTTTCAAAAATTAATTCATTTTCATCAGTTTT
* *
354751 GATTTTTTCTTTGAAATTTCTCTATTTTTGAAAAATCA
128 CATTTTTTCTTTAAAATTTCTCTATTTTTGAAAAATCA
* * * * *
354789 AGTTTTTTATTCTATAAATGTTTTCGTGGAGATTTTTCTCGGTTTAAAATTTTTAAAATTCATCT
1 AGTTTTCTACTCCATAAATGTTTTCGAGGAGATTTTTCTCGGTTTAAAATTTTTAAAATTCATCA
354854 AATAT
66 AATAT
354859 TGTTATTAAA
Statistics
Matches: 192, Mismatches: 33, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
163 3 0.02
164 60 0.31
165 96 0.50
166 26 0.14
167 5 0.03
168 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (165 bp):
AGTTTTCTACTCCATAAATGTTTTCGAGGAGATTTTTCTCGGTTTAAAATTTTTAAAATTCATCA
AATATAATCATTGAATTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATCAGTTTTCAT
TTTTTCTTTAAAATTTCTCTATTTTTGAAAAATCA
Found at i:358473 original size:21 final size:21
Alignment explanation
Indices: 358432--358474 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
358422 GCAAAAGCTA
*
358432 AAAAAAAGTAAAGTGAAAAAG
1 AAAAAAAGTAAAGTAAAAAAG
358453 AAAAAAAGTAAAG-AAATAAAG
1 AAAAAAAGTAAAGTAAA-AAAG
358474 A
1 A
358475 TTTATTGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (21 bp):
AAAAAAAGTAAAGTAAAAAAG
Found at i:360648 original size:985 final size:987
Alignment explanation
Indices: 358520--363452 Score: 9249
Period size: 986 Copynumber: 5.0 Consensus size: 987
358510 CCTTCATAGG
*
358520 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTCTTTT-TTTC
1 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCT-TTTTCTTTT
* *
358584 AAAACCCTGAACGATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATTTATTTTCATCAAG
65 TAAACCCTGAACCATGATCTACATTATGTACCTCGAAAAG-------TC---TATTTTCATCAAG
* *
358649 TGCAGTTATTTGAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTATT
120 TGTAGTTATTTGAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTT
* * *
358714 CCTAATAGCATGATGAAGGAAAGAAAAAAAATTTAAAAAAAAAGAAACGAAAAAAATGGAAAAAA
185 CCTAATAGCATGATGAAGCAAAGAAAAAAAATTT-TAAAAAAAGAAATGAAAAAAATGGAAAAAA
*
358779 TGGAG-TCTAAAGTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGA-AAAAAATTTCGGTGT
249 TGGAGCTCTAAAGTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGACAAAAATTTTCGGTGT
358842 CACTTATAAGATTACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAA
314 CACTTATAAGATTACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAA
* *
358907 ATGTCCT-AGAGTGTTGGCTCTCATCTAGAGGGTTTGACTCAGAAAATTAGACTTTTCTACCCTA
379 ATGTCTTAAG-GTGTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTA
*
358971 AATTAACCTTATAATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAA
443 AATTAACCTTTTAATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAA
*
359036 ACTTATGATAATATCAATTTTGTGTAATTCATAGGGAATCCATGTTTTGTAAAGCCTAATCCACT
508 ACTTATGATAATATCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACT
* *
359101 CGAGAGCCTAAGAGAATAGGGCATATGCTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAA
573 CGAGAGCCTAAGAGAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAA
*
359166 CTCTTTTTGTGTTAAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAAGAAATTTTC
638 CTCTTTTTGTGTTAAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTC
359231 TAGCAATGGATCATTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAA
703 TAGCAATGGATCATTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAA
*
359296 ACCCAAAAATTTTCCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAAGAATGATTGTTTA
768 ACCCAAAAATTTTCCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGATTGTTTA
359361 AGAAAATGATGTTATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCC
833 AGAAAATGATGTTATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCC
359426 TCTTCCTTAAATAAGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAA
898 TCTTCCTTAAATAAGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAA
*
359491 ACCACCTGAGGAAATGATTCTATAA
963 ACCACCTGAAGAAATGATTCTATAA
359516 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
1 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
359581 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
66 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
359646 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
131 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
359711 GATGAAGCAAAGAAAAAAAATTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAG-TCTAAA
196 GATGAAGCAAAGAAAAAAAATTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
*
359775 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGA-AAAAAATTTCGGTGTCACTTATAAGAT
261 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGACAAAAATTTTCGGTGTCACTTATAAGAT
*
359839 TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCCT-AGAG
326 TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCTTAAG-G
* *
359903 TGTTGGCTCTCATCTAGAGGGTTTGACTCAGAAAATTAGACTTTTCTACCCTAAATTAACCTTAT
390 TGTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTT
359968 AATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAAT
455 AATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAAT
*
360033 ATCAATTTTGTGTAATTCATAGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAG
520 ATCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAG
* *
360098 AGAATAGGGCATATGCTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTCTTTTTGTGT
585 AGAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTCTTTTTGTGT
*
360163 TAAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAAGAAATTTTCTAGCAATGGATC
650 TAAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAGCAATGGATC
360228 ATTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTT
715 ATTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTT
*
360293 TCCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAAGAATGATTGTTTAAGAAAATGATGT
780 TCCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGATTGTTTAAGAAAATGATGT
360358 TATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAAT
845 TATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAAT
*
360423 AAGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAGGA
910 AAGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAGA
360488 AATGATTCTATAA
975 AATGATTCTATAA
360501 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
1 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
360566 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
66 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
360631 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
131 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
360696 GATGAAGCAAAGAAAAAAAATTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
196 GATGAAGCAAAGAAAAAAAATTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
360761 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAAT-ACAAAAATTTTCGGTGTCACTTATAAGAT
261 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGACAAAAATTTTCGGTGTCACTTATAAGAT
*
360825 TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACTAAAAATTTCCTAAATGTCTTAAGGT
326 TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCTTAAGGT
360890 GTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTTA
391 GTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTTA
*
360955 ATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGTTTATTAAAAAAGAAACTTATGATAATA
456 ATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAATA
361020 TCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAGA
521 TCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAGA
*
361085 GAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTTTTTTTGTGTT
586 GAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTCTTTTTGTGTT
*
361150 AAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAACAATGGATCA
651 AAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAGCAATGGATCA
*
361215 TTGGTCTTCAAGAACTTTGAATATTATATGCTACAGGAGGAAATGTTTTAAAACCCAAAAATTTT
716 TTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTTT
361280 CCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGATTGTTTAAGAAAATGATGTT
781 CCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGATTGTTTAAGAAAATGATGTT
361345 ATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAATA
846 ATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAATA
361410 AGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAGAA
911 AGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAGAA
361475 ATGATTCTATAA
976 ATGATTCTATAA
361487 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
1 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
361552 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
66 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
361617 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
131 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
*
361682 GATGAAGCAAAGAAAAAAATTTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
196 GATGAAGCAAAGAAAAAAAATTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
361747 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAAT-ACAAAAATTTTCGGTGTCACTTATAAGAT
261 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGACAAAAATTTTCGGTGTCACTTATAAGAT
361811 TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCTTAAGGT
326 TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCTTAAGGT
361876 GTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTTA
391 GTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTTA
*
361941 ATCTGAACTTATAATAGCCAATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAATA
456 ATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAATA
362006 TCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAGA
521 TCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAGA
362071 GAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTCTTTTTGTGTT
586 GAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTCTTTTTGTGTT
362136 AAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAGCAATGGATCA
651 AAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAGCAATGGATCA
362201 TTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTTT
716 TTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTTT
*
362266 CCTTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGATTGTTTAAGAAAATGATGTT
781 CCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGATTGTTTAAGAAAATGATGTT
362331 ATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAATA
846 ATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAATA
362396 AGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAGAA
911 AGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAGAA
362461 ATGATTCTATAA
976 ATGATTCTATAA
362473 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
1 AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
362538 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
66 AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
362603 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
131 GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
*
362668 GATGAAGCAAAGAAAAAAATTTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
196 GATGAAGCAAAGAAAAAAAATTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
362733 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAA-GACAAAAATTTTCGGTGTCACTTATAAGAT
261 GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGACAAAAATTTTCGGTGTCACTTATAAGAT
*
362797 TACCAAGATTTTATAAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCTTAAGGT
326 TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCTTAAGGT
362862 GTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTTA
391 GTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTTA
362927 ATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAATA
456 ATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAATA
362992 TCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAGA
521 TCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAGA
*
363057 GAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTTTTTTTGTGTT
586 GAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTCTTTTTGTGTT
363122 AAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAGCAATGGATCA
651 AAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAGCAATGGATCA
363187 TTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTTT
716 TTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTTT
363252 CCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAAT-ATTTGTTTTAAGAAAATGATG
781 CCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGA-TTG-TTTAAGAAAATGATG
* * *
363316 TTATGAGTAGAAGATATTCTCTCTTGAGTTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAA
844 TTATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAA
* *
363381 TAGGAAAACAAAATATGAAAAATTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAG
909 TAAGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAG
363446 AAATGAT
974 AAATGAT
363453 ACATGATTGA
Statistics
Matches: 3890, Mismatches: 40, Indels: 23
0.98 0.01 0.01
Matches are distributed among these distances:
985 1020 0.26
986 2619 0.67
987 149 0.04
989 2 0.00
995 4 0.00
996 96 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (987 bp):
AAGAAATGATCCTTGATTAATCACCTTTAAACATTCGATTTAAGCCTATATATCTTTTTCTTTTT
AAACCCTGAACCATGATCTACATTATGTACCTCGAAAAGTCTATTTTCATCAAGTGTAGTTATTT
GAGTTGATAAGCCCATTCTTTGTGAAATTGTTTTTAGGATAGATTTTGAGTTTTCCTAATAGCAT
GATGAAGCAAAGAAAAAAAATTTTAAAAAAAGAAATGAAAAAAATGGAAAAAATGGAGCTCTAAA
GTGAAAACCTGAAAACAAGCAGTCTAAAGCAAAATGACAAAAATTTTCGGTGTCACTTATAAGAT
TACCAAGATTTTATCAAGAAGAAAAAAATCAAGGGACACCAAAAATTTCCTAAATGTCTTAAGGT
GTTGGCTCTCATCTAGAGGGTTTGACTTAGAAAATTAGACTTTTCTACCCTAAATTAACCTTTTA
ATCTGAACTTATAATAGCCGATCTTAGTGCCAATAAGGTTATTAAAAAAGAAACTTATGATAATA
TCAATTTTGTGTAATTCATGGGGAATCCATGTTTTGTAAAGCCTAATCCACTCGAGAGCCTAAGA
GAATAAGGCATATGTTTCATTTCTTTTAATAATCTTCTTAGACCAATTGAAACTCTTTTTGTGTT
AAGTCTTTCAACCAAATTTTTAAAAGTCCAAATCACTATTTAGGAAATTTTCTAGCAATGGATCA
TTGGTCTTCAAGAACTTTGAATATTATATGCTACTGGAGGAAATGTTTTAAAACCCAAAAATTTT
CCCTAAATAAGCATTTTAAGTAAAATATATTTTTCAAAGGAATGATTGTTTAAGAAAATGATGTT
ATGAGTAGAAGATATGCTCTCCTGAATTAAGGGACAAAAGTAATATGAATCCTCTTCCTTAAATA
AGAAAACAAAATATGAAAAACTAGGGCATGGATTTTTTATAAAAGAATAGAAACCACCTGAAGAA
ATGATTCTATAA
Found at i:364343 original size:35 final size:34
Alignment explanation
Indices: 364304--364394 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 34
364294 AGGATTCTAG
*
364304 AAACCTCTCTTGAAGGTATTTTTAAAACCT-TTTCA
1 AAACCTCTCTTGAAGG-ATTTTTAAAA-CTGTTCCA
* * * *
364339 AAACCACTCTTGAAGAAATTTTTCAAAGTGTTCCA
1 AAACCTCTCTTGAAG-GATTTTTAAAACTGTTCCA
364374 AAACCTCTCTT-AAGGATTTTT
1 AAACCTCTCTTGAAGGATTTTT
364395 TTTTAGGGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
33 6 0.13
34 4 0.09
35 37 0.79
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (34 bp):
AAACCTCTCTTGAAGGATTTTTAAAACTGTTCCA
Found at i:367415 original size:18 final size:17
Alignment explanation
Indices: 367384--367417 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
367374 TTCTAACTAG
367384 TTTTTTTCTATTTTTTC
1 TTTTTTTCTATTTTTTC
*
367401 TTTTTTCTCTCTTTTTT
1 TTTTTT-TCTATTTTTT
367418 GTCTCTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTATTTTTTC
Found at i:367422 original size:13 final size:12
Alignment explanation
Indices: 367401--367431 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
367391 CTATTTTTTC
367401 TTTTTTCTCTCT
1 TTTTTTCTCTCT
367413 TTTTTGTCTCTCT
1 TTTTT-TCTCTCT
367426 TTTTTT
1 TTTTTT
367432 ACTTTCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:367995 original size:166 final size:166
Alignment explanation
Indices: 367822--368660 Score: 880
Period size: 166 Copynumber: 5.1 Consensus size: 166
367812 AACAAGATTA
* * ** * *
367822 GATGAATTTTAAAAATTTTAAAA-TGAGAAAAATCTCCTC-GAAAACATTTATAGAATAAAAAAC
1 GATGAATTTTAAAAA-TTAAAAACTAAGAAAAAT-TCCTCTGAAAACATTTACGGAGTAGAAAAC
* * * * ** * *
367885 TTGATTTTTCAAAAACAAAAAAAATTT-AAGAAAAAAATTCAAAACCCATGAAAATAAATTAATT
64 TTCATATTTCGAAAA-TAAAAAAATTTCAAGAAAAAAATGAAAAACTCATGAAAATAAATAAATT
* *
367949 TTTTAAAACTAATTTAATATGAATTAAATAATAATATTT
128 TTTAAAAAATAATTTAATATGAATTAAATAATAATATTT
* * *
367988 TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTGAAAACATTTACGGAGTAGAAAACTT
1 GATGAATTTTAAAAATTAAAAACTAAGAAAAATTCCTCTGAAAACATTTACGGAGTAGAAAACTT
** * * * * *
368053 TGTATTTC-AAAACCAAGAAAATTTCAAGGAAAAAAATGAAAAA-TGAATGAAAATGAATGAATT
66 CATATTTCGAAAA-TAAAAAAATTTCAA-GAAAAAAATGAAAAACT-CATGAAAATAAATAAATT
*
368116 TTTAAAAAATAATTTACTATGAATTAAATAATAATATTT
128 TTTAAAAAATAATTTAATATGAATTAAATAATAATATTT
* * * *
368155 TATGAATTTTAAAAATTAAAAA-TCAAGAAAAA-TCCTCTAAAAATATTTACGGAATAGAAAACT
1 GATGAATTTTAAAAATTAAAAACT-AAGAAAAATTCCTCTGAAAACATTTACGGAGTAGAAAACT
* * * * * *
368218 CCATATTTTGAAAATAGAAGAATTTCCAGGAAAAAAATGAAAAACTCATGAAAATGAATAAATTT
65 TCATATTTCGAAAATAAAAAAATTT-CAAGAAAAAAATGAAAAACTCATGAAAATAAATAAATTT
* *
368283 TTGAAAAAGAATTTAATATGAATTAAATAATAATATTT
129 TTAAAAAATAATTTAATATGAATTAAATAATAATATTT
* * * * *
368321 GATGAGTTTTGAAAATTAAAAACCAAGAAAAATTCCTCTGAAAATATTTACGGAGTAGAAAACTC
1 GATGAATTTTAAAAATTAAAAACTAAGAAAAATTCCTCTGAAAACATTTACGGAGTAGAAAACTT
*
368386 CATATTTCGAAAATAAAAAAATTTCAAGAAAAAAAT-AAAAACTTATGAAAATAAATAAATTTTT
66 CATATTTCGAAAATAAAAAAATTTCAAGAAAAAAATGAAAAACTCATGAAAATAAATAAATTTTT
* * *
368450 AAAAATTGA-TTAATATGAATTAAATTATAATATTT
131 AAAAAATAATTTAATATGAATTAAATAATAATATTT
* *
368485 GATTAATTTTAAAAATTAAAAACTAAGAAAAATTACC-CTTGAAAACATTTACGGAGTAAAAAAC
1 GATGAATTTTAAAAATTAAAAACTAAGAAAAATT-CCTC-TGAAAACATTTACGGAGTAGAAAAC
** * * * ** * * *
368549 TTTGTATTTTGTAAAGAGAAGGAATTT-AA-AAAAAAATCAATAACTTAT-AAAATAAATGAAAT
64 TTCATATTTCGAAAATA-AAAAAATTTCAAGAAAAAAATGAAAAACTCATGAAAATAAAT-AAAT
* * *
368611 TTTTCAAAAATAATTTAATGGTG-ATTAAATAATATTATTT
127 TTTTAAAAAATAATTTAAT-ATGAATTAAATAATAATATTT
368651 AGA-GAATTTT
1 -GATGAATTTT
368661 GATGTTCAAA
Statistics
Matches: 573, Mismatches: 81, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
164 73 0.13
165 116 0.20
166 228 0.40
167 156 0.27
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.31
Consensus pattern (166 bp):
GATGAATTTTAAAAATTAAAAACTAAGAAAAATTCCTCTGAAAACATTTACGGAGTAGAAAACTT
CATATTTCGAAAATAAAAAAATTTCAAGAAAAAAATGAAAAACTCATGAAAATAAATAAATTTTT
AAAAAATAATTTAATATGAATTAAATAATAATATTT
Found at i:368425 original size:20 final size:20
Alignment explanation
Indices: 368394--368444 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
368384 TCCATATTTC
*
368394 GAAAAT-AA-AAAAATTTCAA
1 GAAAATAAATAAAAACTT-AA
*
368413 GAAAA-AAATAAAAACTTAT
1 GAAAATAAATAAAAACTTAA
368432 GAAAATAAATAAA
1 GAAAATAAATAAA
368445 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (20 bp):
GAAAATAAATAAAAACTTAA
Found at i:368608 original size:333 final size:332
Alignment explanation
Indices: 367822--368699 Score: 921
Period size: 333 Copynumber: 2.7 Consensus size: 332
367812 AACAAGATTA
* * * **
367822 GATGAATTTTAAAAATTTTAAAAT-GAGAAAAAT-CTCCTCGAAAACATTTATAGAATAAAAAAC
1 GATGAATTTTAAAAA-TTAAAAATCAAGAAAAATCCT-CT-AAAAACATTTACGGAATAAAAAAC
** * * * * * * * * * *
367885 TTGAT-TTTTCAAAAACAAAAAAAATTTAAGAAAAAAATTC-AAAACCCATGAAAATAAATTAAT
63 TCCATATTTT-GAAAA-GAGAAGAATTTCAGAAAAAAAATCAAAAACTCATAAAAATGAATAAAT
* * * *
367948 TTTTTAAAACTAATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCA
126 TTTTCAAAAATAATTTAATATGAATTAAATAATAATATTTGATGAATTTTGAAAATTAAAAACCA
* * *** *
368013 AGAAAAATCCCTCTGAAAACATTTACGGAGTAGAAAACTTTGTATTTCAAAACCAAGAAAATTTC
191 AGAAAAATTCCTCTGAAAATATTTACGGAGTAGAAAACTCCATATTTCAAAACCAAAAAAATTTC
* * *
368078 AAGGAAAAAAATGAAAAATGAATGAAAATGAATGAATTTTTAAAAAATAATTTACTATGAATTAA
256 AAGGAAAAAAATGAAAAATGAATGAAAATAAATAAATTTTTAAAAAATAATTTAATATGAATTAA
368143 ATAATAATATTT
321 ATAATAATATTT
* * *
368155 TATGAATTTTAAAAATTAAAAATCAAGAAAAATCCTCTAAAAATATTTACGGAATAGAAAACTCC
1 GATGAATTTTAAAAATTAAAAATCAAGAAAAATCCTCTAAAAACATTTACGGAATAAAAAACTCC
* * * *
368220 ATATTTTGAAAATAGAAGAATTTCCAGGAAAAAAATGAAAAACTCATGAAAATGAATAAATTTTT
66 ATATTTTGAAAAGAGAAGAATTT-CAGAAAAAAAATCAAAAACTCATAAAAATGAATAAATTTTT
* * *
368285 GAAAAAGAATTTAATATGAATTAAATAATAATATTTGATGAGTTTTGAAAATTAAAAACCAAGAA
130 CAAAAATAATTTAATATGAATTAAATAATAATATTTGATGAATTTTGAAAATTAAAAACCAAGAA
*
368350 AAATTCCTCTGAAAATATTTACGGAGTAGAAAACTCCATATTTCGAAAA-TAAAAAAATTTCAA-
195 AAATTCCTCTGAAAATATTTACGGAGTAGAAAACTCCATATTTC-AAAACCAAAAAAATTTCAAG
* * *
368413 GAAAAAAAT-AAAAACT-TATGAAAATAAATAAATTTTTAAAAATTGA-TTAATATGAATTAAAT
259 GAAAAAAATGAAAAA-TGAATGAAAATAAATAAATTTTTAAAAAATAATTTAATATGAATTAAAT
*
368475 TATAATATTT
323 AATAATATTT
* * *
368485 GATTAATTTTAAAAATTAAAAA-CTAAGAAAAATTACC-CTTGAAAACATTTACGGAGTAAAAAA
1 GATGAATTTTAAAAATTAAAAATC-AAGAAAAA-T-CCTC-TAAAAACATTTACGGAATAAAAAA
*** * * * *
368548 CTTTGTATTTTGTAAAGAGAAGGAATTT-A-AAAAAAAATCAATAACTTAT-AAAATAAATGAAA
62 CTCCATATTTTGAAAAGAGAA-GAATTTCAGAAAAAAAATCAAAAACTCATAAAAATGAAT-AAA
* * **
368610 TTTTTCAAAAATAATTTAATGGTG-ATTAAATAATATTATTTAGA-GAATTTTG-ATGTTCAAAA
125 TTTTTCAAAAATAATTTAAT-ATGAATTAAATAATAATATTT-GATGAATTTTGAAAATT-AAAA
* *
368672 CCCAAG-AAAATTCCACTGAAAAT-TTTAC
187 ACCAAGAAAAATTCCTCTGAAAATATTTAC
368700 AAGAAAAGAA
Statistics
Matches: 463, Mismatches: 66, Indels: 37
0.82 0.12 0.07
Matches are distributed among these distances:
328 5 0.01
329 28 0.06
330 121 0.26
331 45 0.10
332 90 0.19
333 168 0.36
334 6 0.01
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (332 bp):
GATGAATTTTAAAAATTAAAAATCAAGAAAAATCCTCTAAAAACATTTACGGAATAAAAAACTCC
ATATTTTGAAAAGAGAAGAATTTCAGAAAAAAAATCAAAAACTCATAAAAATGAATAAATTTTTC
AAAAATAATTTAATATGAATTAAATAATAATATTTGATGAATTTTGAAAATTAAAAACCAAGAAA
AATTCCTCTGAAAATATTTACGGAGTAGAAAACTCCATATTTCAAAACCAAAAAAATTTCAAGGA
AAAAAATGAAAAATGAATGAAAATAAATAAATTTTTAAAAAATAATTTAATATGAATTAAATAAT
AATATTT
Found at i:371213 original size:51 final size:51
Alignment explanation
Indices: 371131--371250 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
371121 GTGAAAATAA
*
371131 TGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAGGC
1 TGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGC
* *** * *
371182 TGGGGTTGAAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAAAGC
1 TGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGC
*
371233 CGGGGTTGGAGTATCCCC
1 TGGGGTTGGAGTATCCCC
371251 TCGAAAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGC
Found at i:371277 original size:130 final size:129
Alignment explanation
Indices: 370974--371281 Score: 354
Period size: 129 Copynumber: 2.4 Consensus size: 129
370964 GAGATAATAA
** * * * *
370974 CGGGGTTGGAGTATCTTCTCGAAAATAACAGGATTGGAGTATCCCCGATTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA
* * *
371039 TTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCATTATAGAAAATAGATGTTTCAAAAATAAAAT
66 TTTAGAAATAAGGCAAGGGTTGAAGTATCCCCATTATAGAAAATAGATATTTCAAAAATAAAAC
* * **
371103 CGGGATTAGAGTATCCCCGT-GAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-
1 CGGGGTTGGAGTATCCCC-TCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCAATG
** ** * * *
371166 ATTTTAGAAATAAGGCTGGGGTTGAAGTATCCTTGATTGT-GAGAAATCA-ATATTTTAGAAATA
65 A-TTTAGAAATAAGGCAAGGGTTGAAGTATCC-CCATTATAGA-AAAT-AGATATTTCAAAAATA
*
371229 AAGC
126 AAAC
371233 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAAT
371282 GAAATAACGG
Statistics
Matches: 148, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
128 1 0.01
129 81 0.55
130 65 0.44
131 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (129 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA
TTTAGAAATAAGGCAAGGGTTGAAGTATCCCCATTATAGAAAATAGATATTTCAAAAATAAAAC
Found at i:371407 original size:51 final size:51
Alignment explanation
Indices: 371297--371407 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 51
371287 AACGGGGCCA
*
371297 GAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGAAGTTG
1 GAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGAAGTTG
* ** * * * *
371348 AAACATCCCCGATTGTGGAGAATTGGTGTTTT-AGAAATAAAACC-AGGGTTG
1 GAGTATCCCCGATTGTGAAAAATTAGTGTTTTGA-AAATAAAACCGA-AGTTG
371399 GAGTATCCC
1 GAGTATCCC
371408 TCAAAAATAA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
50 2 0.04
51 45 0.96
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGAAGTTG
Found at i:371508 original size:76 final size:76
Alignment explanation
Indices: 371368--371590 Score: 324
Period size: 76 Copynumber: 2.9 Consensus size: 76
371358 GATTGTGGAG
* ** * *
371368 AATTGGTGTTTTAGAAATAAAACCAGGGTTGGAGTAT-CCCTCAAAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTGTCCCCTCAGAAATAACGGGGTTGGAGTAT
371432 CCCCGATGAAA
66 CCCCGATGAAA
* * *
371443 AGTTGATGTTTTAGAAACAAAACTGGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTGTCCCCTCAGAAATAACGGGGTTGGAGTAT
*
371508 CCCTGATGAAA
66 CCCCGATGAAA
* *
371519 AATTGATGTTTTAGAAATAAAA-TCGGGGTTGGAGTGTCCCCTTAGAAATAACGGGGTTAGAGTA
1 AATTGATGTTTTAGAAATAAAACT-GGGGTTGGAGTGTCCCCTCAGAAATAACGGGGTTGGAGTA
371583 TCCCCGAT
65 TCCCCGAT
371591 TGTGAAAAGT
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 32 0.24
76 99 0.76
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (76 bp):
AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTGTCCCCTCAGAAATAACGGGGTTGGAGTAT
CCCCGATGAAA
Found at i:371658 original size:51 final size:50
Alignment explanation
Indices: 371578--371739 Score: 191
Period size: 51 Copynumber: 3.2 Consensus size: 50
371568 AACGGGGTTA
* * *
371578 GAGTATCCCCGATTGTGAAAAGTCTGTGTTTTGGAAGTAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAAA-TCGGTGTTTTGGAAATAAAATCGGAGTTG
* *
371629 GAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTAT-GAAAATCGGTGTTTTGGAAATAAAATCGGAGTTG
* * * * *
371680 GAGTATCCCCGATTAAGAGAAATTGATGTTTTGGAAATGAAACCGG-GATTG
1 GAGTATCCCCGATTATGA-AAATCGGTGTTTTGGAAATAAAATCGGAG-TTG
371731 GAGTATCCC
1 GAGTATCCC
371740 TGAGATGAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 3 0.03
51 89 0.92
52 5 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (50 bp):
GAGTATCCCCGATTATGAAAATCGGTGTTTTGGAAATAAAATCGGAGTTG
Found at i:374136 original size:13 final size:13
Alignment explanation
Indices: 374118--374144 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
374108 CAAAGATCGA
374118 TGTATCGATACAT
1 TGTATCGATACAT
374131 TGTATCGATACAT
1 TGTATCGATACAT
374144 T
1 T
374145 TCCTTGGCAG
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:374851 original size:40 final size:42
Alignment explanation
Indices: 374807--374902 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
374797 CACTTTTTGC
* *
374807 GGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCCTTGA
1 GGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCCTTGA
* * *
374847 GGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGA
1 GGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTTGA
374889 GGACAAAGTGAAAA
1 GGACAAAG-GAAAA
374903 AGAGTACGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
40 13 0.28
41 4 0.09
42 25 0.54
43 4 0.09
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (42 bp):
GGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTTGA
Found at i:374981 original size:42 final size:43
Alignment explanation
Indices: 374905--375057 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 43
374895 AGTGAAAAAG
*
374905 AGTACGTCCTGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACGAA
1 AGTACGTCCTGCTCTTT-GAGGACAAAAGAAAAAAGGAAAA-GAA
* *
374949 A-TACGTCCTGCTCTTTGAGGATAAAAG-AAAAAGGAAAATAA
1 AGTACGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAAGAA
* ** * *
374990 AGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGGAAGGA
1 AGTACGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAA--AAGAA
*
375035 AGTGA-GTCTTGCTCTTTGAGGAC
1 AGT-ACGTCCTGCTCTTTGAGGAC
375058 TGAAAAGTGC
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
41 3 0.03
42 35 0.38
43 27 0.29
44 4 0.04
45 23 0.25
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (43 bp):
AGTACGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAAGAA
Found at i:375325 original size:62 final size:61
Alignment explanation
Indices: 375044--375326 Score: 344
Period size: 55 Copynumber: 4.8 Consensus size: 61
375034 AAGTGAGTCT
* *
375044 TGCTCTTTGAGGACT-GAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCC
1 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCATCC
* *
375105 TGCTCTTTGAGGACT-G-AAGGTGCCACCAGCTTGTGTGGGCTTT-AAA-G---GGCTTCC
1 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCC
* * *
375159 TGCTCTTTGAGGACTAG-AGGGTGCCACCAACTCGTGTGGACTTT-----GAAAGGCATCC
1 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCC
*
375214 TGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGG-AAAGGCATCC
* *
375276 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGG
1 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
375327 CTTCTTGTTC
Statistics
Matches: 194, Mismatches: 15, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
52 1 0.01
54 21 0.11
55 70 0.36
58 1 0.01
59 3 0.02
60 24 0.12
61 17 0.09
62 31 0.16
63 26 0.13
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (61 bp):
TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCC
Found at i:375512 original size:61 final size:61
Alignment explanation
Indices: 375365--376323 Score: 605
Period size: 61 Copynumber: 15.8 Consensus size: 61
375355 AAAGGAGAGA
* **
375365 GCGTCTTGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
*
375420 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* *
375481 GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGG-AAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAG
* ** *
375542 GCGTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGA-AAAG
* *
375603 GCATCCTGCTCTTTGAGGACTGTAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
375664 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
375726 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * ** *** * ** * *
375782 GTGTCCTGCTCTTTGAGGACT-AAACG-GCAAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGC--CACCA-A-CTTGT-GTGGGCTTTGA--A-AGGA
*
375845 AAAT
58 AAAG
* ** ** * * * * ** * * ** * *
375849 CCCACCAACT-TGTGTGGGCTTTAAAAGGTGTCCTGC-TCTT-TGAGAAC--T-AAA-AAAAAT
1 GCGTCCTGCTCTTTGAGGAC--TAAAAAGTG-CCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
** ** * * * ** ** ** * * * **
375906 GCCACCAACT-TGTGTGGGCTTTGAAAG-GCGTCCTGCTCTTTGAGGACTAAAGGGCAAAAGG-A
1 GCGTCCTGCTCTTTGAGGAC-TAAAAAGTGCCACCAACT-TGTGTGGGCT---TTG--AAAGGAA
*
375968 GAG
59 AAG
* *
375971 AGCGTCCTGCTCTTTGAGAACTAAAAAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAG
1 -GCGTCCTGCTCTTTGAGGACT--AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* ** *
376029 GCGTCCTGCTCTTTGAGGACTGGAAAA-CACCACCAACTTATGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * *
376090 GCATCCTGCTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTTTGAAA-AAGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAAG
** *
376151 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGA-AAAG
* * *
376212 GCATCTTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
*
376273 GCGTCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
376324 AGGCGTCCTG
Statistics
Matches: 721, Mismatches: 118, Indels: 123
0.75 0.12 0.13
Matches are distributed among these distances:
53 2 0.00
54 7 0.01
55 73 0.10
56 36 0.05
57 50 0.07
58 10 0.01
59 1 0.00
60 23 0.03
61 332 0.46
62 130 0.18
64 2 0.00
65 6 0.01
66 13 0.02
67 12 0.02
68 11 0.02
69 11 0.02
70 1 0.00
71 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
Found at i:375579 original size:122 final size:120
Alignment explanation
Indices: 375371--376323 Score: 674
Period size: 122 Copynumber: 7.9 Consensus size: 120
375361 GAGAGCGTCT
**
375371 TGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTT--A-AAAGGCGTCCTGCTCT
1 TGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCT
375432 TTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
66 TTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
*
375487 TGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-GAAAGGCGTCCTGC
* * *
375551 TCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-GCATCC
63 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGA-AAAGGCATCC
*
375609 TGCTCTTTGAGGACTGTAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-G-AAAGGCGTCCTGC
*
375673 TCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
63 TCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
*
375732 TGCTCTTTGAGGACT-AGAAAAGTGCCACCAACTTGTGTGGGCTTT--A-AAAGGTGTCCTGCTC
1 TGCTCTTTGAGGACTGA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTC
* * ** *** * ** * ***
375793 TTTGAGGACT-AAACG-GCAAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAATCCCA-CC
65 TTTGAGGACTGAAAAGTGC--CACCA-A-CTTGT-GTGGGCTTTGA--A--AGGAAAAGGCATCC
** * * * * * ** * * ** * * * ** **
375855 AACT-TGTGTGGGCTTTAAAAGGTGTCCTGC-TCTT-TGAGAAC-TAAAAAAAATGCCACCAACT
1 TGCTCTTTGAGGAC-TGAAAAAGTG-CCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCT
* * * ** ** * * * ** * *
375916 -TGTGTGGGCTTTG-AAAG-GCGTCCTGCTCTTTGAGGACTAAAGGGCAAAAGG-AGAGAGCGTC
64 CTTTGAGGAC--TGAAAAGTGCCACCAACT-TGTGTGGGCT---TTG--AAAGGAAAAG-GCATC
375977 C
120 C
* * *
375978 TGCTCTTTGAGAACTAAAAAAAATGCCACCAACTTGTGTGGGCTTT---GAAAGGCGTCCTGCTC
1 TGCTCTTTGAGGACT-GAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTC
** *
376040 TTTGAGGACTGGAAAA-CACCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCC
65 TTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
* *
376096 TGCTCTTTGAGGACT-AAAAAGTGTCACCAACTCGTGTGGGCTTTGAAAAAGAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT---AAAGAAAGGCGTCCTGC
* * *
376160 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-GCATCT
63 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGA-AAAGGCATCC
*
376218 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-G-AAAGGCGTCCTGC
*
376282 TCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
63 TCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT
376324 AGGCGTCCTG
Statistics
Matches: 642, Mismatches: 129, Indels: 125
0.72 0.14 0.14
Matches are distributed among these distances:
115 5 0.01
116 67 0.10
117 2 0.00
118 49 0.08
119 5 0.01
120 13 0.02
121 18 0.03
122 253 0.39
123 147 0.23
124 71 0.11
125 10 0.02
126 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (120 bp):
TGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCT
TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
Found at i:375878 original size:94 final size:95
Alignment explanation
Indices: 375726--375899 Score: 305
Period size: 94 Copynumber: 1.8 Consensus size: 95
375716 AAAGGAAAAG
*
375726 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTCCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGC
*
375791 TCTTTGAGGACTAAACGGCAAAAGGAGAGA
66 TCTTTGAGAACTAAACGGCAAAAGGAGAGA
* *
375821 GCGTCCTGCTCTTTGAGGACTGGGAAA-TCCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTCCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGC
375885 TCTTTGAGAACTAAA
66 TCTTTGAGAACTAAA
375900 AAAAATGCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 50 0.67
95 25 0.33
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (95 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTCCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGC
TCTTTGAGAACTAAACGGCAAAAGGAGAGA
Found at i:375920 original size:151 final size:150
Alignment explanation
Indices: 375664--376084 Score: 585
Period size: 151 Copynumber: 2.7 Consensus size: 150
375654 AAAGGAAAAG
375664 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
* * * *
375729 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
59 TCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
375794 TTGAGGACTAAACGGCAAAAGGAGAGA
124 TTGAGGACTAAACGGCAAAAGGAGAGA
* * * *
375821 GCGTCCTGCTCTTTGAGGACTGGGAAATCCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
375886 CTTTGAGAACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
66 CTTTGAGGACT-AAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
*
375951 ACTAAAGGGCAAAAGGAGAGA
130 ACTAAACGGCAAAAGGAGAGA
* * *
375972 GCGTCCTGCTCTTTGAGAACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
1 GCGTCCTGCTCTTTGAGGACT--AGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
* * *
376037 CTCTTTGAGGACTGGAAAACA--CCACCAACTTATGTGGGCTTTGAAAGG
64 CTCTTTGAGGACT-AAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
376085 AAAAGGCATC
Statistics
Matches: 239, Mismatches: 22, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
150 24 0.10
151 115 0.48
153 53 0.22
156 22 0.09
157 25 0.10
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (150 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
CTAAACGGCAAAAGGAGAGA
Found at i:375921 original size:57 final size:57
Alignment explanation
Indices: 375845--375956 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 57
375835 GAGGACTGGG
*
375845 AAATCCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGAACTAAAAA
1 AAATCCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGAACTAAAAA
* * *
375902 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
1 AAATCCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGAACTAAA
375957 GGGCAAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (57 bp):
AAATCCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGAACTAAAAA
Found at i:376064 original size:609 final size:611
Alignment explanation
Indices: 375044--376324 Score: 1909
Period size: 609 Copynumber: 2.1 Consensus size: 611
375034 AAGTGAGTCT
* *
375044 TGCTCTTTGAGGACT-GAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
* * *
375108 TCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAGGGCTTCCTGCTCTTTGAGGAC
66 TCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCTTCCTGCTCTTTGAGGAC
** * *
375173 TAGAGGGTGCCACCAACTCGTGTGGACTTTGAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGC
131 TAGAACGTGCCA-CAA--C---AGGA---TGAAAGGCATCCTGCTCTTTGAGGACTAAAA-GTCC
* * *
375238 CACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCA
186 CACCAACTTGTGTGGGCTTT----A--AAAAGGCGTCCTGCTCTTTGAGAACTAAAAAAATGCCA
* * * *
375303 CCAACTTGTATGGGCTTTAAAAGGCTTCTTGTTCCTTGAGGACTAAAGGGCGAAAGGAGAGAGCG
245 CCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCCTTGAGGACTAAAGGGCAAAAGGAGAGAGCG
* * ***
375368 TCTTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
310 TCCTGCTCTTTGAGAACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
** *
375433 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAG
375 TGAGGACTGGAAAACACCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAG
* *
375498 GACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTCTTTGAGGATT
440 GACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAGGCGTCCTGCTCTTTGAGGACT
*
375563 GGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGTAA
505 GGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAA
375628 AATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
570 AATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
* *
375670 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
375735 TCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-TGTCCTGCTCTTTGAG
66 TCTTTGAGGACT-G-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCT-TCCTGCTCTTTGAG
* * *
375799 GACTA-AACG-G-CA-AA-AGGA-GAGA-GCGTCCTGCTCTTTGAGGACTGGGAAA-TCCCACCA
128 GACTAGAACGTGCCACAACAGGATGAAAGGCATCCTGCTCTTTGAGGACT--AAAAGTCCCACCA
* *
375856 ACTTGTGTGGGCTTT-AAAAGGTGTCCTGCTCTTTGAGAACTAAAAAAAATGCCACCAACTTGTG
191 ACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGAACT-AAAAAAATGCCACCAACTTGTA
* *
375920 TGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTT
255 TGGGCTTTAAAAGGCGTCCTGCTCCTTGAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTT
*
375985 TGAGAACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
320 TGAGAACT--AAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
376050 GGAAAACACCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAA
383 GGAAAACACCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAA
*
376115 AGTGTCACCAACTCGTGTGGGCTTTGAAAAAGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTG
448 AGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTG
*
376180 CCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCTTGCTCTTTGAGGACTGGAAAATGCCAC
513 CCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCAC
376245 CAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
578 CAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
*
376279 TGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
376325 GGCGTCCTGC
Statistics
Matches: 605, Mismatches: 41, Indels: 35
0.89 0.06 0.05
Matches are distributed among these distances:
606 24 0.04
607 84 0.14
609 316 0.52
613 42 0.07
614 3 0.00
615 3 0.00
618 3 0.00
624 2 0.00
626 17 0.03
627 58 0.10
628 4 0.01
629 49 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (611 bp):
TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
TCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCTTCCTGCTCTTTGAGGAC
TAGAACGTGCCACAACAGGATGAAAGGCATCCTGCTCTTTGAGGACTAAAAGTCCCACCAACTTG
TGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGAACTAAAAAAATGCCACCAACTTGTATGGGCT
TTAAAAGGCGTCCTGCTCCTTGAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTGAGAA
CTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAACA
CCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCAC
CAACTCGTGTGGGCTTTGAAAAAGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAAC
TTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
GTGGGCTTTGAAAGGAAAAGGCGTCC
Found at i:376530 original size:28 final size:28
Alignment explanation
Indices: 376445--376530 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
376435 AGGACTAAAA
*
376445 AAAATGCCACCAACTTGTGTGGGCTTTG
1 AAAATGCCACCAACTTTTGTGGGCTTTG
*** * * * *
376473 AAAA-GGGTCCTACTCTTTGAGGAC-TGG
1 AAAATGCCACCAACT-TTTGTGGGCTTTG
376500 AAAATGCCACCAACTTTTGTGGGCTTTG
1 AAAATGCCACCAACTTTTGTGGGCTTTG
376528 AAA
1 AAA
376531 GGAAAAGGCA
Statistics
Matches: 40, Mismatches: 15, Indels: 6
0.66 0.25 0.10
Matches are distributed among these distances:
27 19 0.47
28 21 0.52
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (28 bp):
AAAATGCCACCAACTTTTGTGGGCTTTG
Found at i:376554 original size:61 final size:61
Alignment explanation
Indices: 376371--376777 Score: 479
Period size: 61 Copynumber: 6.8 Consensus size: 61
376361 GAGAGTATCG
*
376371 TGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
** *
376426 TGCTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAAGG-GTCC
1 TGCTCTTTGAGGACT--GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
* *
376483 TACTCTTTGAGGACTGGAAAATGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
* * *
376544 TGCTCTTTGAGGACT-AAAAAGTGCCACCTA-TTCGTGTGGGCTTTGAAAAGG-AAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTT-GTGTGGGCTTTG-AAAGGAAAAGGCATCC
* **
376605 TGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-GCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGA-AAAGGCATCC
* *
376666 TACTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
* *
376727 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGG
376778 CGTCCTGCTC
Statistics
Matches: 303, Mismatches: 30, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
55 41 0.14
57 43 0.14
58 6 0.02
60 20 0.07
61 154 0.51
62 39 0.13
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (61 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
Found at i:377039 original size:85 final size:85
Alignment explanation
Indices: 376896--377066 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
376886 TTTTTGAGGA
376896 CTGAAAAGTGGAAGGAGAAGGTTTAGATACCTTACTTGGATGACTTTCAATGTTAGGGGTACTTA
1 CTGAAAAGTGGAAGGAGAAGGTTTAGATACCTTACTTGGATGACTTTCAATGTTAGGGGTACTTA
*
376961 CAGAAAACATAGGTTGTGTT
66 CAGAAAACATAGCTTGTGTT
* *
376981 CTGAAAAGTGGATGGAGAAGGTTTAGATACCTTACTTGGATGACTTTCAATGTTAGGGGTACTTG
1 CTGAAAAGTGGAAGGAGAAGGTTTAGATACCTTACTTGGATGACTTTCAATGTTAGGGGTACTTA
*
377046 CAGGAAACATAGCTTGTGTT
66 CAGAAAACATAGCTTGTGTT
377066 C
1 C
377067 CTTACTAGTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (85 bp):
CTGAAAAGTGGAAGGAGAAGGTTTAGATACCTTACTTGGATGACTTTCAATGTTAGGGGTACTTA
CAGAAAACATAGCTTGTGTT
Found at i:377985 original size:11 final size:11
Alignment explanation
Indices: 377958--378015 Score: 71
Period size: 11 Copynumber: 5.0 Consensus size: 11
377948 AAGCAGATTC
*
377958 TTTTTTTTTTC
1 TTTTTTTTTTG
377969 TCTTTTTTCTTTG
1 T-TTTTTT-TTTG
377982 TTTTGTTTTTTG
1 TTTT-TTTTTTG
377994 TTTTTTTTTTG
1 TTTTTTTTTTG
*
378005 TGTTTTTTTTG
1 TTTTTTTTTTG
378016 AAAAAGAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 18 0.43
12 17 0.40
13 7 0.17
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:378008 original size:13 final size:12
Alignment explanation
Indices: 377958--378014 Score: 69
Period size: 13 Copynumber: 4.6 Consensus size: 12
377948 AAGCAGATTC
*
377958 TTTTTTTTTTCT
1 TTTTTTTTTTGT
*
377970 CTTTTTTCTTTGT
1 -TTTTTTTTTTGT
*
377983 TTTGTTTTTTGT
1 TTTTTTTTTTGT
377995 TTTTTTTTTGTGT
1 TTTTTTTTT-TGT
378008 TTTTTTT
1 TTTTTTT
378015 GAAAAAGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
12 18 0.47
13 20 0.53
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:382612 original size:34 final size:35
Alignment explanation
Indices: 382574--382640 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
382564 CCTTACAACA
382574 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
382608 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
382641 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:383342 original size:21 final size:21
Alignment explanation
Indices: 383313--383357 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
383303 AAGTTTTTAT
*
383313 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
383333 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
383355 TTT
1 TTT
383358 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:383357 original size:22 final size:21
Alignment explanation
Indices: 383302--383357 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
383292 ATGAATCATG
383302 CAAGTT-TTTATTTTTCTTAGC
1 CAAGTTCTTTA-TTTTCTTAGC
* *
383323 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTC-TTAGC
383344 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
383358 CAACTTGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
CAAGTTCTTTATTTTCTTAGC
Found at i:386100 original size:21 final size:21
Alignment explanation
Indices: 386076--386117 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
386066 ATCCATTTCT
* *
386076 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
386097 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
386118 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:386652 original size:13 final size:13
Alignment explanation
Indices: 386633--386723 Score: 155
Period size: 13 Copynumber: 7.0 Consensus size: 13
386623 ACTATTTATG
386633 ATGTATCGATACA
1 ATGTATCGATACA
*
386646 CTGTATCGATACA
1 ATGTATCGATACA
386659 ATGTATCGATACA
1 ATGTATCGATACA
*
386672 CTGTATCGATACA
1 ATGTATCGATACA
386685 ATGTATCGATACA
1 ATGTATCGATACA
*
386698 CTGTATCGATACA
1 ATGTATCGATACA
386711 ATGTATCGATACA
1 ATGTATCGATACA
386724 TTAATAGTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 72 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:386669 original size:26 final size:26
Alignment explanation
Indices: 386633--386723 Score: 182
Period size: 26 Copynumber: 3.5 Consensus size: 26
386623 ACTATTTATG
386633 ATGTATCGATACACTGTATCGATACA
1 ATGTATCGATACACTGTATCGATACA
386659 ATGTATCGATACACTGTATCGATACA
1 ATGTATCGATACACTGTATCGATACA
386685 ATGTATCGATACACTGTATCGATACA
1 ATGTATCGATACACTGTATCGATACA
386711 ATGTATCGATACA
1 ATGTATCGATACA
386724 TTAATAGTGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
ATGTATCGATACACTGTATCGATACA
Found at i:386849 original size:22 final size:22
Alignment explanation
Indices: 386794--386849 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
386784 ACAGTGACCT
386794 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
386816 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
386837 ATGAACAGTGATG
1 ATGAACAGTGATG
386850 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:386856 original size:10 final size:10
Alignment explanation
Indices: 386837--386867 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
386827 GTATCGATAC
386837 ATGAACAGTG
1 ATGAACAGTG
*
386847 ATGAATAGTG
1 ATGAACAGTG
386857 ATGAACAGTG
1 ATGAACAGTG
386867 A
1 A
386868 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:386955 original size:53 final size:53
Alignment explanation
Indices: 386891--387027 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
386881 CTACTACCAA
386891 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
386944 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
386997 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
387028 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:387060 original size:20 final size:20
Alignment explanation
Indices: 386997--387067 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
386987 GCCAATGTCC
**
386997 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
387017 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
387037 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
387057 TGTATCGATAC
1 TGTATCGATAC
387068 TTTTCAGAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:387133 original size:21 final size:21
Alignment explanation
Indices: 387107--387147 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
387097 GTCAACCTTG
387107 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
387128 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
387148 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:388784 original size:13 final size:13
Alignment explanation
Indices: 388766--388790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
388756 ACTGAAGTAA
388766 TGTATCGATACAT
1 TGTATCGATACAT
388779 TGTATCGATACA
1 TGTATCGATACA
388791 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:389354 original size:21 final size:21
Alignment explanation
Indices: 389328--389368 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
389318 GTCAACCTTG
389328 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
389349 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
389369 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:397978 original size:28 final size:28
Alignment explanation
Indices: 397943--398018 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
397933 GAAATAAAGC
**
397943 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
397971 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
**
397999 CGGGGTTAAAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
398019 TTGTGAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:398117 original size:51 final size:51
Alignment explanation
Indices: 398008--398117 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 51
397998 ACGGGGTTAA
*
398008 AGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAATCGGAGTTGG
1 AGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAATCGGAGTTGG
** * * **
398059 AACATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCAGG-GTTGG
1 AGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAATC-GGAGTTGG
398110 AGTATCCC
1 AGTATCCC
398118 TCGAAAATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 47 0.96
52 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
AGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAATCGGAGTTGG
Found at i:398218 original size:76 final size:76
Alignment explanation
Indices: 398078--398300 Score: 331
Period size: 76 Copynumber: 2.9 Consensus size: 76
398068 GATTGTGGAG
* * * * * * *
398078 AATTGGTGTTTTAGAAATAAAATCAGGGTTGGAGTAT-CCCTCGAAAATAACGGGGTTAGCGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTAT
398142 CCCCGATGAAA
66 CCCCGATGAAA
* *
398153 AGTTGATGTTTTAGAAACAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTAT
*
398218 CCCTGATGAAA
66 CCCCGATGAAA
**
398229 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTTAGAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTAT
398294 CCCCGAT
66 CCCCGAT
398301 TGTGAAAAGT
Statistics
Matches: 132, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 31 0.23
76 101 0.77
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (76 bp):
AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTAT
CCCCGATGAAA
Found at i:398367 original size:51 final size:51
Alignment explanation
Indices: 398284--398460 Score: 193
Period size: 51 Copynumber: 3.5 Consensus size: 51
398274 AAATAACGGG
*
398284 GTTGGAGTATCCCCGATTGTGAAAAGTCGGTGTTTT-GAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAGTCGGTGTTTTAGAAA-TAAAATCGGA
*
398335 GTTGGAGTATCCCCGATTATGGAAAA-TGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAAGTCGGTGTTTTAGAAATAAAATCGGA
* *** * * *
398386 GTTGGAGTATCCCCGATTAAGAGAAA-TTAATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGA-AAAGTCGGTGTTTTAGAAATAAAATCGGA
*
398436 GATTGGAGTATCCCCGA-GATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
398461 ATCTAGAAAT
Statistics
Matches: 111, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
49 3 0.03
50 6 0.05
51 93 0.84
52 9 0.08
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAGTCGGTGTTTTAGAAATAAAATCGGA
Found at i:400903 original size:40 final size:42
Alignment explanation
Indices: 400859--400958 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
400849 GTCCCACTTT
* *
400859 TTGAGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCC
* * *
400899 TTGAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
400941 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
400959 AAAGTACGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.34
41 4 0.08
42 25 0.50
43 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:400963 original size:33 final size:33
Alignment explanation
Indices: 400926--400994 Score: 97
Period size: 35 Copynumber: 2.1 Consensus size: 33
400916 GAAGAAAAGG
400926 AAAGT-GTCCTGCTTCTT-GAGGACAAAGTGAAAA
1 AAAGTAGTCCTGCTT-TTCGAGGACAAAG-GAAAA
400959 AAAGTACGTCCTGCTTTTCGAGGACAAAGGAAAA
1 AAAGTA-GTCCTGCTTTTCGAGGACAAAGGAAAA
400993 AA
1 AA
400995 GGGAAACGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
33 5 0.15
34 9 0.27
35 19 0.58
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (33 bp):
AAAGTAGTCCTGCTTTTCGAGGACAAAGGAAAA
Found at i:401023 original size:78 final size:83
Alignment explanation
Indices: 400893--401113 Score: 196
Period size: 87 Copynumber: 2.7 Consensus size: 83
400883 AAATAGGTCT
* * ** * *
400893 TGCTCCTTGAGGAC-AAA-GGAAGAGAAGAAAAGGAAA-GTGTCCTGCT-TCTTGAGGAC-AAAG
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGGAACGAAATGAGTCCTGCTCT-TTGAGGACAAAAG
*
400953 -TGAAAA-AAAGTACGTCC
65 AGGAAAATAAAGTACGTCC
400970 TGCT-TTTCGAGGAC-AAA-GGAAAA-AAGGGAAACGAAAT-ACGTCCTGCTCTTTGAGGACAAA
1 TGCTCTTT-GAGGACAAAAGGGAAAAGAAGGG-AACGAAATGA-GTCCTGCTCTTTGAGGACAAA
*
401030 AGAAAAAGGAAAATAAAGTGCGTCC
63 AG----AGGAAAATAAAGTACGTCC
* *
401055 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGGAAGGAAGTGAGTCCTGCTCTTTGAGGAC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGGAACGAAATGAGTCCTGCTCTTTGAGGAC
401114 TGAAAAGTGC
Statistics
Matches: 117, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
76 5 0.04
77 24 0.21
78 16 0.14
79 5 0.04
84 5 0.04
85 20 0.17
86 6 0.05
87 30 0.26
88 6 0.05
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (83 bp):
TGCTCTTTGAGGACAAAAGGGAAAAGAAGGGAACGAAATGAGTCCTGCTCTTTGAGGACAAAAGA
GGAAAATAAAGTACGTCC
Found at i:401054 original size:42 final size:43
Alignment explanation
Indices: 400949--401113 Score: 171
Period size: 42 Copynumber: 3.8 Consensus size: 43
400939 TCTTGAGGAC
*
400949 AAAGTGAAAA-AAAGTACGTCCTGCT-TTTCGAGGACAAAGGAAA
1 AAAG-GAAAAGAAAGTACGTCCTGCTCTTT-GAGGACAAAAGAAA
*
400992 AAAGGGAAACGAAA-TACGTCCTGCTCTTTGAGGACAAAAG-AA
1 AAA-GGAAAAGAAAGTACGTCCTGCTCTTTGAGGACAAAAGAAA
* *
401034 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAA
1 AAAGGAAAAGAAAGTACGTCCTGCTCTTTGAGGACAAAA--GAAA
* *
401079 AGAAGG-GAAGGAAGTGA-GTCCTGCTCTTTGAGGAC
1 A-AAGGAAAAGAAAGT-ACGTCCTGCTCTTTGAGGAC
401114 TGAAAAGTGC
Statistics
Matches: 104, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
41 8 0.08
42 29 0.28
43 28 0.27
44 8 0.08
45 27 0.26
46 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (43 bp):
AAAGGAAAAGAAAGTACGTCCTGCTCTTTGAGGACAAAAGAAA
Found at i:401065 original size:120 final size:117
Alignment explanation
Indices: 400855--401071 Score: 271
Period size: 120 Copynumber: 1.8 Consensus size: 117
400845 AGGTGTCCCA
* * * * *
400855 CTTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAGGACAAAGGAAGAGAAG
1 CTTTTCGAGGACAAAGGAAAAGAGAACGAAATACGTCCTGCTCCTTGAGGACAAAAGAAGAGAAG
400920 AAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAAAGTACGTCCTG
66 AAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAAAGTACGTCCTG
* *
400972 CTTTTCGAGGACAAAGGAAAAAAGGGAAACGAAATACGTCCTGCTCTTTGAGGACAAAAGAA-A-
1 CTTTTCGAGGACAAAGG--AAAAGAG-AACGAAATACGTCCTGCTCCTTGAGGACAAAAGAAGAG
*
401035 AAGGAAAA-TAAAGTGCGTCCTGC-TCTTTGAGGACAAA
63 AA-GAAAAGGAAAGT--GTCCTGCTTC-TTGAGGACAAA
401072 AGGGAAAAGA
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
117 16 0.19
118 7 0.08
119 14 0.16
120 48 0.56
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (117 bp):
CTTTTCGAGGACAAAGGAAAAGAGAACGAAATACGTCCTGCTCCTTGAGGACAAAAGAAGAGAAG
AAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAAAGTACGTCCTG
Found at i:401271 original size:55 final size:55
Alignment explanation
Indices: 401096--401402 Score: 242
Period size: 55 Copynumber: 5.3 Consensus size: 55
401086 AAGGAAGTGA
* *
401096 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTT-----GA-AAGGC
** * * *
401157 AACCTGCTCTTTGAGGACT-GAAGCTGCCACCAGCTTGTGTGGGCTTT-AAAGGGC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGAAA-GGC
* * * *
401211 TTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCATGTGAGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGC
** *
401266 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACTAACTTGA-GTGGGCTTTGAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTT-ATGTGGGCTTT------G-AAAGGC
* * * * * *
401328 GTCCTGCTCTTTGAGGACTAGAAAAGTTCCACCAACTTGTGTGGCCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGC
* * *
401384 TTCCTACTCCTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
401403 AAAGGGCGAA
Statistics
Matches: 201, Mismatches: 32, Indels: 31
0.76 0.12 0.12
Matches are distributed among these distances:
53 2 0.01
54 21 0.10
55 64 0.32
56 26 0.13
60 23 0.11
61 18 0.09
62 25 0.12
63 22 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGC
Found at i:401381 original size:62 final size:62
Alignment explanation
Indices: 401260--401382 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
401250 GTGAGCTTTG
* * *
401260 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACTAACTTGAGTGGGCTTTGAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGAGTGGCCTTTGAAAAGGA
* *
401322 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTTCCACCAACTTGTGTGGCCTTT-AAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGAGTGGCCTTTGAAAAGG
401383 CTTCCTACTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 32 0.58
63 23 0.42
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (62 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGAGTGGCCTTTGAAAAGGA
Found at i:404039 original size:13 final size:13
Alignment explanation
Indices: 404021--404047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
404011 ACATTATGCT
404021 TTGTATCGATACA
1 TTGTATCGATACA
404034 TTGTATCGATACA
1 TTGTATCGATACA
404047 T
1 T
404048 ACTCCATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:404139 original size:33 final size:33
Alignment explanation
Indices: 404097--404163 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
404087 CTAAGTGAAA
404097 TGTATCGATACATG-AGACAATGTATCAATACAT
1 TGTATCGATACATGAAGA-AATGTATCAATACAT
* *
404130 TGTATCGATACATGAAGAATTGTATCGATACAT
1 TGTATCGATACATGAAGAAATGTATCAATACAT
404163 T
1 T
404164 ATGCCCAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGAAGAAATGTATCAATACAT
Found at i:406254 original size:15 final size:16
Alignment explanation
Indices: 406208--406255 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
406198 AGGAAAAAAT
*
406208 AAATCAAAATTTGTTGA
1 AAATGAAAA-TTGTTGA
*
406225 AAATG-AAATTCTTGA
1 AAATGAAAATTGTTGA
406240 AAA-GAAAATTGTTGA
1 AAATGAAAATTGTTGA
406255 A
1 A
406256 CTAGAAATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 19 0.70
16 3 0.11
17 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (16 bp):
AAATGAAAATTGTTGA
Found at i:407887 original size:19 final size:20
Alignment explanation
Indices: 407843--407898 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
407833 CTGCCAGTTT
* *
407843 CATGTATCGATACAATTATG
1 CATGTATCGATACAATGATA
*
407863 CATGTATTGATACAATGA-A
1 CATGTATCGATACAATGATA
407882 CATGTATCGATACAATG
1 CATGTATCGATACAATG
407899 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:407901 original size:13 final size:13
Alignment explanation
Indices: 407883--407909 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
407873 TACAATGAAC
407883 ATGTATCGATACA
1 ATGTATCGATACA
407896 ATGTATCGATACA
1 ATGTATCGATACA
407909 A
1 A
407910 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:413739 original size:35 final size:35
Alignment explanation
Indices: 413690--413761 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
413680 AGGTGACACA
* *
413690 TCCACCTTCTTTTGATTTGATTTTCAAGAATAAGC
1 TCCACCTTCATTTGATTTGATTTCCAAGAATAAGC
*
413725 TCCACCTTCATTTGATTTGATTTCCGAGAATAAGC
1 TCCACCTTCATTTGATTTGATTTCCAAGAATAAGC
413760 TC
1 TC
413762 TTGTCTCTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (35 bp):
TCCACCTTCATTTGATTTGATTTCCAAGAATAAGC
Found at i:416532 original size:20 final size:20
Alignment explanation
Indices: 416507--416576 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
416497 TGAGGCAATG
416507 TATCGATACAATTCTTCATT
1 TATCGATACAATTCTTCATT
416527 TATCGATACAATTCTTCATT
1 TATCGATACAATTCTTCATT
*
416547 TATCGATACAATTCTTCATG
1 TATCGATACAATTCTTCATT
416567 TATCGATACA
1 TATCGATACA
416577 TTGTATCGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (20 bp):
TATCGATACAATTCTTCATT
Found at i:416583 original size:13 final size:13
Alignment explanation
Indices: 416565--416589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
416555 CAATTCTTCA
416565 TGTATCGATACAT
1 TGTATCGATACAT
416578 TGTATCGATACA
1 TGTATCGATACA
416590 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:416600 original size:33 final size:31
Alignment explanation
Indices: 416543--416609 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
416533 TACAATTCTT
416543 CATTTATCGATACAATTCTTCATGTATCGATA
1 CATTTATCGATACAATTC-TCATGTATCGATA
*
416575 CATTGTATCGATACAATGTGC-CATGTATTGATA
1 CATT-TATCGATACAAT-T-CTCATGTATCGATA
416608 CA
1 CA
416610 AATAGTGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 4 0.13
33 25 0.81
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (31 bp):
CATTTATCGATACAATTCTCATGTATCGATA
Done.