Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 210 of 235
Found at i:71547456 original size:47 final size:47
Alignment explanation
Indices: 71547332--71547528 Score: 234
Period size: 47 Copynumber: 4.1 Consensus size: 47
71547322 TATATATATT
* * *
71547332 TCACATTGACCATTCGGCTTTACCACATATATGCATATCTCATACATAT-T
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATAT-TC--ACAT-TCA
* * * *
71547382 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
* *
71547429 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
* * * *
71547476 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
71547523 TCACAT
1 TCACAT
71547529 AAAATCTTAA
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 95 0.71
49 2 0.02
50 35 0.26
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
Found at i:71550213 original size:47 final size:47
Alignment explanation
Indices: 71550170--71550265 Score: 167
Period size: 47 Copynumber: 2.0 Consensus size: 47
71550160 TTTAATTATT
71550170 AATTTATTATTTTACCCTTTAAAAAT-CATTAAAAGCTCCTAATTAAC
1 AATTTATTATTTTACCCTTT-AAAATCCATTAAAAGCTCCTAATTAAC
*
71550217 AATTTATTATTTTACCCTTTAAAATCCATTAAAAGTTCCTAATTAAC
1 AATTTATTATTTTACCCTTTAAAATCCATTAAAAGCTCCTAATTAAC
71550264 AA
1 AA
71550266 GCCTTCCACT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 5 0.11
47 42 0.89
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (47 bp):
AATTTATTATTTTACCCTTTAAAATCCATTAAAAGCTCCTAATTAAC
Found at i:71555628 original size:40 final size:41
Alignment explanation
Indices: 71555478--71555629 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 41
71555468 TATTACCACA
* * * *
71555478 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* * *
71555518 CGCACGAATGCTTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* *
71555558 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
*
71555598 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
71555630 TCATTCAAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
40 94 0.96
41 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
Found at i:71558462 original size:22 final size:22
Alignment explanation
Indices: 71558434--71558475 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
71558424 ACATTAACAT
71558434 TCAATTATATTGGCACAATAAA
1 TCAATTATATTGGCACAATAAA
*
71558456 TCAATTATATTGGCATAATA
1 TCAATTATATTGGCACAATA
71558476 CGTCCATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (22 bp):
TCAATTATATTGGCACAATAAA
Found at i:71565695 original size:26 final size:26
Alignment explanation
Indices: 71565665--71565716 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
71565655 GCATTTTTGA
71565665 TACCTTGATGGTAGGTGTCATTATGG
1 TACCTTGATGGTAGGTGTCATTATGG
71565691 TACCTTGATGGTAGGTGTCATTATGG
1 TACCTTGATGGTAGGTGTCATTATGG
71565717 ATAAGTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (26 bp):
TACCTTGATGGTAGGTGTCATTATGG
Found at i:71565945 original size:20 final size:22
Alignment explanation
Indices: 71565920--71565963 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
71565910 TTATGATTCA
71565920 TTGAATTGGT-TGTTT-TATGC
1 TTGAATTGGTATGTTTATATGC
71565940 TTGAATTGGTATGTTTATATGC
1 TTGAATTGGTATGTTTATATGC
71565962 TT
1 TT
71565964 TGGTTAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.55
Consensus pattern (22 bp):
TTGAATTGGTATGTTTATATGC
Found at i:71570548 original size:54 final size:54
Alignment explanation
Indices: 71570464--71570568 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
71570454 CTAAGGCACA
*
71570464 GGTGTTGGTGCAACCTGAGATAGGGAAAGAGTTTATAATTTACAGTGATGCGCC
1 GGTGTTGGTGCAACCTGAGACAGGGAAAGAGTTTATAATTTACAGTGATGCGCC
*
71570518 GGTGTTGGTGCAACCTGAGACAGGGGAAGAGTTTATAATTTACAGTGATGC
1 GGTGTTGGTGCAACCTGAGACAGGGAAAGAGTTTATAATTTACAGTGATGC
71570569 ATCGTTGAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (54 bp):
GGTGTTGGTGCAACCTGAGACAGGGAAAGAGTTTATAATTTACAGTGATGCGCC
Found at i:71573885 original size:51 final size:51
Alignment explanation
Indices: 71573803--71573933 Score: 156
Period size: 51 Copynumber: 2.6 Consensus size: 51
71573793 TATACACACG
* * * *
71573803 TGTGTAGTACTAAGTGCAGGTTACTACGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGA-AGATAATGGTCACA
* * ** *
71573854 TGTGTAGTACTATGTGCAGGCTACCATGTGTACCAGAAGGTTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGAAGATAATGGTCACA
*
71573905 TGTGTAGTACTATGTGCAGGCTACTACGT
1 TGTGTAGTACTATGTGCAGGCTACCACGT
71573934 CTATCGAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 66 0.97
52 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGAAGATAATGGTCACA
Found at i:71581538 original size:40 final size:40
Alignment explanation
Indices: 71581494--71581732 Score: 316
Period size: 40 Copynumber: 6.0 Consensus size: 40
71581484 GTAAATTATA
* * *
71581494 CCCTGACTGCACCTACGTGCCCCCGTTTGTACTTCGGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* * *
71581534 CCCTGACTGCACTTATGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* * *
71581574 CCCTAATTGCACTTACGTGCCCCTATTTGTACTTTGGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
** * *
71581614 CCCTGATTGCACTTACGTGCCATTTTTTGTACTTCAGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* * * *
71581654 CCTTGATTGCACTTACGTGCCCTTGTTTGTGCTTCGATAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
*
71581694 CCCTGATTGCACTTACGTGCCCCTGTTTATACTTCGGTA
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA
71581733 ATTTCAATCG
Statistics
Matches: 172, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (40 bp):
CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:71581718 original size:20 final size:20
Alignment explanation
Indices: 71581494--71581718 Score: 118
Period size: 20 Copynumber: 11.2 Consensus size: 20
71581484 GTAAATTATA
* *
71581494 CCCTGACTGCACCTACGTGC
1 CCCTGATTGCACTTACGTGC
* * * *
71581514 CCCCGTTTGTACTT-CGGTAC
1 CCCTGATTGCACTTAC-GTGC
* *
71581534 CCCTGACTGCACTTATGTGC
1 CCCTGATTGCACTTACGTGC
* * *
71581554 CCCTGTTTGTACTT-CAGTAC
1 CCCTGATTGCACTTAC-GTGC
*
71581574 CCCTAATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
* ** *
71581594 CCCT-ATTTGTACTTTGGTAC
1 CCCTGA-TTGCACTTACGTGC
71581614 CCCTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
** ** * *
71581634 CATTTTTTGTACTT-CAGTAC
1 CCCTGATTGCACTTAC-GTGC
*
71581654 CCTTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
* * ** *
71581674 CCTTGTTTGTGCTT-CGATAC
1 CCCTGATTGCACTTACG-TGC
71581694 CCCTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
71581714 CCCTG
1 CCCTG
71581719 TTTATACTTC
Statistics
Matches: 146, Mismatches: 49, Indels: 20
0.68 0.23 0.09
Matches are distributed among these distances:
19 5 0.03
20 136 0.93
21 5 0.03
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCTGATTGCACTTACGTGC
Found at i:71582304 original size:12 final size:12
Alignment explanation
Indices: 71582287--71582315 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
71582277 TCAGGTAGTT
71582287 ACACGGCCTAGC
1 ACACGGCCTAGC
71582299 ACACGGCCTAGC
1 ACACGGCCTAGC
71582311 ACACG
1 ACACG
71582316 AGCGTGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.41, G:0.24, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:71583307 original size:23 final size:21
Alignment explanation
Indices: 71583277--71583320 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
71583267 CATGAGAATG
71583277 TCAATGCAAAGCTTTTTCAAAAA
1 TCAATGC-AAG-TTTTTCAAAAA
*
71583300 TCAATGCATGTTTTTCAAAAA
1 TCAATGCAAGTTTTTCAAAAA
71583321 CATTCCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (21 bp):
TCAATGCAAGTTTTTCAAAAA
Found at i:71583597 original size:42 final size:42
Alignment explanation
Indices: 71583538--71583630 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
71583528 ATATTTTTAG
* *
71583538 TGGCATGCTTAACATGTGAATCAAATTTATAATCAACATAGT
1 TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
* *
71583580 TGGCATGCTAAACATGTGAATCAAATTTATAATTAATACAGT
1 TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
71583622 TGGCATGCT
1 TGGCATGCT
71583631 TAATATGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (42 bp):
TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
Found at i:71588540 original size:27 final size:27
Alignment explanation
Indices: 71588510--71588687 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71588500 ATATTGAGTC
* * * *
71588510 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
71588537 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71588564 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
71588592 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
71588619 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
71588646 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71588673 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71588688 GTTCAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:71588649 original size:82 final size:81
Alignment explanation
Indices: 71588531--71588686 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71588521 TGCTATATAA
* *
71588531 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
71588596 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
71588613 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
71588677 CACTTAGTGC
65 CACTTAGTGC
71588687 TGTTCAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:71605735 original size:51 final size:51
Alignment explanation
Indices: 71605659--71605761 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
71605649 TTGTTATTGT
*
71605659 GTTCATTGATGATATATTGATATATTTGAGAGATGAAATTGAGAATGCCGA
1 GTTCATTGATGATATATTGATATATTTGAAAGATGAAATTGAGAATGCCGA
*
71605710 GTTCATTGATGATATATTGATATATTTGAAAGATGAAATTGATAATGCCGA
1 GTTCATTGATGATATATTGATATATTTGAAAGATGAAATTGAGAATGCCGA
71605761 G
1 G
71605762 CATTTGAGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (51 bp):
GTTCATTGATGATATATTGATATATTTGAAAGATGAAATTGAGAATGCCGA
Found at i:71607365 original size:40 final size:39
Alignment explanation
Indices: 71607312--71607497 Score: 300
Period size: 40 Copynumber: 4.7 Consensus size: 39
71607302 ACTACTTGCT
71607312 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
71607352 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
71607392 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * *
71607432 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
71607472 CAAATGCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
71607498 TATCATCCGA
Statistics
Matches: 140, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:71617356 original size:51 final size:51
Alignment explanation
Indices: 71617296--71617399 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
71617286 ATTTCATTCC
*
71617296 ACTTTTCACATTTATCAACTTGTGGTTATCTCATTTTGTACATTGACACAT
1 ACTTTTCACATTTATCAACTTGTGGTTATCTCATTTTGTACATTAACACAT
71617347 ACTTTTCACATTTATCAACTTGTGGTTATCTCATTTTGTACATTAACACAT
1 ACTTTTCACATTTATCAACTTGTGGTTATCTCATTTTGTACATTAACACAT
71617398 AC
1 AC
71617400 ATATCGTGAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (51 bp):
ACTTTTCACATTTATCAACTTGTGGTTATCTCATTTTGTACATTAACACAT
Found at i:71621593 original size:28 final size:28
Alignment explanation
Indices: 71621553--71621661 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
71621543 TGAGAAGTAG
71621553 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
71621581 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
71621609 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
71621637 TTGGGCTTGAAAGGGCCAAATGAAT
1 TTGGGCCTG-ATGGGCCATATGAAT
71621662 AAGTGTGGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 61 0.85
29 11 0.15
ACGTcount: A:0.24, C:0.15, G:0.36, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:71622011 original size:37 final size:37
Alignment explanation
Indices: 71621959--71622032 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
71621949 CATAATAATA
*
71621959 AAAAATTACCGAAATACCCCTA-ATTTGTAAAATTATC
1 AAAAATTACCAAAATA-CCCTAGATTTGTAAAATTATC
*
71621996 AAAAATTACTAAAATACCCTAGATTTGTAAAATTATC
1 AAAAATTACCAAAATACCCTAGATTTGTAAAATTATC
71622033 GGAATACCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 5 0.15
37 29 0.85
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.31
Consensus pattern (37 bp):
AAAAATTACCAAAATACCCTAGATTTGTAAAATTATC
Found at i:71622122 original size:27 final size:28
Alignment explanation
Indices: 71621997--71622123 Score: 129
Period size: 27 Copynumber: 4.7 Consensus size: 28
71621987 AAAATTATCA
*
71621997 AAAATTACTAAAATACCCT-AGATTTGT
1 AAAATTACTGAAATACCCTCAGATTTGT
*
71622024 AAAATTA-TCGGAATACCCTCAG-TTTGT
1 AAAATTACT-GAAATACCCTCAGATTTGT
* * *
71622051 GAAATTACCGAAACACCCTC-GATTTGT
1 AAAATTACTGAAATACCCTCAGATTTGT
* *
71622078 AAAATCACTGAAACACCC-CAGATTTGT
1 AAAATTACTGAAATACCCTCAGATTTGT
* *
71622105 AAAATTATTGAAGTACCCT
1 AAAATTACTGAAATACCCT
71622124 TATAGTGTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
26 3 0.04
27 76 0.94
28 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (28 bp):
AAAATTACTGAAATACCCTCAGATTTGT
Found at i:71622132 original size:27 final size:27
Alignment explanation
Indices: 71622102--71622190 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
71622092 ACCCCAGATT
* *
71622102 TGTAAAATTATTGAAGTACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTATAG
*
71622129 TGTAAAACTATCGAAATACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTATAG
* * * * *
71622156 TGTAAAATGACCGACATACCCGTGTAG
1 TGTAAAATTATCGAAATACCCTTATAG
*
71622183 GGTAAAAT
1 TGTAAAAT
71622191 GACTATTTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTATAG
Found at i:71622144 original size:81 final size:81
Alignment explanation
Indices: 71621997--71622150 Score: 177
Period size: 81 Copynumber: 1.9 Consensus size: 81
71621987 AAAATTATCA
* * * * * *
71621997 AAAATTACTAAAATACCCTAGATTTGTAAAATTATCGGAATACCCTCAGTTTGTGAAATTACCGA
1 AAAATCACTAAAACACCCCAGATTTGTAAAATTATCGGAATACCCTCAGTGTGTAAAACTACCGA
71622062 AACACCCTCGATTTGT
66 AACACCCTCGATTTGT
* * * *
71622078 AAAATCACTGAAACACCCCAGATTTGTAAAATTAT-TGAAGTACCCTTA-TAGTGTAAAACTATC
1 AAAATCACTAAAACACCCCAGATTTGTAAAATTATCGGAA-TACCCTCAGT-GTGTAAAACTACC
*
71622141 GAAATACCCT
64 GAAACACCCT
71622151 TATAGTGTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
80 4 0.07
81 56 0.93
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (81 bp):
AAAATCACTAAAACACCCCAGATTTGTAAAATTATCGGAATACCCTCAGTGTGTAAAACTACCGA
AACACCCTCGATTTGT
Found at i:71622667 original size:11 final size:11
Alignment explanation
Indices: 71622651--71622676 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71622641 ATTGCATGTA
71622651 TGATATTATTG
1 TGATATTATTG
71622662 TGATATTATTG
1 TGATATTATTG
71622673 TGAT
1 TGAT
71622677 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:71625049 original size:28 final size:28
Alignment explanation
Indices: 71625016--71625072 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
71625006 TTGTTTGGCT
* * *
71625016 TGATGGGTCATATGAATGTGATTGGGCC
1 TGATGGGCCATATGAACGAGATTGGGCC
*
71625044 TGATGGGCCATGTGAACGAGATTGGGCC
1 TGATGGGCCATATGAACGAGATTGGGCC
71625072 T
1 T
71625073 AAAGGGGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.28
Consensus pattern (28 bp):
TGATGGGCCATATGAACGAGATTGGGCC
Found at i:71625419 original size:27 final size:27
Alignment explanation
Indices: 71625389--71625621 Score: 194
Period size: 27 Copynumber: 8.7 Consensus size: 27
71625379 TAATAAAGAG
* *
71625389 AAATTACTGAAATACCC-CTAATTTGTA
1 AAATTACTGAAACACCCTC-GATTTGTA
* * *
71625416 AAATTA-TCAAAATACCC-CTGATTTGTG
1 AAATTACT-GAAACACCCTC-GATTTGTA
*
71625443 AAATTACTGAAACACACTCGATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
* ** *
71625470 AAATTA-TCGAAACACCATTAATTTTTA
1 AAATTACT-GAAACACCCTCGATTTGTA
71625497 AAATTA-TAGAAACACCCTCGA-TTGTA
1 AAATTACT-GAAACACCCTCGATTTGTA
* *
71625523 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
71625550 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
* * *
71625577 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAACACCCTCGAT-TTGTA
* *
71625604 AAATTACCGAAATACCCT
1 AAATTACTGAAACACCCT
71625622 TGTAGTGTAA
Statistics
Matches: 172, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
26 26 0.15
27 144 0.84
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAACACCCTCGATTTGTA
Found at i:71625604 original size:54 final size:55
Alignment explanation
Indices: 71625389--71625621 Score: 255
Period size: 54 Copynumber: 4.3 Consensus size: 55
71625379 TAATAAAGAG
* * * * * *
71625389 AAATTACTGAAATACCC-CTAATTTGTAAAATTATCAAAATACCCCTG-ATTTGTG
1 AAATTACTGAAACACCCTC-GATTTGTAAAATTATCGAAACACCCTTGAATTTGTA
* * *
71625443 AAATTACTGAAACACACTCGATTTGTAAAATTATCGAAACACCATT-AATTTTTA
1 AAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAACACCCTTGAATTTGTA
* *
71625497 AAATTA-TAGAAACACCCTCGA-TTGTAAAATTACCGAAACACCC-TCAATTTGTA
1 AAATTACT-GAAACACCCTCGATTTGTAAAATTATCGAAACACCCTTGAATTTGTA
* * *
71625550 AAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGTA-GTGTA
1 AAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAACACCCTTGAATTTGTA
* *
71625604 AAATTACCGAAATACCCT
1 AAATTACTGAAACACCCT
71625622 TGTAGTGTAA
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
52 1 0.01
53 47 0.31
54 101 0.66
55 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (55 bp):
AAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAACACCCTTGAATTTGTA
Found at i:71625622 original size:27 final size:27
Alignment explanation
Indices: 71625519--71625653 Score: 121
Period size: 27 Copynumber: 5.0 Consensus size: 27
71625509 CACCCTCGAT
* ** *
71625519 TGTAAAATTACCGAAACACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
71625546 TGTAAAATTACTGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
71625573 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
71625600 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
71625627 TGTAAAATGACTGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
71625654 GCTTGAGGGT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
27 92 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:71625640 original size:81 final size:80
Alignment explanation
Indices: 71625409--71625640 Score: 193
Period size: 80 Copynumber: 2.9 Consensus size: 80
71625399 AATACCCCTA
* * * * * * *
71625409 ATTTGTAAAATTATCA-AAATACCC-CTGATTTGTGAAATTACTGAAACACACTCGATTTGTAAA
1 ATTTGTAAAATTAT-AGAAACACCCTC-GA-GTGTAAAATTACCGAAACACCCTCAATGTGTAAA
* * **
71625472 ATTA-TCGAAACACCATTA
63 ATGACT-GAAACACCCTCG
* * * *
71625490 ATTTTTAAAATTATAGAAACACCCTCGATTGTAAAATTACCGAAACACCCTCAATTTGTAAAATT
1 ATTTGTAAAATTATAGAAACACCCTCGAGTGTAAAATTACCGAAACACCCTCAATGTGTAAAATG
71625555 ACTGAAACACCCTCG
66 ACTGAAACACCCTCG
* * * * **
71625570 ATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCGAAATACCCT-TGTAGTGTAAAA
1 ATTTGTAAAATTATAGAAACACCCTCG-AGTGTAAAATTACCGAAACACCCTCAAT-GTGTAAAA
71625634 TGACTGA
64 TGACTGA
71625641 CATACCCCTG
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
80 68 0.54
81 58 0.46
82 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (80 bp):
ATTTGTAAAATTATAGAAACACCCTCGAGTGTAAAATTACCGAAACACCCTCAATGTGTAAAATG
ACTGAAACACCCTCG
Found at i:71632151 original size:29 final size:28
Alignment explanation
Indices: 71632077--71632161 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 28
71632067 AGACGATCCC
71632077 TTCAGAGTTCACCAT-AAAGGCATTCTT
1 TTCAGAGTTCACCATAAAAGGCATTCTT
* * * *
71632104 TTCAGA-TACTGCCACAAAAGGCTATTTTT
1 TTCAGAGTTC-ACCATAAAAGGC-ATTCTT
**
71632133 TTCAGAGTTCACCATAAAAGTTATTCTT
1 TTCAGAGTTCACCATAAAAGGCATTCTT
71632161 T
1 T
71632162 ACTATCATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
26 2 0.05
27 9 0.20
28 12 0.27
29 19 0.43
30 2 0.05
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (28 bp):
TTCAGAGTTCACCATAAAAGGCATTCTT
Found at i:71635599 original size:43 final size:42
Alignment explanation
Indices: 71635538--71635693 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
71635528 ATGTGTTCTC
*
71635538 GTGTAAGACCAGGTCTGGGACGTTGGCATCGATTTGTGATTA
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGTGATTA
* * * *
71635580 TGTGTAAGACCATGTCTGGGACATCGACATCG-TATT-TGATTC
1 -GTGTAAGACCATGTCTGGGACGTTGGCATCGAT-TTGTGATTA
* * * *
71635622 GTGTAAGACCCTGTCTGGGATAG-TGGCATCGATATGAGA-TA
1 GTGTAAGACCATGTCTGGGA-CGTTGGCATCGATTTGTGATTA
***
71635663 GCATGTAAGACCGCATCTGGGACGTTGGCAT
1 G--TGTAAGACCATGTCTGGGACGTTGGCAT
71635694 TGTTTGATAT
Statistics
Matches: 89, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 28 0.31
42 10 0.11
43 51 0.57
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGTGATTA
Found at i:71639110 original size:28 final size:29
Alignment explanation
Indices: 71639077--71639177 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
71639067 TATAGTAAGT
* * *
71639077 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
71639105 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
71639134 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
71639163 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71639178 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:71652967 original size:15 final size:15
Alignment explanation
Indices: 71652947--71652983 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
71652937 TATAAATTTA
71652947 AAAAATAAAT-ATATT
1 AAAAATAAATAATA-T
71652962 AAAAATAAATAATAT
1 AAAAATAAATAATAT
71652977 AAAAATA
1 AAAAATA
71652984 TACAGTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATAAATAATAT
Found at i:71656081 original size:24 final size:24
Alignment explanation
Indices: 71656054--71656105 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
71656044 TTAGTAAGTC
*
71656054 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
71656078 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
71656102 AAAT
1 AAAT
71656106 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:71658651 original size:22 final size:22
Alignment explanation
Indices: 71658626--71658737 Score: 118
Period size: 22 Copynumber: 5.0 Consensus size: 22
71658616 TGCAATTCGA
71658626 TGCCTACTGATTTGCACTACAG
1 TGCCTACTGATTTGCACTACAG
* *
71658648 TGCCTACTG-TTCTGCACTTCGG
1 TGCCTACTGATT-TGCACTACAG
* **
71658670 TGCCTACTAATTGTGCACTATGG
1 TGCCTACTGATT-TGCACTACAG
* *
71658693 TGCCTACTGTTTTGTACTACAG
1 TGCCTACTGATTTGCACTACAG
* *
71658715 TGCCTTCTGATTTGTACTACAG
1 TGCCTACTGATTTGCACTACAG
71658737 T
1 T
71658738 ACCTGTTGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
21 2 0.03
22 53 0.71
23 20 0.27
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (22 bp):
TGCCTACTGATTTGCACTACAG
Found at i:71660849 original size:528 final size:530
Alignment explanation
Indices: 71659848--71660896 Score: 1796
Period size: 528 Copynumber: 2.0 Consensus size: 530
71659838 CCTGTGCTCT
**
71659848 GTATTATCAAGGTGGTTTTGGTTGAACAATGTCATAATCTGTAACGGCCCTCACCCGTATTCAAC
1 GTATTATCAAGGTGGTTTTGGTTGAACAATGTCATAATCTGTAACACCCCTCACCCGTATTCAAC
*
71659913 GCCGGAATAGGGTTACAGAACATTACTGAACTTATAAAACATTTAAACATTCAATTCACATATAA
66 GCCGAAATAGGGTTACAGAACATTACTGAACTTATAAAACATTTAAACATTCAATTCACATATAA
71659978 TTTCACATTTCATGCAAACATTATTCAAACTCAAACATAATCCCTATAACGAGCCTACGAGGCCC
131 TTTCACATTTCATGCAAACATTATTCAAACTCAAACATAATCCCTATAACGAGCCTACGAGGCCC
*
71660043 TAAACATGCCTTGAGAGTGGTTCAGGACTAAACAGATAACTTAGGAAACGTTCACGGAACCTTGA
196 TAAACATGCCTTGAGAGTGGTTCAGGACTAAACAGATAACTTAGGAAACGTTCACGAAACCTTGA
* * *
71660108 AAATTTTTCTTAAAAACAGGGGTCATACGCTCGTGTGGTCCGGCGTGTGAGACACGCCCTTGTCA
261 AAATTTTTCTCAAAAACAGGGGTCATACGCTCGTGTGGTCCGACGTGTGAGACACGCCCGTGTCA
71660173 CAAGCCGTGTGGACATTCGAAACGAGAGCACATAACCGTGTACCAGTCCATGTCTGACCCCGTGT
326 CAAGCCGTGTGGACATTCGAAACGAGAGCACATAACCGTGTACCAGTCCATGTCTGACCCCGTGT
**
71660238 AACTCTCTGACTTGGGTCATACGGAAAACACACACGTTCGTGTGCCCTAAAAATGGCCATACACG
391 AACTCTCTGACTTGGGTCATACGGAAAACACACACACTCGTGTGCCCTAAAAATGGCCATACACG
* * *
71660303 CCCGTGTGCCAGGCCGTGCCAAACCTGTAGGGTATACTGACTTATGCCACATGGCCAAGTCACAC
456 CCCGCGTGCCAAGCCGTGCCAAACCTGTAGGGTATACTGACTTATGCCACACGGCCAAGTCACAC
71660368 CCCGTACTCC
521 CCCGTACTCC
71660378 GTATTATCAAGGTGGTTTTGGTTGAACAATGTCATAATCTGTAACACCCCTCACCCGTATTCAAC
1 GTATTATCAAGGTGGTTTTGGTTGAACAATGTCATAATCTGTAACACCCCTCACCCGTATTCAAC
* *
71660443 TCCGAAATAGGGTTACA-AGCATTACTGAACTTATAAAACATTTAAACATTCAATTCACATATAA
66 GCCGAAATAGGGTTACAGAACATTACTGAACTTATAAAACATTTAAACATTCAATTCACATATAA
* * *
71660507 TTTCACATTTCATGCAAACATTATTCAAACTCAAGCATAATTCCTATAATGAGCCTACGAGG-CC
131 TTTCACATTTCATGCAAACATTATTCAAACTCAAACATAATCCCTATAACGAGCCTACGAGGCCC
* * * *
71660571 TAAACATGTCTTGGGAGTGGTTCAGGACTAAACCGATAACTTAGGAAATGTTCACGAAACCTTGA
196 TAAACATGCCTTGAGAGTGGTTCAGGACTAAACAGATAACTTAGGAAACGTTCACGAAACCTTGA
* * *
71660636 AATTTTTTCTCAAAAACTGGGGTCATACGCTCGTGTGGTCTGACGTGTGAGACACGCCCGTGTCA
261 AAATTTTTCTCAAAAACAGGGGTCATACGCTCGTGTGGTCCGACGTGTGAGACACGCCCGTGTCA
* * *
71660701 CAAGCCGTGTGGACATTCGAAACGAGAGCACATAACCGTTTACCAGTCCGTGTCTGACCTCGTGT
326 CAAGCCGTGTGGACATTCGAAACGAGAGCACATAACCGTGTACCAGTCCATGTCTGACCCCGTGT
**
71660766 AACTCTCTGACTTGGGTCATACGGCCAACACACACACTCGTGTGCCCTAAAAATGGCCATACACG
391 AACTCTCTGACTTGGGTCATACGGAAAACACACACACTCGTGTGCCCTAAAAATGGCCATACACG
* * *
71660831 CTCGCGTGCCAAGCCGTGCCAAACTTGTAGGGTATACTGACTTATGCCACACGGCCCAGTCACAC
456 CCCGCGTGCCAAGCCGTGCCAAACCTGTAGGGTATACTGACTTATGCCACACGGCCAAGTCACAC
71660896 C
521 C
71660897 TCGTGTGTGA
Statistics
Matches: 487, Mismatches: 32, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
528 304 0.62
529 105 0.22
530 78 0.16
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (530 bp):
GTATTATCAAGGTGGTTTTGGTTGAACAATGTCATAATCTGTAACACCCCTCACCCGTATTCAAC
GCCGAAATAGGGTTACAGAACATTACTGAACTTATAAAACATTTAAACATTCAATTCACATATAA
TTTCACATTTCATGCAAACATTATTCAAACTCAAACATAATCCCTATAACGAGCCTACGAGGCCC
TAAACATGCCTTGAGAGTGGTTCAGGACTAAACAGATAACTTAGGAAACGTTCACGAAACCTTGA
AAATTTTTCTCAAAAACAGGGGTCATACGCTCGTGTGGTCCGACGTGTGAGACACGCCCGTGTCA
CAAGCCGTGTGGACATTCGAAACGAGAGCACATAACCGTGTACCAGTCCATGTCTGACCCCGTGT
AACTCTCTGACTTGGGTCATACGGAAAACACACACACTCGTGTGCCCTAAAAATGGCCATACACG
CCCGCGTGCCAAGCCGTGCCAAACCTGTAGGGTATACTGACTTATGCCACACGGCCAAGTCACAC
CCCGTACTCC
Found at i:71662030 original size:29 final size:29
Alignment explanation
Indices: 71661998--71662074 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
71661988 AATACTGATA
*
71661998 TCATGGCCCGAAGCCAAATCAGCAAATAT
1 TCATGGCCCGAAGCCAAATCAACAAATAT
* **
71662027 TCATGTCCCGAAGCCAAATCAACCGATAT
1 TCATGGCCCGAAGCCAAATCAACAAATAT
*
71662056 TCATGGCCCGAATCCAAAT
1 TCATGGCCCGAAGCCAAAT
71662075 TGGTATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (29 bp):
TCATGGCCCGAAGCCAAATCAACAAATAT
Found at i:71662726 original size:21 final size:20
Alignment explanation
Indices: 71662692--71662730 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
71662682 AAACTTGTAT
71662692 ATCTATCAACAAGCATTCATA
1 ATCTATCAACAAGC-TTCATA
* *
71662713 ATCTATTAAGAAGCTTCA
1 ATCTATCAACAAGCTTCA
71662731 AAAAACATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAGCTTCATA
Found at i:71663536 original size:9 final size:9
Alignment explanation
Indices: 71663474--71663546 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
71663464 AAAGTAAAAT
*
71663474 AAAGAAATA
1 AAAGAAAGA
*
71663483 AAAAAAAGA
1 AAAGAAAGA
*
71663492 AAAAAAAGA
1 AAAGAAAGA
71663501 GAAAGAAATGA
1 -AAAGAAA-GA
**
71663512 AACAG-GGGA
1 AA-AGAAAGA
71663521 GAAAGAAAGA
1 -AAAGAAAGA
71663531 AAAGAAAG-
1 AAAGAAAGA
71663539 AAAGAAAG
1 AAAGAAAG
71663547 GGAAATTAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 8 0.15
9 28 0.54
10 12 0.23
11 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.23, T:0.03
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:71663538 original size:13 final size:13
Alignment explanation
Indices: 71663520--71663545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71663510 GAAACAGGGG
71663520 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
71663533 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
71663546 GGGAAATTAG
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:71665797 original size:43 final size:42
Alignment explanation
Indices: 71665694--71665814 Score: 134
Period size: 43 Copynumber: 2.9 Consensus size: 42
71665684 TAGGGTTACT
* **
71665694 GAGACTACGTGTAAGACCATATCTGGGATATGACATCAATGT
1 GAGATTACGTGTAAGACCATATCTGGGATATGACATCAATAC
* * * * * *
71665736 GAGATTTCGTATAAGACCATAGCTGGGTTATTGGCATCGATAC
1 GAGATTACGTGTAAGACCATATCTGGGATA-TGACATCAATAC
* *
71665779 GAGATTACATGTAAGACCATATCTGGGATAAGACAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGACAT
71665815 TGGTACGATA
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGACATCAATAC
Found at i:71672216 original size:30 final size:29
Alignment explanation
Indices: 71672173--71672233 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
71672163 CAAGTAGCCG
*
71672173 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
71672202 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
71672232 AA
1 AA
71672234 ACTTCCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:71677899 original size:42 final size:42
Alignment explanation
Indices: 71677848--71677947 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
71677838 AGACTACGTG
* *
71677848 TAAGACCATATCTGGGATATGGCATCGATGTGAGATTTCGTA
1 TAAGACCATATCTGGGATATGACATCGATATGAGATTTCGTA
* *
71677890 TAATACCATATCTGGGATATGACATCGATATGAGATTTCGTG
1 TAAGACCATATCTGGGATATGACATCGATATGAGATTTCGTA
*
71677932 TAAGACCATAGCTGGG
1 TAAGACCATATCTGGG
71677948 CCATTAGCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGACATCGATATGAGATTTCGTA
Found at i:71679310 original size:35 final size:35
Alignment explanation
Indices: 71679271--71679343 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
71679261 TTGGTATGTG
71679271 ATGTTCATAATTGTAAATGGTTTGGTTAAACTTAC
1 ATGTTCATAATTGTAAATGGTTTGGTTAAACTTAC
*
71679306 ATGTTCATAATTGTAAATGGTTTGGTTAATCTTAC
1 ATGTTCATAATTGTAAATGGTTTGGTTAAACTTAC
71679341 ATG
1 ATG
71679344 ATTGAATTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (35 bp):
ATGTTCATAATTGTAAATGGTTTGGTTAAACTTAC
Found at i:71680071 original size:18 final size:18
Alignment explanation
Indices: 71680034--71680073 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
71680024 TTTTTGAACA
* *
71680034 TGAATTGAATTGGGATAT
1 TGAATTGAATTAGGAAAT
*
71680052 TGAATTGAATTATGAAAT
1 TGAATTGAATTAGGAAAT
71680070 TGAA
1 TGAA
71680074 AAGTATGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (18 bp):
TGAATTGAATTAGGAAAT
Found at i:71683496 original size:92 final size:92
Alignment explanation
Indices: 71683339--71683883 Score: 1009
Period size: 92 Copynumber: 5.9 Consensus size: 92
71683329 TTTGACATGA
* * * * * * *
71683339 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
71683404 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATGTCACGC
71683431 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
71683496 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATGTCACGC
71683523 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
71683588 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATGTCACGC
71683615 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
71683680 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATGTCACGC
71683707 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
71683772 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATGTCACGC
71683799 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
**
71683864 CATGGTCTTACACATTTCAT
66 CATGGTCTTATTCATTTCAT
71683884 ATCAGAGAGC
Statistics
Matches: 444, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 444 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATGTCACGC
Found at i:71683881 original size:46 final size:46
Alignment explanation
Indices: 71683334--71683873 Score: 801
Period size: 46 Copynumber: 11.7 Consensus size: 46
71683324 TTATCTTTGA
* * * * * *
71683334 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
71683380 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * *
71683426 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
71683472 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * *
71683518 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
71683564 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * *
71683610 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
71683656 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * *
71683702 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
71683748 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * *
71683794 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
71683840 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
71683874 CACATTTCAT
Statistics
Matches: 440, Mismatches: 54, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 440 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:71688209 original size:35 final size:35
Alignment explanation
Indices: 71688147--71688232 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
71688137 ATTTTATTTT
*
71688147 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
71688180 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
71688216 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
71688233 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:71688218 original size:25 final size:23
Alignment explanation
Indices: 71688174--71688234 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
71688164 TGATATTTAA
*
71688174 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
71688198 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
71688223 ATATTATTAAAT
1 ATATAATTAAAT
71688235 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:71689581 original size:6 final size:6
Alignment explanation
Indices: 71689570--71689604 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
71689560 ATGTGCCGAC
*
71689570 TACTGT TACTGT TACAGT TACTGT TACTGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
71689605 ATTCGACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:71691475 original size:20 final size:19
Alignment explanation
Indices: 71691450--71691488 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
71691440 GTGCGTCTGC
71691450 TTCTTTCCTTCTTTCTCTTT
1 TTCTTTCCTTCTTT-TCTTT
*
71691470 TTCTTTCTTTCTTTTCTTT
1 TTCTTTCCTTCTTTTCTTT
71691489 CTAATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTCCTTCTTTTCTTT
Found at i:71694822 original size:49 final size:49
Alignment explanation
Indices: 71694750--71694863 Score: 149
Period size: 49 Copynumber: 2.3 Consensus size: 49
71694740 TCCTGATAAC
* * * *
71694750 ACACCATAAAGGCTTTCTACAAATTAGCCACAAACGCTTTCCAGTTGAT
1 ACACCACAAAGGCTTTTTACAAATTAGCCACAAAAGCTTTCCAGATGAT
* * *
71694799 ACACTACAAAGGCTTTTTGCAAATTAGCCACAAAAGCTTTTCAGATGAT
1 ACACCACAAAGGCTTTTTACAAATTAGCCACAAAAGCTTTCCAGATGAT
*
71694848 ACGCCACAAAGG-TTTT
1 ACACCACAAAGGCTTTT
71694864 CAGATGATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
48 4 0.07
49 52 0.93
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (49 bp):
ACACCACAAAGGCTTTTTACAAATTAGCCACAAAAGCTTTCCAGATGAT
Found at i:71694853 original size:25 final size:25
Alignment explanation
Indices: 71694825--71694948 Score: 105
Period size: 24 Copynumber: 5.0 Consensus size: 25
71694815 TTGCAAATTA
71694825 GCCACAAAAGCTTTTCAGATGATAC
1 GCCACAAAAGCTTTTCAGATGATAC
* *
71694850 GCCAC-AAAGGTTTTCAGATGATAT
1 GCCACAAAAGCTTTTCAGATGATAC
*
71694874 GCCACAAAGGCTTTCTGCAGAT--TA-
1 GCCACAAAAGCTTT-T-CAGATGATAC
*
71694898 GCCAC-AAAGGTCTTTCAGATGATAC
1 GCCACAAAAGCT-TTTCAGATGATAC
* * * * *
71694923 ACCACAAAGGCCTTCCAAATGATAC
1 GCCACAAAAGCTTTTCAGATGATAC
71694948 G
1 G
71694949 TGATGAGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
22 5 0.06
23 5 0.06
24 31 0.40
25 28 0.36
26 4 0.05
27 5 0.06
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (25 bp):
GCCACAAAAGCTTTTCAGATGATAC
Found at i:71694858 original size:24 final size:24
Alignment explanation
Indices: 71694825--71694931 Score: 112
Period size: 24 Copynumber: 4.4 Consensus size: 24
71694815 TTGCAAATTA
71694825 GCCACAAAAGCTTTTCAGATGATAC
1 GCCAC-AAAGCTTTTCAGATGATAC
* *
71694850 GCCACAAAGGTTTTCAGATGATAT
1 GCCACAAAGCTTTTCAGATGATAC
71694874 GCCACAAAGGCTTTCTGCAGAT--TA-
1 GCCACAAA-GCTTT-T-CAGATGATAC
*
71694898 GCCACAAAGGTCTTTCAGATGATAC
1 GCCACAAAGCT-TTTCAGATGATAC
*
71694923 ACCACAAAG
1 GCCACAAAG
71694932 GCCTTCCAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
22 5 0.07
23 3 0.04
24 37 0.53
25 19 0.27
26 1 0.01
27 5 0.07
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (24 bp):
GCCACAAAGCTTTTCAGATGATAC
Found at i:71694878 original size:49 final size:50
Alignment explanation
Indices: 71694825--71694948 Score: 148
Period size: 49 Copynumber: 2.5 Consensus size: 50
71694815 TTGCAAATTA
* *
71694825 GCCACAAAAGCTTTTCAGATGATACGCCACAAAGGT-TTTCAGATGATAT
1 GCCACAAAGGCTTTTCAGATGATACGCCACAAAGGTCTTTCAGATGATAC
71694874 GCCACAAAGGCTTTCTGCAGAT--TA-GCCACAAAGGTCTTTCAGATGATAC
1 GCCACAAAGGCTTT-T-CAGATGATACGCCACAAAGGTCTTTCAGATGATAC
* * * *
71694923 ACCACAAAGGCCTTCCAAATGATACG
1 GCCACAAAGGCTTTTCAGATGATACG
71694949 TGATGAGTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
47 4 0.06
48 11 0.17
49 41 0.65
50 2 0.03
51 5 0.08
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
GCCACAAAGGCTTTTCAGATGATACGCCACAAAGGTCTTTCAGATGATAC
Found at i:71696511 original size:42 final size:43
Alignment explanation
Indices: 71696438--71696542 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 43
71696428 AGGTTATTAA
* * *
71696438 GATTCCGTATAAGACCATATCCGGGATATGGCCTCGGTATG-T
1 GATTTCGTATAAGACCATATCCGGGACATGGCCTCGATATGAT
* *
71696480 GATTTCGTATAAGACCATGT-CGAGGACATGGCGTCGATATGAT
1 GATTTCGTATAAGACCATATCCG-GGACATGGCCTCGATATGAT
* *
71696523 -ATTTCATGTAAGACCATATC
1 GATTTCGTATAAGACCATATC
71696543 AGGAATATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.04
42 49 0.94
43 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCCGGGACATGGCCTCGATATGAT
Found at i:71701275 original size:41 final size:41
Alignment explanation
Indices: 71701225--71701302 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
71701215 GTTTTTTTAT
* *
71701225 AAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTA
1 AAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGCTCTTA
71701266 AAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGCT
1 AAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGCT
71701303 TTTATAGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.14
Consensus pattern (41 bp):
AAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGCTCTTA
Found at i:71701623 original size:40 final size:40
Alignment explanation
Indices: 71701555--71701649 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
71701545 ATCTCCGTCT
* *
71701555 AACCCAACACACC-A-TGTGGGGATAAAATCGACCCACCC
1 AACCCTACACACCAAGTATGGGGATAAAATCGACCCACCC
*
71701593 AACCCTACACACCAAGTATGGGGATAAAATCGACCCATCC
1 AACCCTACACACCAAGTATGGGGATAAAATCGACCCACCC
*
71701633 AGCCCTACACACCAAGT
1 AACCCTACACACCAAGT
71701650 GGTACTGTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.24
39 1 0.02
40 38 0.75
ACGTcount: A:0.37, C:0.36, G:0.15, T:0.13
Consensus pattern (40 bp):
AACCCTACACACCAAGTATGGGGATAAAATCGACCCACCC
Found at i:71707114 original size:247 final size:248
Alignment explanation
Indices: 71706572--71707067 Score: 746
Period size: 249 Copynumber: 2.0 Consensus size: 248
71706562 CCGGTGCTTT
* * * * * *
71706572 CCATAGAGACATACTAGAACGAATAAACCCATGATCCAACAGCTCCTGAATCTGAGCCTTAAGTT
1 CCATGGAGACACACAAG-ACGAATAAACCCACGATCCAACAGCTTCTGAAACTGAGCCTTAAGTT
* * *
71706637 CCGTCAACTCCTTTGGTGCCATTCGATAAGGGGCGATAGACACCGGAGTTGTACCAGGAATCAAC
65 CCGTCAACTCCTTTGATGCCATTCGATAAGGGGCGATAGACACCGGAGCTATACCAGGAATCAAC
* * * * * * * *
71706702 TCAATCCCGAATTTTACCTCATGGCCCGGAGGTAATCCTAGTAGTTCCTTTGGAAAACCATCTGG
130 TCAATCCCGAATTCTACCTCACGGCCCGGAGGCAATCCTACTAGTTCCTATGGAAAAACACCTAG
* *
71706767 AAAATCCTTCATAGCACGGATGTCATTGACCGATAAGCCTACAGAATCAGAAGC
195 AAAATCCTTCACAGCACGGATGTCATTAACCGATAAGCCTACAGAATCAGAAGC
71706821 CCATGGAGACACACTAAGACGAATAAACCCACGATCCAACAGCTTCTGAAACTGAGCCTTAAGTT
1 CCATGGAGACACAC-AAGACGAATAAACCCACGATCCAACAGCTTCTGAAACTGAGCCTTAAGTT
*
71706886 CTGTCAACT-CTTTCGATGCCATTCGATAAGGGGCGATAGACACCGGAGCTATA-CAGGAATCAA
65 CCGTCAACTCCTTT-GATGCCATTCGATAAGGGGCGATAGACACCGGAGCTATACCAGGAATCAA
*
71706949 CTCAATCTCGAATTCTACCTCACGGCCCGGAGGCAATCCTACTAGTTCCTAT-GAAAAACACCTA
129 CTCAATCCCGAATTCTACCTCACGGCCCGGAGGCAATCCTACTAGTTCCTATGGAAAAACACCTA
*
71707013 GAAAATCCTTCACAGCACGGATGTCCTTAACCGATAAGCCTACAGAATCAGAAGC
194 GAAAATCCTTCACAGCACGGATGTCATTAACCGATAAGCCTACAGAATCAGAAGC
71707068 ACTGATGTAG
Statistics
Matches: 223, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
247 61 0.27
248 60 0.27
249 100 0.45
250 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (248 bp):
CCATGGAGACACACAAGACGAATAAACCCACGATCCAACAGCTTCTGAAACTGAGCCTTAAGTTC
CGTCAACTCCTTTGATGCCATTCGATAAGGGGCGATAGACACCGGAGCTATACCAGGAATCAACT
CAATCCCGAATTCTACCTCACGGCCCGGAGGCAATCCTACTAGTTCCTATGGAAAAACACCTAGA
AAATCCTTCACAGCACGGATGTCATTAACCGATAAGCCTACAGAATCAGAAGC
Found at i:71709812 original size:40 final size:42
Alignment explanation
Indices: 71709758--71709838 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 42
71709748 CCCAACACAC
71709758 TATGCGGGAATAAAATCGACCCA-CCTAGCCCTACACACCAAG
1 TATGCGGGAATAAAATCGACCCATCC-AGCCCTACACACCAAG
71709800 TATG-GGG-ATAAAATCGACCCATCCAGCCCTACACACCAA
1 TATGCGGGAATAAAATCGACCCATCCAGCCCTACACACCAA
71709839 ATGGTACTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
40 29 0.76
41 5 0.13
42 4 0.11
ACGTcount: A:0.36, C:0.33, G:0.16, T:0.15
Consensus pattern (42 bp):
TATGCGGGAATAAAATCGACCCATCCAGCCCTACACACCAAG
Found at i:71714229 original size:46 final size:46
Alignment explanation
Indices: 71714172--71714488 Score: 537
Period size: 46 Copynumber: 6.9 Consensus size: 46
71714162 GTGCTCTCTA
*
71714172 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
71714218 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
71714264 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
71714310 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
71714356 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
71714402 ATATGAGATGTGTAAGACCATGGCTGAAAGATACCATGGCAACATG
1 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * * * *
71714448 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AGATGTGTAAGACCATGGTTGAAAGATACCATGGCA
71714489 TCACGTCAAA
Statistics
Matches: 260, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 259 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:71714794 original size:23 final size:25
Alignment explanation
Indices: 71714749--71714795 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
71714739 AATAAATATA
*
71714749 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
71714774 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
71714796 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:71724488 original size:13 final size:13
Alignment explanation
Indices: 71724472--71724498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71724462 ATCGCTAAAT
71724472 AAATCAAATTTAA
1 AAATCAAATTTAA
71724485 AAATCAAATTTAA
1 AAATCAAATTTAA
71724498 A
1 A
71724499 CTAAAGATCA
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:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATCAAATTTAA
Found at i:71724503 original size:18 final size:18
Alignment explanation
Indices: 71724482--71724520 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
71724472 AAATCAAATT
71724482 TAAAAATCAA-ATTTAAAC
1 TAAAAATCAAGA-TTAAAC
*
71724500 TAAAGATCAAGATTAAAC
1 TAAAAATCAAGATTAAAC
71724518 TAA
1 TAA
71724521 TTACAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAATCAAGATTAAAC
Found at i:71725104 original size:21 final size:21
Alignment explanation
Indices: 71725078--71725128 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
71725068 GTAGTGTTGC
71725078 CTTTTAA-TTTAATGGTTTTGA
1 CTTTTAACTTT-ATGGTTTTGA
71725099 CTTTTAACTTTATGGTTTTGA
1 CTTTTAACTTTATGGTTTTGA
*
71725120 ATTTTAACT
1 CTTTTAACT
71725129 CGTAGATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.57
Consensus pattern (21 bp):
CTTTTAACTTTATGGTTTTGA
Found at i:71725181 original size:21 final size:21
Alignment explanation
Indices: 71725151--71725194 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
71725141 ACAAGATTAT
*
71725151 TTAATAGTTTTGCCTTTTAAC
1 TTAATAGTTTTGACTTTTAAC
*
71725172 TTAATGGTTTTGACTTTTAAC
1 TTAATAGTTTTGACTTTTAAC
71725193 TT
1 TT
71725195 TAGAAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.55
Consensus pattern (21 bp):
TTAATAGTTTTGACTTTTAAC
Found at i:71725684 original size:24 final size:24
Alignment explanation
Indices: 71725652--71725716 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
71725642 CTAGAGAGTT
* *
71725652 CTCAAGTTTACAGTCCCAGTAGAC
1 CTCATGTTTACAGTCCCAGCAGAC
*
71725676 CTCATGTTTACGGTCCCAGCAGAC
1 CTCATGTTTACAGTCCCAGCAGAC
*
71725700 CTCATGTTTACTGTCCC
1 CTCATGTTTACAGTCCC
71725717 GACAGGCTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (24 bp):
CTCATGTTTACAGTCCCAGCAGAC
Found at i:71731983 original size:29 final size:29
Alignment explanation
Indices: 71731946--71732009 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
71731936 TTTCCTTTGG
* *
71731946 TTAACGAATCAGGTTTTCTTTTGATTCTT
1 TTAATGAATCAGGTTTTCTTGTGATTCTT
*
71731975 TTAATGAATCAGTTTTTCTTGTGATTCTT
1 TTAATGAATCAGGTTTTCTTGTGATTCTT
*
71732004 CTAATG
1 TTAATG
71732010 GTTCTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (29 bp):
TTAATGAATCAGGTTTTCTTGTGATTCTT
Found at i:71742020 original size:29 final size:29
Alignment explanation
Indices: 71741978--71742038 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
71741968 AACACGAATT
71741978 ATCCTTAAAATTTTATTTGTGAATTTAAA
1 ATCCTTAAAATTTTATTTGTGAATTTAAA
*
71742007 ATCCTTAAAATTTTATTTGTGGATTTAAA
1 ATCCTTAAAATTTTATTTGTGAATTTAAA
71742036 ATC
1 ATC
71742039 TTCACCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (29 bp):
ATCCTTAAAATTTTATTTGTGAATTTAAA
Found at i:71743438 original size:3 final size:3
Alignment explanation
Indices: 71743430--71743459 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
71743420 ATCTACCAAC
71743430 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
71743460 ACTTCAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:71744423 original size:21 final size:18
Alignment explanation
Indices: 71744380--71744415 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
71744370 TGCAACTCCG
71744380 CTTAATTATGGAAGATTT
1 CTTAATTATGGAAGATTT
71744398 CTTAATTATGGAAGATTT
1 CTTAATTATGGAAGATTT
71744416 ACTCTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (18 bp):
CTTAATTATGGAAGATTT
Found at i:71746884 original size:15 final size:15
Alignment explanation
Indices: 71746864--71746895 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
71746854 TATAAGTCTT
*
71746864 AAGAAAAATAAATAA
1 AAGAAAAAGAAATAA
71746879 AAGAAAAAGAAATAA
1 AAGAAAAAGAAATAA
71746894 AA
1 AA
71746896 TAAATGGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (15 bp):
AAGAAAAAGAAATAA
Found at i:71751182 original size:46 final size:43
Alignment explanation
Indices: 71751042--71751174 Score: 117
Period size: 47 Copynumber: 2.9 Consensus size: 43
71751032 GCCCATAAGC
*
71751042 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT-AGT
* * * *
71751089 GAGCTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATTAGT
71751135 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
71751175 CCTAGTGACA
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 28 0.39
47 29 0.40
49 4 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATTAGT
Found at i:71761427 original size:66 final size:66
Alignment explanation
Indices: 71761343--71761471 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
71761333 CTGTCTGAAG
* *
71761343 TCTGAACGTATTCAGTATGAAGTTCTTAGAATACACTCCGCTTGACCGGTAATTTTCAATTATCC
1 TCTGAACATATTCAGTATGAAGTTCTTAGAATACACTCCGCGTGACCGGTAATTTTCAATTATCC
71761408 A
66 A
* * * * *
71761409 TCTGAACATATTCTGTATGAAGTTCTTAGAGTATACTCTGCGTGACTGGTAATTTTCAATTAT
1 TCTGAACATATTCAGTATGAAGTTCTTAGAATACACTCCGCGTGACCGGTAATTTTCAATTAT
71761472 TAGAAAATGG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (66 bp):
TCTGAACATATTCAGTATGAAGTTCTTAGAATACACTCCGCGTGACCGGTAATTTTCAATTATCC
A
Found at i:71768214 original size:10 final size:11
Alignment explanation
Indices: 71768195--71768227 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
71768185 TTGATATGTT
71768195 AATGAAGAGAA
1 AATGAAGAGAA
71768206 AAT-AAGAGAA
1 AATGAAGAGAA
*
71768216 AGTGAAGAGAA
1 AATGAAGAGAA
71768227 A
1 A
71768228 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:71778734 original size:71 final size:71
Alignment explanation
Indices: 71778646--71778787 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
71778636 TAGAAAAAGG
71778646 CGGGGATTTTGATAGGATTCGGCTGCTTGAGATTTGATTGTTGGGGTGAATCTATATAATGTGGG
1 CGGGGATTTTGATAGGATTCGGCTGCTTGAGATTTGATTGTTGGGGTGAATCTATATAATGTGGG
71778711 CGAAGT
66 CGAAGT
*
71778717 CGGGGATTTTGATAGGATTCGGCTGCTTGAGATTTGATTGTTGGGGTGATTCTATATAATGTGGG
1 CGGGGATTTTGATAGGATTCGGCTGCTTGAGATTTGATTGTTGGGGTGAATCTATATAATGTGGG
71778782 CGAAGT
66 CGAAGT
71778788 TAGGGTTTCG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.20, C:0.08, G:0.35, T:0.36
Consensus pattern (71 bp):
CGGGGATTTTGATAGGATTCGGCTGCTTGAGATTTGATTGTTGGGGTGAATCTATATAATGTGGG
CGAAGT
Found at i:71779005 original size:31 final size:30
Alignment explanation
Indices: 71778950--71779008 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
71778940 ACAAAATGGT
**
71778950 CACTAAACTATTTGAAGTTTTCATTTAAGC
1 CACTAAACTATTAAAAGTTTTCATTTAAGC
*
71778980 CACTAAACTATTCAAAATTTTTCATTTAA
1 CACTAAACTATT-AAAAGTTTTCATTTAA
71779009 ATCGCTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (30 bp):
CACTAAACTATTAAAAGTTTTCATTTAAGC
Found at i:71779601 original size:21 final size:21
Alignment explanation
Indices: 71779575--71779614 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
71779565 AACAGAACCG
71779575 CTGATGTGG-CAAGTTAACTAA
1 CTGATGTGGCCAA-TTAACTAA
71779596 CTGATGTGGCCAATTAACT
1 CTGATGTGGCCAATTAACT
71779615 TGCCATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (21 bp):
CTGATGTGGCCAATTAACTAA
Found at i:71780944 original size:21 final size:21
Alignment explanation
Indices: 71780886--71780944 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
71780876 AAGTAGCAAA
*
71780886 TTAACTGGCCACATCAACTAG
1 TTAACTGGCCACATCAGCTAG
71780907 TTAACTGGCCACATCAGCTAG
1 TTAACTGGCCACATCAGCTAG
*
71780928 TTAACTTGCCACATCAG
1 TTAACTGGCCACATCAG
71780945 TGGTTCTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (21 bp):
TTAACTGGCCACATCAGCTAG
Found at i:71786427 original size:177 final size:177
Alignment explanation
Indices: 71786175--71786990 Score: 1100
Period size: 177 Copynumber: 4.7 Consensus size: 177
71786165 TCCACTGCAA
* * *
71786175 CTCAGGGAGATAAGGCTAGTGGCTTAAAATCTGCTCCATTATCGATACATGGAGATAAGATTCGC
1 CTCAGAGAGATAAGGCTGGTGGC-TAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGC
* * *
71786240 CGTCTTTGATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTTAGTCTGCTTCCTTG
65 CGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTG
* * *
71786305 CTGCTTCAGGAATATAAGACTTGTATCCTCAACCTGCTCTCTTGCTAC
130 CTACCTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTAC
** * * *
71786353 CTCAGAGAGATAAGGCTAATGGTTAAAATCTGCTCTATTATCGATACATGGAGATAAGATTCGCC
1 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCC
* * *
71786418 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGAT-A-A---GCAAATTTCAGTCCGCTTCCTTAC
66 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
*
71786478 TACCTC----AG----GACTTATATCCTCAACCTGCTCTCTTGCTAC
131 TACCTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTAC
*
71786517 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACC
1 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCC
*
71786582 GTTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
66 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
* * * * * *
71786647 TATCTTAGGAAGATAAGACTTGTATCTTTAACTTGCTCTTTTGCTAC
131 TACCTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTAC
* * * * * *
71786694 CTCAGAAAGATAAGGTTGGTGGCTAAAATCTGCTCCATTGCCGGTACATAGAGATAAGATTTGCC
1 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCC
* * * * *
71786759 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGTAATTTTCAGTTTGCTTCCTTGC
66 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
* *
71786824 TACCTCAGGAAGATAAGACTTGTATCTTCAACCTACTCTCTTGCTAC
131 TACCTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTAC
* * * * * *
71786871 CACAGAAAGATAAGACTGGTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACC
1 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCC
* * *
71786936 GTCTTCGATTTTCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCT
66 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCT
71786991 ACTCCGCTGT
Statistics
Matches: 561, Mismatches: 64, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
164 122 0.22
165 1 0.00
166 1 0.00
168 1 0.00
169 25 0.04
172 24 0.04
173 2 0.00
175 1 0.00
176 1 0.00
177 363 0.65
178 20 0.04
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (177 bp):
CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCC
GTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
TACCTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTAC
Found at i:71786783 original size:341 final size:345
Alignment explanation
Indices: 71786175--71786990 Score: 1111
Period size: 341 Copynumber: 2.3 Consensus size: 345
71786165 TCCACTGCAA
* * * *
71786175 CTCAGGGAGATAAGGCTAGTGGCTTAAAATCTGCTCCATTATCGATACATGGAGATAAGATTCGC
1 CTCAGAGAGATAAGGCTGGTGGC-TAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCAC
* *
71786240 CGTCTTTGATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTTAGTCTGCTTCCTTG
65 CGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTG
* *
71786305 CTGCTTCAGGAATATAAGACTTGTATCCTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT
130 CTGCTTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTACCTCAGAAAGATAAGGCT
* * * * * *
71786370 AATGGTTAAAATCTGCTCTATTATCGATACATGGAGATAAGATTCGCCGTCTTTGATCTGCTCCA
195 AATGGCTAAAATCTGCTCCATTACCGATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCA
71786435 CTACTGCTTAGGGAGAT-AA-GCAAATTTCAGTCCGCTTCCTTACTACCTC-AG-GACTTATATC
260 CTACTGCTTAGGGAGATAAATGCAAATTTCAGTCCGCTTCCTTACTACCTCAAGAGACTTATATC
*
71786496 CTCAACCTGCTCTCTTGCTAC
325 CTCAACCTACTCTCTTGCTAC
71786517 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACC
1 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACC
* *
71786582 GTTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
66 GTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
* * * * * *
71786647 TATCTT-AGGAAGATAAGACTTGTATCTTTAACTTGCTCTTTTGCTACCTCAGAAAGATAAGGTT
131 T-GCTTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTACCTCAGAAAGATAAGGCT
** * * *
71786711 GGTGGCTAAAATCTGCTCCATTGCCGGTACATAGAGATAAGATTTGCCATCTTCGATCTGCTCCA
195 AATGGCTAAAATCTGCTCCATTACCGATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCA
* * ** *
71786776 CTACTGCTTAGGGAGATAAAATCTGTAATTTTCAGTTTGCTTCCTTGCTACCTCAGGAAGATAAG
260 CTACTGCTTAGGGAGAT-AAA--TGCAAATTTCAGTCCGCTTCCTTACTACCTC---AAG---AG
* *
71786841 ACTTGTATCTTCAACCTACTCTCTTGCTAC
316 ACTTATATCCTCAACCTACTCTCTTGCTAC
* * * * *
71786871 CACAGAAAGATAAGACTGGTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACC
1 CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACC
* * *
71786936 GTCTTCGATTTTCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCT
66 GTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCT
71786991 ACTCCGCTGT
Statistics
Matches: 416, Mismatches: 44, Indels: 16
0.87 0.09 0.03
Matches are distributed among these distances:
341 224 0.54
342 24 0.06
343 2 0.00
346 25 0.06
350 2 0.00
354 139 0.33
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (345 bp):
CTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACC
GTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTTGC
TGCTTCAGGAAGATAAGACTTGTATCCTCAACCTGCTCTCTTGCTACCTCAGAAAGATAAGGCTA
ATGGCTAAAATCTGCTCCATTACCGATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
TACTGCTTAGGGAGATAAATGCAAATTTCAGTCCGCTTCCTTACTACCTCAAGAGACTTATATCC
TCAACCTACTCTCTTGCTAC
Found at i:71792471 original size:24 final size:24
Alignment explanation
Indices: 71792424--71792495 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
71792414 GCTTTATCAT
** *
71792424 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCCTTTTTTA
*
71792449 ATAACTGGGGCAAAGCCTTTTTTG
1 ATAACTGGGGCAAAGCCTTTTTTA
* *
71792473 GTAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCTTTTT
71792496 CGCACTTCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.32
25 27 0.68
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCTTTTTTA
Found at i:71795481 original size:27 final size:27
Alignment explanation
Indices: 71795426--71795641 Score: 272
Period size: 27 Copynumber: 8.0 Consensus size: 27
71795416 GGGGCAAAAT
* * *
71795426 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71795452 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
71795479 GGTATTTCTATCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71795506 GATAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71795533 AGTAATTCTACCCTACAGAGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71795560 GATAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71795587 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71795614 GGTAATTCTACCCTATAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71795641 G
1 G
71795642 ATATTTTACA
Statistics
Matches: 163, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 12 0.07
27 151 0.93
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71795681 original size:27 final size:27
Alignment explanation
Indices: 71795633--71795810 Score: 188
Period size: 27 Copynumber: 6.6 Consensus size: 27
71795623 ACCCTATAGT
*
71795633 GGTATTTCGAT-ATTTTACAAATC-GAG
1 GGTATTTTGATAATTTTACAAATCAG-G
* *
71795659 AGTATTTTGATAATTTCACAAATCAGG
1 GGTATTTTGATAATTTTACAAATCAGG
* **
71795686 GGTATTTTGGTAATTTTACAAGCCAGG
1 GGTATTTTGATAATTTTACAAATCAGG
*
71795713 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGATAATTTTACAAATC-AGG
71795740 GGTATTTT-AGTAATTTTACAAATCAGG
1 GGTATTTTGA-TAATTTTACAAATCAGG
* *
71795767 AGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGATAATTTTACAAATC-AGG
71795794 GGTATTTT-AGTAATTTT
1 GGTATTTTGA-TAATTTT
71795811 GTAAATCGAG
Statistics
Matches: 130, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.08
27 117 0.90
28 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTATTTTGATAATTTTACAAATCAGG
Found at i:71795761 original size:81 final size:81
Alignment explanation
Indices: 71795660--71795810 Score: 241
Period size: 81 Copynumber: 1.9 Consensus size: 81
71795650 CAAATCGAGA
* * *
71795660 GTATTTTGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTA
1 GTATTTTGATAATTTCACAAATCAGGAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTA
71795725 ATTTTACAAACTAGGG
66 ATTTTACAAACTAGGG
* *
71795741 GTATTTT-AGTAATTTTACAAATCAGGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGT
1 GTATTTTGA-TAATTTCACAAATCAGGAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGT
71795805 AATTTT
65 AATTTT
71795811 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 1 0.02
81 63 0.98
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GTATTTTGATAATTTCACAAATCAGGAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTA
ATTTTACAAACTAGGG
Found at i:71795817 original size:54 final size:54
Alignment explanation
Indices: 71795644--71795810 Score: 248
Period size: 54 Copynumber: 3.1 Consensus size: 54
71795634 GTATTTCGAT
* * *
71795644 ATTTTACAAATC-GAGAGTATTTTGATAATTTCACAAA-TCAGGGGTATTTTGGTA
1 ATTTTACAAATCAG-GAGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTAGTA
** *
71795698 ATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAATCAGGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
71795752 ATTTTACAAATCAGGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAATCAGGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
71795806 ATTTT
1 ATTTT
71795811 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
54 100 0.98
55 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (54 bp):
ATTTTACAAATCAGGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
Found at i:71795833 original size:27 final size:27
Alignment explanation
Indices: 71795803--71795889 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
71795793 GGGTATTTTA
* * *
71795803 GTAATTTTGTAAATCGAGGATAAAAGG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
71795830 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
71795857 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
71795884 GTAATT
1 GTAATT
71795890 TCACAAGTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:71795833 original size:54 final size:54
Alignment explanation
Indices: 71795669--71795835 Score: 167
Period size: 54 Copynumber: 3.1 Consensus size: 54
71795659 AGTATTTTGA
* * ** * ****
71795669 TAATTTCACAAA-TCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGG
1 TAATTTTACAAACT-AGGGGTATTTTAGTAATTTTACAAATCAGGAGTAAAAGGG
****
71795723 TAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCAGGAGTATTTTGG
1 TAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCAGGAGTAAAAGGG
**
71795777 TAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAATCGAGGA-TAAAAGGG
1 TAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATC-AGGAGTAAAAGGG
71795831 TAATT
1 TAATT
71795836 CTGTAAATTG
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 95 0.95
55 5 0.05
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCAGGAGTAAAAGGG
Found at i:71799676 original size:25 final size:23
Alignment explanation
Indices: 71799624--71799678 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
71799614 TATAAATAGT
71799624 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
71799647 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
71799672 AATAGTG
1 AATAGTG
71799679 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:71811263 original size:3 final size:3
Alignment explanation
Indices: 71811255--71811280 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
71811245 ATATATTTGG
71811255 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
71811281 TGTACATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:71811452 original size:17 final size:17
Alignment explanation
Indices: 71811411--71811443 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71811401 ACAATAATAT
71811411 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
71811428 AAAATATATATATGTA
1 AAAATATATATATGTA
71811444 TATAATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:71811689 original size:16 final size:16
Alignment explanation
Indices: 71811669--71811702 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
71811659 ATTGTTTTTT
*
71811669 ATTTTT-TTAAGACCA
1 ATTTTTGTTTAGACCA
71811684 ATTTTTGTTTAGACCA
1 ATTTTTGTTTAGACCA
71811700 ATT
1 ATT
71811703 ACAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (16 bp):
ATTTTTGTTTAGACCA
Found at i:71812260 original size:15 final size:14
Alignment explanation
Indices: 71812240--71812291 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 14
71812230 TTTTTTGGTT
71812240 TTTTTTTGCTGGAAA
1 TTTTTTTGCT-GAAA
*
71812255 TTTTTTTTGCTAGAAT
1 -TTTTTTTGCT-GAAA
71812271 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
71812285 TTTTTTT
1 TTTTTTT
71812292 TGGCTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 10 0.30
15 10 0.30
16 13 0.39
ACGTcount: A:0.17, C:0.06, G:0.13, T:0.63
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:71812292 original size:15 final size:15
Alignment explanation
Indices: 71812239--71812293 Score: 85
Period size: 15 Copynumber: 3.6 Consensus size: 15
71812229 TTTTTTTGGT
71812239 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCT-GAAA
71812255 TTTTTTTTGCT-AGAA
1 TTTTTTTTGCTGA-AA
71812270 TTTTTTTTGCTGAAA
1 TTTTTTTTGCTGAAA
71812285 TTTTTTTTG
1 TTTTTTTTG
71812294 GCTCTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.03
15 24 0.65
16 12 0.32
ACGTcount: A:0.16, C:0.05, G:0.15, T:0.64
Consensus pattern (15 bp):
TTTTTTTTGCTGAAA
Found at i:71813121 original size:72 final size:72
Alignment explanation
Indices: 71812865--71813597 Score: 748
Period size: 72 Copynumber: 10.1 Consensus size: 72
71812855 AAAAGCCAAA
* * ** * *
71812865 AAATTGAAAATACCTCAGCGTGTGACTTGAGGCTTAACTCACCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--AT
*
71812930 TTTGACAACAG
62 TTTGAAAACAG
* * * * * ** *
71812941 AAATTGAAATTACCTCAGCGTGTCCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-----A
71813006 TTTTGAAAAACAG
61 TTTTG-AAAACAG
* *
71813019 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
71813084 AAAACAG
66 AAAACAG
* *
71813091 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
71813156 AAAACAG
66 AAAACAG
* *
71813163 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
71813228 AAAACAG
66 AAAACAG
* *
71813235 AAATTGAAAATACCTCAACGTGTCATGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
**
71813300 AAAACCTC
66 AAAA-CAG
** *** * * * * *** * ** * * * **
71813308 AACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT-TTG-AA-A-AACAT-AA
1 AAATTGAAAAT-A-CCTCAA--CGTGTCTTG-AGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
71813367 -ATTG--AACAG
61 TTTTGAAAACAG
** *
71813376 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTT
71813441 GAAAAGCAG
65 GAAAA-CAG
* * *
71813450 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAGTATGAGTTAAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
71813515 AAAACAG
66 AAAACAG
*
71813522 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTT
71813587 G-AAACAG
65 GAAAACAG
71813594 AAAT
1 AAAT
71813598 AAAAGCATCA
Statistics
Matches: 553, Mismatches: 82, Indels: 48
0.81 0.12 0.07
Matches are distributed among these distances:
64 6 0.01
65 8 0.01
66 2 0.00
67 6 0.01
68 8 0.01
69 4 0.01
71 6 0.01
72 284 0.51
73 30 0.05
74 94 0.17
75 2 0.00
76 29 0.05
77 16 0.03
78 58 0.10
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
AAAACAG
Found at i:71813215 original size:144 final size:144
Alignment explanation
Indices: 71812865--71813597 Score: 859
Period size: 144 Copynumber: 5.0 Consensus size: 144
71812855 AAAAGCCAAA
* * ** * *
71812865 AAATTGAAAATACCTCAGCGTGTGACTTGAGGCTTAACTCACCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--AT
* * * * * **
71812930 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAAGCTCAACTCACCTCTCGCAATATGA
62 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
71812995 GTTGATTTTTTTTTTGAAAAACAG
127 GTTGA-----ATTTTG-AAAACAG
* *
71813019 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
*
71813084 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAGTTG
66 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
71813149 AATTTTGAAAACAG
131 AATTTTGAAAACAG
* *
71813163 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
* * *
71813228 AAAACAGAAATTGAAAATACCTCAACGTGTCATGAGGCTCAACTCATTTCTCGCAATATAAGTTG
66 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
71813293 AA--TT--------
131 AATTTTGAAAACAG
*
71813297 ---TTG-AAA-ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
* **
71813357 AAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
66 ---------AA---AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
*
71813422 CAATATGAGTTGATTTTTTGAAAAGCAG
119 CAATATGAGTTGA-ATTTTGAAAA-CAG
* * *
71813450 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAGTATGAGTTAAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
71813515 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
66 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
71813580 AATTTTTG-AAACAG
131 AA-TTTTGAAAACAG
71813594 AAAT
1 AAAT
71813598 AAAAGCATCA
Statistics
Matches: 510, Mismatches: 39, Indels: 70
0.82 0.06 0.11
Matches are distributed among these distances:
129 52 0.10
130 2 0.00
131 3 0.01
138 2 0.00
141 60 0.12
142 2 0.00
144 140 0.27
145 8 0.02
146 66 0.13
149 2 0.00
150 63 0.12
152 32 0.06
154 22 0.04
156 3 0.01
157 3 0.01
158 50 0.10
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (144 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGAAAACAG
Found at i:71813328 original size:57 final size:57
Alignment explanation
Indices: 71813246--71813360 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
71813236 AATTGAAAAT
71813246 ACCTCAACGTGTCATGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA
1 ACCTCAACGTGTCATGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA
* * *
71813303 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
1 ACCTCAACGTGTCATGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA
71813360 A
1 A
71813361 ACATAAATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (57 bp):
ACCTCAACGTGTCATGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA
Found at i:71818295 original size:12 final size:14
Alignment explanation
Indices: 71818268--71818296 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71818258 ATTTTGCAAA
71818268 TTTTGCAAGTTCTT
1 TTTTGCAAGTTCTT
71818282 TTTTGCAAGTT-TT
1 TTTTGCAAGTTCTT
71818295 TT
1 TT
71818297 ATTATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.62
Consensus pattern (14 bp):
TTTTGCAAGTTCTT
Found at i:71818335 original size:18 final size:21
Alignment explanation
Indices: 71818293--71818335 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
71818283 TTTGCAAGTT
*
71818293 TTTTATTATATATTTTTAGAT
1 TTTTATTATATATTTTTAGAC
71818314 TTTTATT-TAT-TTTTTA-AC
1 TTTTATTATATATTTTTAGAC
71818332 TTTT
1 TTTT
71818336 TAATTTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 3 0.14
21 7 0.33
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTATATATTTTTAGAC
Found at i:71818335 original size:19 final size:21
Alignment explanation
Indices: 71818292--71818337 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
71818282 TTTTGCAAGT
71818292 TTTTTATTATATATTTTTAGA
1 TTTTTATTATATATTTTTAGA
71818313 TTTTTATT-TAT-TTTTTA-A
1 TTTTTATTATATATTTTTAGA
71818331 CTTTTTA
1 -TTTTTA
71818338 ATTTTAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 3 0.12
21 8 0.33
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTATTATATATTTTTAGA
Found at i:71818341 original size:20 final size:20
Alignment explanation
Indices: 71818292--71818329 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
71818282 TTTTGCAAGT
71818292 TTTTTATTATATATTTTTAGA
1 TTTTTATT-TATATTTTTAGA
71818313 TTTTTATTTAT-TTTTTA
1 TTTTTATTTATATTTTTA
71818330 ACTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTATTTATATTTTTAGA
Found at i:71820179 original size:9 final size:9
Alignment explanation
Indices: 71820165--71820192 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
71820155 TTCTTAGTGA
71820165 AGAGTAGTC
1 AGAGTAGTC
71820174 AGAGTAGTC
1 AGAGTAGTC
71820183 AGAGTAGTC
1 AGAGTAGTC
71820192 A
1 A
71820193 AGCAGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (9 bp):
AGAGTAGTC
Found at i:71820769 original size:47 final size:47
Alignment explanation
Indices: 71820715--71820905 Score: 240
Period size: 47 Copynumber: 4.1 Consensus size: 47
71820705 TTAGGATTTT
** * * *
71820715 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
71820762 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* *
71820809 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * * * * *
71820856 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGAGATAAGGCCGAATGGCCA
71820903 ATG
1 ATG
71820906 CGAAATGTGT
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 126 0.98
48 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:71820935 original size:46 final size:46
Alignment explanation
Indices: 71820879--71821015 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
71820869 GGAAGTGTAT
71820879 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
71820925 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
71820971 ATATTTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
71821016 TGTATATATA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:71830461 original size:24 final size:24
Alignment explanation
Indices: 71830430--71830510 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
71830420 ATGTATAACG
71830430 GGAAGCTCAAAAGAGCCATAATCA
1 GGAAGCTCAAAAGAGCCATAATCA
* *
71830454 GGAAGCTCATAAGAGCTAATAA-CA
1 GGAAGCTCAAAAGAGC-CATAATCA
* ** *
71830478 GGTAGCTCCGAAGAGCCATTAATCG
1 GGAAGCTCAAAAGAGCCA-TAATCA
71830503 GGAAGCTC
1 GGAAGCTC
71830511 CTGATAGCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.02
24 33 0.72
25 12 0.26
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
GGAAGCTCAAAAGAGCCATAATCA
Found at i:71833216 original size:22 final size:22
Alignment explanation
Indices: 71833188--71833243 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
71833178 GTTCAAGTGA
71833188 TGTATTTAATCTATGTTTAAAT
1 TGTATTTAATCTATGTTTAAAT
*
71833210 TGTATTTAATGTATGTTTAAAT
1 TGTATTTAATCTATGTTTAAAT
71833232 TGTATTGTAATC
1 TGTATT-TAATC
71833244 CAAAAAATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (22 bp):
TGTATTTAATCTATGTTTAAAT
Found at i:71833763 original size:7 final size:7
Alignment explanation
Indices: 71833751--71833775 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71833741 CTTAAGAAAA
71833751 TTAATAT
1 TTAATAT
71833758 TTAATAT
1 TTAATAT
71833765 TTAATAT
1 TTAATAT
71833772 TTAA
1 TTAA
71833776 AATAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAATAT
Found at i:71834675 original size:29 final size:29
Alignment explanation
Indices: 71834616--71834675 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
71834606 CATGATTTAA
* *
71834616 TGTGTAATTGTACACATGAATTTTGATTT
1 TGTGTAATTGTACACATAAATTTTGAATT
* *
71834645 TGTGTAATTTTATACATAAAATTTT-AATT
1 TGTGTAATTGTACACAT-AAATTTTGAATT
71834674 TG
1 TG
71834676 GTCCAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (29 bp):
TGTGTAATTGTACACATAAATTTTGAATT
Found at i:71835978 original size:14 final size:14
Alignment explanation
Indices: 71835959--71835998 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
71835949 TTGATTGCCA
71835959 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
71835973 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
71835987 GGAAAATGTTTT
1 GTAAAATGTTTT
71835999 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:71836007 original size:20 final size:20
Alignment explanation
Indices: 71835982--71836021 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
71835972 CGTAAAATGA
*
71835982 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
71836002 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
71836022 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:71836011 original size:34 final size:35
Alignment explanation
Indices: 71835967--71836033 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
71835957 CAGTAAAATG
*
71835967 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
71836001 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
71836034 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:71836037 original size:14 final size:15
Alignment explanation
Indices: 71835961--71836037 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
71835951 GATTGCCAGT
* *
71835961 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
71835975 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
71835989 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
71836009 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
71836024 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
71836038 TGTTTGATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:71836426 original size:26 final size:26
Alignment explanation
Indices: 71836359--71836417 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
71836349 ATATCAAAAT
*
71836359 TTATAGAGACCAATTTAAAATCTAGA
1 TTATAGAGACCAGTTTAAAATCTAGA
*
71836385 TTATAGAGACCAGTTTAATATCTAGA
1 TTATAGAGACCAGTTTAAAATCTAGA
71836411 TTATAGA
1 TTATAGA
71836418 TTATAGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (26 bp):
TTATAGAGACCAGTTTAAAATCTAGA
Found at i:71838535 original size:27 final size:27
Alignment explanation
Indices: 71838497--71838595 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
71838487 AAATCTTTCT
71838497 AACTATGGACAAGAAACCGATTCACAA
1 AACTATGGACAAGAAACCGATTCACAA
* * *
71838524 AACTATGGACAAGAAACCAATAACATAAA
1 AACTATGGACAAGAAACCGAT-TCA-CAA
*
71838553 GGAACTA---ACCCAGAAACCGATTCACAA
1 --AACTATGGA-CAAGAAACCGATTCACAA
71838580 AACTATGGACAAGAAA
1 AACTATGGACAAGAAA
71838596 ATATACCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 5 0.09
27 28 0.50
28 6 0.11
29 12 0.21
31 5 0.09
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.13
Consensus pattern (27 bp):
AACTATGGACAAGAAACCGATTCACAA
Found at i:71839028 original size:14 final size:14
Alignment explanation
Indices: 71839006--71839036 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71838996 CACTGGAAAA
*
71839006 TCCGTAAAATATTT
1 TCCGGAAAATATTT
71839020 TCCGGAAAATATTT
1 TCCGGAAAATATTT
71839034 TCC
1 TCC
71839037 ACCAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (14 bp):
TCCGGAAAATATTT
Found at i:71841437 original size:22 final size:22
Alignment explanation
Indices: 71841408--71841474 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
71841398 TGCATTAATG
*
71841408 AACAGAGAGCACTGAGGTGCTA
1 AACAGAGAGCACTGATGTGCTA
*
71841430 TACAGAGAGCA-TGAATGTGCTA
1 AACAGAGAGCACTG-ATGTGCTA
*
71841452 AACAGAGAGCACTAATGTGCTA
1 AACAGAGAGCACTGATGTGCTA
71841474 A
1 A
71841475 TAATCAGAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 36 0.92
23 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (22 bp):
AACAGAGAGCACTGATGTGCTA
Found at i:71845235 original size:23 final size:23
Alignment explanation
Indices: 71845209--71845306 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
71845199 ATAAGTGCCA
71845209 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
71845232 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
71845255 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
71845277 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
71845300 CACTGAT
1 CACTGAT
71845307 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:71845274 original size:45 final size:45
Alignment explanation
Indices: 71845216--71845304 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
71845206 CCACACTGAT
* *
71845216 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
71845261 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
71845305 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:71846658 original size:26 final size:26
Alignment explanation
Indices: 71846629--71846703 Score: 150
Period size: 26 Copynumber: 2.9 Consensus size: 26
71846619 GGCTATCACA
71846629 ATCATGCTTACATTTATTCAAATCCT
1 ATCATGCTTACATTTATTCAAATCCT
71846655 ATCATGCTTACATTTATTCAAATCCT
1 ATCATGCTTACATTTATTCAAATCCT
71846681 ATCATGCTTACATTTATTCAAAT
1 ATCATGCTTACATTTATTCAAAT
71846704 GAACAAACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (26 bp):
ATCATGCTTACATTTATTCAAATCCT
Found at i:71852025 original size:15 final size:14
Alignment explanation
Indices: 71852005--71852038 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
71851995 GTAAGAACCT
71852005 TTTTACTCTAGTTA
1 TTTTACTCTAGTTA
*
71852019 CTTTTACTTTAGTTA
1 -TTTTACTCTAGTTA
71852034 TTTTA
1 TTTTA
71852039 GTAAAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTACTCTAGTTA
Done.