Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 243 of 325
Found at i:79431546 original size:30 final size:30
Alignment explanation
Indices: 79431500--79431559 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
79431490 TTCCCGAGCC
79431500 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
79431530 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
79431560 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:79436782 original size:79 final size:78
Alignment explanation
Indices: 79436652--79436830 Score: 263
Period size: 79 Copynumber: 2.3 Consensus size: 78
79436642 ATTCGGATTG
* *
79436652 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAT
79436717 TGTGCGAGTTACT
66 TGTGCGAGTTACT
79436730 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* *
79436795 TTTGAGCGAG-AAGCT
65 -TTGTGCGAGTTA-CT
* *
79436810 ATATCC-GGCTAAACCCGAAGG
1 ATAACCGGGCTAAGCCCGAAGG
79436831 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
78 22 0.24
79 55 0.60
80 15 0.16
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (78 bp):
ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAT
TGTGCGAGTTACT
Found at i:79436812 original size:40 final size:40
Alignment explanation
Indices: 79436652--79436804 Score: 265
Period size: 40 Copynumber: 3.9 Consensus size: 40
79436642 ATTCGGATTG
79436652 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
79436691 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
79436730 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
79436770 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
79436805 AAGCTATATC
Statistics
Matches: 108, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 51 0.47
40 57 0.53
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:79444724 original size:41 final size:40
Alignment explanation
Indices: 79444593--79444744 Score: 222
Period size: 38 Copynumber: 3.9 Consensus size: 40
79444583 TATCGGATTG
*
79444593 ATAACCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
79444631 ATATCCGGGCTAAGTCCCGAAGGC-ATT-TGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
79444669 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* *
79444710 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
79444745 AAGCTATATC
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
38 46 0.45
39 5 0.05
40 16 0.16
41 35 0.34
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:79444730 original size:79 final size:76
Alignment explanation
Indices: 79444593--79444738 Score: 247
Period size: 79 Copynumber: 1.9 Consensus size: 76
79444583 TATCGGATTG
* *
79444593 ATAACCGGGCTAAGCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATAACCGGGCTAAGCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
79444658 TGTGAGTTACT
66 TGTGAGTTACT
79444669 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAG--CCGAAGGCAATTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
79444734 ATTTG
63 ATTTG
79444739 AGCGAGAAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
76 14 0.22
78 21 0.32
79 30 0.46
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (76 bp):
ATAACCGGGCTAAGCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
TGTGAGTTACT
Found at i:79444767 original size:79 final size:78
Alignment explanation
Indices: 79444593--79444770 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 78
79444583 TATCGGATTG
* *
79444593 ATAACCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* *
79444656 TTTGTGAGTTACT
66 TTTGCGAGTAACT
*
79444669 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
79444734 ATTTGAGCGAG-AAGCT
65 ATTT--GCGAGTAA-CT
*
79444750 ATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGACCCGAAGG
79444771 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
76 14 0.16
78 21 0.23
79 37 0.41
80 7 0.08
81 11 0.12
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (78 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
TTTGCGAGTAACT
Found at i:79496390 original size:28 final size:28
Alignment explanation
Indices: 79496292--79496393 Score: 168
Period size: 28 Copynumber: 3.6 Consensus size: 28
79496282 ATAGTAAGTC
*
79496292 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
79496320 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
79496349 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
79496377 TGCACACTTAGTGCTAT
1 CGCACACTTAGTGCTAT
79496394 GCAATTTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 42 0.61
29 27 0.39
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:79504322 original size:29 final size:29
Alignment explanation
Indices: 79504261--79504388 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
79504251 ATAGTAAGTC
*
79504261 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
79504289 TGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
79504318 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
79504346 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
79504375 CGCACACTTAGTGC
1 CGCACACTTAGTGC
79504389 CAATCTCATG
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 38 0.44
29 46 0.53
30 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:79504349 original size:57 final size:57
Alignment explanation
Indices: 79504260--79504388 Score: 197
Period size: 57 Copynumber: 2.3 Consensus size: 57
79504250 TATAGTAAGT
*
79504260 CCGCACACTTAGTGTTATATAATCAAACTTGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATACA-AATCAAAC
* * * *
79504317 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATACAAATCAAAC
79504374 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
79504389 CAATCTCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATACAAATCAAAC
Found at i:79504359 original size:28 final size:28
Alignment explanation
Indices: 79504262--79504362 Score: 166
Period size: 28 Copynumber: 3.6 Consensus size: 28
79504252 TAGTAAGTCC
*
79504262 GCACACTTAGTGTTATATAATCAAACTT
1 GCACACTTAGTGCTATATAATCAAACTT
* *
79504290 GCACACTTAGTGCTTACATAATCAAACTC
1 GCACACTTAGTGC-TATATAATCAAACTT
79504319 GCACACTTAGTGCTATATAATCAAACTT
1 GCACACTTAGTGCTATATAATCAAACTT
79504347 GCACACTTAGTGCTAT
1 GCACACTTAGTGCTAT
79504363 GCAATTTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 41 0.61
29 26 0.39
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTT
Found at i:79506304 original size:45 final size:45
Alignment explanation
Indices: 79506249--79506351 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
79506239 ATACACCTAC
*
79506249 AATGTGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAGA
1 AATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAGA
* * *
79506294 AATGAGTAAGACCATGGTTGAAATATGCTATGGCATCATAATATA
1 AATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAGA
79506339 AATGAGTAAGACC
1 AATGAGTAAGACC
79506352 CTGACTGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (45 bp):
AATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAGA
Found at i:79506377 original size:45 final size:45
Alignment explanation
Indices: 79506249--79506365 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
79506239 ATACACCTAC
* *
79506249 AATGTGTAAGACCAT-AGTTGAAAGATGCTATGGCATCATAATAGA
1 AATGAGTAAGACCATGA-CTGAAAGATGCTATGGCATCATAATAGA
** * *
79506294 AATGAGTAAGACCATGGTTGAAATATGCTATGGCATCATAATATA
1 AATGAGTAAGACCATGACTGAAAGATGCTATGGCATCATAATAGA
*
79506339 AATGAGTAAGACCCTGACTGAAAGATG
1 AATGAGTAAGACCATGACTGAAAGATG
79506366 GCATGACATC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (45 bp):
AATGAGTAAGACCATGACTGAAAGATGCTATGGCATCATAATAGA
Found at i:79530394 original size:48 final size:47
Alignment explanation
Indices: 79530323--79530552 Score: 210
Period size: 48 Copynumber: 4.8 Consensus size: 47
79530313 ATTGTTGATG
* * * * *
79530323 CATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCTAATGC
1 CATGTCCTAGACATGGTCTTACACTAGCACACATATC-AAGCCAATGC
* * * * *** *
79530371 CATGTCCTAGACATGGTCTTACACTAGCCCTCGTCTCAATGTTGATGT
1 CATGTCCTAGACATGGTCTTACACTAGCACACATATCAA-GCCAATGC
* * *** * *
79530419 CATGTCCCAGACATGGTCTTACACTGGCTTTCATAATCTAGCCGATGC
1 CATGTCCTAGACATGGTCTTACACTAGCACACAT-ATCAAGCCAATGC
79530467 CATGT-CTCAGACATGGTCTTACACTAGCACACATATCAACGCCAATGC
1 CATGTCCT-AGACATGGTCTTACACTAGCACACATATCAA-GCCAATGC
* *
79530515 CATGTCCCAGACATGGCCTTACACTAGCACACATATCA
1 CATGTCCTAGACATGGTCTTACACTAGCACACATATCA
79530553 CCCATTTTTC
Statistics
Matches: 149, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
47 6 0.04
48 139 0.93
49 4 0.03
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCTAGACATGGTCTTACACTAGCACACATATCAAGCCAATGC
Found at i:79530487 original size:96 final size:95
Alignment explanation
Indices: 79530315--79530551 Score: 262
Period size: 96 Copynumber: 2.5 Consensus size: 95
79530305 GAGGGTAAAT
* * *
79530315 TGTTGATGCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCTAATGCCATGTCCTA
1 TGTTGATGCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCTA
* * * *
79530380 GACATGGTCTTACACTAGCCCTCGTCTCAA
66 GACATGGTCTTACACTAGCACACATATCAA
** * *
79530410 TGTTGATGTCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATCTA-GCCGATGCCATGT-C
1 TGTTGATG-CATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCAATGCCATGTCC
79530473 TCAGACATGGTCTTACACTAGCACACATATCAA
64 T-AGACATGGTCTTACACTAGCACACATATCAA
* *** * * *
79530506 CGCCAATGCCATGTCCCAGACATGGCCTTACACTAGCACACATATC
1 TGTTGATG-CATGTCCCAGACATGGTCTTACACTGGCTCACATATC
79530552 ACCCATTTTT
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
95 13 0.11
96 102 0.86
97 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
TGTTGATGCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCTA
GACATGGTCTTACACTAGCACACATATCAA
Found at i:79538238 original size:16 final size:16
Alignment explanation
Indices: 79538219--79538250 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
79538209 AATTGTTTTA
79538219 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
79538235 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
79538251 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:79538536 original size:50 final size:50
Alignment explanation
Indices: 79538461--79538790 Score: 308
Period size: 50 Copynumber: 6.6 Consensus size: 50
79538451 CTGGTATGCA
* *
79538461 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
* * * * * *
79538511 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
* ** ** * * *
79538561 TAGTAGCTTGCACTTAGTACTACACACATGATCAAAGTTAA-C-GGATACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAATCTGG-TACACG
* *
79538612 TAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
** * * * * ** *
79538662 TAGTAGCCCACACTTAGTACTACACACGTGA-TTGAAGTTAA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT--A-TCAATCTGGTACACG
*
79538713 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
* *
79538763 TAGTAGCATGCACTTAGTATTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
79538791 TGACTTACAA
Statistics
Matches: 218, Mismatches: 52, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
49 7 0.03
50 136 0.62
51 70 0.32
52 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
Found at i:79538788 original size:151 final size:151
Alignment explanation
Indices: 79538459--79538738 Score: 400
Period size: 151 Copynumber: 1.8 Consensus size: 151
79538449 CTCTGGTATG
*
79538459 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGCCCACAC
* * * *
79538524 TTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACA
66 TTAGTACTACACACGTGACTTAACCAACGGATACACATAGTAGCCTGCACTTAGTACTACACACA
* * *
79538589 TGATCAAAGTTAACGGATACG
131 CGATCAAAGTCAACGGATACA
* *
79538610 CATAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATCTGGTACACGTAGTAGCCCACAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGCCCACAC
** * **
79538675 TTAGTACTACACACGTGA-TTGAAGTTAACGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
66 TTAGTACTACACACGTGACTT-AA-CCAACGGATACACATAGTAGCCTGCACTTAGTACTACACA
79538739 TGCGACCTAT
Statistics
Matches: 115, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
150 2 0.02
151 82 0.71
152 31 0.27
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (151 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGCCCACAC
TTAGTACTACACACGTGACTTAACCAACGGATACACATAGTAGCCTGCACTTAGTACTACACACA
CGATCAAAGTCAACGGATACA
Found at i:79538790 original size:101 final size:101
Alignment explanation
Indices: 79538511--79538793 Score: 404
Period size: 101 Copynumber: 2.8 Consensus size: 101
79538501 CTAGTACACG
* * * * * * * *
79538511 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATGCACTT
*
79538576 AGTACTACACACATGATCAAAGTTAACGGATACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGATACGCA
* ***
79538612 TAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATCTGGTACACGTAGTAGCCCACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATGCACTT
** * *
79538677 AGTACTACACACGTGATTGAAGTTAACGGGTATGCA
66 AGTACTACACACGTGATCAAAGTTAACGGATACGCA
79538713 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATGCACTT
*
79538778 AGTATTACACACGTGA
66 AGTACTACACACGTGA
79538794 CTTACAACGA
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 161 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATGCACTT
AGTACTACACACGTGATCAAAGTTAACGGATACGCA
Found at i:79539170 original size:19 final size:20
Alignment explanation
Indices: 79539142--79539188 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
79539132 AAGAACAGGT
79539142 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
79539163 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
79539182 TATATAT
1 TATATAT
79539189 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:79540703 original size:17 final size:16
Alignment explanation
Indices: 79540666--79540704 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
79540656 AATAAACAAC
79540666 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
79540681 TAAAATTAAATTGGAAAA
1 T-AAATTAAATTGG-AAA
79540699 TAAATT
1 TAAATT
79540705 TGTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 13 0.62
18 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:79542488 original size:40 final size:40
Alignment explanation
Indices: 79542430--79542531 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
79542420 ATTGTCAGAT
* *
79542430 CAATCG-AACACACCAGACAGAAGCTCAAAAGAGGTAATC
1 CAATCGAAACACACTAGACAGAAGCTCAAAAGAGCTAATC
**
79542469 CAATCGAAACACACTAGACAGAAGCTCGTAAGAGCTAATC
1 CAATCGAAACACACTAGACAGAAGCTCAAAAGAGCTAATC
*
79542509 CAACCGAAACACACTAGAC-GAAG
1 CAATCGAAACACACTAGACAGAAG
79542532 AGTATAACAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 10 0.18
40 47 0.82
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (40 bp):
CAATCGAAACACACTAGACAGAAGCTCAAAAGAGCTAATC
Found at i:79546276 original size:173 final size:172
Alignment explanation
Indices: 79545981--79546327 Score: 640
Period size: 173 Copynumber: 2.0 Consensus size: 172
79545971 AAATAGAAAA
79545981 AAAAATAATGCAAATTTAACATGTTATCAATAATTTCTCATGATTTAGGAATTTCTTAATTTCTT
1 AAAAATAATGCAAATTTAACATGTTATCAATAATTTCTCATGATTTAGGAATTTCTTAATTTCTT
*
79546046 AAAGTGCCATTAAGGATTTAAGTAACTCTTAGAGTATTTTTTTCTTGGTTTAGGAAATTACTTAA
66 AAAGTGCCATTAAGGATTTAAGTAACTCTTAGAGTAGTTTTTTCTTGGTTTAGGAAATTACTTAA
79546111 TTCCTTAAAACTCTTTAAAGTTTTAGTGAACTTTAATAAATT
131 TTCCTTAAAACTCTTTAAAGTTTTAGTGAACTTTAATAAATT
* *
79546153 AAAAATCATGCAAATTTAACATGTTATCAATAATTTTCTCATGCTTTAGGAATTTCTTAATTTCT
1 AAAAATAATGCAAATTTAACATGTTATCAATAA-TTTCTCATGATTTAGGAATTTCTTAATTTCT
*
79546218 TAAAGTGCCATTAAGGATTTAAGTAACTCTTAGTGTAGTTTTTTCTTGGTTTAGGAAATTACTTA
65 TAAAGTGCCATTAAGGATTTAAGTAACTCTTAGAGTAGTTTTTTCTTGGTTTAGGAAATTACTTA
*
79546283 ATTCCTTAAAACTCTTTAAAGTTTTAGTGACCTTTAATAAATT
130 ATTCCTTAAAACTCTTTAAAGTTTTAGTGAACTTTAATAAATT
79546326 AA
1 AA
79546328 GTATTTTTCC
Statistics
Matches: 169, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
172 32 0.19
173 137 0.81
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (172 bp):
AAAAATAATGCAAATTTAACATGTTATCAATAATTTCTCATGATTTAGGAATTTCTTAATTTCTT
AAAGTGCCATTAAGGATTTAAGTAACTCTTAGAGTAGTTTTTTCTTGGTTTAGGAAATTACTTAA
TTCCTTAAAACTCTTTAAAGTTTTAGTGAACTTTAATAAATT
Found at i:79546430 original size:77 final size:77
Alignment explanation
Indices: 79546272--79546616 Score: 536
Period size: 77 Copynumber: 4.5 Consensus size: 77
79546262 CTTGGTTTAG
* * * * * *
79546272 GAAATTACTTAATTCCTTAAA-ACTCTTTAAAGTTTT-AGTGACCTTTAATAAATTAAGTA-TTT
1 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTTT
* *
79546334 TTCCCATGATTTA
66 TTTCCA-GATGTA
79546347 -AGAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTT
1 GA-AATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTT
*
79546411 TTTTCCAGATATA
65 TTTTCCAGATGTA
79546424 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTTT
1 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTTT
79546489 TTTCCAGATGTA
66 TTTCCAGATGTA
79546501 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTTT
1 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTTT
79546566 TTTCCAGATGTA
66 TTTCCAGATGTA
* * *
79546578 GAAATTACTTAATTTCTTAAAGATATTTTAAGGTTTTAA
1 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAA
79546617 TCATCTTTAT
Statistics
Matches: 253, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
74 1 0.00
75 18 0.07
76 13 0.05
77 212 0.84
78 9 0.04
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (77 bp):
GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTTT
TTTCCAGATGTA
Found at i:79549577 original size:21 final size:21
Alignment explanation
Indices: 79549551--79549592 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
79549541 TTATTTTTCT
79549551 TTATAAGGCTTCAAAGATATA
1 TTATAAGGCTTCAAAGATATA
79549572 TTATAAGGCTTCAAAGATATA
1 TTATAAGGCTTCAAAGATATA
79549593 AGAAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
TTATAAGGCTTCAAAGATATA
Found at i:79550973 original size:31 final size:31
Alignment explanation
Indices: 79550935--79550999 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
79550925 GGAGGAATAC
79550935 ATATAATACCATAATTCTTAAAAGCTACTCA
1 ATATAATACCATAATTCTTAAAAGCTACTCA
*
79550966 ATATAATACCATAATTCTTAAAAGGTACTCA
1 ATATAATACCATAATTCTTAAAAGCTACTCA
79550997 ATA
1 ATA
79551000 AATCGTATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (31 bp):
ATATAATACCATAATTCTTAAAAGCTACTCA
Found at i:79553156 original size:46 final size:45
Alignment explanation
Indices: 79553106--79553272 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 45
79553096 CTCGTAGTCA
79553106 ATGCATATCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCCG
1 ATGCATATCCCAGACATGTCTTACACTGGCTCT-CATCTCGA-GCCG
* * * * * *
79553152 ATGCATGTCCCGGACATGTCTTACACTAGCTCTCGTCTCAATGCCA
1 ATGCATATCCCAGACATGTCTTACACTGGCTCTCATCTCGA-GCCG
*
79553198 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GCAGCCG
1 ATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCG-AGCCG
*
79553246 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATATCCCAGACATGTCTTACACT
79553273 AGTACACAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 50 0.50
47 26 0.26
48 23 0.23
49 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
ATGCATATCCCAGACATGTCTTACACTGGCTCTCATCTCGAGCCG
Found at i:79553246 original size:94 final size:92
Alignment explanation
Indices: 79553104--79553274 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 92
79553094 ATCTCGTAGT
* *
79553104 CAATGCATATCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCGGACAT
1 CAATGCATATCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACAT
79553169 GTCTTACACTAGCTCTCGTCTCAATGC
66 GTCTTACACTAGCTCTCGTCTCAATGC
79553196 CAATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GCA-GCCGATGCATGTCCCA
1 CAATG-CATATCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCG-AGGCCGATGCATGTCCCA
79553258 GACATGTCTTACACTAG
61 GACATGTCTTACACTAG
79553275 TACACAAATA
Statistics
Matches: 72, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
92 5 0.07
93 14 0.19
94 50 0.69
95 3 0.04
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (92 bp):
CAATGCATATCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGC
Found at i:79558239 original size:46 final size:47
Alignment explanation
Indices: 79558152--79558371 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 47
79558142 ACATATCCTT
* * * *
79558152 GTCGATGCCATGTCCTAGACATGGTCTTACACTA--ACGCATCTCGTA-
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATCGTAG
* *
79558198 GTCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCG-AG
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATATCGTAG
* * * *
79558244 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATC-AAT
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCGTAG
* * *
79558290 GTCGATTCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAAT-ATA-
1 GTCGA-TGCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-ATCGTAG
* *
79558338 GCCGATGCATGTCTCAGACATGTCTTACACTAGC
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGC
79558372 ACACAAATAG
Statistics
Matches: 146, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 10 0.07
45 14 0.10
46 68 0.47
47 30 0.21
48 21 0.14
49 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCGTAG
Found at i:79564334 original size:22 final size:20
Alignment explanation
Indices: 79564299--79564346 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
79564289 TTTAAATTTC
79564299 AAATTTCAAAAATATAATATA
1 AAATTTCAAAAATATAA-ATA
*
79564320 AAATTATCATAAATATAAATA
1 AAATT-TCAAAAATATAAATA
*
79564341 ATATTT
1 AAATTT
79564347 ATAGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTCAAAAATATAAATA
Found at i:79565319 original size:17 final size:19
Alignment explanation
Indices: 79565293--79565330 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
79565283 GATACAACAT
*
79565293 AACTA-TTTTT-TTTATTA
1 AACTAGTTTTTATATATTA
79565310 AACTAGTTTTTATATATTA
1 AACTAGTTTTTATATATTA
79565329 AA
1 AA
79565331 TCAAAGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 8 0.44
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (19 bp):
AACTAGTTTTTATATATTA
Found at i:79565367 original size:22 final size:22
Alignment explanation
Indices: 79565341--79565385 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
79565331 TCAAAGTGAA
**
79565341 ATTTATTTTTTTATTAAAAATT
1 ATTTATTTTACTATTAAAAATT
79565363 ATTTATTTTACTATTAAAAATT
1 ATTTATTTTACTATTAAAAATT
79565385 A
1 A
79565386 ATATAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTATTTTACTATTAAAAATT
Found at i:79572574 original size:41 final size:41
Alignment explanation
Indices: 79572463--79572574 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 41
79572453 GATATTCGGG
* * * ***
79572463 CTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATCGGG
1 CTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAATCAAA
* *
79572504 CTTT-ATGCCTAGCAGG-CTTATTGCCGGTGTATAAAATCAAA
1 CTTTGA-GCCTAGCAGGCCTT-GTGCTGGTGTATAAAATCAAA
*
79572545 CTTTGAGTCTAGCAGGCCTTGTGCTGGTGT
1 CTTTGAGCCTAGCAGGCCTTGTGCTGGTGT
79572575 GTGATACAGG
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
40 4 0.07
41 48 0.86
42 4 0.07
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAATCAAA
Found at i:79580473 original size:39 final size:40
Alignment explanation
Indices: 79580328--79580476 Score: 115
Period size: 41 Copynumber: 3.7 Consensus size: 40
79580318 ATATTCGAGT
* * * * * * *
79580328 TTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATCGGGC
1 TTTGAGCCTAGC-AGGCTTATGCCGGTGTATAAAATCAGAC
79580369 TTT-ATGCCTAGCAGGCTTATTGCCGGTGTATAAAATCAGAC
1 TTTGA-GCCTAGCAGGCTTA-TGCCGGTGTATAAAATCAGAC
* * * * * *
79580410 TTTGAGTCTAGCAGGCCTTGTGCCGGTGTGTGATA-CAGGC
1 TTTGAGCCTAGCAGG-CTTATGCCGGTGTATAAAATCAGAC
79580450 TTTG-GCCTAGCAGGCTTTATGCCGGTG
1 TTTGAGCCTAGCAGGC-TTATGCCGGTG
79580477 AATTATTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 19 0.22
40 14 0.16
41 50 0.57
42 4 0.05
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (40 bp):
TTTGAGCCTAGCAGGCTTATGCCGGTGTATAAAATCAGAC
Found at i:79584326 original size:51 final size:51
Alignment explanation
Indices: 79584253--79584364 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 51
79584243 ATCACATTTA
*
79584253 TCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * *
79584304 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
79584355 TCACTGATCA
1 TCACTTATCA
79584365 GAAGTACTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:79590997 original size:51 final size:51
Alignment explanation
Indices: 79590929--79591040 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
79590919 ATCACATTTA
*
79590929 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
79590980 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
79591031 TCACTGATCA
1 TCACTTATCA
79591041 GAAGTACTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:79604696 original size:21 final size:21
Alignment explanation
Indices: 79604672--79604711 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
79604662 TTATTTAATT
*
79604672 GATTTAGGGTTAGGGTTTTAG
1 GATTTAAGGTTAGGGTTTTAG
79604693 GATTTAAGGTTAGGGTTTT
1 GATTTAAGGTTAGGGTTTT
79604712 TAAGTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (21 bp):
GATTTAAGGTTAGGGTTTTAG
Found at i:79604842 original size:34 final size:36
Alignment explanation
Indices: 79604799--79604878 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
79604789 AATACTAAAT
*
79604799 ATTAAATTA-GA-G-TTTAGGGTATTGGGGTTAATTG
1 ATTAAATTAGGATGATTTAGGGT-TTAGGGTTAATTG
79604833 ATTAAATTAGGGATTGATTTAGGGTTTAGGGTTAATTG
1 ATTAAATTA-GGA-TGATTTAGGGTTTAGGGTTAATTG
79604871 ATTAAATT
1 ATTAAATT
79604879 TAGGGTTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
34 9 0.22
36 2 0.05
38 21 0.52
39 8 0.20
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.42
Consensus pattern (36 bp):
ATTAAATTAGGATGATTTAGGGTTTAGGGTTAATTG
Found at i:79604882 original size:20 final size:20
Alignment explanation
Indices: 79604823--79604892 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
79604813 TAGGGTATTG
79604823 GGGTTAATTGATTAAA-TTA
1 GGGTTAATTGATTAAATTTA
**
79604842 GGG---ATTGATTTAGGGTTTA
1 GGGTTAATTGA-TTA-AATTTA
79604861 GGGTTAATTGATTAAATTTA
1 GGGTTAATTGATTAAATTTA
79604881 GGGTTAATTGAT
1 GGGTTAATTGAT
79604893 ACATAATGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
19 9 0.22
20 16 0.39
21 3 0.07
22 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (20 bp):
GGGTTAATTGATTAAATTTA
Found at i:79605644 original size:126 final size:126
Alignment explanation
Indices: 79605414--79605921 Score: 730
Period size: 126 Copynumber: 4.0 Consensus size: 126
79605404 TTTTTGCAAG
* * * *
79605414 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTATTGAAAAACGCTTCAAGCAGGATGCATTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAAACACTTCAAGCAGGATGCACTGT
* * *
79605479 CAGTAAAATTTCTAG-AAAAAGCTCCCACATGGACGCTCTTTTACTACAGTAGTTCGTAGAAA
65 CAGCAAAATTTC-AGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
*
79605541 AATAATTCTGAGTAGATGTTTCTGAACAAATAGTGTCGAAAACACTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACACTTCAAGCAGGATGCACTGTC
* ** * ** * * *
79605606 AGTAAAATTTTTGGAAAAAGCTCTTACGTGAACACTCTTTTGCTACAGTAGTTCATAGAAA
66 AGCAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * *
79605667 AATAATTATGAGTAGACATTTTTGAACAAATAGTGTCGAAAACGCTTCAAGCAAGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACACTTCAAGCAGGATGCACTGTC
* *
79605732 AGCAAAATTTCAGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTATAGTAGTTCGTAGAAA
66 AGCAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
79605793 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACACTTTAAGCAGAATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACACTTCAAGCAGGATGCACTGTC
* *
79605858 AGCAAAATTTCAGAAAAAAGCTCCCACGTGGACTCTCTTTTGCTACAGTACTTCGTAGAAA
66 AGCAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
79605919 AAT
1 AAT
79605922 GAGGCTATAA
Statistics
Matches: 337, Mismatches: 43, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
125 1 0.00
126 301 0.89
127 35 0.10
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACACTTCAAGCAGGATGCACTGTC
AGCAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:79609432 original size:18 final size:18
Alignment explanation
Indices: 79609406--79609448 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
79609396 GACTAAGAAA
*
79609406 AGGAAACATATAAGAGCT
1 AGGATACATATAAGAGCT
*
79609424 AGGATACATATAAGGGCT
1 AGGATACATATAAGAGCT
79609442 AGGATAC
1 AGGATAC
79609449 GCACCTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:79611132 original size:48 final size:48
Alignment explanation
Indices: 79611036--79611169 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 48
79611026 ATGCAAACAT
* ** * *
79611036 CATAAATGAAAAAAA-ATCAAGCAGCATTG-ACATTGTAATTATAATTG
1 CATAAATGAAAAAAATACCAAATAGTATTGAAAATT-TAATTATAATTG
* *
79611083 CATAAATGAATAAAATACCAAATAGTATTGCAAATTTAATTA-AATTTG
1 CATAAATGAAAAAAATACCAAATAGTATTGAAAATTTAATTATAA-TTG
* * *
79611131 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATACCAAATAGTATTGAAAATTTAA
79611170 AATTATCACT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 16 0.22
48 53 0.73
49 4 0.05
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (48 bp):
CATAAATGAAAAAAATACCAAATAGTATTGAAAATTTAATTATAATTG
Found at i:79611321 original size:11 final size:11
Alignment explanation
Indices: 79611305--79611359 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
79611295 TTAAACAAAC
79611305 AAATTTGATAG
1 AAATTTGATAG
79611316 AAATTTGATAG
1 AAATTTGATAG
* *
79611327 AATTTTGAGA-
1 AAATTTGATAG
*
79611337 AAATTTCAATA-
1 AAATTT-GATAG
79611348 AAATTTGATAG
1 AAATTTGATAG
79611359 A
1 A
79611360 TTTTTGAAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 8 0.22
11 28 0.78
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (11 bp):
AAATTTGATAG
Found at i:79611334 original size:22 final size:22
Alignment explanation
Indices: 79611305--79611359 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
79611295 TTAAACAAAC
*
79611305 AAATTTGATAGAAATTT-GATA
1 AAATTTGATAGAAATTTCAATA
* *
79611326 GAATTTTGAGA-AAATTTCAATA
1 -AAATTTGATAGAAATTTCAATA
79611348 AAATTTGATAGA
1 AAATTTGATAGA
79611360 TTTTTGAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (22 bp):
AAATTTGATAGAAATTTCAATA
Found at i:79613186 original size:2 final size:2
Alignment explanation
Indices: 79613179--79613209 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
79613169 TTCTTCACCA
*
79613179 TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
79613210 TTAACCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:79618892 original size:46 final size:46
Alignment explanation
Indices: 79618835--79619008 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
79618825 TGGTTGAGCA
79618835 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * * *
79618881 TCCAAACTCGTTGAGTTGAGTCCGAGTT--C-GAGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G
* * *
79618926 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
79618974 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
79619009 GGGCGGGTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
45 1 0.01
46 60 0.57
47 26 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:79618991 original size:93 final size:93
Alignment explanation
Indices: 79618832--79619002 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
79618822 GGATGGTTGA
* * *
79618832 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCAAACTCATTGAGT
79618897 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
79618925 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCAAACTCATTGAGT
79618990 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
79619003 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCAAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:79621955 original size:15 final size:15
Alignment explanation
Indices: 79621935--79622003 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
79621925 GTATCTTGGG
79621935 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
79621950 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
79621965 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
79621980 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
79621995 TTTCTTTAT
1 TTTCTTTAT
79622004 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:79622004 original size:30 final size:30
Alignment explanation
Indices: 79621926--79622013 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
79621916 CATAGTATCG
* * * *
79621926 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
79621956 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
79621986 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
79622014 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:79624047 original size:46 final size:46
Alignment explanation
Indices: 79623883--79624057 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
79623873 GGTTGAGCAT
* * * * *
79623883 CCGAACTCATTGAGTTGAGTCCGACTTCACTTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
79623929 CCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---GC
* * * *
79623974 ATCCGAGCTTGTTGAGTTGAGTTCGAGTTCAGTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
79624022 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
79624058 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 1 0.01
46 60 0.57
47 26 0.25
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:79629238 original size:887 final size:893
Alignment explanation
Indices: 79627496--79629282 Score: 2366
Period size: 887 Copynumber: 2.0 Consensus size: 893
79627486 ATTTACCCAC
* * * * *
79627496 AAGGGAAAAAGCAATCATTTTACCCTATAGAGGTATTTCAATAATTTAAATAGTTTGGCCTAAAC
1 AAGGGAAAAAGCAACCATTTTACCCTACAGAGGTATTTCAATAATCTAAACAATTTGGCCTAAAC
* *
79627561 ATGCTTATCGGCCCATCCGAAGGTTTACAGTCACCCCGAGTGACTTTTACAACCATAACGATCCT
66 ATGCTTATCGACCCATCCGAAGGTTTACAGTCACCCCGAGCGACTTTTACAACCATAACGATCCT
* * *
79627626 ATCACTAAAAATAGGCCCAAGGCCCATTATTCGACCCAAATGGGCCCACACGCTCGTGCGGCCCA
131 ATCACTAAAAATAGGCCCAAGGCCCATTATTCAACCCAAATGGGCCCACACGCTCGTACGGACCA
** * **** *
79627691 ATTAGCCCTGGATTATCCATGGTTATGCATACTACACAGCCCTGTCCAAAGTTTGTCACATATAA
196 ATTAGCCCAAGATTAGCCACAACTATGCATACTACACAGCCCAGTCCAAAGTTTGTCACATATAA
** * * * * *
79627756 AGGATTTTATCTGTGCGGGGCCCATGAGCCCATTGTGCCCACACGACCCACTTTAGCCCATTGGG
261 AGGATTTTATCTGTAAGGGGCCCACGAGCCCATTGGGCCCACACAACCCACTTCAGCCCATTGAG
* ** *
79627821 GCCCAAAATGGTCTTTGCCATGTGTGCGACATGACAAGCCCCACTATTTTCCACCTAACAGTCAG
326 GCCCAAAATGGCCCATGCCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTAACAGTCAG
79627886 ATTTACACAAGCGGGCCCACAGTTCCATTGGGCCCATTCGGCCCATTATGGCCTAAGCCCATGAA
391 ATTTACACAAGCGGGCCCACAGTTCCA-T-GGCCCA-T-----CATTATGGCCTAAGCCCATGAA
** * *
79627951 TTCGTTCATGGTGGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGATTTACCGTGCGTGCG
448 TTCGTTCATGGCAGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGATTTACCGTGCATGCA
* * *** * *
79628016 ATCGTACGCTCTAAGCCCCTCCTTTCAACTTTTCTGCTTCTCGGTATTTTAGCATTTCGGCATTT
513 ATCGCACGCTCTAAGCCCCTCCTTTCAACTTTTCGGCTTCAAAGTATTTCAGCATTTCGACATTT
*
79628081 GCCGACCTATGGTTAAATCAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGATTATCA
578 GCCGACCTATGGTCAAATCAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGATTATCA
* * * * *
79628146 AATACGGTACTACTACACACTTGATGCGATTTGCTGTAAAACACTATCGAGCACTCCGGGACCTG
643 AATACGGTACTACTACACACATGATGCAATTTGCTGTAAAACACTATCAAGCACTCCAGAACCTG
* * *
79628211 CAGATCCGAACAAGGTAGTTCATTACTCCACAATTCATCGCGGATAATTCTGTAAAAACCTAATA
708 CAGATCCGAACAAGATAGTTCATTACTCCACAATTCATCGCGGAAAATTCTGTAAAAACCCAATA
* *
79628276 CCAACATTAATTCACATTTCATATCCAAGGGAAAAAGAAAAACTTTCCTTTAACACCACCAAAAT
773 CCAACATCAATTCACATTTCATACCCAAGGGAAAAAGAAAAACTTTCCTTTAACACCACCAAAAT
*
79628341 ATAACCACTTTACCTACCAACCGCATAACAGTAGAGTCGCACTACTCCAACGCTAT
838 ATAACCACTTTACCTACCAACAGCATAACAGTAGAGTCGCACTACTCCAACGCTAT
* * ***
79628397 AAGGGCAAAA-CAACCATTTTACCCTACAGGGGTATTTTGGTAATCTAAACAATTTGGCCTAAAC
1 AAGGGAAAAAGCAACCATTTTACCCTACAGAGGTATTTCAATAATCTAAACAATTTGGCCTAAAC
* * *
79628461 ATGCTTATCGACCCATCTGAAGGTTTACAGTCACCTCGAGCGACTTTTACAACCCTAAC-AGTCC
66 ATGCTTATCGACCCATCCGAAGGTTTACAGTCACCCCGAGCGACTTTTACAACCATAACGA-TCC
* * * * *
79628525 TATCAGTGAAAAT-GAGCCCAAGGCCCATTATTCAACCCAAATGGGCCTATATGCTCGTAC-GAC
130 TATCACTAAAAATAG-GCCCAAGGCCCATTATTCAACCCAAATGGGCCCACACGCTCGTACGGAC
79628588 CAATTAGCCCAAGATTAGCCACAACTATGCATACTACACAACACAGCCCAGTCCAAAGTTTGTCA
194 CAATTAGCCCAAGATTAGCCACAACTATGCATACT-----ACACAGCCCAGTCCAAAGTTTGTCA
* ** * * *
79628653 CTTATCGAGGATTTTAT-TCGTAAGGGGTCCACGAGTCCATTGGGCCCACATAACCCACTTCAGC
254 CATATAAAGGATTTTATCT-GTAAGGGGCCCACGAGCCCATTGGGCCCACACAACCCACTTCAGC
* *
79628717 CTATTGAGGCCCAGAATGGCCCATGCCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTA
318 CCATTGAGGCCCAAAATGGCCCATGCCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTA
*
79628782 AGAGTCAGATTTACACAAGCGGG-CC-CA-TT-C-T-G-CC-T-ATTATGGCCTAAGCCCATGAA
383 ACAGTCAGATTTACACAAGCGGGCCCACAGTTCCATGGCCCATCATTATGGCCTAAGCCCATGAA
* * * * *
79628838 TTTGTTCATGGCAGCCTTTTCCGCCGTACACCCACGTTTTGTGGGCTC-AGTTTACCGTTCATGC
448 TTCGTTCATGGCAGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGA-TTTACCGTGCATGC
* * ** * *
79628902 AATTGCACGCTCTCAGCCCCTCCTTTTGACTTTTCGGCTTCAAAGTATTTCGGTATTTCGACATT
512 AATCGCACGCTCTAAGCCCCTCCTTTCAACTTTTCGGCTTCAAAGTATTTCAGCATTTCGACATT
* * * *
79628967 TTCTGACCTATGGTCAAATCAATGTGTGTGGATTCACACACTCTTTCGGCTTTTGACTGATTATC
577 TGCCGACCTATGGTCAAATCAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGATTATC
*
79629032 AAATACGGTACTACTACACACATGATGCAATTTGCTGTAAAACACTATTAAGCACTCCAGAACCT
642 AAATACGGTACTACTACACACATGATGCAATTTGCTGTAAAACACTATCAAGCACTCCAGAACCT
* * * * *
79629097 GTAGATCCGAACAAGATAGTTCATTACTCCACAATTC-GCTGTGGAAAATTTTGTAAAGACCCAA
707 GCAGATCCGAACAAGATAGTTCATTACTCCACAATTCATC-GCGGAAAATTCTGTAAAAACCCAA
**
79629161 TACCAACATCAATTCACATTTCATACCCAAGGGAAAAAGAAAAACTTT-CTCTTAACAGTACCAA
771 TACCAACATCAATTCACATTTCATACCCAAGGGAAAAAGAAAAACTTTCCT-TTAACACCACCAA
* * * * *
79629225 AGTATAGCCACTTTACCTACCAGCAGCGTAATAGTAGAGTCGCACTACTCCAACGCTA
835 AATATAACCACTTTACCTACCAACAGCATAACAGTAGAGTCGCACTACTCCAACGCTA
79629283 ACTGAGTCGT
Statistics
Matches: 773, Mismatches: 102, Indels: 36
0.85 0.11 0.04
Matches are distributed among these distances:
886 4 0.01
887 408 0.53
893 1 0.00
895 2 0.00
896 1 0.00
898 1 0.00
899 32 0.04
900 154 0.20
901 11 0.01
902 2 0.00
903 3 0.00
904 154 0.20
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (893 bp):
AAGGGAAAAAGCAACCATTTTACCCTACAGAGGTATTTCAATAATCTAAACAATTTGGCCTAAAC
ATGCTTATCGACCCATCCGAAGGTTTACAGTCACCCCGAGCGACTTTTACAACCATAACGATCCT
ATCACTAAAAATAGGCCCAAGGCCCATTATTCAACCCAAATGGGCCCACACGCTCGTACGGACCA
ATTAGCCCAAGATTAGCCACAACTATGCATACTACACAGCCCAGTCCAAAGTTTGTCACATATAA
AGGATTTTATCTGTAAGGGGCCCACGAGCCCATTGGGCCCACACAACCCACTTCAGCCCATTGAG
GCCCAAAATGGCCCATGCCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTAACAGTCAG
ATTTACACAAGCGGGCCCACAGTTCCATGGCCCATCATTATGGCCTAAGCCCATGAATTCGTTCA
TGGCAGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGATTTACCGTGCATGCAATCGCACG
CTCTAAGCCCCTCCTTTCAACTTTTCGGCTTCAAAGTATTTCAGCATTTCGACATTTGCCGACCT
ATGGTCAAATCAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGATTATCAAATACGGT
ACTACTACACACATGATGCAATTTGCTGTAAAACACTATCAAGCACTCCAGAACCTGCAGATCCG
AACAAGATAGTTCATTACTCCACAATTCATCGCGGAAAATTCTGTAAAAACCCAATACCAACATC
AATTCACATTTCATACCCAAGGGAAAAAGAAAAACTTTCCTTTAACACCACCAAAATATAACCAC
TTTACCTACCAACAGCATAACAGTAGAGTCGCACTACTCCAACGCTAT
Found at i:79629778 original size:24 final size:24
Alignment explanation
Indices: 79629724--79629783 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
79629714 AATTCTTGAT
*
79629724 TCTCTCCTTAATTCTCTCCATAAA
1 TCTCTCCTTAATTCTATCCATAAA
* * *
79629748 TCACTCCTTGATTTTATCC-TAATA
1 TCTCTCCTTAATTCTATCCATAA-A
*
79629772 TCTCTCCATAAT
1 TCTCTCCTTAAT
79629784 ACACTCTATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (24 bp):
TCTCTCCTTAATTCTATCCATAAA
Found at i:79632362 original size:8 final size:8
Alignment explanation
Indices: 79632349--79632375 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
79632339 ATGTGAGAGG
79632349 ATTCAAAA
1 ATTCAAAA
79632357 ATTCAAAA
1 ATTCAAAA
79632365 ATTCAAAA
1 ATTCAAAA
79632373 ATT
1 ATT
79632376 TTCCCGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (8 bp):
ATTCAAAA
Found at i:79633231 original size:22 final size:22
Alignment explanation
Indices: 79633196--79633240 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
79633186 AACAGTAAAT
79633196 ATTTGTAGACAAA-CTGCTAGTA
1 ATTTGTAGACAAACCT-CTAGTA
**
79633218 ATTTGTAGTTAAACCTCTAGTA
1 ATTTGTAGACAAACCTCTAGTA
79633240 A
1 A
79633241 AAAGTTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (22 bp):
ATTTGTAGACAAACCTCTAGTA
Found at i:79636066 original size:28 final size:28
Alignment explanation
Indices: 79636035--79636102 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
79636025 ATATGGCACT
79636035 TAGTGTGCGAAATATTGAGAATGACACA
1 TAGTGTGCGAAATATTGAGAATGACACA
*
79636063 TAGTGTGCGAAATATTGAGAATGACACT
1 TAGTGTGCGAAATATTGAGAATGACACA
*
79636091 TAGTGTGGGAAA
1 TAGTGTGCGAAA
79636103 GATCGAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (28 bp):
TAGTGTGCGAAATATTGAGAATGACACA
Found at i:79644410 original size:17 final size:18
Alignment explanation
Indices: 79644379--79644418 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
79644369 TGTGTGGTTC
*
79644379 ACCCGTGTGGACCACATG
1 ACCCATGTGGACCACATG
*
79644397 -CCCATGTGGCCCACATG
1 ACCCATGTGGACCACATG
79644414 ACCCA
1 ACCCA
79644419 ATTGAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.15
Consensus pattern (18 bp):
ACCCATGTGGACCACATG
Found at i:79645461 original size:16 final size:16
Alignment explanation
Indices: 79645440--79645475 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
79645430 CCGTCCGAGA
*
79645440 TAAATCTCATCTGAAC
1 TAAATCCCATCTGAAC
*
79645456 TAAATCCCGTCTGAAC
1 TAAATCCCATCTGAAC
79645472 TAAA
1 TAAA
79645476 GGCTAAATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (16 bp):
TAAATCCCATCTGAAC
Found at i:79647123 original size:24 final size:24
Alignment explanation
Indices: 79647092--79647139 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
79647082 TGTTATACAT
79647092 GTTACATGAATTTGGTATGGTATA
1 GTTACATGAATTTGGTATGGTATA
79647116 GTTACATGAATTTGGTATGGTATA
1 GTTACATGAATTTGGTATGGTATA
79647140 ATACATTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
GTTACATGAATTTGGTATGGTATA
Found at i:79664278 original size:14 final size:15
Alignment explanation
Indices: 79664259--79664295 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
79664249 TAATAGTACA
79664259 TTATATATTAATT-T
1 TTATATATTAATTGT
79664273 TTATATATT-ATTGT
1 TTATATATTAATTGT
79664287 TTAT-TATTA
1 TTATATATTA
79664296 TATTAGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATATATTAATTGT
Found at i:79667939 original size:18 final size:19
Alignment explanation
Indices: 79667904--79667943 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
79667894 GCTTTCTACA
*
79667904 TATCTCTCTTATAATTTAT
1 TATCCCTCTTATAATTTAT
79667923 TATCCCTCTTA-AATTTAT
1 TATCCCTCTTATAATTTAT
79667941 TAT
1 TAT
79667944 GATGTTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (19 bp):
TATCCCTCTTATAATTTAT
Found at i:79674456 original size:48 final size:48
Alignment explanation
Indices: 79674383--79674488 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
79674373 AGATAAATAT
* * *
79674383 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
79674431 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
79674479 ATGTGTATAT
1 ATATGTATAT
79674489 ATTGTGGCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:79676411 original size:43 final size:42
Alignment explanation
Indices: 79676349--79676470 Score: 190
Period size: 43 Copynumber: 2.8 Consensus size: 42
79676339 ATGAAACTCG
*
79676349 GTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCA
1 GTGATATGTATTCG-GCCTTCGTGCCTAGCAGGCTTCGTGCCA
*
79676392 GTGATATGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGCCA
*
79676435 GTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 GTGATATGTATTC-GGCCTTCGTGCCTAGCAGGCTT
79676471 AATACCGATG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
43 73 0.99
44 1 0.01
ACGTcount: A:0.14, C:0.24, G:0.30, T:0.32
Consensus pattern (42 bp):
GTGATATGTATTCGGCCTTCGTGCCTAGCAGGCTTCGTGCCA
Found at i:79676727 original size:28 final size:27
Alignment explanation
Indices: 79676638--79676735 Score: 70
Period size: 28 Copynumber: 3.5 Consensus size: 27
79676628 AATGATTAGA
* * *
79676638 GGCACTGTGTGTGCGAGATCAGTAATTG
1 GGCACTATGTGTGCGAGATC-GTCACTG
* * * *
79676666 AGGCACTGTGTGTGCGAGTTCTTCAACCG
1 -GGCACTATGTGTGCGAGATCGTC-ACTG
* *
79676695 AGCACTATGTGTGCGAGATCGGTCAGTG
1 GGCACTATGTGTGCGAGATC-GTCACTG
*
79676723 GGCACTAAGTGTG
1 GGCACTATGTGTG
79676736 TGAAATGAGA
Statistics
Matches: 54, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
28 31 0.57
29 23 0.43
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.27
Consensus pattern (27 bp):
GGCACTATGTGTGCGAGATCGTCACTG
Found at i:79680172 original size:48 final size:48
Alignment explanation
Indices: 79680101--79680206 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
79680091 CAAGATAAAT
* * * *
79680101 ATATATATGTGTGGTAAAGCCGAATAGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGCAAAGCCGAATAGCTAATGTGAAATATGTATGAG
*
79680149 ATATGTATATGTGGCAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGCAAAGCCGAATAGCTAATGTGAAATATGTATGAG
*
79680197 ATGTGTATAT
1 ATATGTATAT
79680207 ATTGTGGCCG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGCAAAGCCGAATAGCTAATGTGAAATATGTATGAG
Found at i:79680390 original size:37 final size:37
Alignment explanation
Indices: 79680340--79680411 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
79680330 GAAATATATT
*
79680340 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
79680377 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
79680412 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:79685078 original size:24 final size:24
Alignment explanation
Indices: 79685033--79685081 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
79685023 TTGTAATCTG
*
79685033 TAAAATGCTAACACGAACACAGAT
1 TAAAATGCTAACACAAACACAGAT
* * *
79685057 TAAAATGTTAACGCAAAGACAGAT
1 TAAAATGCTAACACAAACACAGAT
79685081 T
1 T
79685082 TTATGCCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (24 bp):
TAAAATGCTAACACAAACACAGAT
Found at i:79689389 original size:30 final size:30
Alignment explanation
Indices: 79689332--79689389 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
79689322 TTGTCAAGCA
* **
79689332 TAGGGGTAAAATGGTCATTATGTCAAAGTC
1 TAGGGGCAAAATGGTCATTATACCAAAGTC
*
79689362 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTATACCAAAG
79689390 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTATACCAAAGTC
Found at i:79689898 original size:46 final size:48
Alignment explanation
Indices: 79689733--79689994 Score: 197
Period size: 47 Copynumber: 5.6 Consensus size: 48
79689723 TGTGTGAACT
* * * * * *
79689733 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCAC-ATTATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGA-GACGAGAGCC
* * *
79689779 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAGACGAGAGCC
** * *
79689827 AGTGTAAGACACA--TCTAAGATAT-GCATTGGCCTCGAGACGTA-ACCC
1 AGTGTAAGAC-CATGTCTGGGACATGGCATTGGCCTCGAGACG-AGAGCC
* * * * *
79689873 AGTATAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCT-CGAGACGAGAGCC
* * *
79689919 AGTGTAAGACCATGTCTGGGACATGGCATT-GACTTGAGA-TATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAGACGA-GAGCC
*
79689966 AGTGTAAGACCATGTCTAGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
79689995 CGGTACCTTA
Statistics
Matches: 172, Mismatches: 31, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 64 0.37
47 71 0.41
48 29 0.17
49 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAGACGAGAGCC
Found at i:79691293 original size:21 final size:21
Alignment explanation
Indices: 79691267--79691308 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
79691257 CCATATTCAG
79691267 GATATGTTTATAAGTTTTAAA
1 GATATGTTTATAAGTTTTAAA
79691288 GATATGTTTATAAGTTTTAAA
1 GATATGTTTATAAGTTTTAAA
79691309 ATTGGACAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (21 bp):
GATATGTTTATAAGTTTTAAA
Found at i:79692966 original size:20 final size:19
Alignment explanation
Indices: 79692921--79692958 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
79692911 CATCCAAACA
79692921 CCAGAAAAGTAAACTATTT
1 CCAGAAAAGTAAACTATTT
*
79692940 CCAGAAAAGTAAATTATTT
1 CCAGAAAAGTAAACTATTT
79692959 TCTAGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (19 bp):
CCAGAAAAGTAAACTATTT
Found at i:79693874 original size:16 final size:16
Alignment explanation
Indices: 79693853--79693885 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
79693843 TATCATTATT
*
79693853 ATTTATTAGCTTTTAA
1 ATTTATTAGATTTTAA
79693869 ATTTATTAGATTTTAA
1 ATTTATTAGATTTTAA
79693885 A
1 A
79693886 AAATGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTTATTAGATTTTAA
Found at i:79694420 original size:34 final size:34
Alignment explanation
Indices: 79694382--79694447 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
79694372 GGTTTTAATT
*
79694382 TTTTAAAAAAATTAATTAAATTAGGTTTTAGGGG
1 TTTTAAAAAAATTAATTAAATTAGGGTTTAGGGG
**
79694416 TTTTAAGTAAATTAATTAAATTAGGGTTTAGG
1 TTTTAAAAAAATTAATTAAATTAGGGTTTAGG
79694448 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (34 bp):
TTTTAAAAAAATTAATTAAATTAGGGTTTAGGGG
Found at i:79694908 original size:125 final size:126
Alignment explanation
Indices: 79694550--79695198 Score: 813
Period size: 126 Copynumber: 5.2 Consensus size: 126
79694540 GTTTTGTTTT
* * * * * *
79694550 TTTTTCTATAGTAGTTTCTGAAAAATTAATGTTGAGAAGACGGTTTTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAA
* * * * * *
79694615 ACGCTTCAAACAAGATGCATTATCAGCAAAATTACTGAAAAAGGCTCCCACGTGGATGCTC
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTTAAAAAAGCTCCCACGTGGACGCTC
* * *
79694676 TTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTGTAAAAAAATTAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAA-TAGTGTCAAA
* * *
79694741 AACGCTTCAAGCATGATGCATTGTCAGCAAAATTA-TTGAAAAAAGCTCCCACGTGGACACTC
65 AACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTT-AAAAAAGCTCCCACGTGGACGCTC
* * *
79694803 TTTTTCTATAGTAGTTCCT-AAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAA
** * *
79694867 ATACTTCAAGCAGGATGCACTGTCAGCAAAATTACTTAAAAAAGCTCCCATGTGGACGCTC
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTTAAAAAAGCTCCCACGTGGACGCTC
* * *
79694928 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAA
* *** * *
79694993 ACGCTTCAAGCAAGATGCACTGTCAGTAAAATTACAGGAAAAAGCTCCCACGTGGACACTT
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTTAAAAAAGCTCCCACGTGGACGCTC
* * * *
79695054 TTTTTCTACTGTAGATCTTGAAAAAATAATTTTGAGAAGA--GTATTATGAAAAAATAGTGTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGT-TT-TGAAAAAATAGTGTCAA
* * * * * * * *
79695117 AAACACTTCAAGCAAGATTCACTATCAGCAAAATTAC-TAAAAAACCTTCCACATGGATGCAC
64 AAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTTAAAAAAGCTCCCACGTGGACGCTC
79695179 TTTTTCTACAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
79695199 CTTGACCTTA
Statistics
Matches: 455, Mismatches: 62, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
124 2 0.00
125 115 0.25
126 259 0.57
127 79 0.17
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTTAAAAAAGCTCCCACGTGGACGCTC
Found at i:79700955 original size:18 final size:18
Alignment explanation
Indices: 79700921--79700955 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79700911 AAAAGGAAAC
*
79700921 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
*
79700939 ATATAAGGGCTATGATA
1 ATATAAGGGCTAGGATA
79700956 CGAACCTGGG
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:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:79713479 original size:25 final size:25
Alignment explanation
Indices: 79713460--79713511 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
79713450 AAACTGATTC
*
79713460 CATAAATTTTCCCTGAAACTAGATCT
1 CATAAA-TATCCCTGAAACTAGATCT
*
79713486 CATAAATATCCCTGAATCTAGA-CT
1 CATAAATATCCCTGAAACTAGATCT
79713510 CA
1 CA
79713512 GATATCCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 14 0.58
26 6 0.25
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (25 bp):
CATAAATATCCCTGAAACTAGATCT
Found at i:79714751 original size:40 final size:40
Alignment explanation
Indices: 79714673--79714896 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 40
79714663 ACCAAAGTAT
* *
79714673 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * **
79714712 CTTCAGGTCTTAACCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
79714752 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
79714792 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
79714835 CTTCGGGACTTAGCCCGGACATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
79714875 CTTCTGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
79714897 CATCCGAATA
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 10 0.06
40 112 0.71
41 1 0.01
43 35 0.22
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:79714859 original size:83 final size:80
Alignment explanation
Indices: 79714673--79714896 Score: 265
Period size: 83 Copynumber: 2.8 Consensus size: 80
79714663 ACCAAAGTAT
* * * *
79714673 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCAGGTCTTAACCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAG
**
79714736 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* *
79714752 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGT
79714816 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * * * *
79714835 CTTCGGGACTTAGCCCGGACATAGTAACTTGCACAAATGCCTTCTGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGATAT
79714897 CATCCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
79 13 0.10
80 47 0.38
81 1 0.01
83 64 0.51
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:79715089 original size:65 final size:65
Alignment explanation
Indices: 79715008--79715138 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
79714998 TTTCGACTCA
* *
79715008 ATAGCCACATACAGAGAGGATGATTTTGATTTGCTTTATAACATGATCTCTATACACATTCGGCT
1 ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
79715073 ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
1 ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
79715138 A
1 A
79715139 CCCGTCATAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (65 bp):
ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
Found at i:79723046 original size:40 final size:40
Alignment explanation
Indices: 79722968--79723191 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
79722958 ACCAAAGTAT
* *
79722968 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
79723007 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
79723047 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
79723087 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
79723130 CTTCGGGACTTAGCCCGGACATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
79723170 CTTCTGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
79723192 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 115 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:79723164 original size:83 final size:80
Alignment explanation
Indices: 79722968--79723191 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
79722958 ACCAAAGTAT
* * * *
79722968 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
79723032 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
79723047 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
79723111 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
79723130 CTTCGGGACTTAGCCCGGACATAGTAACTTGCACAAATGCCTTCTGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
79723192 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.39
83 65 0.51
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:79723384 original size:65 final size:65
Alignment explanation
Indices: 79723303--79723433 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
79723293 TTTCGACTCA
* *
79723303 ATAGCCACATACAGAGAGGATGATTTTGATTTGCTTTATAACATGATCTCTATACACATTCGGCT
1 ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
79723368 ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
1 ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
79723433 A
1 A
79723434 CCCGTCATAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (65 bp):
ATAGCCACATACAGAGAGCATGATTTTGATTTGCTTTAAAACATGATCTCTATACACATTCGGCT
Found at i:79725815 original size:80 final size:80
Alignment explanation
Indices: 79725682--79725843 Score: 263
Period size: 80 Copynumber: 2.0 Consensus size: 80
79725672 AAATAGATGG
* *
79725682 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTGGTAAATTTAGTTTCTGTTATACGA
1 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTAGTAAATTTAGTTTCCGTTATAC-A
*
79725747 AA-TTACTAAGCATGT
65 AACTTACGAAGCATGT
*
79725762 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGGGATTAGTAAATTTAGTTTCCGTTATACAA
1 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTAGTAAATTTAGTTTCCGTTATACAA
*
79725827 ACTTACGAAGCTTGT
66 ACTTACGAAGCATGT
79725842 AA
1 AA
79725844 TTCCCACTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 3 0.04
80 73 0.96
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (80 bp):
AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTAGTAAATTTAGTTTCCGTTATACAA
ACTTACGAAGCATGT
Found at i:79727091 original size:28 final size:29
Alignment explanation
Indices: 79727051--79727130 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
79727041 GCCAGAAATG
* * *
79727051 TCCAACCAAAACACACCAGTATCATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
*
79727080 TCC-TCCCAAACACACCAGAATAATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
79727108 TCCATCCAAAACACACCAGAATA
1 TCCATCCAAAACACACCAGAATA
79727131 GCATAGAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (29 bp):
TCCATCCAAAACACACCAGAATAATATAA
Found at i:79727299 original size:17 final size:17
Alignment explanation
Indices: 79727277--79727309 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
79727267 TTTTTTTATT
*
79727277 TCAATTTCATTTCCATG
1 TCAATTTCAATTCCATG
79727294 TCAATTTCAATTCCAT
1 TCAATTTCAATTCCAT
79727310 TTCAGTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.45
Consensus pattern (17 bp):
TCAATTTCAATTCCATG
Found at i:79727669 original size:14 final size:14
Alignment explanation
Indices: 79727650--79727676 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79727640 CTCTGTTTCT
79727650 TTTTGTTTCTTTTG
1 TTTTGTTTCTTTTG
79727664 TTTTGTTTCTTTT
1 TTTTGTTTCTTTT
79727677 TATTTTCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.81
Consensus pattern (14 bp):
TTTTGTTTCTTTTG
Found at i:79729527 original size:44 final size:40
Alignment explanation
Indices: 79729478--79729571 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 40
79729468 ATTAGATTAT
* *
79729478 ATTATATAGATAATATTTTTTTAAATAAATTACATAAATATTTA
1 ATTATATA-ATAATA-ATTTCTAAAT--ATTACATAAATATTTA
* *
79729522 ATTATATAATAATAATTTCTAAATTTTATATAAATATTTA
1 ATTATATAATAATAATTTCTAAATATTACATAAATATTTA
*
79729562 ATTAGATAAT
1 ATTATATAAT
79729572 GTATCCATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
40 23 0.51
42 8 0.18
43 6 0.13
44 8 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (40 bp):
ATTATATAATAATAATTTCTAAATATTACATAAATATTTA
Found at i:79732345 original size:3 final size:3
Alignment explanation
Indices: 79732330--79732362 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
79732320 TTCATCAATC
*
79732330 TAT TAT TAC TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
79732363 TTTTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:79753246 original size:38 final size:38
Alignment explanation
Indices: 79753195--79753275 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
79753185 GACAAATATA
* * * *
79753195 AAAAACCATAATTAATCCTAGTGACAATGGGTCAAAAC
1 AAAAACCACAATTAACCCCAATGACAATGGGTCAAAAC
* * *
79753233 AAAAACCACAATTAACCCCAATGACAATTGGTTAGAAC
1 AAAAACCACAATTAACCCCAATGACAATGGGTCAAAAC
79753271 AAAAA
1 AAAAA
79753276 TATTAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.19
Consensus pattern (38 bp):
AAAAACCACAATTAACCCCAATGACAATGGGTCAAAAC
Found at i:79753444 original size:343 final size:340
Alignment explanation
Indices: 79752586--79753564 Score: 1469
Period size: 341 Copynumber: 2.9 Consensus size: 340
79752576 CAAAACCTGT
** * *
79752586 AAAAATATTAAAAGATACAGTGAGTTTAATTACACAGTAAGTAACTAGCATTTCCCTTGGTTGGG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
* *
79752651 TTAAGCAAGCACAAAAGCATTTATGCTAAATATTTAGTAAAAAATCCATAATTTTAAAATTTATG
66 TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
* * *
79752716 GTTATACCACAATAAATAATTCAAAGCATATCCCGTGTTAAAACTGTGATAAAGACAAATCAAT-
131 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
*
79752780 A-TTCTGAAATACTGATAGATAAAAAAAATAACAACCCCATTTTTTATCCCTTAACCTCGATGAC
196 ATTTCTGAAATACTGATAGA-AAAAAAAATAAC-ACCCCATTTTTTATCCCTTAACCCCGATGAC
* * *
79752844 AAATGTCAAAAACCATAATTAACCCCAGTGGCAATGGGTCGAAACAAAAACCATAATTAACCCAA
259 AAATGT-AAAAACCATAATTAACCCCAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCAA
* ** *
79752909 ATGGCAATTTTTTGGAAC
323 ATGACAATTGGTTAGAAC
* * * *
79752927 AAAAGTATTAAAAGATGGAGTGAGCTTAACTACACAGTAAGTAACAAGCATTTCCCTTAGTTGAG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
*
79752992 TTAAGTAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
66 TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
*
79753057 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGATAAATCAATA
131 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
* * * * *
79753122 ATTTTTTAAATATTGATAGACAAAAAAAATAACGACTCCCTTTTTTTATCTCTTAACCCCGATGA
196 ATTTCTGAAATACTGATAGA-AAAAAAAATAAC-AC-CCCATTTTTTATCCCTTAACCCCGATGA
* * * *
79753187 CAAATATAAAAAACCATAATTAATCCTAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCC
258 CAAATGT-AAAAACCATAATTAACCCCAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCA
79753252 AATGACAATTGGTTAGAAC
322 AATGACAATTGGTTAGAAC
* **
79753271 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGCAAGTAACTATAATTTCCCTTGGTTGAG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
*
79753336 TTAAGCAAGCAC-AAAGCATTTAAGCTAAATATTTAGTAAAAAATCGATAATTGTAAAATTTATG
66 TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
* *
79753400 ATTATACCACAATAAATAATTCAAACCATATTCTGTGTCAAAACTGTGATAAAGACAAATCAATA
131 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
* * *
79753465 ATTTCTGAAATACTGATAGATAAAAAAATAACAGCACCCATTTTTTATCCCTTAGCCCCAATGAC
196 ATTTCTGAAATACTGATAGAAAAAAAAATAACA-C-CCCATTTTTTATCCCTTAACCCCGATGAC
* *
79753530 AAATGTCAAAACCACAATTAACCCCAGTGACAATG
259 AAATGTAAAAACCATAATTAACCCCAGTGACAATG
79753565 TAACACCCCT
Statistics
Matches: 573, Mismatches: 61, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
341 205 0.36
342 43 0.08
343 159 0.28
344 166 0.29
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (340 bp):
AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
ATTTCTGAAATACTGATAGAAAAAAAAATAACACCCCATTTTTTATCCCTTAACCCCGATGACAA
ATGTAAAAACCATAATTAACCCCAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCAAATG
ACAATTGGTTAGAAC
Found at i:79753993 original size:13 final size:13
Alignment explanation
Indices: 79753977--79754001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79753967 CGTGCCGATG
79753977 GCCCGTGTGACAA
1 GCCCGTGTGACAA
79753990 GCCCGTGTGACA
1 GCCCGTGTGACA
79754002 CGACCTAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
GCCCGTGTGACAA
Found at i:79758349 original size:15 final size:13
Alignment explanation
Indices: 79758320--79758346 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79758310 GCTCGGCAGG
79758320 GACACGCCCGTGT
1 GACACGCCCGTGT
79758333 GACACGCCCGTGT
1 GACACGCCCGTGT
79758346 G
1 G
79758347 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:79767213 original size:13 final size:13
Alignment explanation
Indices: 79767195--79767220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79767185 CTCGATAGGA
79767195 ACATGCCCGTGTG
1 ACATGCCCGTGTG
79767208 ACATGCCCGTGTG
1 ACATGCCCGTGTG
79767221 CGATTGCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGCCCGTGTG
Found at i:79781100 original size:38 final size:38
Alignment explanation
Indices: 79781046--79781119 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
79781036 GGTTGTTACA
*
79781046 GACAATAGGTCGAAACATAAACCACAATTAACCCCAGT
1 GACAATAGGTCAAAACATAAACCACAATTAACCCCAGT
*
79781084 GACAATGGGTCAAAACATAAACCACAATTAACCCCA
1 GACAATAGGTCAAAACATAAACCACAATTAACCCCA
79781120 ATGATAATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.15
Consensus pattern (38 bp):
GACAATAGGTCAAAACATAAACCACAATTAACCCCAGT
Found at i:79785039 original size:40 final size:39
Alignment explanation
Indices: 79784879--79785134 Score: 227
Period size: 39 Copynumber: 6.5 Consensus size: 39
79784869 AAATCACGTA
* * * **
79784879 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCGCACAAATG
* * * *
79784918 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAATG
* *
79784957 CCTTCGGGACTTAACCCGGATTTAATACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATG
*
79784996 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAATG
*
79785036 CCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCACAAATG
** * * *
79785075 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAATG
*
79785115 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
79785135 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 26, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
38 9 0.05
39 100 0.56
40 59 0.33
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATG
Found at i:79785143 original size:41 final size:41
Alignment explanation
Indices: 79785066--79785143 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
79785056 CTTGTATCTC
* * *
79785066 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
79785107 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
79785144 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:79792864 original size:39 final size:40
Alignment explanation
Indices: 79792819--79793043 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
79792809 GCTCCTCGTT
* * * *
79792819 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
79792859 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
79792898 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
79792938 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
79792978 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
79793019 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
79793044 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:79793052 original size:41 final size:41
Alignment explanation
Indices: 79792975--79793052 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
79792965 TTTGTATCTC
* * *
79792975 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
79793016 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
79793053 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:79795814 original size:20 final size:20
Alignment explanation
Indices: 79795789--79795829 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
79795779 CCTGCATGAT
**
79795789 ATAAATGCACTATCGACTTC
1 ATAAATGCAAGATCGACTTC
*
79795809 ATAAATGTAAGATCGACTTC
1 ATAAATGCAAGATCGACTTC
79795829 A
1 A
79795830 ATGGCTACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (20 bp):
ATAAATGCAAGATCGACTTC
Found at i:79799190 original size:20 final size:18
Alignment explanation
Indices: 79799149--79799191 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
79799139 TCTCAAATAT
* *
79799149 ATATACAAAGCATACTTC
1 ATATACAAAACATAATTC
79799167 ATATACAAAAACATAATTC
1 ATATAC-AAAACATAATTC
79799186 GATATA
1 -ATATA
79799192 TACTTCCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (18 bp):
ATATACAAAACATAATTC
Found at i:79802750 original size:39 final size:40
Alignment explanation
Indices: 79802705--79802927 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
79802695 GCTCCTCGTT
* * * *
79802705 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
79802745 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
79802784 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
79802824 CAAAGGCCTTCGGG-CTTAACCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
79802862 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
79802903 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
79802928 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.01
38 20 0.13
39 57 0.36
40 67 0.43
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:79802808 original size:79 final size:78
Alignment explanation
Indices: 79802705--79802927 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
79802695 GCTCCTCGTT
* * *
79802705 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
79802770 TTTAATAACTCGCA
66 ATT-ATAACTCGCA
* * * *
79802784 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
79802848 AATTGTATCTCGCA
65 AATTATAACTCGCA
* * * * * *
79802862 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
79802926 GA
64 GA
79802928 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 42 0.35
79 66 0.55
80 9 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
ATTATAACTCGCA
Found at i:79802936 original size:41 final size:41
Alignment explanation
Indices: 79802859--79802936 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
79802849 ATTGTATCTC
* * *
79802859 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
79802900 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
79802937 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:79810645 original size:39 final size:40
Alignment explanation
Indices: 79810600--79810823 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
79810590 GCTCCTCGTT
* * * *
79810600 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
79810640 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
79810679 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
79810719 CAAAGGCCTTCGGGGCTTAACCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
79810758 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
79810799 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
79810824 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 64 0.41
40 80 0.51
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:79810703 original size:79 final size:78
Alignment explanation
Indices: 79810600--79810823 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
79810590 GCTCCTCGTT
* * *
79810600 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
79810665 TTTAATAACTCGCA
66 ATT-ATAACTCGCA
* * * * *
79810679 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
79810744 AATTGTATCTCGCA
65 AATTATAACTCGCA
* * * * * *
79810758 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
79810822 GA
64 GA
79810824 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
78 3 0.03
79 89 0.74
80 28 0.23
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
ATTATAACTCGCA
Found at i:79810832 original size:41 final size:41
Alignment explanation
Indices: 79810755--79810832 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
79810745 ATTGTATCTC
* * *
79810755 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
79810796 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
79810833 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:79814402 original size:30 final size:30
Alignment explanation
Indices: 79814345--79814402 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
79814335 TATAATTTCA
*
79814345 TTTTATTTTTATTATAATTTGGCCCTAACC
1 TTTTATTTTTATTATAATTTAGCCCTAACC
* *
79814375 TTTTATTTTTGTT-TCAATTTAGTCCTAA
1 TTTTATTTTTATTAT-AATTTAGCCCTAA
79814403 TGATCATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.22, C:0.14, G:0.07, T:0.57
Consensus pattern (30 bp):
TTTTATTTTTATTATAATTTAGCCCTAACC
Found at i:79814595 original size:20 final size:20
Alignment explanation
Indices: 79814572--79814610 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
79814562 ATTTTAAATT
79814572 TTTTATATATAATTTATTTA
1 TTTTATATATAATTTATTTA
*
79814592 TTTTATATATTATTTATTT
1 TTTTATATATAATTTATTT
79814611 TTACTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATATATAATTTATTTA
Found at i:79814659 original size:33 final size:31
Alignment explanation
Indices: 79814622--79814699 Score: 77
Period size: 33 Copynumber: 2.4 Consensus size: 31
79814612 TACTATAAAC
79814622 ATTATTTATATATGTAAAAAATTTATTATATAT
1 ATTATTTATATATGT--AAAATTTATTATATAT
* **
79814655 ATTATTTTTATTTATGTATTATTTATTATATAT
1 ATTA--TTTATATATGTAAAATTTATTATATAT
*
79814688 TTTA-TTATATAT
1 ATTATTTATATAT
79814700 TTTATTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 7 0.18
33 21 0.55
35 10 0.26
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (31 bp):
ATTATTTATATATGTAAAATTTATTATATAT
Found at i:79814676 original size:17 final size:18
Alignment explanation
Indices: 79814643--79814804 Score: 99
Period size: 20 Copynumber: 8.7 Consensus size: 18
79814633 ATGTAAAAAA
79814643 TTTATTATATATATTATT
1 TTTATTATATATATTATT
*
79814661 TTTATT-TATGTATTATT
1 TTTATTATATATATTATT
*
79814678 TATTA-TATATTTTATTATATAT
1 T-TTATTATA-TATA-T-TAT-T
79814700 TTTATTATATAT-TATATCAT
1 TTTATTATATATAT-TAT--T
79814720 TTTATTATATATATTATT
1 TTTATTATATATATTATT
79814738 CATTATATTAT-T-T-TTA-T
1 --TT-TATTATATATATTATT
*
79814755 TTTATTATATATTATTTTAT
1 TTTATTATATA-TATTAT-T
79814775 TTTATTAT-T-TATTATT
1 TTTATTATATATATTATT
*
79814791 TATTATTATGTATA
1 T-TTATTATATATA
79814805 ATTTTAAAAA
Statistics
Matches: 118, Mismatches: 5, Indels: 41
0.72 0.03 0.25
Matches are distributed among these distances:
14 6 0.05
15 3 0.03
16 2 0.02
17 26 0.22
18 18 0.15
19 12 0.10
20 30 0.25
21 15 0.13
22 6 0.05
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTATTATATATATTATT
Found at i:79814679 original size:15 final size:16
Alignment explanation
Indices: 79814575--79814797 Score: 108
Period size: 17 Copynumber: 14.7 Consensus size: 16
79814565 TTAAATTTTT
*
79814575 TATATATAATTTATT-
1 TATATATTATTTATTA
*
79814590 TAT-T-TTATATATTA
1 TATATATTATTTATTA
*
79814604 T-T-TATT-TTTACTA
1 TATATATTATTTATTA
* *
79814617 TAAACATTATTTATATA
1 TATATATTATTTAT-TA
* * **
79814634 TGTAAAAAATTTATTA
1 TATATATTATTTATTA
79814650 TATATATTATTT-TTA
1 TATATATTATTTATTA
*
79814665 TTTATGTATTATTTA-T-
1 --TATATATTATTTATTA
79814681 TATATA-T-TTTATTA
1 TATATATTATTTATTA
*
79814695 TATATTTTA-TTA-TA
1 TATATATTATTTATTA
*
79814709 TATTATATCATTTTATTA
1 TA-TATATTA-TTTATTA
*
79814727 TATATATTATTCATTA
1 TATATATTATTTATTA
79814743 TAT-TATT-TTTATTTTA
1 TATATATTATTTA--TTA
79814759 TTATATATTA-TT-TTA
1 -TATATATTATTTATTA
*
79814774 T-TTTATTATTTATTA
1 TATATATTATTTATTA
79814789 T-T-TATTATT
1 TATATATTATT
79814798 ATGTATAATT
Statistics
Matches: 159, Mismatches: 25, Indels: 49
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.03
13 23 0.14
14 31 0.19
15 30 0.19
16 26 0.16
17 35 0.22
18 10 0.06
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (16 bp):
TATATATTATTTATTA
Found at i:79814681 original size:7 final size:7
Alignment explanation
Indices: 79814642--79814797 Score: 90
Period size: 7 Copynumber: 21.4 Consensus size: 7
79814632 TATGTAAAAA
79814642 ATTTATT
1 ATTTATT
*
79814649 ATATA-T
1 ATTTATT
79814655 A-TTATT
1 ATTTATT
79814661 -TTTATTT
1 ATTTA-TT
*
79814668 ATGTATT
1 ATTTATT
79814675 ATTTATT
1 ATTTATT
*
79814682 ATATATT
1 ATTTATT
*
79814689 TTATTATAT
1 AT-TTAT-T
79814698 ATTTTATT
1 A-TTTATT
*
79814706 ATATATT
1 ATTTATT
*
79814713 ATATCATT
1 AT-TTATT
*
79814721 TTATTATAT
1 AT-TTAT-T
79814730 ATATTATT
1 AT-TTATT
79814738 CATTATATT
1 -ATT-TATT
79814747 ATTT-TT
1 ATTTATT
79814753 ATTTTATT
1 A-TTTATT
*
79814761 ATATATT
1 ATTTATT
79814768 A-TT-TT
1 ATTTATT
79814773 ATTTTATT
1 A-TTTATT
79814781 ATTTATT
1 ATTTATT
79814788 ATTTATT
1 ATTTATT
79814795 ATT
1 ATT
79814798 ATGTATAATT
Statistics
Matches: 117, Mismatches: 16, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.04
6 10 0.09
7 56 0.48
8 27 0.23
9 18 0.15
10 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (7 bp):
ATTTATT
Found at i:79814693 original size:12 final size:12
Alignment explanation
Indices: 79814643--79814787 Score: 111
Period size: 12 Copynumber: 13.1 Consensus size: 12
79814633 ATGTAAAAAA
79814643 TTTATTATATAT
1 TTTATTATATAT
* *
79814655 ATTATT-TTTA-
1 TTTATTATATAT
79814665 TTTATGTAT-TA-
1 TTTAT-TATATAT
79814676 TTTATTATATAT
1 TTTATTATATAT
79814688 TTTATTATATAT
1 TTTATTATATAT
79814700 TTTATTATATA-
1 TTTATTATATAT
*
79814711 -TTA-TAT-CAT
1 TTTATTATATAT
79814720 TTTATTATATAT
1 TTTATTATATAT
*
79814732 ATTATTCAT-TAT
1 TTTATT-ATATAT
* *
79814744 ATTATT-TTTAT
1 TTTATTATATAT
79814755 TTTATTATATA-
1 TTTATTATATAT
79814766 -TTATT-T-TAT
1 TTTATTATATAT
*
79814775 TTTATTATTTAT
1 TTTATTATATAT
79814787 T
1 T
79814788 ATTTATTATT
Statistics
Matches: 110, Mismatches: 8, Indels: 30
0.74 0.05 0.20
Matches are distributed among these distances:
8 3 0.03
9 4 0.04
10 24 0.22
11 25 0.23
12 52 0.47
13 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (12 bp):
TTTATTATATAT
Found at i:79814705 original size:5 final size:5
Alignment explanation
Indices: 79814685--79814780 Score: 57
Period size: 5 Copynumber: 17.8 Consensus size: 5
79814675 ATTTATTATA
* * * * *
79814685 TATTT TATTAT ATATTT TATTA TATAT TATAT CATTT TATTAT ATATAT
1 TATTT TATT-T -TATTT TATTT TATTT TATTT TATTT TATT-T -TATTT
* * *
79814734 TATTCAT TATAT TATTTT TATTT TATTA TATAT TATTT TATTT TATT
1 TATT--T TATTT TA-TTT TATTT TATTT TATTT TATTT TATTT TATT
79814781 ATTTATTATT
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
5 51 0.73
6 8 0.11
7 11 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (5 bp):
TATTT
Found at i:79814709 original size:55 final size:52
Alignment explanation
Indices: 79814650--79814810 Score: 168
Period size: 55 Copynumber: 3.0 Consensus size: 52
79814640 AAATTTATTA
79814650 TATATATTATTTTTATTTATGTATTATTTATTATATATTTTATTATATATTTTAT
1 TATATATTA-TTTTATTTAT-TATTATTTATTAT-TATTTTATTATATATTTTAT
* * * *
79814705 TATATATTATATCATTTTATTATATATATTATTCATTATATTATT-TTTATTTTAT
1 TATATATTATTTTA-TTTATTAT-TAT-TTATT-ATTATTTTATTATATATTTTAT
79814760 TATATATTATTTTA-TT-TTATTATTTATTATTTATTATTATGTATA-ATTTTA
1 TATATATTATTTTATTTATTATTATTTATTA-TTATT-TTAT-TATATATTTTA
79814811 AAAATTTGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
49 1 0.01
50 9 0.10
51 7 0.08
52 11 0.12
53 3 0.03
54 6 0.07
55 38 0.42
56 13 0.14
57 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (52 bp):
TATATATTATTTTATTTATTATTATTTATTATTATTTTATTATATATTTTAT
Found at i:79815195 original size:18 final size:18
Alignment explanation
Indices: 79815172--79815206 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
79815162 ATCTCATAAA
79815172 TTATTTATTATTTTTATG
1 TTATTTATTATTTTTATG
*
79815190 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
79815207 ATATTTGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:79826540 original size:45 final size:45
Alignment explanation
Indices: 79826491--79827076 Score: 280
Period size: 45 Copynumber: 13.0 Consensus size: 45
79826481 AGATCACCGT
* *
79826491 TAGCAGATTTGGCGTCTTTGTATTAGACGGGGAGTAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
* * * * * *
79826536 TAGCAGATCTGACAT-TCGTGTTTTTACATC--GAAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTC-TG-TATTAGA-CGGGGAGCAGATCGAAGA
*
79826581 T-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGG
1 TAG-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
* * * * *
79826626 TAGCAGATCTT-ACAT-TCGTGTGTTTATATC--GAAGCAGATCGAAGA
1 TAGCAGAT-TTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGA
79826671 T-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
1 TAG-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
* * * * * * * *
79826716 TAGTAGATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCAAAGA
1 TAGCAGATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGA
* * * *
79826761 T-GACAGATTCGGAGTCTCTATATTAGACGGGGAGTAGATCGAAGA
1 TAG-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
* * * * * * ** * * *
79826806 TAACAGATCTGACAT-TCGTGTGTT-TACATTGAAGTAGATCGAATA
1 TAGCAGATTTGGCGTCTC-TGTATTAGAC-GGGGAGCAGATCGAAGA
* *
79826851 T-GATAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGA
1 TAG-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
* * * * * * ** *
79826896 TAGCAAATCTGACATCGTGTGT-TTACATC--AAAGCAAATCGAAGA
1 TAGCAGATTTGGCGTC-TCTGTATTAGA-CGGGGAGCAGATCGAAGA
* *
79826940 T-GACAGATTTGGAGTCTCTGTATTAGACGAGGAGCAGATCGAAGA
1 TAG-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
* * * * * * *
79826985 TAGCAGATCTGACAT-TCGTGTGTT-TACGTCGAAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTC-TGTATTAGACG-GGGAGCAGATCGAAGA
* * * *
79827030 TAGAAGATTTGGCGTCTCTATATTTGACGGGGAGCAGATCAAAGA
1 TAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
79827075 TA
1 TA
79827077 TTAACATGGC
Statistics
Matches: 387, Mismatches: 111, Indels: 86
0.66 0.19 0.15
Matches are distributed among these distances:
43 9 0.02
44 57 0.15
45 280 0.72
46 38 0.10
47 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
TAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
Found at i:79826634 original size:90 final size:90
Alignment explanation
Indices: 79826494--79827076 Score: 900
Period size: 90 Copynumber: 6.5 Consensus size: 90
79826484 TCACCGTTAG
* * *
79826494 CAGATTTGGCGTCTTTGTATTAGACGGGGAGTAGATCGAAGATAGCAGATCTGACATTCGTGTTT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
79826559 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
79826584 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTTACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
*
79826649 TTATATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
*
79826674 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
*
79826739 TTACATCGAAGCAGATCAAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * * * *
79826764 CAGATTCGGAGTCTCTATATTAGACGGGGAGTAGATCGAAGATAACAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
* * *
79826829 TTACATTGAAGTAGATCGAATATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
79826854 TAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACA-TCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
* *
79826918 TTACATCAAAGCAAATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
79826943 CAGATTTGGAGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
*
79827008 TTACGTCGAAGCAGATCGAAGATAGA
66 TTACATCGAAGCAGATCGAAGAT-GA
* * *
79827034 -AGATTTGGCGTCTCTATATTTGACGGGGAGCAGATCAAAGATA
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATA
79827077 TTAACATGGC
Statistics
Matches: 446, Mismatches: 45, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
89 79 0.18
90 365 0.82
91 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:79828551 original size:29 final size:29
Alignment explanation
Indices: 79828519--79828575 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
79828509 TTTTAATCCT
*
79828519 TTTTAAATTTTTTATATATAATTTATTTA
1 TTTTAAATATTTTATATATAATTTATTTA
*
79828548 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATAATTTATTT
79828576 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATTTATTTA
Found at i:79828657 original size:23 final size:23
Alignment explanation
Indices: 79828627--79828782 Score: 116
Period size: 23 Copynumber: 7.0 Consensus size: 23
79828617 TATATTATTT
*
79828627 TTATTTATGTATTATTTATTATA
1 TTATTTATATATTATTTATTATA
* *
79828650 TTATTTATATTTTA-TTATATATT
1 TTATTTATATATTATTTAT-TATA
*
79828673 TTATTTATATTTTA-TTA-TATA
1 TTATTTATATATTATTTATTATA
*
79828694 TTA--TATCATTTTA-TTATATATA
1 TTATTTAT-ATATTATTTAT-TATA
* *
79828716 TTATTCATTATATTATTT-TTATT
1 TTATTTA-TATATTATTTATTATA
*
79828739 TTA-TTATATATTATATTATTTTA
1 TTATTTATATATTAT-TTATTATA
79828762 TTATTTAT-TATT-TATTATTAT
1 TTATTTATATATTAT-TTATTAT
79828783 GTATAATTTT
Statistics
Matches: 111, Mismatches: 11, Indels: 23
0.77 0.08 0.16
Matches are distributed among these distances:
19 3 0.03
20 9 0.08
21 14 0.13
22 23 0.21
23 48 0.43
24 11 0.10
25 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (23 bp):
TTATTTATATATTATTTATTATA
Found at i:79828707 original size:62 final size:62
Alignment explanation
Indices: 79828641--79828793 Score: 171
Period size: 55 Copynumber: 2.6 Consensus size: 62
79828631 TTATGTATTA
79828641 TTTATTATATTATTTATATTTTATTATATATTTTATTTATATTTTATTATATATTATATCAT
1 TTTATTATATTATTTATATTTTATTATATATTTTATTTATATTTTATTATATATTATATCAT
* * * *
79828703 TTTATTATA-TATAT-TA-TTCA-T-TATA--TTATTTTTATTTTATTATATATTATATTAT
1 TTTATTATATTATTTATATTTTATTATATATTTTATTTATATTTTATTATATATTATATCAT
*
79828758 TTTATTATTTATTATTTAT-TATTATGTATA-ATTTTA
1 TTTATTA--TATTATTTATATTTTAT-TATATATTTTA
79828794 AAAATTTGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
55 35 0.47
57 6 0.08
58 5 0.07
59 6 0.08
60 2 0.03
61 6 0.08
62 11 0.15
63 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (62 bp):
TTTATTATATTATTTATATTTTATTATATATTTTATTTATATTTTATTATATATTATATCAT
Found at i:79828729 original size:78 final size:74
Alignment explanation
Indices: 79828625--79828772 Score: 215
Period size: 78 Copynumber: 1.9 Consensus size: 74
79828615 TATATATTAT
* * *
79828625 TTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATTTTATTTATATTTTATTA
1 TTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATA--TTATAT-TATTTTATTA
79828690 TATATTATATCA
63 TATATTATATCA
* *
79828702 TTTTATTATATATATTATTCATTATATTATTTTTATTTTATTATATATTATATTATTTTATTATT
1 TTTTATT-TATATATTATTCATTATATTATTTATATTTTATTATATATTATATTATTTTATTATA
79828767 TATTAT
65 TATTAT
79828773 TTATTATTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
75 17 0.26
76 5 0.08
77 7 0.11
78 36 0.55
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (74 bp):
TTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATATTATATTATTTTATTATAT
ATTATATCA
Done.