Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 172 of 322
Found at i:56111200 original size:26 final size:25
Alignment explanation
Indices: 56111157--56111206 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
56111147 AAATCAAAAG
*
56111157 AAAAATAAGAATAAAATAAATAAAT
1 AAAAATAAAAATAAAATAAATAAAT
56111182 AAAAATAAAAATAAGAATAAATAAA
1 AAAAATAAAAATAA-AATAAATAAA
56111207 AAGAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (25 bp):
AAAAATAAAAATAAAATAAATAAAT
Found at i:56117735 original size:15 final size:14
Alignment explanation
Indices: 56117717--56117747 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
56117707 TTAATTTATT
56117717 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
56117732 TAATAATAATCTAA
1 TAATAATAATCTAA
56117746 TA
1 TA
56117748 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:56117758 original size:21 final size:20
Alignment explanation
Indices: 56117734--56117802 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
56117724 AATGCTAATA
56117734 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
56117755 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
56117774 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
56117795 ATAATAAT
1 ATAATAAT
56117803 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:56119359 original size:13 final size:13
Alignment explanation
Indices: 56119337--56119369 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56119327 AAGGGTTTGT
56119337 TTAT-TAAACTAA
1 TTATCTAAACTAA
56119349 TTATCTAAACTAA
1 TTATCTAAACTAA
*
56119362 TTAACTAA
1 TTATCTAA
56119370 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:56128467 original size:164 final size:164
Alignment explanation
Indices: 56128196--56128523 Score: 656
Period size: 164 Copynumber: 2.0 Consensus size: 164
56128186 ACTATGCGTA
56128196 TCATATAGCTTCGGCTGTAAGTGTGGAAGGGGGAAATATGTGTAAAGAATGGTATATTTGTTATT
1 TCATATAGCTTCGGCTGTAAGTGTGGAAGGGGGAAATATGTGTAAAGAATGGTATATTTGTTATT
56128261 TTTCCGTTGAGTTCAACGGGGAAAACCGATAAAGTGGTAATATGTGAAAGTTATTATAAGGTGAA
66 TTTCCGTTGAGTTCAACGGGGAAAACCGATAAAGTGGTAATATGTGAAAGTTATTATAAGGTGAA
56128326 TATGTGAAAATTTATGTTTATGAAAAGTTAGGAG
131 TATGTGAAAATTTATGTTTATGAAAAGTTAGGAG
56128360 TCATATAGCTTCGGCTGTAAGTGTGGAAGGGGGAAATATGTGTAAAGAATGGTATATTTGTTATT
1 TCATATAGCTTCGGCTGTAAGTGTGGAAGGGGGAAATATGTGTAAAGAATGGTATATTTGTTATT
56128425 TTTCCGTTGAGTTCAACGGGGAAAACCGATAAAGTGGTAATATGTGAAAGTTATTATAAGGTGAA
66 TTTCCGTTGAGTTCAACGGGGAAAACCGATAAAGTGGTAATATGTGAAAGTTATTATAAGGTGAA
56128490 TATGTGAAAATTTATGTTTATGAAAAGTTAGGAG
131 TATGTGAAAATTTATGTTTATGAAAAGTTAGGAG
56128524 CTATGTGCTC
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.34
Consensus pattern (164 bp):
TCATATAGCTTCGGCTGTAAGTGTGGAAGGGGGAAATATGTGTAAAGAATGGTATATTTGTTATT
TTTCCGTTGAGTTCAACGGGGAAAACCGATAAAGTGGTAATATGTGAAAGTTATTATAAGGTGAA
TATGTGAAAATTTATGTTTATGAAAAGTTAGGAG
Found at i:56160415 original size:20 final size:20
Alignment explanation
Indices: 56160390--56160428 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
56160380 GCCTCAGATC
56160390 TGACTGTTGTATCTTTAGTT
1 TGACTGTTGTATCTTTAGTT
56160410 TGACTGTTGTATCTTTAGT
1 TGACTGTTGTATCTTTAGT
56160429 CCCTCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (20 bp):
TGACTGTTGTATCTTTAGTT
Found at i:56175510 original size:16 final size:17
Alignment explanation
Indices: 56175474--56175511 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
56175464 ATTTAAAAGG
*
56175474 AAAACAAATGAATCTTA
1 AAAACAAATGAATCCTA
56175491 AAAACAAATGAATCCTA
1 AAAACAAATGAATCCTA
56175508 AAAA
1 AAAA
56175512 TTTAATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.63, C:0.13, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAACAAATGAATCCTA
Found at i:56195851 original size:43 final size:42
Alignment explanation
Indices: 56195804--56195920 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
56195794 ATATAAGATC
* *
56195804 ATGTCTGGGACATTGGCAT-TGTATTACGATTATGGGTAATACT
1 ATGTCTGGGACATTGGCATAT-TA-TACGATTAAGGGTAAGACT
* *
56195847 ATGTCTGGGACATTGGCATCATTATGCGATTAAGTGTAAGACT
1 ATGTCTGGGACATTGGCAT-ATTATACGATTAAGGGTAAGACT
* *
56195890 TTGTCTGGGACATTGGCATCATTATATGATT
1 ATGTCTGGGACATTGGCAT-ATTATACGATT
56195921 TTATATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 62 0.95
44 2 0.03
45 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (42 bp):
ATGTCTGGGACATTGGCATATTATACGATTAAGGGTAAGACT
Found at i:56202829 original size:43 final size:43
Alignment explanation
Indices: 56202743--56202866 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 43
56202733 ACTGAGATGA
56202743 GATTAC-ATGTAAGACCATAT-TGGGACATTGGCATTGTATTGC
1 GATTACGA-GTAAGACCATATCTGGGACATTGGCATTGTATTGC
* *
56202785 GATTATGAGTAAGACCATATCTGGAACATTGGCATCAT-TA-TGC
1 GATTACGAGTAAGACCATATCTGGGACATTGGCAT--TGTATTGC
* *
56202828 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTA
1 GATTACGAGTAAGACCATATCTGGGACATTGGCATTGTA
56202867 ACACCCCTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 19 0.27
43 48 0.68
44 2 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACGAGTAAGACCATATCTGGGACATTGGCATTGTATTGC
Found at i:56204815 original size:33 final size:33
Alignment explanation
Indices: 56204768--56204894 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
56204758 TCTTTCTGAG
*
56204768 TGGTACACACAAAGTATACCTTACCTTTTCATA
1 TGGTATACACAAAGTATACCTTACCTTTTCATA
* *
56204801 TGATATACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTACCTTTTCATA
* * *
56204834 TGGTATACAAAAAGTATACCTAACCTTTTCAAA
1 TGGTATACACAAAGTATACCTTACCTTTTCATA
* *
56204867 TGGTATACACAAAGTATACATTTCCTTT
1 TGGTATACACAAAGTATACCTTACCTTT
56204895 CCAAATTTGA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTACCTTTTCATA
Found at i:56204976 original size:31 final size:31
Alignment explanation
Indices: 56204934--56205111 Score: 216
Period size: 31 Copynumber: 5.7 Consensus size: 31
56204924 TCACATTCGA
* *
56204934 TAGCTGAAGCTATCA-TTATTCACTAATCAGG
1 TAGCTGAAGCTACCACTT-TTCACTGATCAGG
* *
56204965 TAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTGATCAGG
* *
56204996 TAGCCGAAGCTACTACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTGATCAGG
** * *
56205027 TAGCCAAAGCTACCATTTTTCATTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTGATCAGG
56205058 TAG-TCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCT-GAAGCTACCACTTTTCACTGATCAGG
* *
56205089 TAGCCGAAGCTACTACTTTTCAC
1 TAGCTGAAGCTACCACTTTTCAC
56205112 ATTGTACACA
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
31 126 0.98
32 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
TAGCTGAAGCTACCACTTTTCACTGATCAGG
Found at i:56205018 original size:62 final size:62
Alignment explanation
Indices: 56204905--56205111 Score: 233
Period size: 62 Copynumber: 3.4 Consensus size: 62
56204895 CCAAATTTGA
* * * * * *
56204905 TAGCCGAAGCT-CTCCCTTTTCAC-ATTC-GATAGCTGAAGCTATCA-TTATTCACTAATCAGG
1 TAGCCGAAGCTAC-CACTTTTCACTAATCAGGTAGCCGAAGCTACCACTT-TTCACTGATCAGG
* * *
56204965 TAGCTGGAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCTACTACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAGG
* * * * *
56205027 TAGCCAAAGCTACCATTTTTCATTGATCAGGTAGTCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAGG
*
56205089 TAGCCGAAGCTACTACTTTTCAC
1 TAGCCGAAGCTACCACTTTTCAC
56205112 ATTGTACACA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
60 18 0.15
61 4 0.03
62 98 0.80
63 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (62 bp):
TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:56205069 original size:93 final size:93
Alignment explanation
Indices: 56204940--56205111 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
56204930 TCGATAGCTG
* *
56204940 AAGCTATCATTATTCACTAATCAGGTAGCTGGAGCTACCACTTTTCACTAATCAGGTAGCCGAAG
1 AAGCTACCATTATTCACTAATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAG
56205005 CTACTACTTTTCACTGATCAGGTAGCCA
66 CTACTACTTTTCACTGATCAGGTAGCCA
* * * *
56205033 AAGCTACCATTTTTCATTGATCAGGTAG-TCGAAGCTACCACTTTTCACTGATCAGGTAGCCGAA
1 AAGCTACCATTATTCACTAATCAGGTAGCT-GAAGCTACCACTTTTCACTAATCAGGTAGCCGAA
56205097 GCTACTACTTTTCAC
65 GCTACTACTTTTCAC
56205112 ATTGTACACA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (93 bp):
AAGCTACCATTATTCACTAATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAG
CTACTACTTTTCACTGATCAGGTAGCCA
Found at i:56208782 original size:148 final size:148
Alignment explanation
Indices: 56208514--56208808 Score: 581
Period size: 148 Copynumber: 2.0 Consensus size: 148
56208504 TTTCACCTTC
56208514 CTATTATTTCCCTTCACAACATCAAAAGCACCATACTCTTAGCATTTACCTCTCCCTAACCGTAT
1 CTATTATTTCCCTTCACAACATCAAAAGCACCATACTCTTAGCATTTACCTCTCCCTAACCGTAT
*
56208579 GCCATTTAATTACTTATTTAGGTAGAAAATTAACATATGGGACATGATAAGACATTGGCTACTAG
66 GCCATTTAATTACTTATTTAGGTAGAAAATCAACATATGGGACATGATAAGACATTGGCTACTAG
56208644 CTAGATTTTCACAAAAAT
131 CTAGATTTTCACAAAAAT
56208662 CTATTATTTCCCTTCACAACATCAAAAGCACCATACTCTTAGCATTTACCTCTCCCTAACCGTAT
1 CTATTATTTCCCTTCACAACATCAAAAGCACCATACTCTTAGCATTTACCTCTCCCTAACCGTAT
56208727 GCCATTTAATTACTTATTTAGGTAGAAAATCAACATATGGGACATGATAAGACATTGGCTACTAG
66 GCCATTTAATTACTTATTTAGGTAGAAAATCAACATATGGGACATGATAAGACATTGGCTACTAG
56208792 CTAGATTTTCACAAAAA
131 CTAGATTTTCACAAAAA
56208809 AATTAACAAA
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 146 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (148 bp):
CTATTATTTCCCTTCACAACATCAAAAGCACCATACTCTTAGCATTTACCTCTCCCTAACCGTAT
GCCATTTAATTACTTATTTAGGTAGAAAATCAACATATGGGACATGATAAGACATTGGCTACTAG
CTAGATTTTCACAAAAAT
Found at i:56209296 original size:144 final size:144
Alignment explanation
Indices: 56209036--56209323 Score: 558
Period size: 144 Copynumber: 2.0 Consensus size: 144
56209026 AGAACCATCC
56209036 TTGCTTGGCCGGCCACTACTTGAGGTTTGGGTGATTTGACATGCAAACCCAAGTTTCCTCACTGT
1 TTGCTTGGCCGGCCACTACTTGAGGTTTGGGTGATTTGACATGCAAACCCAAGTTTCCTCACTGT
56209101 GTTATCATTTGATACTTACATATTCCCCTATCATATTTTCTTAGGTTCTCAACTAAGTCAATCAC
66 GTTATCATTTGATACTTACATATTCCCCTATCATATTTTCTTAGGTTCTCAACTAAGTCAATCAC
56209166 ATGAAATTCACCTT
131 ATGAAATTCACCTT
*
56209180 TTGCTTGGCCGGCCACTACTTGAGGTTTGGGTGATTTGACATGCAAACCCAAGTTTCCTCACTTT
1 TTGCTTGGCCGGCCACTACTTGAGGTTTGGGTGATTTGACATGCAAACCCAAGTTTCCTCACTGT
*
56209245 GTTATCATTTGATCCTTACATATTCCCCTATCATATTTTCTTAGGTTCTCAACTAAGTCAATCAC
66 GTTATCATTTGATACTTACATATTCCCCTATCATATTTTCTTAGGTTCTCAACTAAGTCAATCAC
56209310 ATGAAATTCACCTT
131 ATGAAATTCACCTT
56209324 CATAAGTCTA
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 142 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (144 bp):
TTGCTTGGCCGGCCACTACTTGAGGTTTGGGTGATTTGACATGCAAACCCAAGTTTCCTCACTGT
GTTATCATTTGATACTTACATATTCCCCTATCATATTTTCTTAGGTTCTCAACTAAGTCAATCAC
ATGAAATTCACCTT
Found at i:56211223 original size:42 final size:42
Alignment explanation
Indices: 56211088--56212254 Score: 2025
Period size: 42 Copynumber: 28.1 Consensus size: 42
56211078 CCGAATACAC
* * *
56211088 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGG--ATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
56211128 AACACCAGCACGAAAGCTCTTCGAGACTTAGCCCGG--ATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
56211168 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
56211210 ATCACTAGCACGAATGCTGTTCGGGACTTAGCTCGG--ATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * * * *
56211250 AACACTAGCACGAATGCTCTTCAGGATTTATCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* *
56211292 ATCACTAACACGAATGCTCTTCGGGACTTAGCCCGG--ATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* *
56211332 AACACCAGCACGAATGTTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
56211374 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* *
56211414 AACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* *
56211456 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAG--ATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
56211496 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211538 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211580 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211622 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211664 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211706 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211748 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211790 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211832 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211874 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211916 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56211958 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56212000 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56212042 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56212084 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56212126 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56212168 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56212210 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
56212252 ATC
1 ATC
56212255 TCTCAATTCT
Statistics
Matches: 1076, Mismatches: 41, Indels: 18
0.95 0.04 0.02
Matches are distributed among these distances:
40 212 0.20
42 864 0.80
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (42 bp):
ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
Found at i:56221636 original size:15 final size:15
Alignment explanation
Indices: 56221616--56221646 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56221606 ATCTTGTGTA
*
56221616 CGGCCGCACTTTCGT
1 CGGCCGCACCTTCGT
56221631 CGGCCGCACCTTCGT
1 CGGCCGCACCTTCGT
56221646 C
1 C
56221647 AGACGCACGA
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:0.06, C:0.45, G:0.26, T:0.23
Consensus pattern (15 bp):
CGGCCGCACCTTCGT
Found at i:56223814 original size:43 final size:41
Alignment explanation
Indices: 56223651--56223814 Score: 143
Period size: 43 Copynumber: 3.9 Consensus size: 41
56223641 AAGCTCGTAC
* *
56223651 AATGCC-ATATCCCAGATATGGTCTTACATGTTATCTAATAT
1 AATGCCAATATCCCAGACATGGTCTTACATGTAATCTAAT-T
* * *
56223692 AGATGCCACTATCCCAGACAGGGTCTTACATGAAATCGATTAA-T
1 A-ATGCCAATATCCCAGACATGGTCTTACATGTAATC---TAATT
* * * **
56223736 GATGCCAATGTCCTAGACATGGTCTTACACATAATCTCAATT
1 AATGCCAATATCCCAGACATGGTCTTACATGTAATCT-AATT
* *
56223778 CAATGCCAATGTCCCAGATATGGTCTTACATGTAATC
1 -AATGCCAATATCCCAGACATGGTCTTACATGTAATC
56223815 ATATCTCAGT
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 6 0.06
43 83 0.86
44 1 0.01
46 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (41 bp):
AATGCCAATATCCCAGACATGGTCTTACATGTAATCTAATT
Found at i:56228444 original size:50 final size:50
Alignment explanation
Indices: 56228363--56228603 Score: 238
Period size: 50 Copynumber: 4.8 Consensus size: 50
56228353 TCTGTTGTGA
*
56228363 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGATAG
* * *
56228413 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GTTAACT--TCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG---ACTGATAG
* * ** * * * *
56228463 ATCACGTGTGTAGTACTAAGTGTGGGCTACTACGTGTATCAGA-TGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACT-GATAG
* * * * * *
56228513 GTCACGTGTGCAGTACTAAGTGAAGGTTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGATAG
* *
56228563 GTCATATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
56228604 AAGAGCTTTG
Statistics
Matches: 154, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 1 0.01
50 146 0.95
51 2 0.01
52 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGATAG
Found at i:56232893 original size:15 final size:15
Alignment explanation
Indices: 56232873--56232932 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
56232863 ATGATATTGT
56232873 ATCTTGGATTTCTTG
1 ATCTTGGATTTCTTG
56232888 ATCTTGGATTTCTCT-
1 ATCTTGGATTTCT-TG
* *
56232903 ATCTTGGACTTCTTA
1 ATCTTGGATTTCTTG
* *
56232918 ATCCTGGTTTTCTTG
1 ATCTTGGATTTCTTG
56232933 TTACCTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.13, C:0.18, G:0.17, T:0.52
Consensus pattern (15 bp):
ATCTTGGATTTCTTG
Found at i:56232906 original size:30 final size:30
Alignment explanation
Indices: 56232872--56232930 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
56232862 TATGATATTG
* * *
56232872 TATCTTGGATTTCTTGATCTTGGATTTCTC
1 TATCTTGGACTTCTTAATCCTGGATTTCTC
*
56232902 TATCTTGGACTTCTTAATCCTGGTTTTCT
1 TATCTTGGACTTCTTAATCCTGGATTTCT
56232931 TGTTACCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.19, G:0.15, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCTTAATCCTGGATTTCTC
Found at i:56235265 original size:30 final size:30
Alignment explanation
Indices: 56235211--56235269 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
56235201 TTTACGAGCC
* *
56235211 TAGGGGCCAAAGTGCAAATATGTAAAAGTT
1 TAGGGGCCAAAATGAAAATATGTAAAAGTT
* *
56235241 TAGGGGTCAAAATGAAAATTTGTAAAAGT
1 TAGGGGCCAAAATGAAAATATGTAAAAGT
56235270 ATGATTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGAAAATATGTAAAAGTT
Found at i:56235958 original size:50 final size:50
Alignment explanation
Indices: 56235877--56236118 Score: 216
Period size: 50 Copynumber: 4.8 Consensus size: 50
56235867 TCCGTTGTGA
* * * * * * *
56235877 GTCACGTGTGTAGTATTGAGTGTAGGCTACTACATTTACCAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
56235927 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* ** * * * * *
56235978 ATCATGTGTGTAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
56236028 GTCACGTGTGTAGTACTAAGTGAAGGTTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
56236078 GTCATATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
56236119 AAGAGCTTTG
Statistics
Matches: 147, Mismatches: 42, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
49 3 0.02
50 108 0.73
51 35 0.24
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:56246936 original size:55 final size:53
Alignment explanation
Indices: 56246837--56246978 Score: 151
Period size: 55 Copynumber: 2.6 Consensus size: 53
56246827 TATATAGGCC
* * *
56246837 CACGCCCGTGTTAATTTAATAGGTTCGACCACTGTTGCTTGGCACGGGCGTGTCG
1 CACG-CCGTGTTAATTTGATAGGTTCGACCACGGTT-CTAGGCACGGGCGTGTCG
*
56246892 CACGCTCGTGTTAATTTGATAGGTTCGACCACGGGTT-TAAGGCACGGGCGTGTTG
1 CACGC-CGTGTTAATTTGATAGGTTCGACCAC-GGTTCT-AGGCACGGGCGTGTCG
* * * *
56246947 CACGCCTGTGCTATTTTGGTAGGTTCGCCCAC
1 CACGCC-GTGTTAATTTGATAGGTTCGACCAC
56246979 AGCCCGTGTT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.04
55 69 0.92
56 3 0.04
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (53 bp):
CACGCCGTGTTAATTTGATAGGTTCGACCACGGTTCTAGGCACGGGCGTGTCG
Found at i:56247263 original size:44 final size:43
Alignment explanation
Indices: 56247192--56247278 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
56247182 CTCTCCATTA
* *
56247192 AATGGTCATGGTGGTTCAAGGATTTTATACTCCTCATTCCTGC
1 AATGGACATGGTGGTTCAAGGAGTTTATACTCCTCATTCCTGC
*
56247235 NAATGGACATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTGC
1 -AATGGACATGGTGGTTCAAGGAGTTTATACTCCTCATTCCTGC
56247279 TATCATTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (43 bp):
AATGGACATGGTGGTTCAAGGAGTTTATACTCCTCATTCCTGC
Found at i:56252352 original size:54 final size:51
Alignment explanation
Indices: 56252275--56252432 Score: 205
Period size: 54 Copynumber: 3.1 Consensus size: 51
56252265 TTGATGTACA
*
56252275 AGATAAATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATATAT-TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* **
56252327 AGATATGTATATGTATATGTAGTAAAGCCGAATGGCTAACATGAAATATGTATG
1 AGATA--TATAT-TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
56252381 AG--ATATA-TATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTAGG
1 AGATATATATTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
56252429 AGAT
1 AGAT
56252433 GTGTGTATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
48 38 0.41
50 4 0.04
52 6 0.07
54 44 0.48
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.31
Consensus pattern (51 bp):
AGATATATATTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:56252400 original size:48 final size:48
Alignment explanation
Indices: 56252281--56252432 Score: 205
Period size: 48 Copynumber: 3.0 Consensus size: 48
56252271 TACAAGATAA
56252281 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
56252329 ATATGTATATGTATATGTAGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 --A--TATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
56252383 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56252431 AT
1 AT
56252433 GTGTGTATAT
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
48 40 0.44
50 5 0.06
52 5 0.06
54 40 0.44
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:56252625 original size:37 final size:37
Alignment explanation
Indices: 56252573--56252675 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
56252563 GGAAATATAT
*
56252573 TCCGGGTAAGCCCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
56252610 TCCGGATAAGACCCGATGACTACGGGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56252647 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
56252676 GGACTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56255803 original size:43 final size:43
Alignment explanation
Indices: 56255756--56255850 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
56255746 TCCTAGATAG
* * * *
56255756 GGTCTTACACGAAATC-GATTAACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCTCAAT-ACAATGCCAATGTCCCAAACAT
* * *
56255799 GGTCTTGCACGTAATCTCAATACAATGCCAATGTCTCAAACAT
1 GGTCTTACACGAAATCTCAATACAATGCCAATGTCCCAAACAT
56255842 GGTCTTACA
1 GGTCTTACA
56255851 TGTAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 41 0.95
44 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCTCAATACAATGCCAATGTCCCAAACAT
Found at i:56256367 original size:8 final size:8
Alignment explanation
Indices: 56256354--56256381 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
56256344 CATTTAACCC
56256354 TACATTTT
1 TACATTTT
56256362 TACATTTT
1 TACATTTT
56256370 TACATTTT
1 TACATTTT
56256378 TACA
1 TACA
56256382 AATTAACCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (8 bp):
TACATTTT
Found at i:56270585 original size:30 final size:30
Alignment explanation
Indices: 56270551--56270610 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
56270541 ACTTAACAAG
56270551 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
56270581 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
56270611 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:56279363 original size:41 final size:41
Alignment explanation
Indices: 56279318--56279398 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
56279308 ACTATTTTTA
*
56279318 GTGATTTTTCAAACTTACGTCACTGCTGCTGTGTGATTCTG
1 GTGATTTTTCAAACTCACGTCACTGCTGCTGTGTGATTCTG
56279359 GTGATTTTTCAAACTCACGTCACTGCTGCTGTGTGATTCT
1 GTGATTTTTCAAACTCACGTCACTGCTGCTGTGTGATTCT
56279399 ATTTTATAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (41 bp):
GTGATTTTTCAAACTCACGTCACTGCTGCTGTGTGATTCTG
Found at i:56283313 original size:27 final size:27
Alignment explanation
Indices: 56283181--56283313 Score: 142
Period size: 27 Copynumber: 5.0 Consensus size: 27
56283171 AGACCTCTAC
* *
56283181 TTTGTAAAATTACTAAAATACCCCAG-
1 TTTGTAAAATTACTGAAATACCCCTGA
* * * *
56283207 GTTGTAAAACTGCTGAAATACCCCTAA
1 TTTGTAAAATTACTGAAATACCCCTGA
* *
56283234 TTTGTGAAATTACTGAAATACCCTTGA
1 TTTGTAAAATTACTGAAATACCCCTGA
* * *
56283261 CTTGTAAAGTTATTGAAATACCCCTGA
1 TTTGTAAAATTACTGAAATACCCCTGA
* *
56283288 TTTATAAAATTACTAAAATACCCCTG
1 TTTGTAAAATTACTGAAATACCCCTG
56283314 TGTAGTAGGA
Statistics
Matches: 84, Mismatches: 22, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
26 20 0.24
27 64 0.76
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCCTGA
Found at i:56283333 original size:27 final size:27
Alignment explanation
Indices: 56283303--56283364 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
56283293 AAAATTACTA
*
56283303 AAATACCCCTGT-GTAGTAGGATTACCG
1 AAATACCCCTATAG-AGTAGGATTACCG
* *
56283330 AAATACGCCTATAGGGTAGGATTACCG
1 AAATACCCCTATAGAGTAGGATTACCG
56283357 AAATACCC
1 AAATACCC
56283365 TTGTAGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATACCCCTATAGAGTAGGATTACCG
Found at i:56286375 original size:43 final size:42
Alignment explanation
Indices: 56286274--56286379 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
56286264 ATGATTTATG
*** * *
56286274 TGTAAGACCACGTCTGGGATGTTGGCATCGTATTAGATTTCA
1 TGTAAGACCACGTCTGGGACAATGACATCGTATTAGATTACA
* *
56286316 TATAAGACC-CTGTCTGGGACAATGACATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAATGACATCG-TATTAGATTACA
56286359 TGTAAGACCACGTCTGGGACA
1 TGTAAGACCACGTCTGGGACA
56286380 TTGGCATTGT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 23 0.43
43 28 0.53
44 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAATGACATCGTATTAGATTACA
Found at i:56293131 original size:18 final size:19
Alignment explanation
Indices: 56293108--56293145 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
56293098 AAAAACACAA
*
56293108 GAAAA-TATCGGTATAATT
1 GAAAAGTATCGGTAAAATT
56293126 GAAAATGTATCGGTAAAATT
1 GAAAA-GTATCGGTAAAATT
56293146 ACCCTGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (19 bp):
GAAAAGTATCGGTAAAATT
Found at i:56295864 original size:40 final size:39
Alignment explanation
Indices: 56295781--56295923 Score: 119
Period size: 39 Copynumber: 3.6 Consensus size: 39
56295771 TTGAATGCTG
* * * * *
56295781 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
*
56295821 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGG-CATTGTGCGAGATACTAAA
** * *
56295861 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
56295900 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
56295924 TGAACGAGGA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 38 0.44
40 37 0.43
41 11 0.13
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:56295898 original size:39 final size:39
Alignment explanation
Indices: 56295781--56295923 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 39
56295771 TTGAATGCTG
* * * * *
56295781 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTG-TGAGTTACTAAA
* * * *
56295821 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGG-CATTGTGTGAGTTACTAAA
*
56295861 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
* *
56295900 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56295924 TGAACGAGGA
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
39 38 0.45
40 39 0.46
41 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
Found at i:56303695 original size:40 final size:39
Alignment explanation
Indices: 56303664--56303873 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
56303654 GGACTAAGAT
* *
56303664 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
56303704 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
56303744 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
56303784 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
56303824 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
56303863 CCGAAGGCATT
1 CCGAAGGCATT
56303874 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:56303827 original size:120 final size:120
Alignment explanation
Indices: 56303611--56303873 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
56303601 TTGAATGCTG
* *
56303611 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
56303675 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
56303731 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
56303794 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
56303850 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56303874 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:56303893 original size:79 final size:80
Alignment explanation
Indices: 56303612--56303908 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
56303602 TGAATGCTGT
* ** * * * **
56303612 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
56303675 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
56303692 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
56303756 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
56303772 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
56303836 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
56303851 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
56303909 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:56306249 original size:21 final size:23
Alignment explanation
Indices: 56306213--56306254 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
56306203 AATACATTAA
56306213 TATGCAACCAAAACATGTCATTT
1 TATGCAACCAAAACATGTCATTT
56306236 TATGC-ACC-AAACATGTCAT
1 TATGCAACCAAAACATGTCAT
56306255 ACCAATTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (23 bp):
TATGCAACCAAAACATGTCATTT
Found at i:56309925 original size:48 final size:48
Alignment explanation
Indices: 56309854--56310142 Score: 425
Period size: 48 Copynumber: 6.0 Consensus size: 48
56309844 CAAGATAAAT
*
56309854 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
56309902 ATATGCATATGTGATAAAGCCGAATGGCTACTATGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
56309950 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
56309998 ATATGCATATGTGATAAAGCCGAATGGCTACTATGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
56310046 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
56310094 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56310142 A
1 A
56310143 GGTGTGTATA
Statistics
Matches: 215, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 215 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:56310016 original size:96 final size:96
Alignment explanation
Indices: 56309854--56310134 Score: 490
Period size: 96 Copynumber: 2.9 Consensus size: 96
56309844 CAAGATAAAT
56309854 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAGATATGCATATGTGATAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAGATATGCATATGTGATAA
56309919 AGCCGAATGGCTACTATGAAATATATATGAG
66 AGCCGAATGGCTACTATGAAATATATATGAG
56309950 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAGATATGCATATGTGATAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAGATATGCATATGTGATAA
56310015 AGCCGAATGGCTACTATGAAATATATATGAG
66 AGCCGAATGGCTACTATGAAATATATATGAG
* * * * *
56310046 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAGATATGCATATGTGATAA
* * *
56310111 AGCCGAAGGGCTAGTGTGAAATAT
66 AGCCGAATGGCTACTATGAAATAT
56310135 GTAGGAGAGG
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 177 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAGATATGCATATGTGATAA
AGCCGAATGGCTACTATGAAATATATATGAG
Found at i:56310429 original size:37 final size:37
Alignment explanation
Indices: 56310284--56310428 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
56310274 GGGAATATAT
*
56310284 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56310321 TCCGGGTAAGACCCGACGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56310358 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56310395 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
56310429 TCATCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56311964 original size:40 final size:40
Alignment explanation
Indices: 56311354--56311964 Score: 826
Period size: 40 Copynumber: 15.0 Consensus size: 40
56311344 TTGAGAGATA
* *
56311354 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
56311394 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T
*
56311435 ATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
56311476 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
56311516 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T
* * *
56311557 ATATAGCAGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
56311598 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T
* *
56311639 ATATAGCCGGGCTAAGTCCCGAAGAACATTCGTGCTGGTGT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
56311680 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T
* * * * *
56311721 ATATAGCCGGGATAAATCCTGAAGAGCATTCGTGCTAGTGT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
56311762 TATATCCGAGCTAAGTCCCGAACAGCATTCGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T
* *
56311803 ATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T
* *
56311845 ATATAGCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
56311886 TATATCCGGGCTAAGTCTCGAAGAGCTTTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
56311926 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
56311965 ATGTGTATTC
Statistics
Matches: 513, Mismatches: 48, Indels: 20
0.88 0.08 0.03
Matches are distributed among these distances:
40 286 0.56
41 10 0.02
42 217 0.42
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:56311978 original size:82 final size:82
Alignment explanation
Indices: 56311354--56311966 Score: 878
Period size: 82 Copynumber: 7.5 Consensus size: 82
56311344 TTGAGAGATA
* * *
56311354 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT-AT-TATATCCGGGCTAAGTCCCGAAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
*
56311417 AGCATTCGTGCTAGTGAT
66 AGCATTCGTGCTGGTG-T
* * * *
56311435 ATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T-TATATCTGGGCTAAGTCCCGAA
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAA
56311498 GAGCATTCGTGCTGGTGT
65 GAGCATTCGTGCTGGTGT
* *
56311516 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCAGGGCTAAGTTCCGAAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
56311581 AGCATTCGTGCTGGTGT
66 AGCATTCGTGCTGGTGT
*
56311598 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
*
56311663 AACATTCGTGCTGGTGT
66 AGCATTCGTGCTGGTGT
* * * *
56311680 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTAGTGATATATAGCCGGGATAAATCCTGAAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
*
56311745 AGCATTCGTGCTAGTGT
66 AGCATTCGTGCTGGTGT
* *
56311762 TATATCCGAGCTAAGTCCCGAACAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
*
56311827 AGCATTCGTGCTAGTGAT
66 AGCATTCGTGCTGGTG-T
* * * * *
56311845 ATATAGCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTG-T-TATATCCGGGCTAAGTCTCGAA
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAA
*
56311908 GAGCTTTCGTGCTGGTGT
65 GAGCATTCGTGCTGGTGT
* * * *
56311926 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
56311967 GTGTATTCGG
Statistics
Matches: 487, Mismatches: 38, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
80 71 0.15
81 4 0.01
82 376 0.77
83 2 0.00
84 34 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (82 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAG
AGCATTCGTGCTGGTGT
Found at i:56312178 original size:25 final size:25
Alignment explanation
Indices: 56312128--56312178 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
56312118 TGTGTAACAA
* *
56312128 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
56312153 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
56312178 C
1 C
56312179 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:56315646 original size:48 final size:48
Alignment explanation
Indices: 56315575--56316209 Score: 1234
Period size: 48 Copynumber: 13.2 Consensus size: 48
56315565 CAAGATAAAT
56315575 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315623 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315671 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315719 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315767 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315815 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315863 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315911 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56315959 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56316007 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56316055 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
56316103 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
56316151 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56316199 ATATGTATATG
1 ATATGTATATG
56316210 CGTAAACATT
Statistics
Matches: 581, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 581 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:56316348 original size:48 final size:48
Alignment explanation
Indices: 56316277--56316374 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
56316267 CAAGATAAAT
* *
56316277 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
* *
56316325 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
56316373 AT
1 AT
56316375 GTGTGTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
Found at i:56316570 original size:37 final size:37
Alignment explanation
Indices: 56316515--56316654 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
56316505 GGAAATATAT
* *
56316515 TCCGGGTAAGACCTGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
56316552 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56316589 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56316626 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
56316655 GGACTATTCG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56329086 original size:20 final size:19
Alignment explanation
Indices: 56329063--56329108 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
56329053 AGGAAGAGGA
*
56329063 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
56329083 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
56329102 GGGAGAG
1 GGGAGAG
56329109 CTCCGGCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:56329764 original size:21 final size:21
Alignment explanation
Indices: 56329720--56329781 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
56329710 TTTTGGATTA
*
56329720 GGGC-AGGTTAGTTTAGGGTATT
1 GGGCTAGGTTAG-TT-GGGTTTT
56329742 GGGCTAGGTTAGTTGGGTTTT
1 GGGCTAGGTTAGTTGGGTTTT
*
56329763 GGGTTTA-GTT-GTTGGGTTT
1 GGG-CTAGGTTAGTTGGGTTT
56329782 AGGGGGTGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 9 0.25
21 12 0.33
22 8 0.22
23 7 0.19
ACGTcount: A:0.11, C:0.03, G:0.42, T:0.44
Consensus pattern (21 bp):
GGGCTAGGTTAGTTGGGTTTT
Found at i:56330377 original size:52 final size:52
Alignment explanation
Indices: 56330315--56330416 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
56330305 AGATAAAATG
* * * *
56330315 AAATTGGGAAGAAGAAATATCACTAGGAAAAAGAAAGAAAAAAAAAAGAACA
1 AAATAGGGAAGAAGAAACATCACAAGAAAAAAGAAAGAAAAAAAAAAGAACA
56330367 AAATAGGGAAGAAGAAACATCACAAGAAAAAAGAAAGAAAAAAAAAAGAA
1 AAATAGGGAAGAAGAAACATCACAAGAAAAAAGAAAGAAAAAAAAAAGAA
56330417 ATATGGAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.69, C:0.06, G:0.19, T:0.07
Consensus pattern (52 bp):
AAATAGGGAAGAAGAAACATCACAAGAAAAAAGAAAGAAAAAAAAAAGAACA
Found at i:56330419 original size:48 final size:48
Alignment explanation
Indices: 56330300--56330431 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 48
56330290 TTAGCAGAGA
* * * * * * *
56330300 AAAGAAGATAAAATGAAATTGGGAAGAAGAAATATCACTAGGAAAAAG
1 AAAGAAAAAAAAAAGAAATAGGGAAGAAGAAACATCACAAGAAAAAAG
56330348 AAAGAAAAAAAAAAGAACAAAATAGGGAAGAAGAAACATCACAAGAAAAAAG
1 AAAGAAAAAAAAAAG----AAATAGGGAAGAAGAAACATCACAAGAAAAAAG
* *
56330400 AAAGAAAAAAAAAAGAAATATGGAAGAGGAAA
1 AAAGAAAAAAAAAAGAAATAGGGAAGAAGAAA
56330432 TGTCACCCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
48 27 0.38
52 44 0.62
ACGTcount: A:0.67, C:0.05, G:0.20, T:0.08
Consensus pattern (48 bp):
AAAGAAAAAAAAAAGAAATAGGGAAGAAGAAACATCACAAGAAAAAAG
Found at i:56331596 original size:31 final size:31
Alignment explanation
Indices: 56331561--56331624 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
56331551 ATAAGACAAA
56331561 AAAGTTGAAATGACCAGAATACCCTTAGTAG
1 AAAGTTGAAATGACCAGAATACCCTTAGTAG
*
56331592 AAAGTTGAAATGACTAGAATACCCTTAGTAG
1 AAAGTTGAAATGACCAGAATACCCTTAGTAG
56331623 AA
1 AA
56331625 TTTTTTATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (31 bp):
AAAGTTGAAATGACCAGAATACCCTTAGTAG
Found at i:56339332 original size:20 final size:21
Alignment explanation
Indices: 56339302--56339348 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
56339292 CACATAAAAC
*
56339302 ATATAAAAAAATACATTGT-TA
1 ATAT-AAAAAATACATTATATA
*
56339323 ATATAAAAAATATATTATATA
1 ATATAAAAAATACATTATATA
56339344 ATATA
1 ATATA
56339349 TATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATAAAAAATACATTATATA
Found at i:56344611 original size:14 final size:13
Alignment explanation
Indices: 56344587--56344629 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
56344577 TAAATTATAA
56344587 ATAATTTAAATTTT
1 ATAA-TTAAATTTT
56344601 ATCAATTAAATTTT
1 AT-AATTAAATTTT
*
56344615 ATTATTAAATATTT
1 ATAATTAAAT-TTT
56344629 A
1 A
56344630 ATCCAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 17 0.65
15 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAATTAAATTTT
Found at i:56344623 original size:13 final size:14
Alignment explanation
Indices: 56344592--56344629 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
56344582 TATAAATAAT
56344592 TTAAATTTTATCAA
1 TTAAATTTTATCAA
*
56344606 TTAAATTTTAT-TA
1 TTAAATTTTATCAA
56344619 TTAAATATTTA
1 TTAAAT-TTTA
56344630 ATCCAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAATTTTATCAA
Found at i:56351593 original size:39 final size:39
Alignment explanation
Indices: 56351537--56351732 Score: 254
Period size: 39 Copynumber: 5.0 Consensus size: 39
56351527 CGATGAGGAC
* * *
56351537 CTGCCCCTAGCAAAACTTGAATCTCTGCCCAGGAAGTCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
*
56351576 CTGCCCCTCA-CAGAACTTGAATCTCTGCCCTGAAAATCA
1 CTGCCCCT-AGCAGAACTTGAATCTCTGCCCAGAAAATCA
* * *
56351615 CTGCCCCTAGCTGAACTTGAATCTTTGCCCTGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
56351654 CTGCCCCTAGCAGAACTTGAATCTCTG-CCATGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCA-GAAAATCA
* * *
56351693 CTGCCCCCCA-CAGAACTTGAATCTCTTCCCTGAAAATCA
1 CTG-CCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
56351732 C
1 C
56351733 GGTGCCTAGG
Statistics
Matches: 140, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
38 3 0.02
39 129 0.92
40 8 0.06
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.23
Consensus pattern (39 bp):
CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
Found at i:56359156 original size:22 final size:21
Alignment explanation
Indices: 56359108--56359150 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
56359098 AAAAAGTACA
56359108 AAAT-ATATTATTATTTATAT
1 AAATAATATTATTATTTATAT
*
56359128 AAATAATATTATATATTTTTAT
1 AAATAATATTAT-TATTTATAT
56359150 A
1 A
56359151 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATAATATTATTATTTATAT
Found at i:56361755 original size:48 final size:48
Alignment explanation
Indices: 56361681--56361777 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
56361671 CATTTTTCTA
*
56361681 AATAAATTACAAACAAATTAGGTGAAGATAAATTTTATGCTTAAAGAT
1 AATAAATTACAAAAAAATTAGGTGAAGATAAATTTTATGCTTAAAGAT
* *
56361729 AATAAATTACAAAAAAATTAGTTGAAGATAAATTTTATGCTTAGAGAT
1 AATAAATTACAAAAAAATTAGGTGAAGATAAATTTTATGCTTAAAGAT
56361777 A
1 A
56361778 GGTGTGGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (48 bp):
AATAAATTACAAAAAAATTAGGTGAAGATAAATTTTATGCTTAAAGAT
Found at i:56362315 original size:31 final size:31
Alignment explanation
Indices: 56362257--56362329 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
56362247 ATTTAATGGA
* *
56362257 GAGTGACCAAAATAGAAACAATTTAAAACGT
1 GAGTGACTAAAATAGAAACAATCTAAAACGT
** *
56362288 GAGTGACTAAAATAGAAATGATCTAAAATGT
1 GAGTGACTAAAATAGAAACAATCTAAAACGT
* *
56362319 TAGTAACTAAA
1 GAGTGACTAAA
56362330 TTCAAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.23
Consensus pattern (31 bp):
GAGTGACTAAAATAGAAACAATCTAAAACGT
Found at i:56362477 original size:15 final size:16
Alignment explanation
Indices: 56362448--56362496 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
56362438 ATAGAATTCG
*
56362448 TTAAAATT-AACTATA
1 TTAAAATTAAAATATA
*
56362463 TTTAAA-TAAAATATA
1 TTAAAATTAAAATATA
56362478 TTAAAATTAAAATA-A
1 TTAAAATTAAAATATA
56362493 TTAA
1 TTAA
56362497 TTAACTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 21 0.72
16 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAATTAAAATATA
Found at i:56365833 original size:27 final size:29
Alignment explanation
Indices: 56365778--56365840 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
56365768 AACCTACCTT
**
56365778 TAATTTGATTTTTATATTTTTTTTAAGTC
1 TAATTTGATAATTATATTTTTTTTAAGTC
56365807 TAATTTGATAATTA-ATTTTTTTT-AGTC
1 TAATTTGATAATTATATTTTTTTTAAGTC
*
56365834 CAATTTG
1 TAATTTG
56365841 GTGCTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 10 0.32
28 9 0.29
29 12 0.39
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (29 bp):
TAATTTGATAATTATATTTTTTTTAAGTC
Found at i:56371080 original size:16 final size:16
Alignment explanation
Indices: 56371059--56371100 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
56371049 GGTTTACTGG
*
56371059 AATGGAATATGA-TTGT
1 AATGGAATA-GAGCTGT
56371075 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
56371091 AATGGAATAG
1 AATGGAATAG
56371101 GGCTCTAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 2 0.08
16 22 0.92
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:56371428 original size:33 final size:33
Alignment explanation
Indices: 56371390--56371454 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
56371380 CTTAATATAA
*
56371390 TTATTTTTATATTAAATTATACTAAAATATTTT
1 TTATTTTTATATTAAATTATACTAAAACATTTT
* *
56371423 TTATTTTTATATTTAATTATATTAAAACATTT
1 TTATTTTTATATTAAATTATACTAAAACATTT
56371455 AAAAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (33 bp):
TTATTTTTATATTAAATTATACTAAAACATTTT
Found at i:56371464 original size:33 final size:33
Alignment explanation
Indices: 56371394--56371465 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
56371384 ATATAATTAT
* *** *
56371394 TTTTATATTAAATTATACTAAAATATTTTTTAT
1 TTTTATATTAAATTATACTAAAACATTTAAAAA
* *
56371427 TTTTATATTTAATTATATTAAAACATTTAAAAA
1 TTTTATATTAAATTATACTAAAACATTTAAAAA
56371460 TTTTAT
1 TTTTAT
56371466 TTACTATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (33 bp):
TTTTATATTAAATTATACTAAAACATTTAAAAA
Found at i:56377537 original size:43 final size:44
Alignment explanation
Indices: 56377489--56377580 Score: 143
Period size: 43 Copynumber: 2.1 Consensus size: 44
56377479 GAGTTAAATT
*
56377489 AATATGGCAAAGA-GAATGTAAATTTTATTTAGTTAATGTGCCG
1 AATATGGCAAAGATAAATGTAAATTTTATTTAGTTAATGTGCCG
* *
56377532 AATAT-GTAATGATAAATGTAAATTTTATTTAGTTAATGTGCCG
1 AATATGGCAAAGATAAATGTAAATTTTATTTAGTTAATGTGCCG
56377575 AATATG
1 AATATG
56377581 TAATGATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (44 bp):
AATATGGCAAAGATAAATGTAAATTTTATTTAGTTAATGTGCCG
Found at i:56377581 original size:43 final size:43
Alignment explanation
Indices: 56377503--56377587 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
56377493 TGGCAAAGAG
56377503 AATGTAAATTTTATTTAGTTAATGTGCCGAATATGTAATGATA
1 AATGTAAATTTTATTTAGTTAATGTGCCGAATATGTAATGATA
56377546 AATGTAAATTTTATTTAGTTAATGTGCCGAATATGTAATGAT
1 AATGTAAATTTTATTTAGTTAATGTGCCGAATATGTAATGAT
56377588 TTAAGGCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42
Consensus pattern (43 bp):
AATGTAAATTTTATTTAGTTAATGTGCCGAATATGTAATGATA
Found at i:56378470 original size:38 final size:38
Alignment explanation
Indices: 56378373--56378495 Score: 165
Period size: 38 Copynumber: 3.2 Consensus size: 38
56378363 TCGAAATATG
* ** * *
56378373 ATATCCGAGTTAAATTTCGCAAGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
56378411 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
56378449 ATATCCGGGTTAAATCCCGCAGGCCTAGTGTTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
56378487 ATATTCGGG
1 ATATCCGGG
56378496 CCTTTGAGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:56378585 original size:45 final size:46
Alignment explanation
Indices: 56378489--56378600 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
56378479 TTGGTATTAT
* *
56378489 ATTCGGGCCTTT-GAGCCTAGCAGACTATTATGCCGGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGACTATAATGCCGGTGAGACATG
* *
56378534 ATTCGGGCCTTTCGAGCCTAGTAGGCTATAATGCCGGTGA-A-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGACTATAATGCCGGTGAGACATG
56378578 ATATCGGGCC--TCGAGCCTAGCAG
1 AT-TCGGGCCTTTCGAGCCTAGCAG
56378601 GTGAAATACC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 12 0.20
44 4 0.07
45 20 0.33
46 24 0.40
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (46 bp):
ATTCGGGCCTTTCGAGCCTAGCAGACTATAATGCCGGTGAGACATG
Found at i:56381336 original size:46 final size:46
Alignment explanation
Indices: 56381256--56381579 Score: 380
Period size: 46 Copynumber: 6.8 Consensus size: 46
56381246 GATGTCATAA
* * * * *
56381256 TATCTTTCAACGATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATGG
* * *
56381302 TATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
* * * *
56381348 TATCTTTCAAACATGATCTTACTCATTTCATGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
* *
56381394 TATCTTTCAACCATGGCCTTACATGGTCTTACACATTTCATATCAGGTTGTCATGG
1 TATCTTTC-A--A----C---CATGGTCTTACTCATTTCATATCAGGTTGCCATGG
* *
56381450 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
* *
56381496 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
56381542 TATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
56381580 AGCACACTCC
Statistics
Matches: 253, Mismatches: 14, Indels: 22
0.88 0.05 0.08
Matches are distributed among these distances:
45 4 0.02
46 206 0.81
47 1 0.00
49 2 0.01
53 1 0.00
55 1 0.00
56 38 0.15
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
Found at i:56381541 original size:148 final size:148
Alignment explanation
Indices: 56381292--56381563 Score: 427
Period size: 148 Copynumber: 1.8 Consensus size: 148
56381282 TTTCTGTCAT
** * *
56381292 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
* * *
56381357 AACATGATCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGCCTTACATGGTC
66 AACATGATCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTACATGGTC
56381422 TTACACATTTCATATCAG
131 TTACACATTTCATATCAG
* *
56381440 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
* * * *
56381505 ACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCAACCATGGTCTTAC
66 AACATGATCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTAC
56381564 TCATTTCATA
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 111 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (148 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
AACATGATCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTACATGGTC
TTACACATTTCATATCAG
Found at i:56387169 original size:55 final size:55
Alignment explanation
Indices: 56387085--56387220 Score: 263
Period size: 55 Copynumber: 2.5 Consensus size: 55
56387075 ACTCATACAG
*
56387085 CGGGATTACCAGTCTAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAAATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAAATGT
56387140 CGGGATTACCAGTCCAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAAATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAAATGT
56387195 CGGGATTACCAGTCCAGGCTAAATCC
1 CGGGATTACCAGTCCAGGCTAAATCC
56387221 ACTGCAACGA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (55 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAAATGT
Found at i:56390187 original size:15 final size:15
Alignment explanation
Indices: 56390169--56390198 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56390159 CCCTAACATT
56390169 TAATTAACTAATCGA
1 TAATTAACTAATCGA
56390184 TAATTAACTAATCGA
1 TAATTAACTAATCGA
56390199 ATGGTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
TAATTAACTAATCGA
Found at i:56390972 original size:28 final size:28
Alignment explanation
Indices: 56390932--56390985 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
56390922 CCATGAAATT
56390932 CCTATATTTGCTTAGACTCACACTAATG
1 CCTATATTTGCTTAGACTCACACTAATG
56390960 CCTATATTTGCTTAGACTCACACTAA
1 CCTATATTTGCTTAGACTCACACTAA
56390986 GCTTTTAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (28 bp):
CCTATATTTGCTTAGACTCACACTAATG
Found at i:56397296 original size:31 final size:30
Alignment explanation
Indices: 56397229--56397289 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
56397219 ACCTAACAAC
* *
56397229 TAATAACTTAAATAAAACTTTCGAATAGTT
1 TAATAATTTAAATAAAACTTTCGAATAATT
* *
56397259 TAATAATTTAAATAAAAATTTTCGACTAATT
1 TAATAATTTAAAT-AAAACTTTCGAATAATT
56397290 ATATAATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (30 bp):
TAATAATTTAAATAAAACTTTCGAATAATT
Found at i:56397694 original size:19 final size:19
Alignment explanation
Indices: 56397670--56397708 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
56397660 CTCCACCAAA
56397670 AAAGAAAGATTTTTAAATT
1 AAAGAAAGATTTTTAAATT
56397689 AAAGAAAGATTTTTAAATT
1 AAAGAAAGATTTTTAAATT
56397708 A
1 A
56397709 TTTTTTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (19 bp):
AAAGAAAGATTTTTAAATT
Found at i:56399008 original size:29 final size:31
Alignment explanation
Indices: 56398932--56399008 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 31
56398922 TTAACAGCTC
* *
56398932 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATACGATAACATA
* * *
56398963 AGTGACT-AAATCATAACATTTC-A-AACATA
1 AGTGACTAAAAT-GTAACAATACGATAACATA
56398992 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
56399009 CTGAGGCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 16 0.42
30 9 0.24
31 13 0.34
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACGATAACATA
Found at i:56402186 original size:5 final size:5
Alignment explanation
Indices: 56402176--56402200 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56402166 CAAAAATAAA
56402176 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
56402201 GGTTGACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:56404201 original size:68 final size:68
Alignment explanation
Indices: 56404092--56404220 Score: 231
Period size: 68 Copynumber: 1.9 Consensus size: 68
56404082 TCATTTTGTA
*
56404092 TATGGCCATAAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATGCATATATG
1 TATGGCCATAAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATATATG
56404157 TGC
66 TGC
* *
56404160 TATGGCTATGAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATA
1 TATGGCCATAAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATA
56404221 CATACATGTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (68 bp):
TATGGCCATAAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATATATG
TGC
Found at i:56417179 original size:18 final size:18
Alignment explanation
Indices: 56417152--56417186 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56417142 TAATTTTCAT
56417152 TATTTATTTTTATTTTTA
1 TATTTATTTTTATTTTTA
* *
56417170 TATTTGTTTTTGTTTTT
1 TATTTATTTTTATTTTT
56417187 GTTATAATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (18 bp):
TATTTATTTTTATTTTTA
Found at i:56418741 original size:18 final size:18
Alignment explanation
Indices: 56418714--56418755 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
56418704 TTTAAGTCCC
56418714 TTTA-TTTTACTATTATT
1 TTTATTTTTACTATTATT
*
56418731 TTTATTTTTACTTTTATT
1 TTTATTTTTACTATTATT
56418749 TTTATTT
1 TTTATTT
56418756 AAACTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTACTATTATT
Found at i:56418745 original size:7 final size:6
Alignment explanation
Indices: 56418726--56418755 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
56418716 TATTTTACTA
*
56418726 TTATTT TTATTT TTACTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
56418756 AAACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:56418761 original size:18 final size:18
Alignment explanation
Indices: 56418726--56418762 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56418716 TATTTTACTA
**
56418726 TTATTTTTATTTTTACTT
1 TTATTTTTATTTAAACTT
56418744 TTATTTTTATTTAAACTT
1 TTATTTTTATTTAAACTT
56418762 T
1 T
56418763 ATTGTGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTAAACTT
Found at i:56424733 original size:29 final size:29
Alignment explanation
Indices: 56424669--56424726 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
56424659 GCTAAGACTA
56424669 CAAATTTTATTCTTTTTTCTTTTTTACTC
1 CAAATTTTATTCTTTTTTCTTTTTTACTC
56424698 CAAATTTTATTCTTTTTTCTTTTTTACTC
1 CAAATTTTATTCTTTTTTCTTTTTTACTC
56424727 TCTATTTCCT
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:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (29 bp):
CAAATTTTATTCTTTTTTCTTTTTTACTC
Found at i:56424956 original size:2 final size:2
Alignment explanation
Indices: 56424949--56424988 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
56424939 CAGTCCATTA
* *
56424949 AT AT AT AT AT AC AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56424989 TTTTTTACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:56427625 original size:130 final size:130
Alignment explanation
Indices: 56427381--56427770 Score: 593
Period size: 130 Copynumber: 3.0 Consensus size: 130
56427371 TCTTCAAAAA
* * * * * * * *
56427381 GAAGACGAAATTTGATGTTCGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGAAATTTCG
1 GAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGTGTTGCAATTTCA
* * * * *
56427446 CATTTGCTCAAAATAATCAAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCTTAAAC
66 CATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCGTGTCTTTTAAAATCCCTTAAAC
56427511 GAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGTGTTGCAATTTCA
1 GAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGTGTTGCAATTTCA
* * *
56427576 CATTTGCTCAAAATAATCAAATATCACTTTAAAATTTCGCTCGTGTCTTTTAAAATCCCTTAAAC
66 CATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCGTGTCTTTTAAAATCCCTTAAAC
56427641 GAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGTGTTGCAATTTCA
1 GAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGTGTTGCAATTTCA
* *
56427706 CATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCG-GCTCTTCTAAAAATCCTTTAA
66 CATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCGTG-TCTT-TTAAAATCCCTTAA
56427770 A
129 A
56427771 ATGAGGGCAA
Statistics
Matches: 237, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
129 1 0.00
130 223 0.94
131 13 0.05
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (130 bp):
GAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGTGTTGCAATTTCA
CATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCGTGTCTTTTAAAATCCCTTAAAC
Found at i:56439696 original size:132 final size:132
Alignment explanation
Indices: 56439456--56439805 Score: 558
Period size: 132 Copynumber: 2.7 Consensus size: 132
56439446 TCTAGAAGAC
*
56439456 CGAAGACGACGAATCTTAGCTTCCTGAAGTTGCAGTGAAGCACATTTAAGTCACTAACCTAGCTC
1 CGAAGACGACGAATCTTAGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTC
56439521 CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
66 CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
56439586 AT
131 AT
* * * * *
56439588 CGAAGATGACGAATCTTGGCTTCCTGAAGTTGCAGCGAAGTAGATTTAAGTCACTAGCCTAGCTC
1 CGAAGACGACGAATCTTAGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTC
* * *
56439653 CCTCAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTTATTTCCCTGAAGTTGCAGTGGAATAG
66 CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
56439718 AT
131 AT
* * * * *
56439720 CGAAGACGACGAATCTTTGCTTCTTGATGTTGCAGTGAAGCAGATTTAAGCCA-TCACCCTAGCT
1 CGAAGACGACGAATCTTAGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGTCACT-AACCTAGCT
56439784 CCCTAAAGTTGTAGTGGAGTAG
65 CCCTAAAGTTGTAGTGGAGTAG
56439806 AATGACGATT
Statistics
Matches: 199, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 1 0.01
132 198 0.99
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
CGAAGACGACGAATCTTAGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTC
CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
AT
Found at i:56442777 original size:130 final size:130
Alignment explanation
Indices: 56442542--56442913 Score: 503
Period size: 130 Copynumber: 2.9 Consensus size: 130
56442532 AAAATTCTTC
* *
56442542 AAAACGAAGACGAAATTTGATGTTCGTCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * *
56442607 TTTTGCATTTGCTCAAAATAATCAAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * *
56442672 TAAACGAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGTCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * *
56442737 TTTCGCATTTGCTCAAAATAATCAAATATCACTTTAAAATTTCGCTCGTGTCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * * * *
56442802 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCGGGATCGTGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * *
56442867 TTTCTCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
66 TTTCGC-ATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTC
56442914 GGCTCTTCTA
Statistics
Matches: 210, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
130 209 1.00
131 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (130 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:56442970 original size:130 final size:129
Alignment explanation
Indices: 56442542--56443020 Score: 398
Period size: 130 Copynumber: 3.7 Consensus size: 129
56442532 AAAATTCTTC
* * * * *
56442542 AAAACGAAGACGAA-ATTTGATGTTCGTCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCA
1 AAAACGAAGGC-AATATGTGATGTTTGGCAATTC-CGGGATCGTGCCCTAACGTGTTGGGTTGCA
* * * * * * * *
56442606 ATTT-T-GCATTTGCTCAAAATAATCAAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATC
64 ATTTCTCG-A-TTGTTCAAAATAATCAAATATCACTTCAAAATTTCACTCGTGTCTTTAAAAATC
56442669 CCT
127 CCT
* *** * * * *
56442672 TAAACGAAGATGAGATTTGATGTTTGGCAATTCACGGAATCGTGTCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGGCAATATGTGATGTTTGGCAATTC-CGGGATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * *
56442737 TTTCGC-ATTTGCTCAAAATAATCAAATATCACTTTAAAATTTCGCTCGTGTCTTTTAAAATCCC
65 TTTCTCGA-TTGTTCAAAATAATCAAATATCACTTCAAAATTTCACTCGTGTCTTTAAAAATCCC
56442801 T
129 T
* * *
56442802 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCGGGATCGTGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGGCAATATGTGATGTTTGGCAATTC-CGGGATCGTGCCCTAACGTGTTGGGTTGCAA
* *
56442867 TTTCTCGATTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCG-GCTCTTCTAAAAATCC
65 TTTCTCGATTGTTCAAAATAATCAAATATCACTTCAAAATTTCACTCGTG-TCTT-TAAAAATCC
*
56442931 TTT
128 -CT
* * * * * * * *
56442934 AAAATGAGGGCAATACTCG-G-TGTTTGACAATT-CGGGAATCATGCCTTATCGTGCTGGGTTGT
1 AAAACGAAGGCAATA-T-GTGATGTTTGGCAATTCCGGG-ATCGTGCCCTAACGTGTTGGGTTGC
* * *
56442996 GATTTCTCGTTTGTTCAAAACAATC
63 AATTTCTCGATTGTTCAAAATAATC
56443021 GAGTATTCCT
Statistics
Matches: 291, Mismatches: 48, Indels: 19
0.81 0.13 0.05
Matches are distributed among these distances:
129 2 0.01
130 214 0.74
131 49 0.17
132 23 0.08
133 2 0.01
134 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (129 bp):
AAAACGAAGGCAATATGTGATGTTTGGCAATTCCGGGATCGTGCCCTAACGTGTTGGGTTGCAAT
TTCTCGATTGTTCAAAATAATCAAATATCACTTCAAAATTTCACTCGTGTCTTTAAAAATCCCT
Found at i:56457556 original size:21 final size:23
Alignment explanation
Indices: 56457520--56457566 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
56457510 TCTTTATTCC
*
56457520 TTTTAAATAAAAG-AAAAGATAT
1 TTTTAAATAAAAGAAAAAGAGAT
*
56457542 TTTTAAAT-AAGGAAAAAGAGAT
1 TTTTAAATAAAAGAAAAAGAGAT
56457564 TTT
1 TTT
56457567 ATTCTCATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (23 bp):
TTTTAAATAAAAGAAAAAGAGAT
Found at i:56462932 original size:32 final size:32
Alignment explanation
Indices: 56462890--56462972 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 32
56462880 TTGTCATGGT
* **
56462890 CCAGCCATGGTATTACATTCTAGTGTCATAAC
1 CCAGCTATGGTATTACATTAGAGTGTCATAAC
* * * *
56462922 CCAGTTATGGTTTTATTATTAGAGTGTCATAGC
1 CCAGCTATGGTATTA-CATTAGAGTGTCATAAC
*
56462955 CCAGCTATGGTCTTACAT
1 CCAGCTATGGTATTACAT
56462973 ATAAATATTG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
32 14 0.35
33 26 0.65
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (32 bp):
CCAGCTATGGTATTACATTAGAGTGTCATAAC
Found at i:56464376 original size:7 final size:7
Alignment explanation
Indices: 56464364--56464410 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
56464354 TATTGAACTC
56464364 ATAAATA
1 ATAAATA
56464371 ATAAATA
1 ATAAATA
56464378 ATAAATA
1 ATAAATA
56464385 ATAAATA
1 ATAAATA
56464392 ATAAATA
1 ATAAATA
56464399 ATAAATA
1 ATAAATA
56464406 ATAAA
1 ATAAA
56464411 ATTTTTAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:56464985 original size:5 final size:5
Alignment explanation
Indices: 56464975--56465003 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
56464965 TGATTAATAT
56464975 GAGAA GAGAA GAGAA GAGAA GAGAA GAGA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGA
56465004 CAAGACTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:56465539 original size:5 final size:6
Alignment explanation
Indices: 56465523--56465547 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
56465513 CTTACAGGTT
56465523 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
56465548 GCTATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:56469881 original size:16 final size:15
Alignment explanation
Indices: 56469856--56469885 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56469846 CGGATAAAAT
56469856 TTTAATTTTTTATAG
1 TTTAATTTTTTATAG
56469871 TTTATATTTTTTATA
1 TTTA-ATTTTTTATA
56469886 ATTTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTAATTTTTTATAG
Found at i:56477458 original size:214 final size:214
Alignment explanation
Indices: 56477089--56477516 Score: 856
Period size: 214 Copynumber: 2.0 Consensus size: 214
56477079 ATACTTTCAT
56477089 GGAACATTACCTTTTCAATCCTTTTCATAAATTCATGACATAAGTCACTTGAACATTTACCGTTC
1 GGAACATTACCTTTTCAATCCTTTTCATAAATTCATGACATAAGTCACTTGAACATTTACCGTTC
56477154 CCTTCCTTTTCATGCTCGTTGAAACATTTAGAATAACATCAGATACGCGGGAAAGCCCACACAAA
66 CCTTCCTTTTCATGCTCGTTGAAACATTTAGAATAACATCAGATACGCGGGAAAGCCCACACAAA
56477219 GTGTGCTAAACATATAACCTTTCATTTTCCTTTAAATTGTTGCTCATTCGAGCCATGAAATGGGT
131 GTGTGCTAAACATATAACCTTTCATTTTCCTTTAAATTGTTGCTCATTCGAGCCATGAAATGGGT
56477284 TTGCTCACACAAGCTGACA
196 TTGCTCACACAAGCTGACA
56477303 GGAACATTACCTTTTCAATCCTTTTCATAAATTCATGACATAAGTCACTTGAACATTTACCGTTC
1 GGAACATTACCTTTTCAATCCTTTTCATAAATTCATGACATAAGTCACTTGAACATTTACCGTTC
56477368 CCTTCCTTTTCATGCTCGTTGAAACATTTAGAATAACATCAGATACGCGGGAAAGCCCACACAAA
66 CCTTCCTTTTCATGCTCGTTGAAACATTTAGAATAACATCAGATACGCGGGAAAGCCCACACAAA
56477433 GTGTGCTAAACATATAACCTTTCATTTTCCTTTAAATTGTTGCTCATTCGAGCCATGAAATGGGT
131 GTGTGCTAAACATATAACCTTTCATTTTCCTTTAAATTGTTGCTCATTCGAGCCATGAAATGGGT
56477498 TTGCTCACACAAGCTGACA
196 TTGCTCACACAAGCTGACA
56477517 ATTGGAATGT
Statistics
Matches: 214, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (214 bp):
GGAACATTACCTTTTCAATCCTTTTCATAAATTCATGACATAAGTCACTTGAACATTTACCGTTC
CCTTCCTTTTCATGCTCGTTGAAACATTTAGAATAACATCAGATACGCGGGAAAGCCCACACAAA
GTGTGCTAAACATATAACCTTTCATTTTCCTTTAAATTGTTGCTCATTCGAGCCATGAAATGGGT
TTGCTCACACAAGCTGACA
Found at i:56481357 original size:17 final size:17
Alignment explanation
Indices: 56481336--56481381 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
56481326 CATATAATAT
56481336 AGGGCTTGCACAAAGTA
1 AGGGCTTGCACAAAGTA
* * *
56481353 GGGGCATGCACTAAGTA
1 AGGGCTTGCACAAAGTA
*
56481370 AGGGCTTACACA
1 AGGGCTTGCACA
56481382 CAACATGTGA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (17 bp):
AGGGCTTGCACAAAGTA
Found at i:56481463 original size:26 final size:26
Alignment explanation
Indices: 56481434--56481494 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
56481424 TGAGTTCACT
* *
56481434 ATAGGGTTCACTAGAGTGTGTTTGCC
1 ATAGGGTTCACTAGAGTGTGTCTACC
**
56481460 ATAGGGTTTGCTAGAGTGTGTCTACC
1 ATAGGGTTCACTAGAGTGTGTCTACC
56481486 ATAGGGTTC
1 ATAGGGTTC
56481495 GCCAGTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (26 bp):
ATAGGGTTCACTAGAGTGTGTCTACC
Found at i:56486224 original size:27 final size:27
Alignment explanation
Indices: 56486175--56486226 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
56486165 CATAATTATC
* *
56486175 GTGTTTACTATGCCGGTGAACTACCCT
1 GTGTTTACTATCCCAGTGAACTACCCT
*
56486202 GTGTTTACTATCCCAGTGGACTACC
1 GTGTTTACTATCCCAGTGAACTACC
56486227 TTGGTTGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (27 bp):
GTGTTTACTATCCCAGTGAACTACCCT
Found at i:56491292 original size:17 final size:17
Alignment explanation
Indices: 56491272--56491335 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
56491262 CATTGATATG
56491272 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
56491289 CAATCTTAGTTATGATTG
1 CAATCTTAGATATGA-TA
56491307 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
56491324 TGCAATCTTAGA
1 --CAATCTTAGA
56491336 ATATATGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.38
18 15 0.38
19 10 0.25
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:56491310 original size:35 final size:37
Alignment explanation
Indices: 56491265--56491334 Score: 117
Period size: 35 Copynumber: 1.9 Consensus size: 37
56491255 TAATCTTCAT
56491265 TGATATGCAATCTTAGATATGATA-CAATCTTAGTTA
1 TGATATGCAATCTTAGATATGATAGCAATCTTAGTTA
56491301 TGAT-TGCAATCTTAGATATGATATGCAATCTTAG
1 TGATATGCAATCTTAGATATGATA-GCAATCTTAG
56491335 AATATATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.59
36 4 0.12
37 9 0.28
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (37 bp):
TGATATGCAATCTTAGATATGATAGCAATCTTAGTTA
Found at i:56491329 original size:19 final size:19
Alignment explanation
Indices: 56491265--56491335 Score: 112
Period size: 19 Copynumber: 3.9 Consensus size: 19
56491255 TAATCTTCAT
56491265 TGATATGCAATCTTAGATA
1 TGATATGCAATCTTAGATA
*
56491284 TGATA--CAATCTTAGTTA
1 TGATATGCAATCTTAGATA
56491301 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGATA
56491319 TGATATGCAATCTTAGA
1 TGATATGCAATCTTAGA
56491336 ATATATGATT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 15 0.32
18 15 0.32
19 17 0.36
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
TGATATGCAATCTTAGATA
Found at i:56491645 original size:17 final size:17
Alignment explanation
Indices: 56491623--56491658 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
56491613 CATGTTTCCC
56491623 TAATTTTTT-ATATATTT
1 TAATTTTTTAATA-ATTT
56491640 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
56491657 TA
1 TA
56491659 GTATCATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:56501630 original size:12 final size:12
Alignment explanation
Indices: 56501613--56501639 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56501603 CTGCTTCGTT
56501613 TGTCTTTCGGGG
1 TGTCTTTCGGGG
56501625 TGTCTTTCGGGG
1 TGTCTTTCGGGG
56501637 TGT
1 TGT
56501640 ATGCTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.41, T:0.44
Consensus pattern (12 bp):
TGTCTTTCGGGG
Found at i:56507199 original size:3 final size:3
Alignment explanation
Indices: 56507191--56507222 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
56507181 AAAAAGTGCT
56507191 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56507223 TGTGATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:56512451 original size:19 final size:18
Alignment explanation
Indices: 56512416--56512453 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
56512406 TTACTATTAG
56512416 TATTATATTTCTTTTATT
1 TATTATATTTCTTTTATT
56512434 TATT-TATTTACTTATTATT
1 TATTATATTT-CTT-TTATT
56512453 T
1 T
56512454 TTTTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTATATTTCTTTTATT
Found at i:56527419 original size:46 final size:45
Alignment explanation
Indices: 56527369--56527544 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
56527359 TGGTTGAGCA
56527369 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56527415 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
56527462 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56527508 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56527545 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56527525 original size:93 final size:93
Alignment explanation
Indices: 56527366--56527536 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56527356 GGATGGTTGA
* *
56527366 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56527431 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
56527459 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56527524 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56527537 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56532746 original size:51 final size:50
Alignment explanation
Indices: 56532479--56532903 Score: 159
Period size: 45 Copynumber: 8.9 Consensus size: 50
56532469 TGTTATGGCG
* * *
56532479 AATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTAAAG--C-CA---CA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTACAAATTGCA
* * * * * * * *
56532523 AACCTTATCTTCCTGAAGTTGTAGTGGAGCAG-GT-AA--A-AGATAGAA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTACAAATTGCA
* * ** * *
56532568 AATCTTATTTCCCTAAGGTTGTTGTGGAACAGATTAAAGCTATCGAAGTT-CA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TA-C-AAATTGCA
* * * * * **
56532620 AACCTTATCTCCCTGAAGTTACAGTGGAGAAGGTT--A--A-AAATCACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTACAAATTGCA
* * * ***
56532665 AATCTAAACTCCCTGAAGTTGCAACAGAGCAGATTAAAGCTACAAATTGCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TACAAATTGCA
* * **
56532716 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT---G-A-AAATAGTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTACAAATTGCA
* * * * * *
56532761 AATCTTATTTTCCTAAAGTTGCAGTAGATCAAAATAAAGCTACAAATTGCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TACAAATTGCA
* * * * * *
56532812 AACCTTATTTCCTTGAAGTTGCAGTGGAGCA-AGTTAAA-AATAAA----A
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTAAAGTACAAATTGCA
* *
56532857 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGTTACAAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TACAAAT
56532904 CTCATACCCC
Statistics
Matches: 270, Mismatches: 80, Indels: 58
0.66 0.20 0.14
Matches are distributed among these distances:
42 3 0.01
43 1 0.00
44 29 0.11
45 119 0.44
46 3 0.01
47 8 0.03
48 2 0.01
49 4 0.01
50 5 0.02
51 68 0.25
52 26 0.10
53 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (50 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTACAAATTGCA
Found at i:56532756 original size:96 final size:96
Alignment explanation
Indices: 56532521--56532903 Score: 270
Period size: 96 Copynumber: 4.0 Consensus size: 96
56532511 ATTAAAGCCA
* * * * * ** *
56532521 CAAACCTTATCTTCCTGAAGTTGTAGTGGAGCAG-GTAAAAGATAGAAAATCTTATTTCCCTAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAA-ATAGCAAATCTAAACTCCCTAAA
***** * *
56532585 GTTGTTGTGGAACAGATTAAAGCTATCGAAGTT-
65 GTTGCAACAGAGCAGATTAAAGCTA-C-AAATTG
* * ** *
56532618 CAAACCTTATCTCCCTGAAGTTACAGTGGAGAAGGTTAAAAATCA-CAAATCTAAACTCCCTGAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAAT-AGCAAATCTAAACTCCCTAAA
56532682 GTTGCAACAGAGCAGATTAAAGCTACAAATTG
65 GTTGCAACAGAGCAGATTAAAGCTACAAATTG
* * * ** * ** *
56532714 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATAGTGAATCTTATTTTCCTAAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATAGCAAATCTAAACTCCCTAAAG
** * * *
56532779 TTGCAGTAGATCAAAATAAAGCTACAAATTG
66 TTGCAACAGAGCAGATTAAAGCTACAAATTG
* * * ** * *
56532810 CAAACCTTATTTCCTTGAAGTTGCAGTGGAGCA-AGTTAAAAATAAAAAATCTTATCTCCCTAAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAAATAGCAAATCTAAACTCCCTAAA
* *** * *
56532874 GTTACAGTGGAGTAGATTAAAGTTACAAAT
65 GTTGCAACAGAGCAGATTAAAGCTACAAAT
56532904 CTCATACCCC
Statistics
Matches: 226, Mismatches: 55, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
95 6 0.03
96 150 0.66
97 64 0.28
98 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (96 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATAGCAAATCTAAACTCCCTAAAG
TTGCAACAGAGCAGATTAAAGCTACAAATTG
Found at i:56533014 original size:44 final size:43
Alignment explanation
Indices: 56532951--56533242 Score: 259
Period size: 44 Copynumber: 6.6 Consensus size: 43
56532941 TTATTATGGC
* *
56532951 AATCTTATCTCTCTGAAGTTGAAGTAAAGCAGATTAAAACTACA
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAA-TACA
* * * *
56532995 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTGAAGTCACG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAAT-ACA
* * *
56533039 AATCTTATCTCCCTAAAGTTACAGT-GAAGCAGATTAAAGATAGCA
1 AATCTTATCTCTCTGAAGTTGCAGTAG-AGCAGATTAAA-ATA-CA
* * * *
56533084 AACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATTACA
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT-AAAATACA
* * *
56533128 AGTCTTATCTC-CTTGAAGTTGCAATAGAGCAGACTGAAAATATC-
1 AATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGA-TTAAAATA-CA
* * * * *
56533172 AATCTTATCTCCCTGAATTTGCAGTGGAGCGGATTAAAGTGACA
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAAT-ACA
*
56533216 AATCCTATAC-CTCTGAAGTTGCAGTAG
1 AATCTTAT-CTCTCTGAAGTTGCAGTAG
56533243 GTCGGATTAA
Statistics
Matches: 199, Mismatches: 36, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
43 9 0.05
44 149 0.75
45 37 0.19
46 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATACA
Found at i:56533115 original size:133 final size:133
Alignment explanation
Indices: 56532954--56533242 Score: 331
Period size: 133 Copynumber: 2.2 Consensus size: 133
56532944 TTATGGCAAT
* *
56532954 CTTATCTCTCTGAAGTTGAAGTAAAGCAGATTAAAACTACAAATCTTATCT-CTCTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACTACAAATCTTATCTCCT-TGAAGTTGCA
* * *
56533018 GTAGAGCAAATTG-AAGTCA-CGAATCTTATCTCCCTAAAGTTACAGTGAAGCAGATTAAAGAT-
65 ATAGAGCAAACTGAAAAT-ATC-AATCTTATCTCCCTAAAGTTACAGTGAAGCAGATTAAAG-TG
56533080 AGCAAA-C
127 A-CAAATC
* * * * *
56533087 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCTTGAAGTTGCAA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACTACAAATCTTATCTCCTTGAAGTTGCAA
* * * * * *
56533152 TAGAGCAGACTGAAAATATCAATCTTATCTCCCTGAATTTGCAGTGGAGCGGATTAAAGTGACAA
66 TAGAGCAAACTGAAAATATCAATCTTATCTCCCTAAAGTTACAGTGAAGCAGATTAAAGTGACAA
56533217 ATC
131 ATC
56533220 C-TATAC-CTCTGAAGTTGCAGTAG
1 CTTAT-CTCTCTGAAGTTGCAGTAG
56533243 GTCGGATTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
132 24 0.18
133 103 0.77
134 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (133 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACTACAAATCTTATCTCCTTGAAGTTGCAA
TAGAGCAAACTGAAAATATCAATCTTATCTCCCTAAAGTTACAGTGAAGCAGATTAAAGTGACAA
ATC
Found at i:56533121 original size:89 final size:87
Alignment explanation
Indices: 56532950--56533148 Score: 240
Period size: 89 Copynumber: 2.3 Consensus size: 87
56532940 GTTATTATGG
* * * *
56532950 CAATCTTATCTCTCTGAAGTTGAAGTAAAGCAGATTAAAACTACAAATCTTATCTCTCTGAAGTT
1 CAATCTTATCTCCCTAAAGTTGAAGTAAAGCAGATTAAAACTACAAACCTTATCTCTCTAAAGTT
*
56533015 GCAGTAGAGCAAATTGAAGTCA
66 GCAGTAGAGCAAATTGAAATCA
*
56533037 CGAATCTTATCTCCCTAAAGTT-ACAGTGAAGCAGATTAAAGA-TAGCAAACCTTATCTCTCTAA
1 C-AATCTTATCTCCCTAAAGTTGA-AGTAAAGCAGATTAAA-ACTA-CAAACCTTATCTCTCTAA
** *
56533100 AGTTGCAGTAGAGCAGGTTGAAATTA
62 AGTTGCAGTAGAGCAAATTGAAATCA
* *
56533126 CAAGTCTTATCTCCTTGAAGTTG
1 CAA-TCTTATCTCCCTAAAGTTG
56533149 CAATAGAGCA
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
87 2 0.02
88 37 0.39
89 56 0.59
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (87 bp):
CAATCTTATCTCCCTAAAGTTGAAGTAAAGCAGATTAAAACTACAAACCTTATCTCTCTAAAGTT
GCAGTAGAGCAAATTGAAATCA
Found at i:56533878 original size:21 final size:21
Alignment explanation
Indices: 56533837--56533878 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56533827 TTTATTGATT
*
56533837 TTGAATAAAAAAAACACAAGA
1 TTGAATAAAAAAAACAAAAGA
56533858 TTGAATCAAAAAAAA-AAAAGA
1 TTGAAT-AAAAAAAACAAAAGA
56533879 CAATCGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (21 bp):
TTGAATAAAAAAAACAAAAGA
Found at i:56534762 original size:22 final size:21
Alignment explanation
Indices: 56534737--56534780 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
56534727 TTAAATACAT
56534737 TTATCTTATTT-TATTCATTTTA
1 TTAT-TTATTTATATTC-TTTTA
56534759 TTATTTATTTATATTCTTTTA
1 TTATTTATTTATATTCTTTTA
56534780 T
1 T
56534781 ATAATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATTTATTTATATTCTTTTA
Found at i:56534826 original size:3 final size:3
Alignment explanation
Indices: 56534804--56534851 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
56534794 TTAGGTATTC
* * * *
56534804 TAT TAGT TAC TAT CAT TAT TAT TAA TAT TAT CAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56534850 TA
1 TA
56534852 ATTTTAAACT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:56534837 original size:18 final size:18
Alignment explanation
Indices: 56534814--56534851 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
56534804 TATTAGTTAC
56534814 TATCATTATTATTAATAT
1 TATCATTATTATTAATAT
*
56534832 TATCATTATTATTATTAT
1 TATCATTATTATTAATAT
56534850 TA
1 TA
56534852 ATTTTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
TATCATTATTATTAATAT
Done.