Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 47 of 168
Found at i:13053581 original size:42 final size:43
Alignment explanation
Indices: 13053509--13053591 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
13053499 TAAGATTTAC
*
13053509 GTGTAAGACCATGTTTGGGATATCGACATCG-TATATAATTTT
1 GTGTAAGACCATGTCTGGGATATCGACATCGATATATAATTTT
* * *
13053551 GTGTAAGACCCTGTCTGGGATAGT-GGCATCGATATTTAATT
1 GTGTAAGACCATGTCTGGGATA-TCGACATCGATATATAATT
13053592 ACATGTAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGATATCGACATCGATATATAATTTT
Found at i:13061137 original size:18 final size:17
Alignment explanation
Indices: 13061111--13061145 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13061101 AATATTAATA
*
13061111 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13061128 ATTTTGATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13061146 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13061358 original size:16 final size:16
Alignment explanation
Indices: 13061333--13061379 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
13061323 CAAGAATACT
13061333 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
13061349 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
13061365 ATTACGCCTCTATTC
1 ATTACGCCTCTATTC
13061380 TAATACAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.21, C:0.36, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:13062589 original size:42 final size:43
Alignment explanation
Indices: 13062533--13062645 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
13062523 GTCGATTTGA
*
13062533 GATTTACGTGTAAGATCATGTCTGGGACA-TCGACATCG-TATAC
1 GATTT-CGTGTAAGACCATGTCTGGGACAGT-GACATCGATATAC
* **
13062576 GATTTCGTGTAAGACCCTGTCTGGGACAGTGACATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATAC
* *
13062619 GATTACATGTAAGACCATGTCTGGGAC
1 GATTTCGTGTAAGACCATGTCTGGGAC
13062646 GTTGGCATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATAC
Found at i:13062644 original size:43 final size:42
Alignment explanation
Indices: 13062536--13062645 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
13062526 GATTTGAGAT
*
13062536 TTACGTGTAAGATCATGTCTGGGACATCGACATCGTATACGA
1 TTACGTGTAAGACCATGTCTGGGACATCGACATCGTATACGA
* * **
13062578 TTTCGTGTAAGACCCTGTCTGGGACAGT-GACATCGATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACA-TCGACATCG-TATACGA
*
13062621 TTACATGTAAGACCATGTCTGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
13062646 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATCGACATCGTATACGA
Found at i:13065011 original size:30 final size:32
Alignment explanation
Indices: 13064977--13065036 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
13064967 GGTGTTACGG
*
13064977 GTTTGGGGTTT-GTTTTCTTT-TCCTTTTTGA
1 GTTTGGGGTTTCCTTTTCTTTCTCCTTTTTGA
* *
13065007 GTTTGGGTTTTCCTTTTCTTTCTTCTTTTT
1 GTTTGGGGTTTCCTTTTCTTTCTCCTTTTT
13065037 TCCTTTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 8 0.32
32 7 0.28
ACGTcount: A:0.02, C:0.13, G:0.18, T:0.67
Consensus pattern (32 bp):
GTTTGGGGTTTCCTTTTCTTTCTCCTTTTTGA
Found at i:13070696 original size:18 final size:18
Alignment explanation
Indices: 13070648--13070697 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
13070638 ATAATTTGGG
* *
13070648 TAATTCGAGTAATCCGGT
1 TAATTCAAGTAATTCGGT
*
13070666 TAATTCAGGTAATTCGGT
1 TAATTCAAGTAATTCGGT
*
13070684 TAATTCAATTAATT
1 TAATTCAAGTAATT
13070698 TTTTATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (18 bp):
TAATTCAAGTAATTCGGT
Found at i:13073580 original size:49 final size:49
Alignment explanation
Indices: 13073508--13073613 Score: 185
Period size: 49 Copynumber: 2.2 Consensus size: 49
13073498 CACACACTCT
13073508 ATTTATATACGAATCATATACTAAAATTAGCCTAACTCACCTAACAACA
1 ATTTATATACGAATCATATACTAAAATTAGCCTAACTCACCTAACAACA
* *
13073557 ATTTATATACGTATCGTATACTAAAATTAGCCTAACTCACCTAACAACA
1 ATTTATATACGAATCATATACTAAAATTAGCCTAACTCACCTAACAACA
*
13073606 AATTATAT
1 ATTTATAT
13073614 GAAATCAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (49 bp):
ATTTATATACGAATCATATACTAAAATTAGCCTAACTCACCTAACAACA
Found at i:13073608 original size:25 final size:25
Alignment explanation
Indices: 13073531--13073610 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
13073521 TCATATACTA
13073531 AAATTAGCCTAACTCACCTAACAAC
1 AAATTAGCCTAACTCACCTAACAAC
* * *
13073556 AATTTA---TATACGT-ATCGTATACTA-
1 AAATTAGCCTA-AC-TCA-CCTA-ACAAC
13073580 AAATTAGCCTAACTCACCTAACAAC
1 AAATTAGCCTAACTCACCTAACAAC
13073605 AAATTA
1 AAATTA
13073611 TATGAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
22 2 0.05
23 3 0.08
24 12 0.30
25 18 0.45
26 3 0.08
27 2 0.05
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.28
Consensus pattern (25 bp):
AAATTAGCCTAACTCACCTAACAAC
Found at i:13074891 original size:22 final size:22
Alignment explanation
Indices: 13074863--13074905 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13074853 TAAAAAGTTA
13074863 TAGCACATTTT-TCAAGATTTTG
1 TAGCACATTTTCT-AAGATTTTG
13074885 TAGCACATTTTCTAAGATTTT
1 TAGCACATTTTCTAAGATTTT
13074906 ACATGGCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (22 bp):
TAGCACATTTTCTAAGATTTTG
Found at i:13076249 original size:3 final size:3
Alignment explanation
Indices: 13076241--13076293 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
13076231 ATTAATAAAT
* *
13076241 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13076289 TTA TT
1 TTA TT
13076294 TGCTCATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:13083611 original size:45 final size:45
Alignment explanation
Indices: 13083547--13083782 Score: 180
Period size: 45 Copynumber: 5.3 Consensus size: 45
13083537 CCCTGAGTTT
*
13083547 GCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 GCAGCGAAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * ** * *
13083592 GCAGCGAAGCAGA-TCGAAGACACCAG-TCTCATCTCCCTG-AGTTT
1 GCAGCGAAGCAGACT-GAAGATAGCAGATCTTGTCTTCCTGTA-TTG
* * *
13083636 GTAAC-AGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTATTG
1 GCAGCGA-AGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * * * * * * *
13083681 GCAGCAAAGCAGATTGAAGACA-CTAG-CCTCGCCTCCCTG-AGTTT
1 GCAGCGAAGCAGACTGAAGATAGC-AGATCTTGTCTTCCTGTA-TTG
* * *
13083725 GCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTATATTG
1 GCAGCGAAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
*
13083770 GCAGCGAAACAGA
1 GCAGCGAAGCAGA
13083783 TTTAAGCCAC
Statistics
Matches: 140, Mismatches: 39, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
43 3 0.02
44 62 0.44
45 72 0.51
46 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (45 bp):
GCAGCGAAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
Found at i:13083691 original size:89 final size:89
Alignment explanation
Indices: 13083535--13083810 Score: 394
Period size: 89 Copynumber: 3.1 Consensus size: 89
13083525 CCAGCCTCGC
* *
13083535 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
1 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTATTGGCAGCAAA
*
13083600 GCAGATCGAAGACACCAGTCTCAT
66 GCAGATTGAAGACACCAGTCTCAT
* * *
13083624 CTCCCTGAGTTTGTAACAGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTATTGGCAGCAAA
1 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTATTGGCAGCAAA
* * **
13083689 GCAGATTGAAGACACTAGCCTCGC
66 GCAGATTGAAGACACCAGTCTCAT
*
13083713 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTATATTGGCAGCGAA
1 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTATTGGCAGC-AA
* *
13083778 A-CAGATTTAAGCCACCAGTC-CTAT
65 AGCAGATTGAAGACACCAGTCTC-AT
*
13083802 CTTCCTGAG
1 CTCCCTGAG
13083811 CAGCAGTGGA
Statistics
Matches: 164, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 1 0.01
89 160 0.98
90 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (89 bp):
CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTATTGGCAGCAAA
GCAGATTGAAGACACCAGTCTCAT
Found at i:13083847 original size:44 final size:44
Alignment explanation
Indices: 13083799--13083999 Score: 176
Period size: 44 Copynumber: 4.6 Consensus size: 44
13083789 CCACCAGTCC
* * * * * *
13083799 TATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGACTGCAGATCT
* * * *
13083843 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGACTGCAGATCT
* * * ** *
13083887 TATCTTCCC-GAG-A-TAGTAGGAAGCAGGTTTAAGCCACCAG-TCC
1 TATC-TCCCTAAGCAGTAGT-GG-AGCAGGTTGAAGACTGCAGATCT
* * *
13083930 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGACTGCAGATCT
13083974 TATCTCCCTAAGCAGTAGTGGAGCAG
1 TATCTCCCTAAGCAGTAGTGGAGCAG
13084000 ATCGAAACCA
Statistics
Matches: 121, Mismatches: 29, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
42 8 0.07
43 23 0.19
44 82 0.68
45 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGACTGCAGATCT
Found at i:13085488 original size:3 final size:3
Alignment explanation
Indices: 13085482--13085537 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
13085472 ATTTATTATT
*
13085482 ATC ATC ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
13085530 ATC ATC AT
1 ATC ATC AT
13085538 TATTATTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:13085499 original size:9 final size:9
Alignment explanation
Indices: 13085485--13085597 Score: 82
Period size: 9 Copynumber: 12.2 Consensus size: 9
13085475 TATTATTATC
13085485 ATCATCATT
1 ATCATCATT
*
13085494 ATCATCATC
1 ATCATCATT
*
13085503 ATCATCATC
1 ATCATCATT
*
13085512 ATCATCATC
1 ATCATCATT
*
13085521 ATCATCATC
1 ATCATCATT
13085530 ATCATCATT
1 ATCATCATT
* *
13085539 ATTATTATT
1 ATCATCATT
* *
13085548 ATTATTATT
1 ATCATCATT
* *
13085557 ATTATTATT
1 ATCATCATT
* *
13085566 ATTATTATT
1 ATCATCATT
*
13085575 ATCGTCATCGT
1 ATCATCAT--T
13085586 CATCATCATT
1 -ATCATCATT
13085596 AT
1 AT
13085598 TATTACTATT
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
9 84 0.90
10 1 0.01
11 1 0.01
12 7 0.08
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.47
Consensus pattern (9 bp):
ATCATCATT
Found at i:13085542 original size:3 final size:3
Alignment explanation
Indices: 13085536--13085576 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13085526 CATCATCATC
13085536 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13085577 CGTCATCGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13090161 original size:22 final size:22
Alignment explanation
Indices: 13090133--13090174 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13090123 TGAATAAACC
* *
13090133 AAATAAACTTTATTTCTGTAGA
1 AAATAAACTTAATATCTGTAGA
13090155 AAATAAACTTAATATCTGTA
1 AAATAAACTTAATATCTGTA
13090175 AACTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAGA
Found at i:13094427 original size:70 final size:71
Alignment explanation
Indices: 13094333--13094829 Score: 579
Period size: 70 Copynumber: 7.1 Consensus size: 71
13094323 TTTTGACACC
* * * *
13094333 AAAAATTGGATAGCATATATACAACAATTTGGGCAGCATATATACATCAAATGGAGCAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATGGAGCAGCATTTT
13094398 TA-CAT
66 TAGCAT
* * * *
13094403 CAAAATTGGAAAGCATATATACAACAATTTGGGCAGCATAAATACAACAATTTGG-GCAGCA--T
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAA-ATGGAGCAGCATTT
13094465 TTAGGCAT
65 TTA-GCAT
* *
13094473 AAAAATTAGACAGCATATATGCAACAATTTGGGCAGCATAAATACAATAAATTGG-GCAGCA-TT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAA-TGGAGCAGCATTT
*
13094536 TAAGCAT
65 TTAGCAT
* * *
13094543 AAAAATTGGACAGCATATATGCAACAATTTGGGCATCATAAATACAACGAATTGGA-CAACA-TT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAAC-AAATGGAGCAGCATTT
13094606 TTAGCAT
65 TTAGCAT
* * *
13094613 AAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGA-CATCA-TT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAA-TGGAGCAGCATTT
13094676 TTAGCAT
65 TTAGCAT
* * * * * * *
13094683 AAAAATTTGATAGCATATGTGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATGGAGCAGCATTTT
*
13094748 CA-CAT
66 TAGCAT
* * * *
13094753 CAAAATTGGACAGCATATATACAACAATTTGGGCAGTATAAATACAATAAATTGGA-CAGCA-TT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAA-TGGAGCAGCATTT
*
13094816 TAAGCAT
65 TTAGCAT
13094823 AAAAATT
1 AAAAATT
13094830 ACATGAACAT
Statistics
Matches: 370, Mismatches: 45, Indels: 24
0.84 0.10 0.05
Matches are distributed among these distances:
68 4 0.01
69 9 0.02
70 342 0.92
71 15 0.04
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (71 bp):
AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATGGAGCAGCATTTT
TAGCAT
Found at i:13094700 original size:210 final size:209
Alignment explanation
Indices: 13094333--13094829 Score: 660
Period size: 210 Copynumber: 2.4 Consensus size: 209
13094323 TTTTGACACC
* * * * *
13094333 AAAAATTGGATAGCATATATACAACAATTTGGGCAGCATATATACATCAAATGGAGCAGCATTTT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCATCATAAATACAACAATTGGA-CAGCA-TTT
* * *
13094398 TA-CATCAAAATTGGAAAGCATATATACAACAATTTGGGCAGCATAAATACAACAATTTGGGCAG
64 TAGCATAAAAATTGGAAAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAG
*
13094462 CATTTAGGCATAAAAATTAGACAGCATATATGCAACAATTTGGGCAGCATAAATACAATAAATTG
129 CATTTAGGCATAAAAATTAGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTG
*
13094527 GGCAGCA-TTTAAGCAT
194 AGCAGCATTTTAA-CAT
* *
13094543 AAAAATTGGACAGCATATATGCAACAATTTGGGCATCATAAATACAACGAATTGGACAACATTTT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCATCATAAATACAAC-AATTGGACAGCATTTT
* * * * *
13094608 AGCATAAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACATC
65 AGCATAAAAATTGGAAAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGC
* * * * * *
13094673 ATTTTA-GCATAAAAATTTGATAGCATATGTGCAACAATTTGGGCAGCATATATATACCAAATTG
130 A-TTTAGGCATAAAAATTAGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTG
*
13094737 AGCAGCATTTTCACAT
194 AGCAGCATTTTAACAT
* *
13094753 CAAAATTGGACAGCATATATACAACAATTTGGGCAGT-ATAAATACAATAAATTGGACAGCATTT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCA-TCATAAATACAA-CAATTGGACAGCATTT
*
13094817 AAGCATAAAAATT
64 TAGCATAAAAATT
13094830 ACATGAACAT
Statistics
Matches: 252, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
209 5 0.02
210 232 0.92
211 15 0.06
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (209 bp):
AAAAATTGGACAGCATATATACAACAATTTGGGCATCATAAATACAACAATTGGACAGCATTTTA
GCATAAAAATTGGAAAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCA
TTTAGGCATAAAAATTAGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGAG
CAGCATTTTAACAT
Found at i:13094735 original size:24 final size:24
Alignment explanation
Indices: 13094344--13094814 Score: 241
Period size: 23 Copynumber: 20.2 Consensus size: 24
13094334 AAAATTGGAT
13094344 AGCATATATACAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
*
13094367 AGCATATATACATCAAA--TGGAGC
1 AGCATATATACAACAAATTTGG-GC
* * * * **
13094390 AGCATTTTTACATCAAAATTGGAA
1 AGCATATATACAACAAATTTGGGC
13094414 AGCATATATACAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
*
13094437 AGCATAAATACAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* ** * * *
13094460 AGCATTTAGGCATA-AAAATTAGAC
1 AGCATATATACA-ACAAATTTGGGC
*
13094484 AGCATATATGCAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* *
13094507 AGCATAAATACAATAAA-TTGGGC
1 AGCATATATACAACAAATTTGGGC
* * *
13094530 AGCATTTA-AGCATA-AAAATTGGAC
1 AGCATATATA-CA-ACAAATTTGGGC
*
13094554 AGCATATATGCAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* * * *
13094577 ATCATAAATACAACGAA-TTGGAC
1 AGCATATATACAACAAATTTGGGC
* * * *
13094600 AACAT-TTTAGCATAAAAATTT-GAC
1 AGCATATATA-CA-ACAAATTTGGGC
* *
13094624 AGCATATATGC-ACCAATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* *
13094647 AGCATAAATACAACAAA-TTGGAC
1 AGCATATATACAACAAATTTGGGC
* * * **
13094670 ATCAT-TTTAGCATAAAAATTT-GAT
1 AGCATATATA-CA-ACAAATTTGGGC
* *
13094694 AGCATATGTGCAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* * *
13094717 AGCATATATATACCAAA-TTGAGC
1 AGCATATATACAACAAATTTGGGC
* * * *
13094740 AGCAT-TTTCACATCAAAATTGGAC
1 AGCATATAT-ACAACAAATTTGGGC
13094764 AGCATATATACAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* * * *
13094787 AGTATAAATACAATAAA-TTGGAC
1 AGCATATATACAACAAATTTGGGC
13094810 AGCAT
1 AGCAT
13094815 TTAAGCATAA
Statistics
Matches: 335, Mismatches: 83, Indels: 60
0.70 0.17 0.13
Matches are distributed among these distances:
22 21 0.06
23 208 0.62
24 93 0.28
25 13 0.04
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (24 bp):
AGCATATATACAACAAATTTGGGC
Found at i:13102181 original size:28 final size:28
Alignment explanation
Indices: 13102149--13102274 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
13102139 TTTAATAAGT
** * *
13102149 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
13102177 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
13102205 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
13102233 TCGTACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
13102261 TCGCACACTTAGTG
1 TCGCACACTTAGTG
13102275 TCGAAAGTCA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:13105007 original size:10 final size:10
Alignment explanation
Indices: 13104994--13105023 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
13104984 AAGAAACAAA
13104994 AAAATTAAAT
1 AAAATTAAAT
13105004 AAAATTAAAT
1 AAAATTAAAT
13105014 AAATATTAAA
1 AAA-ATTAAA
13105024 AATTTCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTAAAT
Found at i:13106254 original size:16 final size:17
Alignment explanation
Indices: 13106221--13106258 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
13106211 GAAAAGAAAC
*
13106221 AAAAATAAAATAAAATT
1 AAAATTAAAATAAAATT
*
13106238 AAAATTAAAA-AATATT
1 AAAATTAAAATAAAATT
13106254 AAAAT
1 AAAAT
13106259 ATTCAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTAAAATAAAATT
Found at i:13109101 original size:22 final size:22
Alignment explanation
Indices: 13109076--13109117 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13109066 TATACAAGTA
* *
13109076 ATATTACTTGTATAGTTATGAG
1 ATATTACTTGAATAATTATGAG
*
13109098 ATATTATTTGAATAATTATG
1 ATATTACTTGAATAATTATG
13109118 TCTCCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (22 bp):
ATATTACTTGAATAATTATGAG
Found at i:13109754 original size:24 final size:26
Alignment explanation
Indices: 13109713--13109762 Score: 86
Period size: 24 Copynumber: 2.0 Consensus size: 26
13109703 AATTTTTGAT
13109713 GATGGCAAAAAAAGATGCATTTCTTA
1 GATGGCAAAAAAAGATGCATTTCTTA
13109739 GATGGC-AAAAAA-ATGCATTTCTTA
1 GATGGCAAAAAAAGATGCATTTCTTA
13109763 CTATCAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 12 0.50
25 6 0.25
26 6 0.25
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (26 bp):
GATGGCAAAAAAAGATGCATTTCTTA
Found at i:13120289 original size:40 final size:38
Alignment explanation
Indices: 13120244--13120333 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 38
13120234 ATCTTCAAGA
* *
13120244 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATAAGATATGCAATCTTAGATA--AG
* *
13120284 ATATGCAATCTTGGATAAGATATGCAATCTTGGATAAG
1 ATATGCAATCTTAGATAAGATATGCAATCTTAGATAAG
13120322 ATATGCAATCTT
1 ATATGCAATCTT
13120334 GGAAGATATG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 13 0.28
40 33 0.72
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.36
Consensus pattern (38 bp):
ATATGCAATCTTAGATAAGATATGCAATCTTAGATAAG
Found at i:13120334 original size:19 final size:19
Alignment explanation
Indices: 13120244--13120336 Score: 132
Period size: 19 Copynumber: 4.8 Consensus size: 19
13120234 ATCTTCAAGA
* *
13120244 ATATGCAATCTTAGATATG
1 ATATGCAATCTTGGATAAG
* *
13120263 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATA--AG
13120284 ATATGCAATCTTGGATAAG
1 ATATGCAATCTTGGATAAG
13120303 ATATGCAATCTTGGATAAG
1 ATATGCAATCTTGGATAAG
13120322 ATATGCAATCTTGGA
1 ATATGCAATCTTGGA
13120337 AGATATGATT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
19 52 0.76
21 16 0.24
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
ATATGCAATCTTGGATAAG
Found at i:13122907 original size:18 final size:18
Alignment explanation
Indices: 13122886--13122945 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
13122876 TAAGCATTAA
13122886 GTTGAGTAAATGTCAATT
1 GTTGAGTAAATGTCAATT
13122904 GTTGAGGGT-AA-G-C-ATT
1 GTTGA--GTAAATGTCAATT
13122920 AAGTTGAGTAAATGTCAATT
1 --GTTGAGTAAATGTCAATT
13122940 GTTGAG
1 GTTGAG
13122946 GGTAAAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
16 5 0.15
17 3 0.09
18 18 0.53
19 3 0.09
20 5 0.15
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (18 bp):
GTTGAGTAAATGTCAATT
Found at i:13122923 original size:36 final size:36
Alignment explanation
Indices: 13122876--13122950 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
13122866 ATTTTGATAT
13122876 TAAGCATTAAGTTGAGTAAATGTCAATTGTTGAGGG
1 TAAGCATTAAGTTGAGTAAATGTCAATTGTTGAGGG
13122912 TAAGCATTAAGTTGAGTAAATGTCAATTGTTGAGGG
1 TAAGCATTAAGTTGAGTAAATGTCAATTGTTGAGGG
13122948 TAA
1 TAA
13122951 AAGTATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (36 bp):
TAAGCATTAAGTTGAGTAAATGTCAATTGTTGAGGG
Found at i:13123498 original size:69 final size:69
Alignment explanation
Indices: 13123410--13123544 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 69
13123400 AGTTTGTCTG
* * * * * * *
13123410 ACTAGCGCTGGGTGCAACTTTCGTCAGTTTATCTGACTAGTGCTGGGCACATATTTTTCGGTTTA
1 ACTAGCGCTGGGAGCAACTTCCATCAGTTTATCTAACCAGTGCTGGGCACACATTTGTCGGTTTA
13123475 TCAT
66 TCAT
* *
13123479 ACTAGCGCTGGGCAG-AACTTCCATCAGTTTATTTAACCAGTGCTGGGCATACATTTGTCGGTTT
1 ACTAGCGCTGGG-AGCAACTTCCATCAGTTTATCTAACCAGTGCTGGGCACACATTTGTCGGTTT
13123543 AT
65 AT
13123545 TCGACTAGCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 55 0.98
70 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (69 bp):
ACTAGCGCTGGGAGCAACTTCCATCAGTTTATCTAACCAGTGCTGGGCACACATTTGTCGGTTTA
TCAT
Found at i:13123955 original size:22 final size:22
Alignment explanation
Indices: 13123927--13124011 Score: 107
Period size: 22 Copynumber: 3.9 Consensus size: 22
13123917 TTTTGGCATG
**
13123927 TCTCATGTTTAACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
** * *
13123949 TCTCATGTTTAACGAACTAAAC
1 TCTCATGGCTAACGTACTAAGC
*
13123971 CCTCATGGCTAACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
13123993 TCTCATGGCTAACGTACTA
1 TCTCATGGCTAACGTACTA
13124012 GGTAAATGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (22 bp):
TCTCATGGCTAACGTACTAAGC
Found at i:13134262 original size:16 final size:17
Alignment explanation
Indices: 13134241--13134273 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13134231 AATTTTAGGG
13134241 GCAAAAGTAT-AATTTT
1 GCAAAAGTATGAATTTT
*
13134257 GCAAAATTATGAATTTT
1 GCAAAAGTATGAATTTT
13134274 TGACTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:13136209 original size:9 final size:9
Alignment explanation
Indices: 13136197--13136221 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13136187 CTAAGTACGC
13136197 TAATTGAAT
1 TAATTGAAT
13136206 TAATTGAAT
1 TAATTGAAT
13136215 TAATTGA
1 TAATTGA
13136222 GAAAGTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (9 bp):
TAATTGAAT
Found at i:13145846 original size:19 final size:19
Alignment explanation
Indices: 13145822--13145861 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
13145812 ATCTCATTTC
13145822 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
13145841 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
13145860 AT
1 AT
13145862 ATTAATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:13148801 original size:18 final size:19
Alignment explanation
Indices: 13148762--13148801 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
13148752 GGTATAATTT
*
13148762 AAAATGAAAATTTTAAAGA
1 AAAATGAAAATTATAAAGA
13148781 AAAATGAAAATTATAAA-A
1 AAAATGAAAATTATAAAGA
13148799 AAA
1 AAA
13148802 GATGCTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAATGAAAATTATAAAGA
Found at i:13159485 original size:16 final size:16
Alignment explanation
Indices: 13159464--13159499 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
13159454 TTTGGTTCGC
13159464 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13159480 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13159496 TGTA
1 TGTA
13159500 ATAGCTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13159756 original size:18 final size:17
Alignment explanation
Indices: 13159735--13159769 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13159725 TTATTATTAA
*
13159735 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13159753 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13159770 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13159906 original size:156 final size:157
Alignment explanation
Indices: 13159622--13159937 Score: 598
Period size: 156 Copynumber: 2.0 Consensus size: 157
13159612 TAGAATACCC
13159622 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
13159687 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
13159752 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
13159778 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
13159843 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTTTTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
13159908 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
13159935 TTA
1 TTA
13159938 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
156 149 0.96
157 7 0.04
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (157 bp):
TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:13159911 original size:16 final size:16
Alignment explanation
Indices: 13159871--13159925 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
13159861 TTAATCATAT
*
13159871 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
13159887 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
13159902 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
13159920 -TAAAAT
1 TTAAAAT
13159926 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:13159918 original size:18 final size:17
Alignment explanation
Indices: 13159891--13159925 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13159881 TTTTTATTAA
*
13159891 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13159909 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13159926 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13160024 original size:120 final size:119
Alignment explanation
Indices: 13159874--13160098 Score: 405
Period size: 120 Copynumber: 1.9 Consensus size: 119
13159864 ATCATATTTA
* *
13159874 AACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13159939 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATA-TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13159994 AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTCA
1 AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13160059 TATTCTTATATAATTTATTCAAATCATAATATATGATACT
66 TATTCTTATATAATTTACTCAAATCATAATATATGATACT
13160099 ATAATTAATA
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 29 0.29
120 72 0.71
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (119 bp):
AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:13160032 original size:18 final size:17
Alignment explanation
Indices: 13160011--13160045 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13160001 ATATTATTAA
*
13160011 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13160029 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13160046 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13160174 original size:26 final size:27
Alignment explanation
Indices: 13160099--13160180 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
13160089 ATATGATACT
* *
13160099 ATAATTAATATTAAATATATTTTAATTA
1 ATAATTATTATTAAATATAATTTAA-TA
* *
13160127 A-AATATATGATTAAATACAATTTAA-A
1 ATAAT-TATTATTAAATATAATTTAATA
*
13160153 ATAATTATTATTAAATATAATTTCATA
1 ATAATTATTATTAAATATAATTTAATA
13160180 A
1 A
13160181 AATGTTCTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (27 bp):
ATAATTATTATTAAATATAATTTAATA
Found at i:13164556 original size:21 final size:22
Alignment explanation
Indices: 13164510--13164558 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
13164500 AAGCTGATGG
*
13164510 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAATAAATTATAC
* *
13164532 AGCCACTGCAAA-CAATTGTAC
1 AGCCACTGCAAATAAATTATAC
13164553 AGCCAC
1 AGCCAC
13164559 AAGCAATGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (22 bp):
AGCCACTGCAAATAAATTATAC
Found at i:13168617 original size:13 final size:13
Alignment explanation
Indices: 13168599--13168624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13168589 TAAATTTGGC
13168599 CCATTGTAATTGA
1 CCATTGTAATTGA
13168612 CCATTGTAATTGA
1 CCATTGTAATTGA
13168625 ACTTTATTGA
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):
CCATTGTAATTGA
Found at i:13174174 original size:13 final size:13
Alignment explanation
Indices: 13174158--13174201 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
13174148 ATATAATTGA
*
13174158 TTCATATAGCCAT
1 TTCATATAACCAT
* * *
13174171 TTCACATATCTAT
1 TTCATATAACCAT
13174184 TTCATATAACCAT
1 TTCATATAACCAT
13174197 TTCAT
1 TTCAT
13174202 TTTACACATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:13174734 original size:15 final size:16
Alignment explanation
Indices: 13174703--13174735 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13174693 CGTAACCTTT
13174703 AACTTAATTAACATTTA
1 AACTTAATT-ACATTTA
13174720 AACTTAATT-CATTTA
1 AACTTAATTACATTTA
13174735 A
1 A
13174736 TTGCTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
AACTTAATTACATTTA
Found at i:13175915 original size:50 final size:50
Alignment explanation
Indices: 13175839--13175935 Score: 178
Period size: 50 Copynumber: 1.9 Consensus size: 50
13175829 GGGACAAATA
13175839 ACTTGTACTTAACTATTCATTCAATTAATAAAATTATCAAATAAAAAACC
1 ACTTGTACTTAACTATTCATTCAATTAATAAAATTATCAAATAAAAAACC
13175889 ACTTGTACTTAACTATTCATAT-AATTAATAAAATTATCAAATAAAAA
1 ACTTGTACTTAACTATTCAT-TCAATTAATAAAATTATCAAATAAAAA
13175936 TTCAATATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.35
Consensus pattern (50 bp):
ACTTGTACTTAACTATTCATTCAATTAATAAAATTATCAAATAAAAAACC
Found at i:13200356 original size:2 final size:2
Alignment explanation
Indices: 13200349--13200376 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13200339 TTCTCTAAAC
13200349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13200377 TTTACAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13200486 original size:21 final size:21
Alignment explanation
Indices: 13200462--13200510 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
13200452 TATAACTATC
** *
13200462 ATATCATTGTTTAATTGTGTA
1 ATATCATCATTTAATTGTATA
*
13200483 ATATCATCATTTGATTGTATA
1 ATATCATCATTTAATTGTATA
13200504 ATATCAT
1 ATATCAT
13200511 ATCATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (21 bp):
ATATCATCATTTAATTGTATA
Found at i:13202749 original size:19 final size:18
Alignment explanation
Indices: 13202722--13202773 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
13202712 GTTTTTAGTA
13202722 TTTT-TATGTATTTTAAT
1 TTTTATATGTATTTTAAT
**
13202739 TTTTATAATGTATCATAAT
1 TTTTAT-ATGTATTTTAAT
13202758 TTTTATAT-TATTTTAA
1 TTTTATATGTATTTTAA
13202774 AAAAATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 10 0.34
18 3 0.10
19 16 0.55
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTATATGTATTTTAAT
Found at i:13202812 original size:24 final size:25
Alignment explanation
Indices: 13202761--13202825 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
13202751 TCATAATTTT
* * *
13202761 TATATTATTTTAAAAAAATTTAATA
1 TATATAATTATAAAAAAATGTAATA
13202786 TATATAAATTATAAAAAAA-GTAA-A
1 TATAT-AATTATAAAAAAATGTAATA
*
13202810 TATATATTTATAAAAA
1 TATATAATTATAAAAA
13202826 TATTAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 10 0.29
24 6 0.17
25 8 0.23
26 11 0.31
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TATATAATTATAAAAAAATGTAATA
Found at i:13231243 original size:19 final size:19
Alignment explanation
Indices: 13231221--13231258 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13231211 TGAATCATCC
13231221 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
13231240 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
13231259 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:13236840 original size:29 final size:29
Alignment explanation
Indices: 13236798--13236855 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
13236788 TTTTGTTGTA
13236798 GCAAGTTATACCTACTTTGTCGATTTCTC
1 GCAAGTTATACCTACTTTGTCGATTTCTC
13236827 GCAAGTTATACCTACTTTGTCGATTTCTC
1 GCAAGTTATACCTACTTTGTCGATTTCTC
13236856 TTTTATCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (29 bp):
GCAAGTTATACCTACTTTGTCGATTTCTC
Found at i:13240478 original size:50 final size:50
Alignment explanation
Indices: 13240410--13240546 Score: 184
Period size: 50 Copynumber: 2.7 Consensus size: 50
13240400 TTTCTTGTAC
* * * **
13240410 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTTTTACATGGGACCTCTCATATCGG
* ** *
13240460 TGCCCATGCCATGTCCCAGACATGGTTTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTTTTACATGGGACCTCTCATATCGG
*
13240510 TGCCAACGCCATGTCCCAGACATGGTTTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTTTTACATGGGA
13240547 TCTGATTCCC
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTTTTACATGGGACCTCTCATATCGG
Found at i:13248726 original size:13 final size:13
Alignment explanation
Indices: 13248708--13248732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13248698 TGCTCATGCT
13248708 TAAAAATAAAAAG
1 TAAAAATAAAAAG
13248721 TAAAAATAAAAA
1 TAAAAATAAAAA
13248733 CAACAACAAA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAG
Found at i:13270035 original size:29 final size:29
Alignment explanation
Indices: 13269989--13270079 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
13269979 AATGGTGCCA
* *
13269989 CAACTATTAGCAACTCGAACAAAGTCTCT
1 CAACCATTAACAACTCGAACAAAGTCTCT
* * *
13270018 CAACCATTAACCAGTCGAACAAAATCTCT
1 CAACCATTAACAACTCGAACAAAGTCTCT
13270047 CAACCATTAACAACTCGAACAAAGTCTCT
1 CAACCATTAACAACTCGAACAAAGTCTCT
13270076 CAAC
1 CAAC
13270080 TATAGTTCCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.21
Consensus pattern (29 bp):
CAACCATTAACAACTCGAACAAAGTCTCT
Found at i:13270518 original size:26 final size:26
Alignment explanation
Indices: 13270458--13270518 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
13270448 GAGTTTGCCT
*
13270458 CAATCTATAGTTTTCTATCATTTTCA
1 CAATCTATAGTATTCTATCATTTTCA
* *
13270484 TAGTCTATAGTATTCTAT-AGTTTTCA
1 CAATCTATAGTATTCTATCA-TTTTCA
*
13270510 CAATATATA
1 CAATCTATA
13270519 ATTTTCACAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.48
Consensus pattern (26 bp):
CAATCTATAGTATTCTATCATTTTCA
Found at i:13270541 original size:15 final size:15
Alignment explanation
Indices: 13270497--13270546 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
13270487 TCTATAGTAT
*
13270497 TCTATAGTTTTCACAA
1 TCTATAATTTTCAC-A
*
13270513 TATATAATTTTCACA
1 TCTATAATTTTCACA
13270528 GTCTATAA-TTTCACA
1 -TCTATAATTTTCACA
13270543 TCTA
1 TCTA
13270547 AAGATCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
16 18 0.60
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (15 bp):
TCTATAATTTTCACA
Found at i:13275512 original size:29 final size:29
Alignment explanation
Indices: 13275475--13275695 Score: 205
Period size: 29 Copynumber: 7.6 Consensus size: 29
13275465 TATCGACAAT
* * *
13275475 CATCAATTATGAAAAGGGATACCT-TCGAC
1 CATCGATTATGAAAAGGGAT-GCTGACGAC
* *
13275504 TATCGATTATGAAAAGGGATGGTGACGAC
1 CATCGATTATGAAAAGGGATGCTGACGAC
* * * *
13275533 CATCAACTATGAAAAAGGATGGTGACGAC
1 CATCGATTATGAAAAGGGATGCTGACGAC
* * * *
13275562 CATTGATTATGAAAAGCGATAGCT-TCGGC
1 CATCGATTATGAAAAGGGAT-GCTGACGAC
* * *
13275591 TATTGATTATGAAAAGGGATGGTGACGAC
1 CATCGATTATGAAAAGGGATGCTGACGAC
**
13275620 CATCGATTATGAAAAGGGATAGCT-TTGAC
1 CATCGATTATGAAAAGGGAT-GCTGACGAC
* *
13275649 TATCGATTATGAAAAGGGATGGTGACGAC
1 CATCGATTATGAAAAGGGATGCTGACGAC
*
13275678 CATCGATTATAAAAAGGG
1 CATCGATTATGAAAAGGG
13275696 CCATCAACTA
Statistics
Matches: 154, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
28 5 0.03
29 145 0.94
30 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (29 bp):
CATCGATTATGAAAAGGGATGCTGACGAC
Found at i:13275570 original size:58 final size:58
Alignment explanation
Indices: 13275500--13275907 Score: 342
Period size: 58 Copynumber: 7.2 Consensus size: 58
13275490 GGGATACCTT
* * * *
13275500 CGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGACGACTATCGACTATGAAAAGGGATGGTGA
* * * * * * *
13275558 CGACCATTGATTATGAAAAGCGATAGCT-TCGGCTATTGATTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGAT-GGTGACGACTATCGACTATGAAAAGGGATGGTGA
* ** *
13275616 CGACCATCGATTATGAAAAGGGATAGCT-TTGACTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGAT-GGTGACGACTATCGACTATGAAAAGGGATGGTGA
* *
13275674 CGACCATCGATTAT-AAAA---A-GG-G-C--C-ATCAACTATGGAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGACGACTATCGACTATGAAAAGGGATGGTGA
* * *** *
13275722 CGACCATCGATTATAAAAAGGGATAGTTTTGGCTATCGACTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGACGACTATCGACTATGAAAAGGGATGGTGA
* * * * * * * * *
13275780 CGACTATCAACTATGGAAA-GGATGGTGACGACCATCGATTATAAAAAGGGATAGCT-T
1 CGACCATCGATTATGAAAAGGGATGGTGACGACTATCGACTATGAAAAGGGAT-GGTGA
* * * * *
13275837 CGGCTATCGACTATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGACGACTATCGACTATGAAAAGGGATGGTGA
*
13275895 CAACCATCG-TTAT
1 CGACCATCGATTAT
13275908 TCCATTTTGT
Statistics
Matches: 280, Mismatches: 55, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
48 35 0.12
49 5 0.02
52 2 0.01
53 1 0.00
54 1 0.00
57 51 0.18
58 183 0.65
59 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (58 bp):
CGACCATCGATTATGAAAAGGGATGGTGACGACTATCGACTATGAAAAGGGATGGTGA
Found at i:13275631 original size:87 final size:87
Alignment explanation
Indices: 13275475--13275907 Score: 489
Period size: 87 Copynumber: 5.1 Consensus size: 87
13275465 TATCGACAAT
* * *
13275475 CATCAATTATGAAAAGGGATACCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
1 CATCGATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
*
13275540 TATGAAAAAGGATGGTGACGAC
66 TATGAAAAGGGATGGTGACGAC
* * * * *
13275562 CATTGATTATGAAAAGCGATAGCTTCGGCTATTGATTATGAAAAGGGATGGTGACGACCATCGAT
1 CATCGATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
* **
13275627 TATGAAAAGGGATAGCT-TTGAC
66 TATGAAAAGGGAT-GGTGACGAC
* * * * *
13275649 TATCGATTATGAAAAGGGAT-GGTGACGACCATCGATTAT-AAAA---A--G-G--G-CCATCAA
1 CATCGATTATGAAAAGGGATAGCT-TCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAA
*
13275703 CTATGGAAAGGGATGGTGACGAC
65 CTATGAAAAGGGATGGTGACGAC
* * * * *
13275726 CATCGATTATAAAAAGGGATAGTTTTGGCTATCGACTATGAAAAGGGATGGTGACGACTATCAAC
1 CATCGATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
*
13275791 TATGGAAA-GGATGGTGACGAC
66 TATGAAAAGGGATGGTGACGAC
* * * *
13275812 CATCGATTATAAAAAGGGATAGCTTCGGCTATCGACTATGAAAAGGGATGGTGATGACTATCAAC
1 CATCGATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
*
13275877 TATGAAAAGGGATGGTGACAAC
66 TATGAAAAGGGATGGTGACGAC
13275899 CATCG-TTAT
1 CATCGATTAT
13275908 TCCATTTTGT
Statistics
Matches: 291, Mismatches: 40, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
76 2 0.01
77 49 0.17
78 7 0.02
80 1 0.00
81 2 0.01
83 2 0.01
84 1 0.00
86 93 0.32
87 132 0.45
88 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (87 bp):
CATCGATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
TATGAAAAGGGATGGTGACGAC
Found at i:13275741 original size:29 final size:29
Alignment explanation
Indices: 13275702--13275895 Score: 194
Period size: 29 Copynumber: 6.7 Consensus size: 29
13275692 AGGGCCATCA
* *
13275702 ACTATGGAAAGGGATGGTGACGACCATCG
1 ACTATGAAAAGGGATGGTGACGACTATCG
* * * *** *
13275731 ATTATAAAAAGGGATAGTTTTGGCTATCG
1 ACTATGAAAAGGGATGGTGACGACTATCG
*
13275760 ACTATGAAAAGGGATGGTGACGACTATCA
1 ACTATGAAAAGGGATGGTGACGACTATCG
* *
13275789 ACTATGGAAA-GGATGGTGACGACCATCG
1 ACTATGAAAAGGGATGGTGACGACTATCG
* * * * *
13275817 ATTATAAAAAGGGATAGCT-TCGGCTATCG
1 ACTATGAAAAGGGAT-GGTGACGACTATCG
* *
13275846 ACTATGAAAAGGGATGGTGATGACTATCA
1 ACTATGAAAAGGGATGGTGACGACTATCG
13275875 ACTATGAAAAGGGATGGTGAC
1 ACTATGAAAAGGGATGGTGAC
13275896 AACCATCGTT
Statistics
Matches: 127, Mismatches: 35, Indels: 6
0.76 0.21 0.04
Matches are distributed among these distances:
28 25 0.20
29 100 0.79
30 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (29 bp):
ACTATGAAAAGGGATGGTGACGACTATCG
Found at i:13275800 original size:106 final size:106
Alignment explanation
Indices: 13275598--13275793 Score: 320
Period size: 106 Copynumber: 1.8 Consensus size: 106
13275588 GGCTATTGAT
* *
13275598 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATAGCTTTGACTATCGATTATGAAA
1 TATGAAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGCTTTGACTATCGACTATGAAA
* *
13275663 AGGGATGGTGACGACCATCGATTATAAAAAGGGCCATCAAC
66 AGGGATGGTGACGACCATCAACTATAAAAAGGGCCATCAAC
* * *
13275704 TATGGAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGTTTTGGCTATCGACTATGAAA
1 TATGAAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGCTTTGACTATCGACTATGAAA
*
13275769 AGGGATGGTGACGACTATCAACTAT
66 AGGGATGGTGACGACCATCAACTAT
13275794 GGAAAGGATG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 82 1.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (106 bp):
TATGAAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGCTTTGACTATCGACTATGAAA
AGGGATGGTGACGACCATCAACTATAAAAAGGGCCATCAAC
Found at i:13275844 original size:86 final size:87
Alignment explanation
Indices: 13275698--13275907 Score: 361
Period size: 86 Copynumber: 2.4 Consensus size: 87
13275688 AAAAAGGGCC
* *
13275698 ATCAACTATGGAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGTTTTGGCTATCGACT
1 ATCAACTATGGAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGCTTCGGCTATCGACT
13275763 ATGAAAAGGGATGGTGACGACT
66 ATGAAAAGGGATGGTGACGACT
13275785 ATCAACTATGGAAA-GGATGGTGACGACCATCGATTATAAAAAGGGATAGCTTCGGCTATCGACT
1 ATCAACTATGGAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGCTTCGGCTATCGACT
*
13275849 ATGAAAAGGGATGGTGATGACT
66 ATGAAAAGGGATGGTGACGACT
* *
13275871 ATCAACTATGAAAAGGGATGGTGACAACCATCG-TTAT
1 ATCAACTATGGAAAGGGATGGTGACGACCATCGATTAT
13275908 TCCATTTTGT
Statistics
Matches: 117, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
86 86 0.74
87 31 0.26
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (87 bp):
ATCAACTATGGAAAGGGATGGTGACGACCATCGATTATAAAAAGGGATAGCTTCGGCTATCGACT
ATGAAAAGGGATGGTGACGACT
Found at i:13282281 original size:30 final size:30
Alignment explanation
Indices: 13282245--13282301 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
13282235 CCTTTTCATA
* *
13282245 GCTCAATAGCTGAAGTTATCCCATTTCCCT
1 GCTCAATAGCCGAAGCTATCCCATTTCCCT
*
13282275 GCTCAATAGCCGAAGCTATCCCTTTTC
1 GCTCAATAGCCGAAGCTATCCCATTTC
13282302 ATTATTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.32
Consensus pattern (30 bp):
GCTCAATAGCCGAAGCTATCCCATTTCCCT
Found at i:13282332 original size:30 final size:30
Alignment explanation
Indices: 13282292--13282370 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 30
13282282 AGCCGAAGCT
13282292 ATCCCTTTTCATTATTTGATGGGCATCACC
1 ATCCCTTTTCATTATTTGATGGGCATCACC
* * * *
13282322 ATCCTTTTTCATT-GTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGGCATCACC
* *
13282351 ATCCCCTTTCATAATTTGAT
1 ATCCCTTTTCATTATTTGAT
13282371 AGTCGAAGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATTATTTGATGGGCATCACC
Found at i:13282451 original size:119 final size:119
Alignment explanation
Indices: 13282287--13282510 Score: 333
Period size: 119 Copynumber: 1.9 Consensus size: 119
13282277 TCAATAGCCG
* ** *
13282287 AAGCTATCCCTTTTCATTATTTGATGGGCATCACCATCCTTTTTCATTGTTGATGGTCGTCACCA
1 AAGCTATCCCTTTTCAATATTTGATGGGCATCACCATCCCATTTCATTATTGATGGT-GTCACCA
13282352 TCCC-CTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCACAAATCGATAACCA
65 TCCCTCTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCACAAATCGATAACCA
** * *
13282406 AAGCTATCTGTTTTCAATGTTTGATGGTCATCACCATCCCATTTCATTATTGATGGTGTCACCAT
1 AAGCTATCCCTTTTCAATATTTGATGGGCATCACCATCCCATTTCATTATTGATGGTGTCACCAT
* * *
13282471 CCCTTTTTCATAATTTGATAGTTGAGGCTATCCCTTTTCA
66 CCCTCTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCA
13282511 TTATTTTGAT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
118 11 0.12
119 82 0.88
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.39
Consensus pattern (119 bp):
AAGCTATCCCTTTTCAATATTTGATGGGCATCACCATCCCATTTCATTATTGATGGTGTCACCAT
CCCTCTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCACAAATCGATAACCA
Found at i:13289242 original size:25 final size:25
Alignment explanation
Indices: 13289212--13289259 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
13289202 TAGTTTAATC
13289212 AATTATAAAACATAAACACAAAATT
1 AATTATAAAACATAAACACAAAATT
13289237 AATTATAAAACATAAACACAAAA
1 AATTATAAAACATAAACACAAAA
13289260 AATAACGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (25 bp):
AATTATAAAACATAAACACAAAATT
Found at i:13289275 original size:25 final size:24
Alignment explanation
Indices: 13289216--13289264 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
13289206 TTAATCAATT
*
13289216 ATAAAACATAAACACAAAATTAATT
1 ATAAAACATAAACACAAAA-TAATA
13289241 ATAAAACATAAACACAAAA-AATA
1 ATAAAACATAAACACAAAATAATA
13289264 A
1 A
13289265 CGTACAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.17
25 19 0.83
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.18
Consensus pattern (24 bp):
ATAAAACATAAACACAAAATAATA
Found at i:13289626 original size:3 final size:3
Alignment explanation
Indices: 13289618--13289652 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13289608 TACATTTATA
13289618 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13289653 ACCCTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13292623 original size:27 final size:25
Alignment explanation
Indices: 13292585--13292755 Score: 163
Period size: 24 Copynumber: 6.7 Consensus size: 25
13292575 GGTGGTGACG
13292585 AAGCTGCTGCTGCCGCTGAAGTTCC
1 AAGCTGCTGCTGCCGCTGAAGTTCC
*
13292610 AACTGCTGCTGCTGCTGCAGCTGTAGTTCC
1 AA--GCTGCTGCTGC--C-GCTGAAGTTCC
*
13292640 AA-CTGCTGCTGCCGCTGTAA-CT-C
1 AAGCTGCTGCTGCCGCTG-AAGTTCC
* *
13292663 TAGCTGCTGCTGCCGCTGTAGTTCC
1 AAGCTGCTGCTGCCGCTGAAGTTCC
* *
13292688 AGTTGCTGCTGTTGCCGCTGAAGTTCC
1 A--AGCTGCTGCTGCCGCTGAAGTTCC
*
13292715 -AGCTGCTGCTGCCTCTGAAGTTCC
1 AAGCTGCTGCTGCCGCTGAAGTTCC
*
13292739 AA-CTGCTGCTGCTGCTG
1 AAGCTGCTGCTGCCGCTG
13292756 CTGCTGCTGT
Statistics
Matches: 119, Mismatches: 15, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
23 3 0.03
24 55 0.46
25 6 0.05
27 42 0.35
29 1 0.01
30 12 0.10
ACGTcount: A:0.13, C:0.31, G:0.27, T:0.29
Consensus pattern (25 bp):
AAGCTGCTGCTGCCGCTGAAGTTCC
Found at i:13292623 original size:30 final size:29
Alignment explanation
Indices: 13292587--13292836 Score: 117
Period size: 30 Copynumber: 8.9 Consensus size: 29
13292577 TGGTGACGAA
13292587 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAA-TGCT
* *
13292617 GCTGCTGCTGCAGCTGTAGTTCCAA----
1 GCTGCTGCTGCCGCTGAAGTTCCAATGCT
* *
13292642 -CTGCTGCTGCCGCTGTAA-CT-CTA-GCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAATGCT
* *
13292668 GCTGCTG---CCGCTGTAGTTCC-A-GTT
1 GCTGCTGCTGCCGCTGAAGTTCCAATGCT
*
13292692 GCTGCTGTTGCCGCTGAAGTTCC-A----
1 GCTGCTGCTGCCGCTGAAGTTCCAATGCT
*
13292716 GCTGCTGCTGCCTCTGAAGTTCCAACTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAA-TGCT
13292746 GCTGCTGCTGCTGCTGCTGTCGCTTAAGTTCCAAT--T
1 GCTGCTGCTGC--C-GC--T-G---AAGTTCCAATGCT
* *
13292782 GCTGCTGCTGTCGCTGAAGTTCCAACTGCC
1 GCTGCTGCTGCCGCTGAAGTTCCAA-TGCT
* ***
13292812 GCTGCTGTTGAAACTGAAGTTCCAA
1 GCTGCTGCTGCCGCTGAAGTTCCAA
13292837 AAGGTGTTCC
Statistics
Matches: 173, Mismatches: 19, Indels: 56
0.70 0.08 0.23
Matches are distributed among these distances:
23 3 0.02
24 53 0.31
25 3 0.02
27 28 0.16
28 1 0.01
30 56 0.32
31 1 0.01
32 1 0.01
33 3 0.02
34 1 0.01
35 1 0.01
36 12 0.07
38 1 0.01
39 9 0.05
ACGTcount: A:0.14, C:0.30, G:0.26, T:0.30
Consensus pattern (29 bp):
GCTGCTGCTGCCGCTGAAGTTCCAATGCT
Found at i:13292672 original size:51 final size:48
Alignment explanation
Indices: 13292588--13292755 Score: 167
Period size: 51 Copynumber: 3.3 Consensus size: 48
13292578 GGTGACGAAG
*
13292588 CTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCTGCTGCAGCTGTAGTTCCAA
1 CTGCTGCTGCCGCTGAAGCTCC-A--GCTGCTGCTGC--C-GCTGTAGTTCCAA
* *
13292642 CTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCTGCCGCTGTAGTTCCAGTTG
1 CTGCTGCTGCCGCTG-AAGCTCCAGCTGCTGCTGCCGCTGTAGTTCCA---A
* * * *
13292693 CTGCTGTTGCCGCTGAAGTTCCAGCTGCTGCTGCCTCTGAAGTTCCAA
1 CTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCCGCTGTAGTTCCAA
*
13292741 CTGCTGCTGCTGCTG
1 CTGCTGCTGCCGCTG
13292756 CTGCTGCTGT
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
48 25 0.26
49 1 0.01
50 2 0.02
51 50 0.51
53 1 0.01
54 17 0.17
55 2 0.02
ACGTcount: A:0.12, C:0.32, G:0.27, T:0.30
Consensus pattern (48 bp):
CTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCCGCTGTAGTTCCAA
Found at i:13292762 original size:66 final size:65
Alignment explanation
Indices: 13292691--13292818 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 65
13292681 TAGTTCCAGT
* * * *
13292691 TGCTGCTGTTGCCGCTGAAGTTCC-A-GCTGCTGCTGCCTCTGAAGTTCCAACTGCTGCTGCTGC
1 TGCTGCTGCTGTCGCTGAAGTTCCAATGCTGCTGCTGCCGCTGAAGTTCCAACTGCCGCTGCTGC
* *
13292754 TGCTGCTGCTGTCGCTTAAGTTCCAATTGCTGCTGCTGTCGCTGAAGTTCCAACTGCCGCTGCTG
1 TGCTGCTGCTGTCGCTGAAGTTCCAA-TGCTGCTGCTGCCGCTGAAGTTCCAACTGCCGCTGCTG
13292819 TTGAAACTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 21 0.38
64 1 0.02
66 34 0.61
ACGTcount: A:0.12, C:0.30, G:0.27, T:0.31
Consensus pattern (65 bp):
TGCTGCTGCTGTCGCTGAAGTTCCAATGCTGCTGCTGCCGCTGAAGTTCCAACTGCCGCTGCTGC
Found at i:13292775 original size:39 final size:39
Alignment explanation
Indices: 13292716--13292791 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
13292706 TGAAGTTCCA
*
13292716 GCTGCTGCTGCCTCTGAAGTTCCAACTGCTGCTGCTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCTGCT
* * *
13292755 GCTGCTGCTGTCGCTTAAGTTCCAATTGCTGCTGCTG
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCTG
13292792 TCGCTGAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.11, C:0.30, G:0.26, T:0.33
Consensus pattern (39 bp):
GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCTGCT
Found at i:13292792 original size:27 final size:27
Alignment explanation
Indices: 13292753--13292819 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
13292743 GCTGCTGCTG
*
13292753 CTGCTGCTGCTGTCGCTTAAGTTCCAA
1 CTGCTGCTGCTGTCGCTGAAGTTCCAA
*
13292780 TTGCTGCTGCTGTCGCTGAAGTTCCAA
1 CTGCTGCTGCTGTCGCTGAAGTTCCAA
*
13292807 CTGCCGCTGCTGT
1 CTGCTGCTGCTGT
13292820 TGAAACTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.12, C:0.30, G:0.25, T:0.33
Consensus pattern (27 bp):
CTGCTGCTGCTGTCGCTGAAGTTCCAA
Found at i:13297042 original size:2 final size:2
Alignment explanation
Indices: 13297037--13297067 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13297027 AGGCAAAGGC
13297037 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13297068 TCAAATGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13304665 original size:50 final size:50
Alignment explanation
Indices: 13304557--13304742 Score: 273
Period size: 50 Copynumber: 3.7 Consensus size: 50
13304547 GCATGCCGAA
** * * * *
13304557 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATGGGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAC
* *
13304608 GCCATGTCCCAGACATGGTCTTAAAGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
13304658 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
13304708 GCCATGTCCCAGAAATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13304743 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 95 0.77
51 28 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:13308887 original size:18 final size:18
Alignment explanation
Indices: 13308864--13308898 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13308854 ACAATGTGCC
13308864 AAACTATTTTCGTGCTTG
1 AAACTATTTTCGTGCTTG
*
13308882 AAACTATTTTGGTGCTT
1 AAACTATTTTCGTGCTT
13308899 ACCATTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCGTGCTTG
Found at i:13312082 original size:149 final size:149
Alignment explanation
Indices: 13311812--13312103 Score: 575
Period size: 149 Copynumber: 2.0 Consensus size: 149
13311802 CCTTTCACTT
13311812 ATCTTTTGGGTGCACATTAGTGACAATGTGCCAAATAAAGTGTGTGGAGGGGGGTAACATAGATT
1 ATCTTTTGGGTGCACATTAGTGACAATGTGCCAAATAAAGTGTGTGGAGGGGGGTAACATAGATT
13311877 TTTTCAATTAAATTTTAAATTATATTACTTATTTTTAATTCTTTTCGTAGTTTGATTTAAATTTT
66 TTTTCAATTAAATTTTAAATTATATTACTTATTTTTAATTCTTTTCGTAGTTTGATTTAAATTTT
13311942 TTGTGCTTGTTTGATTTAA
131 TTGTGCTTGTTTGATTTAA
13311961 ATCTTTTGGGTGCACATTAGTGACAATGTGCCAAATAAAGTGTGTGGAGGGGGGTAACATAGATT
1 ATCTTTTGGGTGCACATTAGTGACAATGTGCCAAATAAAGTGTGTGGAGGGGGGTAACATAGATT
*
13312026 TTTTCAATTAAATTTTAAATTCTATTACTTATTTTTAATTCTTTTCGTAGTTTGATTTAAATTTT
66 TTTTCAATTAAATTTTAAATTATATTACTTATTTTTAATTCTTTTCGTAGTTTGATTTAAATTTT
13312091 TTGTGCTTGTTTG
131 TTGTGCTTGTTTG
13312104 TGCTCGAGCT
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 142 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (149 bp):
ATCTTTTGGGTGCACATTAGTGACAATGTGCCAAATAAAGTGTGTGGAGGGGGGTAACATAGATT
TTTTCAATTAAATTTTAAATTATATTACTTATTTTTAATTCTTTTCGTAGTTTGATTTAAATTTT
TTGTGCTTGTTTGATTTAA
Found at i:13312490 original size:11 final size:11
Alignment explanation
Indices: 13312470--13312502 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13312460 ATTTAATTTT
13312470 CTTG-ATGAAA
1 CTTGAATGAAA
*
13312480 CTTTAATGAAA
1 CTTGAATGAAA
13312491 CTTGAATGAAA
1 CTTGAATGAAA
13312502 C
1 C
13312503 CATGAGCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 3 0.15
11 17 0.85
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (11 bp):
CTTGAATGAAA
Found at i:13316382 original size:17 final size:17
Alignment explanation
Indices: 13316360--13316393 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13316350 CCACAATTGG
13316360 CATCTCAAACATTCATA
1 CATCTCAAACATTCATA
*
13316377 CATCTCAACCATTCATA
1 CATCTCAAACATTCATA
13316394 TAAAAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCTCAAACATTCATA
Found at i:13318394 original size:29 final size:28
Alignment explanation
Indices: 13318349--13318462 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 28
13318339 CGATACGTAA
* *
13318349 TACCTGATAAGTATAACACTGACACAAAG
1 TACCTGATAACTGTAACAC-GACACAAAG
* *
13318378 TGCCTGATAACTGTAACACCACTACAAAG
1 TACCTGATAACTGTAACACGAC-ACAAAG
* **
13318407 TATCTGATAACTGTAACATCGGTACAAAG
1 TACCTGATAACTGTAACA-CGACACAAAG
*
13318436 TACCTAATAACTGTAATCAACGACACA
1 TACCTGATAACTGTAA-C-ACGACACA
13318463 TAGTGTCTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.03
29 58 0.85
30 7 0.10
31 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (28 bp):
TACCTGATAACTGTAACACGACACAAAG
Found at i:13319056 original size:25 final size:25
Alignment explanation
Indices: 13319028--13319078 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13319018 CCAAAACATG
13319028 TTAGCCAAATTTACCCTTATTCATT
1 TTAGCCAAATTTACCCTTATTCATT
** *
13319053 TTAGCTGAATTTGCCCTTATTCATT
1 TTAGCCAAATTTACCCTTATTCATT
13319078 T
1 T
13319079 ACATCATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.47
Consensus pattern (25 bp):
TTAGCCAAATTTACCCTTATTCATT
Found at i:13321254 original size:23 final size:25
Alignment explanation
Indices: 13321223--13321282 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 25
13321213 TCAACTTTTA
13321223 TGAGCTTACCGTT-TCAGCTC-GA-
1 TGAGCTTACCGTTATCAGCTCAGAG
*
13321245 TAGAGCTTACTGTTCATCAGCTCAGAG
1 T-GAGCTTACCGTT-ATCAGCTCAGAG
13321272 TGAGCTTACCG
1 TGAGCTTACCG
13321283 ATCATGGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 11 0.35
25 7 0.23
26 11 0.35
27 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (25 bp):
TGAGCTTACCGTTATCAGCTCAGAG
Found at i:13321287 original size:26 final size:23
Alignment explanation
Indices: 13321222--13321287 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
13321212 ATCAACTTTT
*
13321222 ATGAGCTTACCGT-TTCAGCTCG
1 ATGAGCTTACCGTCATCAGCTCG
*
13321244 ATAGAGCTTACTGTTCATCAGCTCAG
1 AT-GAGCTTACCG-TCATCAGCTC-G
13321270 AGTGAGCTTACCGATCAT
1 A-TGAGCTTACCG-TCAT
13321288 GGCTCGAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 2 0.06
23 9 0.26
24 1 0.03
25 7 0.20
26 15 0.43
27 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (23 bp):
ATGAGCTTACCGTCATCAGCTCG
Found at i:13326695 original size:52 final size:53
Alignment explanation
Indices: 13326630--13326737 Score: 164
Period size: 52 Copynumber: 2.1 Consensus size: 53
13326620 GTCATCTTTA
* *
13326630 TTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTC-CATTTCTCCAT
1 TTTTCATTATGGAGAAAACCACAATCATTTCCAAATGATTCTCATTTCTCCAT
* * *
13326682 TTTTCATTATGGAGAAAACTATAATCATTTCCAAATGTTTCTCATTTCTCCAT
1 TTTTCATTATGGAGAAAACCACAATCATTTCCAAATGATTCTCATTTCTCCAT
13326735 TTT
1 TTT
13326738 AAGCAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 36 0.72
53 14 0.28
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (53 bp):
TTTTCATTATGGAGAAAACCACAATCATTTCCAAATGATTCTCATTTCTCCAT
Found at i:13332716 original size:19 final size:19
Alignment explanation
Indices: 13332688--13332732 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13332678 AATTAAATGT
*
13332688 CATTTCCATTTCA-ATAAC
1 CATTTTCATTTCATATAAC
*
13332706 CAATTTTCATTTGATATAAC
1 C-ATTTTCATTTCATATAAC
13332726 CATTTTC
1 CATTTTC
13332733 CACTTGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 16 0.70
20 6 0.26
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.44
Consensus pattern (19 bp):
CATTTTCATTTCATATAAC
Found at i:13332739 original size:20 final size:20
Alignment explanation
Indices: 13332701--13332740 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13332691 TTCCATTTCA
*
13332701 ATAACCAATTTTCATTTGAT
1 ATAACCAATTTTCACTTGAT
13332721 ATAACC-ATTTTCCACTTGAT
1 ATAACCAATTTT-CACTTGAT
13332741 GAACTATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (20 bp):
ATAACCAATTTTCACTTGAT
Found at i:13337234 original size:104 final size:104
Alignment explanation
Indices: 13337054--13337262 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
13337044 TGTAGCATAT
13337054 AGCTAGCACTCTACAACACACCAAACATATCTCGGTGAATGGAGCTTAGCTCACATTCCCTTATC
1 AGCTAGCACTCTACAACACACCAAACATATCTCGGTGAATGGAGCTTAGCTCACATTCCCTTATC
13337119 TCTCCAAAACTGTCCTAAATGCCCTAGAAACACAACACA
66 TCTCCAAAACTGTCCTAAATGCCCTAGAAACACAACACA
13337158 AGCTAGCACTCTACAACACACCAAACATATCTCGGTGAATGGAGCTTAGCTCACATTCCCTTATC
1 AGCTAGCACTCTACAACACACCAAACATATCTCGGTGAATGGAGCTTAGCTCACATTCCCTTATC
13337223 TCTCCAAAACTGTCCTAAATGCCCTAGAAACACAACACA
66 TCTCCAAAACTGTCCTAAATGCCCTAGAAACACAACACA
13337262 A
1 A
13337263 AGGTGAGTAC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.35, C:0.32, G:0.11, T:0.22
Consensus pattern (104 bp):
AGCTAGCACTCTACAACACACCAAACATATCTCGGTGAATGGAGCTTAGCTCACATTCCCTTATC
TCTCCAAAACTGTCCTAAATGCCCTAGAAACACAACACA
Found at i:13343777 original size:19 final size:18
Alignment explanation
Indices: 13343775--13343844 Score: 88
Period size: 18 Copynumber: 3.8 Consensus size: 18
13343765 TTTAAAATAT
13343775 TTTTAAAATACTTTTTTAA
1 TTTTAAAATA-TTTTTTAA
*
13343794 TTTTAAAATA-TTTTAAA
1 TTTTAAAATATTTTTTAA
* *
13343811 TATTTTAAATACTTTTTAA
1 T-TTTAAAATATTTTTTAA
13343830 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
13343845 AAAATAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 7 0.16
18 20 0.45
19 17 0.39
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAAAATATTTTTTAA
Found at i:13343813 original size:9 final size:9
Alignment explanation
Indices: 13343793--13343843 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
13343783 TACTTTTTTA
13343793 ATTTTAAAAT
1 ATTTT-AAAT
13343803 ATTTTAAAT
1 ATTTTAAAT
13343812 ATTTTAAAT
1 ATTTTAAAT
*
13343821 ACTTTTTAAT
1 A-TTTTAAAT
*
13343831 -TTTAAAAT
1 ATTTTAAAT
13343839 ATTTT
1 ATTTT
13343844 TAAAATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.17
9 17 0.49
10 12 0.34
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:13343856 original size:12 final size:11
Alignment explanation
Indices: 13343764--13343856 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
13343754 ATTTTTTTAA
13343764 TTTTAAAATAT
1 TTTTAAAATAT
13343775 TTTTAAAATACT
1 TTTTAAAATA-T
*
13343787 TTTT----TAA
1 TTTTAAAATAT
13343794 TTTTAAAATA-
1 TTTTAAAATAT
13343804 TTTT-AAATA-
1 TTTTAAAATAT
13343813 TTTT-AAATACT
1 TTTTAAAATA-T
13343824 TTTT---A-A-
1 TTTTAAAATAT
13343830 TTTTAAAATAT
1 TTTTAAAATAT
13343841 TTTTAAAATAAT
1 TTTTAAAAT-AT
13343853 TTTT
1 TTTT
13343857 TGGTATTTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 25
0.72 0.01 0.27
Matches are distributed among these distances:
6 4 0.06
7 4 0.06
8 3 0.04
9 16 0.24
10 5 0.07
11 25 0.37
12 11 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:13345952 original size:58 final size:58
Alignment explanation
Indices: 13345873--13346136 Score: 273
Period size: 58 Copynumber: 4.6 Consensus size: 58
13345863 TAAAAGGACG
* * *
13345873 CTTTGTGGCTATCTCAGTTAAAAGTGA-GTCTTTGT-GATGATCTCTATTAAAAGAAAGT
1 CTTTGTGGCTATCTCTGTTAAAAG-GATGTCTTTGTGGCT-ATCTCTGTTAAAAGAAAGT
* * * *
13345931 CTTTGTGGCGATCTCTGTTAAAAGAAAGTCTTTGTGGCGATCTCTGTTAAAAGAAAGT
1 CTTTGTGGCTATCTCTGTTAAAAGGATGTCTTTGTGGCTATCTCTGTTAAAAGAAAGT
* * * * * * * * * *
13345989 CTTCGTGGTTATCTCTATTATAAGGATGCCTTTGTGGCTATATCTGTTATAAGGATGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGTCTTTGTGGCTATCTCTGTTAAAAGAAAGT
* * *
13346047 CTTTGTGGCTATCTCTGTTAAAAGGATATCTTTGTGGCTATCTCTGTTAAAGGAATGT
1 CTTTGTGGCTATCTCTGTTAAAAGGATGTCTTTGTGGCTATCTCTGTTAAAAGAAAGT
* * *
13346105 CTTTGTAGATATCTCTATT-AAAGGAATGTCTT
1 CTTTGTGGCTATCTCTGTTAAAAGG-ATGTCTT
13346137 GTAGCAAATT
Statistics
Matches: 168, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
57 6 0.04
58 161 0.96
59 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (58 bp):
CTTTGTGGCTATCTCTGTTAAAAGGATGTCTTTGTGGCTATCTCTGTTAAAAGAAAGT
Found at i:13346127 original size:29 final size:29
Alignment explanation
Indices: 13345873--13346136 Score: 243
Period size: 29 Copynumber: 9.1 Consensus size: 29
13345863 TAAAAGGACG
*
13345873 CTTTGTGGCTATCTCAGTTAAAAGTG-A-GT
1 CTTTGTGGCTATCTCTGTT-AAAG-GAATGT
* * * *
13345902 CTTTGT-GATGATCTCTATTAAAAGAAAGT
1 CTTTGTGGCT-ATCTCTGTTAAAGGAATGT
* * *
13345931 CTTTGTGGCGATCTCTGTTAAAAGAAAGT
1 CTTTGTGGCTATCTCTGTTAAAGGAATGT
* * *
13345960 CTTTGTGGCGATCTCTGTTAAAAGAAAGT
1 CTTTGTGGCTATCTCTGTTAAAGGAATGT
* * * *
13345989 CTTCGTGGTTATCTCTATTATAAGG-ATGC
1 CTTTGTGGCTATCTCTGTTA-AAGGAATGT
* *
13346018 CTTTGTGGCTATATCTGTTATAAGG-ATGC
1 CTTTGTGGCTATCTCTGTTA-AAGGAATGT
*
13346047 CTTTGTGGCTATCTCTGTTAAAAGG-ATAT
1 CTTTGTGGCTATCTCTGTT-AAAGGAATGT
13346076 CTTTGTGGCTATCTCTGTTAAAGGAATGT
1 CTTTGTGGCTATCTCTGTTAAAGGAATGT
* * *
13346105 CTTTGTAGATATCTCTATTAAAGGAATGT
1 CTTTGTGGCTATCTCTGTTAAAGGAATGT
13346134 CTT
1 CTT
13346137 GTAGCAAATT
Statistics
Matches: 203, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.00
28 11 0.05
29 186 0.92
30 5 0.02
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (29 bp):
CTTTGTGGCTATCTCTGTTAAAGGAATGT
Found at i:13346157 original size:29 final size:29
Alignment explanation
Indices: 13346086--13346154 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
13346076 CTTTGTGGCT
* *
13346086 ATCTCTGTTAAAGGAATGTCTTTGTAGAT
1 ATCTATGTTAAAGGAATGTCTTTGTAGAA
* *
13346115 ATCTCTATTAAAGGAATGTC-TTGTAGCAA
1 ATCTATGTTAAAGGAATGTCTTTGTAG-AA
13346144 AT-TATGTTAAA
1 ATCTATGTTAAA
13346155 AGGGCGCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.37
29 22 0.63
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (29 bp):
ATCTATGTTAAAGGAATGTCTTTGTAGAA
Found at i:13348321 original size:12 final size:13
Alignment explanation
Indices: 13348303--13348344 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
13348293 AGGAAAGATT
13348303 TAATAATAATATA
1 TAATAATAATATA
13348316 -AATAATAACATATA
1 TAATAAT-A-ATATA
13348330 TACATAATAATATA
1 TA-ATAATAATATA
13348344 T
1 T
13348345 TAAAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:13348336 original size:16 final size:16
Alignment explanation
Indices: 13348311--13348348 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13348301 TTTAATAATA
13348311 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
13348327 ATATACATAATAATAT
1 ATATAAATAATAACAT
13348343 AT-TAAA
1 ATATAAA
13348349 GTTGAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:13348737 original size:3 final size:3
Alignment explanation
Indices: 13348600--13348722 Score: 201
Period size: 3 Copynumber: 41.0 Consensus size: 3
13348590 AACTAATATA
* * * *
13348600 AAT AAT AAC ACT AAT AAT AAT AAT AGT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
13348648 AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13348696 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
13348723 GGTAGTAGTA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 112 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13349641 original size:23 final size:22
Alignment explanation
Indices: 13349615--13349663 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
13349605 TAATTAGATA
13349615 AATGTTATTTA-ATTATTTTTATT
1 AATGTT-TTTAGATTA-TTTTATT
13349638 AATGTTTTTAGTATTATTTTATT
1 AATGTTTTTAG-ATTATTTTATT
13349661 AAT
1 AAT
13349664 AAATGATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.17
23 16 0.67
24 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (22 bp):
AATGTTTTTAGATTATTTTATT
Found at i:13351735 original size:51 final size:51
Alignment explanation
Indices: 13351677--13351906 Score: 310
Period size: 51 Copynumber: 4.6 Consensus size: 51
13351667 AAAGTGATGG
13351677 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCTTCGA
* * * * *
13351728 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAAT-G-ATGGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACC-GAATAGCTTCGA
* * * *
13351778 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCTTCGA
* *
13351829 TCACATGTGTAGTACTATGTGCAGGCTACTA--CGT--GGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCTTCGA
13351876 TCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
13351907 TGTGTATCGG
Statistics
Matches: 158, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
47 42 0.27
49 6 0.04
50 36 0.23
51 70 0.44
52 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCTTCGA
Found at i:13351806 original size:101 final size:101
Alignment explanation
Indices: 13351682--13351863 Score: 328
Period size: 101 Copynumber: 1.8 Consensus size: 101
13351672 GATGGTCACG
* *
13351682 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCTTCGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTACGCATACCGAATAGCTTCGATCACATGTGTAGTACTATG
*
13351747 TGTAGGCTACTACGTGTACCGGAATGATGGGTCGCA
66 TGCAGGCTACTACGTGTACCGGAATGATGGGTCGCA
*
13351783 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGAATAGCTTCGATCACATGTGTAGTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTACGCATACCGAATAGCTTCGATCACATGTGTAGTACTATG
13351848 TGCAGGCTACTACGTG
66 TGCAGGCTACTACGTG
13351864 GAATAGCTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTATGTGCAGGCTACTACGCATACCGAATAGCTTCGATCACATGTGTAGTACTATG
TGCAGGCTACTACGTGTACCGGAATGATGGGTCGCA
Found at i:13352131 original size:74 final size:74
Alignment explanation
Indices: 13352010--13352189 Score: 234
Period size: 74 Copynumber: 2.4 Consensus size: 74
13352000 CTGATTCCCC
* *
13352010 TAAGGGGTTGCTAAGTGTTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCATAA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCAGTGGTTGCTAAGTGCTGATTCCACCATAA
13352075 CAGATTGTA
66 CAGATTGTA
* * * *
13352084 TAAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCATAT
1 TAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCAGTGGTTGCTAAGTGCTGATTCCACCATAA
* *
13352149 CTTTGAATGTGCA
66 C--AG-AT-TGTA
*
13352162 AAAGGGGGTTGCTAAGTGCTGATTCCCC
1 TAA-GGGGTTGCTAAGTGCTGATTCCCC
13352190 CAAGGGGTTG
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
74 60 0.66
76 1 0.01
77 2 0.02
78 5 0.05
79 23 0.25
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (74 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCAGTGGTTGCTAAGTGCTGATTCCACCATAA
CAGATTGTA
Found at i:13357478 original size:20 final size:19
Alignment explanation
Indices: 13357433--13357493 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
13357423 TCAAGTTCAT
*
13357433 TCAGCTCAACTTTAGCT-TA
1 TCAGCTC-ACTTTAGCTCAA
13357452 TCGAGCTCACTCTTAGCTCAA
1 TC-AGCTCACT-TTAGCTCAA
*
13357473 TCAGCTCATTTTAAGCTCAA
1 TCAGCTCACTTT-AGCTCAA
13357493 T
1 T
13357494 TGCGTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.19
20 26 0.72
21 3 0.08
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (19 bp):
TCAGCTCACTTTAGCTCAA
Found at i:13357998 original size:13 final size:12
Alignment explanation
Indices: 13357980--13358035 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
13357970 AGTAGACTCG
13357980 TGAAAAAAAAATT
1 TGAAAAAAAAA-T
13357993 TGAAAAAAAAAT
1 TGAAAAAAAAAT
*
13358005 CGAAAAAAAAA-
1 TGAAAAAAAAAT
*
13358016 T-CAAAAAAAAT
1 TGAAAAAAAAAT
13358027 TGAAAAAAA
1 TGAAAAAAA
13358036 GAAAAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
12 17 0.46
13 11 0.30
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (12 bp):
TGAAAAAAAAAT
Found at i:13358000 original size:12 final size:11
Alignment explanation
Indices: 13357983--13358035 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
13357973 AGACTCGTGA
13357983 AAAAAAAATTTG
1 AAAAAAAA-TTG
*
13357995 AAAAAAAAATCG
1 -AAAAAAAATTG
* *
13358007 AAAAAAAAATC
1 AAAAAAAATTG
13358018 AAAAAAAATTG
1 AAAAAAAATTG
13358029 AAAAAAA
1 AAAAAAA
13358036 GAAAAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 24 0.71
12 2 0.06
13 8 0.24
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:13363441 original size:20 final size:21
Alignment explanation
Indices: 13363416--13363463 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
13363406 TCAAGTTCAT
13363416 TCAGCTCAACT-TTAGCTC-A
1 TCAGCTCAACTCTTAGCTCAA
13363435 TCGAGCTC-ACTCTTAGCTCAA
1 TC-AGCTCAACTCTTAGCTCAA
13363456 TCAGCTCA
1 TCAGCTCA
13363464 TTTTAAGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.20
20 17 0.68
21 3 0.12
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.29
Consensus pattern (21 bp):
TCAGCTCAACTCTTAGCTCAA
Found at i:13365577 original size:138 final size:137
Alignment explanation
Indices: 13365329--13365595 Score: 498
Period size: 138 Copynumber: 1.9 Consensus size: 137
13365319 TTGGACGGAA
*
13365329 TTATTACGGAAATTACAAGTTTCAAGCTTTTAATTTAAGTTTAAATCATATTGGGTTTGGGTTTT
1 TTATTACGGAAATTACAAGTTTCAAGCTTTTAATTTAAGTTTAAATCATATTGGGTTCGGGTTTT
13365394 AGACTTAATTTTTATTATATATGAGTCCAAGATAGTATTTATCAACTCTTATTATTTTTTATTTT
66 AGACTTAATTTTTATTATATATGAGTCCAAGATAGTATTTATCAACTCTTATTA-TTTTTATTTT
13365459 ATATGAGT
130 ATATGAGT
* *
13365467 TTATTACGGAAATTACGAGTTTCGAGCTTTTAATTTAAGTTTAAATCATATTGGGTTCGGGTTTT
1 TTATTACGGAAATTACAAGTTTCAAGCTTTTAATTTAAGTTTAAATCATATTGGGTTCGGGTTTT
13365532 AGACTTAATTTTTATTATATATGAGTCCAAGATAGTATTTATCAACTCTTATTATTTTTATTTT
66 AGACTTAATTTTTATTATATATGAGTCCAAGATAGTATTTATCAACTCTTATTATTTTTATTTT
13365596 TTTATTCCGA
Statistics
Matches: 126, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
137 10 0.08
138 116 0.92
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (137 bp):
TTATTACGGAAATTACAAGTTTCAAGCTTTTAATTTAAGTTTAAATCATATTGGGTTCGGGTTTT
AGACTTAATTTTTATTATATATGAGTCCAAGATAGTATTTATCAACTCTTATTATTTTTATTTTA
TATGAGT
Found at i:13365733 original size:12 final size:12
Alignment explanation
Indices: 13365716--13365743 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13365706 TTCATTATTA
13365716 GTCTATATAAAG
1 GTCTATATAAAG
13365728 GTCTATATAAAG
1 GTCTATATAAAG
13365740 GTCT
1 GTCT
13365744 TTTCATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (12 bp):
GTCTATATAAAG
Found at i:13365833 original size:25 final size:25
Alignment explanation
Indices: 13365807--13365875 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
13365797 AGTTAATAAA
*
13365807 TTCTCTTTGAGTTTTCTTTCAAGAAT
1 TTCTC-TTCAGTTTTCTTTCAAGAAT
*
13365833 TTTTCTTCAGTTTTCTTTCAAGAAT
1 TTCTCTTCAGTTTTCTTTCAAGAAT
* *
13365858 TTTTCTTCAATTTTCTTT
1 TTCTCTTCAGTTTTCTTT
13365876 TAGAAGAGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.17, C:0.16, G:0.07, T:0.59
Consensus pattern (25 bp):
TTCTCTTCAGTTTTCTTTCAAGAAT
Found at i:13365867 original size:14 final size:15
Alignment explanation
Indices: 13365818--13365864 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
13365808 TCTCTTTGAG
13365818 TTTTCTTTCAAGAAT
1 TTTTCTTTCAAGAAT
13365833 TTTTC-TTC-AG---
1 TTTTCTTTCAAGAAT
13365843 TTTTCTTTCAAGAAT
1 TTTTCTTTCAAGAAT
13365858 TTTTCTT
1 TTTTCTT
13365865 CAATTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
10 5 0.19
11 3 0.11
12 2 0.07
13 2 0.07
14 3 0.11
15 12 0.44
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (15 bp):
TTTTCTTTCAAGAAT
Found at i:13373349 original size:21 final size:20
Alignment explanation
Indices: 13373323--13373361 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13373313 GAAATTGACA
13373323 TTTTTTTCTTAATTTGGTATT
1 TTTTTTTC-TAATTTGGTATT
13373344 TTTTTTTCTAATTTGGTA
1 TTTTTTTCTAATTTGGTA
13373362 CCTGAGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.69
Consensus pattern (20 bp):
TTTTTTTCTAATTTGGTATT
Found at i:13373350 original size:79 final size:83
Alignment explanation
Indices: 13373265--13373414 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 83
13373255 TTCAACTTGA
* * *
13373265 TTTTTTTCTAATTTAGTATCTAAGATTTTTTT-TT-T-CATTTTGGTACTTGAAATTGACA-TTT
1 TTTTTTTCTAATTTAGTACCTAAGATTTTTTTATTATCCAATTTGGTACTTGAAATAGACACTTT
13373326 TTTTCTTAATTTGGTATT
66 TTTTCTTAATTTGGTATT
* * * * *
13373344 TTTTTTTCTAATTTGGTACCTGAGCTTTTTTTATTATCCAATTTGGTTCTTGAACTAGACACTTT
1 TTTTTTTCTAATTTAGTACCTAAGATTTTTTTATTATCCAATTTGGTACTTGAAATAGACACTTT
13373409 TTTTCT
66 TTTTCT
13373415 AGTTTGATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 28 0.47
80 2 0.03
81 1 0.02
82 19 0.32
83 9 0.15
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.58
Consensus pattern (83 bp):
TTTTTTTCTAATTTAGTACCTAAGATTTTTTTATTATCCAATTTGGTACTTGAAATAGACACTTT
TTTTCTTAATTTGGTATT
Found at i:13373508 original size:66 final size:65
Alignment explanation
Indices: 13373406--13373626 Score: 183
Period size: 66 Copynumber: 3.5 Consensus size: 65
13373396 AACTAGACAC
* * * * *
13373406 TTTTTTTCTAGTTTGATATCTAAATTTTTTTGGTCCAATTTGGTACACGAACTTGAAACTTGTAC
1 TTTTTTTCTAATTTGGTACCTAAGTTTTTTTTGTCCAATTTGGTAC-CGAACTTGAAACTTGTAC
13373471 T
65 T
* * * *
13373472 TTTTTTTCTAATTTGTTACCTGAGTTTTTTTTGTCCAATTTGGT-----TCTTG-AATTTG-AC-
1 TTTTTTTCTAATTTGGTACCTAAGTTTTTTTTGTCCAATTTGGTACCGAACTTGAAACTTGTACT
* * * * * *
13373529 -ATTTTTCTAGTATGGTACCTAAGCTTTTTTTGTCCAATTTGGTACCTGAAATTGACACTTGTAC
1 TTTTTTTCTAATTTGGTACCTAAGTTTTTTTTGTCCAATTTGGTACC-GAACTTGAAACTTGTAC
13373593 T
65 T
* *
13373594 TTTTTTT-TAAATTTGGTACTTGAGCTTTTTTTT
1 TTTTTTTCT-AATTTGGTACCTAAG-TTTTTTTT
13373627 CTGGTCCAAT
Statistics
Matches: 119, Mismatches: 24, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
56 37 0.31
58 2 0.02
59 5 0.04
60 4 0.03
62 3 0.03
63 4 0.03
64 2 0.02
65 1 0.01
66 54 0.45
67 7 0.06
ACGTcount: A:0.20, C:0.13, G:0.14, T:0.52
Consensus pattern (65 bp):
TTTTTTTCTAATTTGGTACCTAAGTTTTTTTTGTCCAATTTGGTACCGAACTTGAAACTTGTACT
Found at i:13373535 original size:56 final size:56
Alignment explanation
Indices: 13373474--13373585 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
13373464 CTTGTACTTT
* * * * * * *
13373474 TTTTTCTAATTTGTTACCTGAGTTTTTTTTGTCCAATTTGGTTCTTGAATTTGACA
1 TTTTTCTAATATGGTACCTAAGCTTTTTTTGTCCAATTTGGTACCTGAAATTGACA
*
13373530 TTTTTCTAGTATGGTACCTAAGCTTTTTTTGTCCAATTTGGTACCTGAAATTGACA
1 TTTTTCTAATATGGTACCTAAGCTTTTTTTGTCCAATTTGGTACCTGAAATTGACA
13373586 CTTGTACTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (56 bp):
TTTTTCTAATATGGTACCTAAGCTTTTTTTGTCCAATTTGGTACCTGAAATTGACA
Found at i:13373589 original size:122 final size:124
Alignment explanation
Indices: 13373343--13373687 Score: 403
Period size: 122 Copynumber: 2.7 Consensus size: 124
13373333 AATTTGGTAT
* *
13373343 TTTTTTTTCTAATTTGGTACCTGAGCTTTTTTTATTATCCAATTTGGTTCTTGAACTAGACACTT
1 TTTTTTTTCTAATTTGGTACCTGAGC-TTTTTT-TTGTCCAATTTGGTTCTTGAACTTGACA---
* * * *
13373408 TTTTTCTAGTTTGATATCTAA-ATTTTTTTGGTCCAATTTGGTACACGAACTTGAAACTTGTAC
61 TTTTTCTAGTATGGTACCTAAGATTTTTTTGGTCCAATTTGGTACACGAAATTGAAACTTGTAC
* *
13373471 TTTTTTTTCTAATTTGTTACCTGAG-TTTTTTTTGTCCAATTTGGTTCTTGAATTTGACATTTTT
1 TTTTTTTTCTAATTTGGTACCTGAGCTTTTTTTTGTCCAATTTGGTTCTTGAACTTGACATTTTT
* *
13373535 CTAGTATGGTACCTAAGCTTTTTTT-GTCCAATTTGGTAC-CTGAAATTGACACTTGTAC
66 CTAGTATGGTACCTAAGATTTTTTTGGTCCAATTTGGTACAC-GAAATTGAAACTTGTAC
* * *
13373593 TTTTTTTT-TAAATTTGGTACTTGAGCTTTTTTTTCTGGTCCAATTTAGTTCTTGAACTTGACTT
1 TTTTTTTTCT-AATTTGGTACCTGAGC-TTTTTTT-T-GTCCAATTTGGTTCTTGAACTTGAC-A
* * *
13373657 TTTTTCCTAGTCTGGTACTTAAGGTTTTTTT
61 TTTTT-CTAGTATGGTACCTAAGATTTTTTT
13373688 TTTTTGTCCA
Statistics
Matches: 190, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
121 2 0.01
122 68 0.36
123 7 0.04
124 7 0.04
125 26 0.14
126 29 0.15
127 5 0.03
128 46 0.24
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (124 bp):
TTTTTTTTCTAATTTGGTACCTGAGCTTTTTTTTGTCCAATTTGGTTCTTGAACTTGACATTTTT
CTAGTATGGTACCTAAGATTTTTTTGGTCCAATTTGGTACACGAAATTGAAACTTGTAC
Found at i:13377362 original size:15 final size:15
Alignment explanation
Indices: 13377342--13377372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13377332 CCAACCTTCA
*
13377342 AATTTTAGGTCAATT
1 AATTTTACGTCAATT
13377357 AATTTTACGTCAATT
1 AATTTTACGTCAATT
13377372 A
1 A
13377373 TACATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (15 bp):
AATTTTACGTCAATT
Found at i:13379803 original size:16 final size:16
Alignment explanation
Indices: 13379782--13379814 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13379772 AGTGTTGACC
13379782 TTTTGAATCATGATAT
1 TTTTGAATCATGATAT
13379798 TTTTGAATCATGATAT
1 TTTTGAATCATGATAT
13379814 T
1 T
13379815 AAAATAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTTGAATCATGATAT
Done.