Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 228 of 325
Found at i:71131311 original size:27 final size:27
Alignment explanation
Indices: 71131281--71131379 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
71131271 TTAACTAGCG
* *
71131281 AACCCCTAGTTCATAATTCAACTGGCA
1 AACCCCCAGTTCACAATTCAACTGGCA
*
71131308 AACCCCCAGTTTACAATTCAACTGGCA
1 AACCCCCAGTTCACAATTCAACTGGCA
* *
71131335 AACCCCCAATTTACAATTCAAC-GAGCA
1 AACCCCCAGTTCACAATTCAACTG-GCA
*
71131362 AACCCCTAGTTCACAATT
1 AACCCCCAGTTCACAATT
71131380 TACCTGGCGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 63 0.98
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.23
Consensus pattern (27 bp):
AACCCCCAGTTCACAATTCAACTGGCA
Found at i:71132146 original size:109 final size:109
Alignment explanation
Indices: 71131771--71132138 Score: 445
Period size: 109 Copynumber: 3.4 Consensus size: 109
71131761 CTGTGACAAT
* * * * * *
71131771 GGTATATGGCGTAAAACCATAAATAAAAGATGCTATGGTAGTTTGGTATG-GTGTATGTAGTGTA
1 GGTATATGGCGTAAGACCATAGATGAAAGATGCTATGGCAGTCTAGTATGAG-GTATGTAGTGTA
* * * *
71131835 AGACCATGGATGAAAGAAGCTATGACAACATGATACAAGATATAA
65 AGACCATGTATGAAAGATGCCATGACAACATGGTACAAGATATAA
* * * * ** *
71131880 GGCATATGGCATAAGACCATAGATGAAAGACGCTATGGCAGTCTGGTATGAGGTGCGTAGCGTAA
1 GGTATATGGCGTAAGACCATAGATGAAAGATGCTATGGCAGTCTAGTATGAGGTATGTAGTGTAA
*
71131945 GACCAT-TGATGAAAGATGCCATGACAACATCGG-ACAAGGTATAA
66 GACCATGT-ATGAAAGATGCCATGACAACAT-GGTACAAGATATAA
* *
71131989 GGTATATGGCGTAAGATCATAGATGAAAGATGCTATGGCAATCTAGTATGAGGTATGTAGTGTAA
1 GGTATATGGCGTAAGACCATAGATGAAAGATGCTATGGCAGTCTAGTATGAGGTATGTAGTGTAA
** * *
71132054 GACCATGTATGAAAGATGCCATGGTAGCATGGTACAAAATATAA
66 GACCATGTATGAAAGATGCCATGACAACATGGTACAAGATATAA
** *
71132098 GGTATACAGTGTAAGACCATAGATGAAAGATGCTATGGCAG
1 GGTATATGGCGTAAGACCATAGATGAAAGATGCTATGGCAG
71132139 CCAAGTATAA
Statistics
Matches: 219, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
108 2 0.01
109 214 0.98
110 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (109 bp):
GGTATATGGCGTAAGACCATAGATGAAAGATGCTATGGCAGTCTAGTATGAGGTATGTAGTGTAA
GACCATGTATGAAAGATGCCATGACAACATGGTACAAGATATAA
Found at i:71132925 original size:21 final size:22
Alignment explanation
Indices: 71132900--71132940 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
71132890 TGTATTTTTG
71132900 TGTTTAATGG-TAGA-AAATGCA
1 TGTTT-ATGGTTAGAGAAATGCA
71132921 TGTTTATGGTTAGAGAAATG
1 TGTTTATGGTTAGAGAAATG
71132941 ACTTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (22 bp):
TGTTTATGGTTAGAGAAATGCA
Found at i:71136789 original size:67 final size:67
Alignment explanation
Indices: 71136681--71136815 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
71136671 TCAGTTTGTG
71136681 AGAGAAGTTGAATAGAGTAAGTGACTTTGGTTTATTGTAGCACTGAAGATCAGCCAATAGATATT
1 AGAGAAGTTGAATAGAGTAAGTGACTTTGGTTTATTGTAGCACTGAAGATCAGCCAATAGATATT
71136746 CT
66 CT
71136748 AGAGAAGTTGAATAGAGTAAGTGACTTTGGTTTATTGTAGCACTGAAGATCAGCCAATAGATATT
1 AGAGAAGTTGAATAGAGTAAGTGACTTTGGTTTATTGTAGCACTGAAGATCAGCCAATAGATATT
71136813 CT
66 CT
71136815 A
1 A
71136816 ACCAAGCCTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (67 bp):
AGAGAAGTTGAATAGAGTAAGTGACTTTGGTTTATTGTAGCACTGAAGATCAGCCAATAGATATT
CT
Found at i:71146617 original size:3 final size:3
Alignment explanation
Indices: 71146611--71146671 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
71146601 AAATATGTTG
* * * *
71146611 AAT AAT AAT AAT AAT AAT AAT AAT ACT TAT AAT ATTT AAT AAT CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* *
71146657 -AC AAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT A
71146672 TGTTTAACAA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 1 0.02
3 42 0.93
4 2 0.04
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:71152754 original size:17 final size:17
Alignment explanation
Indices: 71152732--71152769 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
71152722 TCAAAATTTT
71152732 ATATGCATGACAAATAC
1 ATATGCATGACAAATAC
71152749 ATATGCATGACAAATAC
1 ATATGCATGACAAATAC
71152766 ATAT
1 ATAT
71152770 ATCTTAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (17 bp):
ATATGCATGACAAATAC
Found at i:71162295 original size:2 final size:2
Alignment explanation
Indices: 71162288--71162312 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71162278 AGAGAACAGG
71162288 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
71162313 TTTAACATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71174211 original size:13 final size:13
Alignment explanation
Indices: 71174193--71174258 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
71174183 AGTTCTTCAT
71174193 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
71174206 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
71174219 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
71174232 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
71174245 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
71174258 T
1 T
71174259 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:71174776 original size:18 final size:18
Alignment explanation
Indices: 71174753--71174787 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
71174743 AGCTTTTCTT
71174753 CCAGAAGTGCTTTTGAAG
1 CCAGAAGTGCTTTTGAAG
71174771 CCAGAAGTGCTTTTGAA
1 CCAGAAGTGCTTTTGAA
71174788 AAGCAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
CCAGAAGTGCTTTTGAAG
Found at i:71180511 original size:40 final size:40
Alignment explanation
Indices: 71180454--71180597 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
71180444 TCGAATGATG
*
71180454 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACTAAA
* * *
71180494 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTGACTAAA
* *
71180534 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTA-AA
*
71180574 -CCGGGC-ATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71180598 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
38 17 0.18
39 10 0.11
40 57 0.62
41 8 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:71180627 original size:38 final size:38
Alignment explanation
Indices: 71180465--71180629 Score: 147
Period size: 40 Copynumber: 4.2 Consensus size: 38
71180455 CCGGGCTAAG
* *
71180465 TCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGA
1 TCCCGAAGGCATTTGTGC-GAGT-ACTATATCCGG-TTAA-A
* *
71180506 T-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG
1 TCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGTTAAA
* ** **
71180545 TCCCGAAGGCATTTGTGCGAGTACTATAACCGGGCATG
1 TCCCGAAGGCATTTGTGCGAGTACTATATCCGGTTAAA
**
71180583 TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAA
1 TCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGTTAAA
71180622 T-CCGAAGG
1 TCCCGAAGG
71180630 TACGTGATTA
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
38 32 0.31
39 20 0.19
40 40 0.39
41 11 0.11
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (38 bp):
TCCCGAAGGCATTTGTGCGAGTACTATATCCGGTTAAA
Found at i:71188555 original size:40 final size:40
Alignment explanation
Indices: 71188403--71188548 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
71188393 TCGAATGATG
* * * *
71188403 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCCAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
71188443 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCCAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
71188483 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71188524 -CCGGGCCATGTCCCGAAGGCATTTG
1 TCCGGGCCAAGTCCCGAAGGCATTTG
71188549 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71188555 original size:80 final size:80
Alignment explanation
Indices: 71188403--71188571 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
71188393 TCGAATGATG
* * *
71188403 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACCAAGATCCGAAGGCATTT
**
71188468 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
71188483 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCCATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACCAAGAT-CCGAAGGCAT
*
71188546 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
71188563 TCC-GGTTAA
1 TCCGGGTTAA
71188572 AATCCAAAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
79 9 0.12
80 60 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACCAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:71192333 original size:18 final size:18
Alignment explanation
Indices: 71192312--71192353 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
71192302 CTCGATCTCA
71192312 GATGGAGTAATTATGTGC
1 GATGGAGTAATTATGTGC
71192330 GATGGAGTAATTATGTGC
1 GATGGAGTAATTATGTGC
71192348 GATGGA
1 GATGGA
71192354 TCGAACCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.31
Consensus pattern (18 bp):
GATGGAGTAATTATGTGC
Found at i:71202754 original size:30 final size:29
Alignment explanation
Indices: 71202708--71202766 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
71202698 TTCCCGAGCC
*
71202708 TAGGGGAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAATGTAATTATGCAAAAGTT
* *
71202737 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAATGTAATTATGCAAAAGTT
71202767 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (29 bp):
TAGGGGAAAAATGTAATTATGCAAAAGTT
Found at i:71222764 original size:49 final size:46
Alignment explanation
Indices: 71222508--71222765 Score: 209
Period size: 46 Copynumber: 5.5 Consensus size: 46
71222498 TCATATGTGT
* * **
71222508 GCTAGTATAAGACATGTCTGGGACATGCATCGGCCA-C-AGCATGAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATCGAG-AAGAAA
* * * *
71222554 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATTTAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA-A--GAAA
* * * * * * * *
71222603 -CCAGTGTAAGACATGTGTCGGACATCCATCGACATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAAA
* * *
71222648 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAAA
* * *
71222694 GCTAGTGTAAGACATGTCTGGGACAATGCATCGGCCTCGCGATATACAA
1 GCTAGTGTAAGACATGTCTGGGAC-ATGCATCGGCATCGAGA-AGA-AA
71222743 GCTAGTGTAAGATC-TGTCTGGGA
1 GCTAGTGTAAGA-CATGTCTGGGA
71222766 TATGACGTCA
Statistics
Matches: 172, Mismatches: 30, Indels: 17
0.79 0.14 0.08
Matches are distributed among these distances:
45 3 0.02
46 97 0.56
47 16 0.09
48 32 0.19
49 23 0.13
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAAA
Found at i:71222861 original size:49 final size:49
Alignment explanation
Indices: 71222789--71222920 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
71222779 TGTGGTGTGT
* * * * *
71222789 CAGTGTAAGACTTGTTTAGGACATGGCATTGACAC-CAATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
* *** *
71222838 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
*
71222887 CAGTGTAAGACCATGTCTGGGACATGGCGTCGAC
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCGAC
71222921 ATCTTAACCC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 49 0.71
50 19 0.28
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:71234662 original size:33 final size:33
Alignment explanation
Indices: 71234620--71234685 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
71234610 CCTCCTAGCA
71234620 AATAAAATGCTCAATTCCATTTTGTATTTCTTC
1 AATAAAATGCTCAATTCCATTTTGTATTTCTTC
71234653 AATAAAATGCTCAATTCCATTTTGTATTTCTTC
1 AATAAAATGCTCAATTCCATTTTGTATTTCTTC
71234686 TCCAATTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (33 bp):
AATAAAATGCTCAATTCCATTTTGTATTTCTTC
Found at i:71238360 original size:46 final size:46
Alignment explanation
Indices: 71238310--71238523 Score: 236
Period size: 46 Copynumber: 4.6 Consensus size: 46
71238300 TGGTTGAGCA
* * *
71238310 TCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
* * * *
71238356 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAA--A--CG
*
71238403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
* * * *
71238449 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
* * *
71238495 CCCGAGCTTGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
71238524 GCTTATGGGC
Statistics
Matches: 145, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
43 6 0.04
45 3 0.02
46 99 0.68
47 29 0.20
48 3 0.02
50 5 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
Found at i:71238466 original size:93 final size:93
Alignment explanation
Indices: 71238307--71238477 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
71238297 GGATGGTTGA
* * * *
71238307 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
71238372 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
71238400 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
71238465 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
71238478 ACTCATGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71241313 original size:30 final size:30
Alignment explanation
Indices: 71241258--71241388 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
71241248 ATAGTGAATC
*
71241258 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
71241287 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
71241317 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
71241345 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
71241375 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71241389 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:71241368 original size:58 final size:58
Alignment explanation
Indices: 71241257--71241388 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
71241247 TATAGTGAAT
* * * * *
71241257 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
71241316 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
71241374 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71241389 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:71249441 original size:40 final size:40
Alignment explanation
Indices: 71249396--71249525 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
71249386 CGGAATACAA
71249396 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
71249436 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
71249476 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
71249516 CCGGATATAA
1 CCGGATATAA
71249526 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:71249540 original size:40 final size:40
Alignment explanation
Indices: 71249396--71249562 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
71249386 CGGAATACAA
* **
71249396 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
71249436 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
71249476 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
71249516 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
71249555 CCGGATAT
1 CCGGATAT
71249563 CATTCAATTC
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:71257463 original size:40 final size:40
Alignment explanation
Indices: 71257418--71257584 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
71257408 CGGAATACAA
71257418 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
71257458 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
71257498 CCGGATGTAGCCACTAGCAC-AATTGCCTTC-GGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
71257537 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
71257577 CCGGATAT
1 CCGGATAT
71257585 CATTCAATTT
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 30 0.29
40 73 0.71
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:71260059 original size:27 final size:28
Alignment explanation
Indices: 71260003--71260072 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
71259993 AAACTTGTAC
*
71260003 AGCACTAAGTATGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
71260031 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
71260058 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71260073 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:71260083 original size:27 final size:27
Alignment explanation
Indices: 71260027--71260084 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
71260017 GAGTTTGATC
* * *
71260027 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
71260054 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
71260081 ATAT
1 ATAT
71260085 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:71262106 original size:14 final size:14
Alignment explanation
Indices: 71262087--71262114 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71262077 CAACTTTTTT
71262087 AGTAATTTAAGGAA
1 AGTAATTTAAGGAA
71262101 AGTAATTTAAGGAA
1 AGTAATTTAAGGAA
71262115 TTTACCGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
AGTAATTTAAGGAA
Found at i:71272796 original size:48 final size:50
Alignment explanation
Indices: 71272685--71272926 Score: 273
Period size: 50 Copynumber: 4.9 Consensus size: 50
71272675 ATACTAGGGC
* * * * * *
71272685 TATATGCGAGCCAGTGTAAGACTATGT-TTGGACCATGGCATTAGCATTG-
1 TATATGAGAGCCAGTGTAAGACCATGTCTGGGA-CATTGCATCAGCACTGA
* * ** *
71272734 T-TATGAG-GCTTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTG-
1 TATATGAGAGC-CAGTGTAAGACCATGTCTGGGACATTGCATCAGCACTGA
* *
71272782 T-TATGTA-AGCTAGTGTATGACCATGTCTGGGACATTGCATCAGCACTGA
1 TATATG-AGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCAGCACTGA
* *
71272831 TATATGAGAGCCAGTGTAAGACCATGTATGGGACATTGCATCAGCACCGA
1 TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCAGCACTGA
71272881 TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCAGCA
1 TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCAGCA
71272927 TTTTACCCTT
Statistics
Matches: 171, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
47 2 0.01
48 72 0.42
49 10 0.06
50 87 0.51
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCAGCACTGA
Found at i:71283421 original size:33 final size:33
Alignment explanation
Indices: 71283379--71283442 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
71283369 ATGAAATTGT
*
71283379 ATTAGATATTGAATTAGAGGGTCCTAATTAAGC
1 ATTAGATATTGAATTAAAGGGTCCTAATTAAGC
*
71283412 ATTAGATATTGAATTAAAGGGTCTTAATTAA
1 ATTAGATATTGAATTAAAGGGTCCTAATTAA
71283443 CAATTTGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (33 bp):
ATTAGATATTGAATTAAAGGGTCCTAATTAAGC
Found at i:71283917 original size:21 final size:21
Alignment explanation
Indices: 71283878--71283917 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
71283868 GGACTTGTTT
*
71283878 GTAAAAGTGTAAAACAAAATA
1 GTAAAAATGTAAAACAAAATA
* *
71283899 GTAAAAATGTGAAATAAAA
1 GTAAAAATGTAAAACAAAA
71283918 GAAAATATGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.15, T:0.20
Consensus pattern (21 bp):
GTAAAAATGTAAAACAAAATA
Found at i:71289950 original size:14 final size:14
Alignment explanation
Indices: 71289931--71289958 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71289921 ATTATTAATA
71289931 TTGTTAAATTTGTT
1 TTGTTAAATTTGTT
71289945 TTGTTAAATTTGTT
1 TTGTTAAATTTGTT
71289959 ATAGTGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (14 bp):
TTGTTAAATTTGTT
Found at i:71296799 original size:20 final size:20
Alignment explanation
Indices: 71296749--71296811 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
71296739 GAAAAAATTG
* *
71296749 GAATTTTTATAAA-TA-TTC
1 GAATTTTTAAAAATTATTTT
*
71296767 GAAATTTTAAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
*
71296787 GAATTTTTGAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
71296807 GAATT
1 GAATT
71296812 ATTTTGTGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
18 11 0.29
19 2 0.05
20 25 0.66
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (20 bp):
GAATTTTTAAAAATTATTTT
Found at i:71297445 original size:91 final size:92
Alignment explanation
Indices: 71297290--71297481 Score: 242
Period size: 91 Copynumber: 2.1 Consensus size: 92
71297280 ACAACTGTTG
* * *
71297290 CTATTCAATTGTTGGCTCTTCACATCTCTGCAACTGCTCCCTACTACTATTATTTTTTGTTTTTC
1 CTATTCAATCGCTGGCTCTTCACATCTCTGCAACTGCTCCCTACTACTATTATTTTTTATTTTTC
*
71297355 GGCATTTGGTGGCTACT-AAATTGGTT
66 GGCAATTGGTGGCTACTGAAATTGGTT
** * * * * * *
71297381 CTATTCAATCGCTGGCTCTTCAGGTCTTTGCAATTGTTCCTTGCTGCTATTATTTTTTATTTTTC
1 CTATTCAATCGCTGGCTCTTCACATCTCTGCAACTGCTCCCTACTACTATTATTTTTTATTTTTC
** *
71297446 GGCAATTGGTGGCTGTTGCAATTGGTT
66 GGCAATTGGTGGCTACTGAAATTGGTT
71297473 CTATTCAAT
1 CTATTCAAT
71297482 TGTTGGTTGC
Statistics
Matches: 85, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
91 68 0.80
92 17 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (92 bp):
CTATTCAATCGCTGGCTCTTCACATCTCTGCAACTGCTCCCTACTACTATTATTTTTTATTTTTC
GGCAATTGGTGGCTACTGAAATTGGTT
Found at i:71306497 original size:29 final size:29
Alignment explanation
Indices: 71306462--71306652 Score: 197
Period size: 29 Copynumber: 6.6 Consensus size: 29
71306452 CCACTCGATT
* *
71306462 TCGCACACTTAGTGCCACATAATTT-AAGC
1 TCGCACACTTAGTGCCATAT-ATTTCCAGC
** *** *
71306491 TCGCACACACAGTGCCATA-CCCTCCGAAC
1 TCGCACACTTAGTGCCATATATTTCC-AGC
** * *
71306520 TCGCACACCCAGTGCCGTATTTTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
* *
71306549 TTGCACACTTAGTGCCAAATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
71306578 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
71306607 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
71306636 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
71306653 ATCTCGTCAC
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
29 132 0.97
30 3 0.02
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.25
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATATTTCCAGC
Found at i:71310814 original size:49 final size:49
Alignment explanation
Indices: 71310745--71310886 Score: 162
Period size: 49 Copynumber: 2.9 Consensus size: 49
71310735 ACCATGGTTA
* *
71310745 ATGAGATCCTGTGTAAGACCATATCTAGGACATGGCATCGGCATCCGAG
1 ATGAGATCCCGTGTAAGACCATATCTAGGACATGGCATCGGCATCCAAG
* * * *
71310794 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGACATCGGCA-CCAAT
1 ATGAGATCCCGTGTAAGACCATATCTAGGACATGGCATCGGCATCCAAG
* * * * *
71310842 ATGTGATCCCGTATAAAACCATATC-AGGGATATGGCTTCGGCATC
1 ATGAGATCCCGTGTAAGACCATATCTA-GGACATGGCATCGGCATC
71310887 GTTAAGTGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 37 0.48
49 40 0.52
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (49 bp):
ATGAGATCCCGTGTAAGACCATATCTAGGACATGGCATCGGCATCCAAG
Found at i:71316063 original size:46 final size:46
Alignment explanation
Indices: 71316010--71316133 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
71316000 TATGTGTACT
*
71316010 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGACGAGAGCC
* * *
71316056 AGTGTAAGACATGTTTGGGACATGCATTGG--CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATT--GACGAGAGCC
*
71316102 AGTGTAAGACATGTCTGAGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
71316134 TCGAGATATA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.06
46 62 0.94
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGACGAGAGCC
Found at i:71320378 original size:29 final size:28
Alignment explanation
Indices: 71320346--71320448 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
71320336 GGGACGAGAT
* *
71320346 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
71320375 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
71320404 TGGCACTACGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
71320433 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71320449 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:71326792 original size:54 final size:53
Alignment explanation
Indices: 71326694--71326811 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 53
71326684 ATGTTTTTTG
* *
71326694 GGGTTTAGGGTTTTAGAGGTTATAGTTTAGTGTTTAGGGGTTTTT-GGGATTTA
1 GGGTTTAGGGTTTTAGAGGTTATAGATTAGTGTTTAGGAGTTTTTAGGG-TTTA
* * ** *
71326747 GAGGTTTAGTGTTTTAGGGGTTATAGATTAGTGTTTATTATTTTTTAGGGTTTA
1 G-GGTTTAGGGTTTTAGAGGTTATAGATTAGTGTTTAGGAGTTTTTAGGGTTTA
71326801 GGGTTTTAGGG
1 GGG-TTTAGGG
71326812 ATTATCTGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.06
54 48 0.89
55 3 0.06
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (53 bp):
GGGTTTAGGGTTTTAGAGGTTATAGATTAGTGTTTAGGAGTTTTTAGGGTTTA
Found at i:71326867 original size:41 final size:41
Alignment explanation
Indices: 71326830--71327000 Score: 245
Period size: 41 Copynumber: 4.2 Consensus size: 41
71326820 ACTTTTAACT
*
71326830 GCGTTTTAATGAAAGCACCGCTAATGCTCTGGTTTTTAGCG
1 GCGTTTTAATGAAAGCGCCGCTAATGCTCTGGTTTTTAGCG
* *
71326871 GTGTATTAATGAAAGCGCCGCTAATGCTCTGGTTTTTAGCG
1 GCGTTTTAATGAAAGCGCCGCTAATGCTCTGGTTTTTAGCG
* *
71326912 GTGTTTT-ATCGAAAGCGCCGCTAATGCTTTGGTTTTTAGCG
1 GCGTTTTAAT-GAAAGCGCCGCTAATGCTCTGGTTTTTAGCG
***
71326953 GCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCG
1 GCGTTTTAATGAAAGCGCCGCTAATGCTCTGGTTTTTAGCG
*
71326994 GCATTTT
1 GCGTTTT
71327001 TGGTAAAACG
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 2 0.02
41 115 0.98
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
GCGTTTTAATGAAAGCGCCGCTAATGCTCTGGTTTTTAGCG
Found at i:71334364 original size:49 final size:49
Alignment explanation
Indices: 71334304--71334532 Score: 296
Period size: 49 Copynumber: 4.5 Consensus size: 49
71334294 TACATATATG
* *
71334304 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
* * *
71334353 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
* *
71334402 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCC-A-AT-GTG-A--TG-AA-TGTGAAAGTGTATGTATA
* *
71334459 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
*
71334508 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
71334533 AAAATATATG
Statistics
Matches: 158, Mismatches: 14, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
49 105 0.66
50 2 0.01
51 3 0.02
52 3 0.02
54 3 0.02
55 3 0.02
56 2 0.01
57 37 0.23
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
Found at i:71334450 original size:57 final size:57
Alignment explanation
Indices: 71334384--71334500 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
71334374 ATGTGGTGAA
*
71334384 TGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
71334441 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
71334498 TGT
1 TGT
71334501 ATGTATATGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.28, C:0.07, G:0.34, T:0.31
Consensus pattern (57 bp):
TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
Found at i:71334489 original size:106 final size:106
Alignment explanation
Indices: 71334335--71334526 Score: 366
Period size: 106 Copynumber: 1.8 Consensus size: 106
71334325 ATGCGATGAA
*
71334335 TGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTA
*
71334400 TATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
66 TATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
71334441 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTA
71334506 TATGTGATAAGGCCTAATGGC
66 TATGTGATAAGGCCTAATGGC
71334527 TAATGTAAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 84 1.00
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (106 bp):
TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTA
TATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG
Found at i:71334678 original size:37 final size:37
Alignment explanation
Indices: 71334628--71334749 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
71334618 GGAATTTGTT
*
71334628 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
71334665 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
71334702 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
71334739 CCGGGTAAGAC
1 CCGGGTAAGAC
71334750 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:71336846 original size:29 final size:29
Alignment explanation
Indices: 71336804--71336995 Score: 359
Period size: 29 Copynumber: 6.7 Consensus size: 29
71336794 GCGAATGATT
71336804 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
71336833 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
71336862 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
71336891 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
71336920 GAGGCACTATGTGTGCGAGATCAGTAAT-
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
71336948 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
71336977 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
71336996 TTTTTCAACA
Statistics
Matches: 161, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
28 28 0.17
29 133 0.83
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:71337577 original size:40 final size:41
Alignment explanation
Indices: 71337479--71337577 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
71337469 TTCGAATGGT
* ** * *
71337479 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
71337520 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
71337561 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
71337578 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:71340354 original size:49 final size:49
Alignment explanation
Indices: 71340298--71340512 Score: 385
Period size: 49 Copynumber: 4.4 Consensus size: 49
71340288 TACATATATG
* * * *
71340298 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
71340347 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
71340396 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
71340445 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
71340494 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
71340513 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:71340664 original size:37 final size:37
Alignment explanation
Indices: 71340614--71340698 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
71340604 GGAATATGTT
*
71340614 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
71340651 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
71340688 CCGGGTAAGAC
1 CCGGGTAAGAC
71340699 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:71342794 original size:29 final size:29
Alignment explanation
Indices: 71342752--71342915 Score: 310
Period size: 29 Copynumber: 5.7 Consensus size: 29
71342742 GCGAATGATT
71342752 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
71342781 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
71342810 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
71342839 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
71342868 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
71342897 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
71342916 TTTTTCAACA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 133 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:71343497 original size:40 final size:41
Alignment explanation
Indices: 71343399--71343497 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
71343389 TTCGAATGGT
* ** * *
71343399 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
71343440 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
71343481 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
71343498 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:71346282 original size:49 final size:49
Alignment explanation
Indices: 71346222--71346484 Score: 456
Period size: 49 Copynumber: 5.4 Consensus size: 49
71346212 TACATATATG
* * * *
71346222 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
71346271 TGTGATGAGGCCTAATGGCCGATGT-GTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
71346319 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
71346368 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
71346417 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
71346466 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
71346485 TAATGTAAAA
Statistics
Matches: 207, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 47 0.23
49 160 0.77
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:71346636 original size:37 final size:37
Alignment explanation
Indices: 71346586--71346706 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
71346576 GGAATATGTT
*
71346586 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
71346623 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
71346660 CCGGGTAAGACCCGATGACTACGTGTGGA-ATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
71346696 CCGGGTAAGAC
1 CCGGGTAAGAC
71346707 TTCTTTTATA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
36 17 0.21
37 65 0.79
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:71367341 original size:20 final size:19
Alignment explanation
Indices: 71367308--71367350 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
71367298 ACCTATTTGT
* * *
71367308 AAAAAGTTGTAAAATGTGTA
1 AAAAAGTGGAAAAAGGTG-A
71367328 AAAAAGTGGAAAAAGGTGA
1 AAAAAGTGGAAAAAGGTGA
71367347 AAAA
1 AAAA
71367351 TGCGGACTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (19 bp):
AAAAAGTGGAAAAAGGTGA
Found at i:71369694 original size:28 final size:29
Alignment explanation
Indices: 71369662--71369726 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
71369652 TAGATGGTGT
71369662 CACAAAGGCATTCCTTT-TC-AGAGATAGC
1 CACAAAGGCATT-CTTTATCTAGAGATAGC
*
71369690 CACAAAGG-ATTCTTTATCTAGAGATTGC
1 CACAAAGGCATTCTTTATCTAGAGATAGC
71369718 CACAAAGGC
1 CACAAAGGC
71369727 GTCATTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 4 0.12
27 5 0.15
28 24 0.73
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (29 bp):
CACAAAGGCATTCTTTATCTAGAGATAGC
Found at i:71369799 original size:28 final size:27
Alignment explanation
Indices: 71369748--71369918 Score: 112
Period size: 28 Copynumber: 6.1 Consensus size: 27
71369738 TAAGTACTTA
* *
71369748 CCACAAAGGCTTTCCTTTCAAGGTCTCG
1 CCACAAAGGCTATCCTTTAAAGGT-TCG
71369776 CCACAAAGGC-ATCCTTTAAGAGGTTCG
1 CCACAAAGGCTATCCTTTAA-AGGTTCG
* * *
71369803 CCACAAAGGCTTACCCTTCTAAAGTTTTG
1 CCACAAAGGC-TATCCTT-TAAAGGTTCG
* * * * *
71369832 CGACAAATGCTATCTTTTAACATGTTCA
1 CCACAAAGGCTATCCTTTAA-AGGTTCG
* * * **
71369860 CCACAAAGGCT-TACTTTCGAGAGTTTTT
1 CCACAAAGGCTATCCTTT--AAAGGTTCG
*
71369888 CCATAAAGGCTATCCTTTAATAGGTTCG
1 CCACAAAGGCTATCCTTTAA-AGGTTCG
71369916 CCA
1 CCA
71369919 ACAATGCTTG
Statistics
Matches: 106, Mismatches: 28, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
27 28 0.26
28 51 0.48
29 24 0.23
30 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (27 bp):
CCACAAAGGCTATCCTTTAAAGGTTCG
Found at i:71369954 original size:57 final size:55
Alignment explanation
Indices: 71369777--71369962 Score: 160
Period size: 57 Copynumber: 3.3 Consensus size: 55
71369767 AAGGTCTCGC
* * * *
71369777 CACAAAGGC-ATCCTTTAAGAGGTTCGCCACAAAGGCTTACCCTTCTAAAGTTTTG
1 CACAAAGGCTATCCTTTAACAGGTTCGCCACAAAGGCTT-CCTTTCCAAATTTTTG
* * * * * * * *
71369832 CGACAAATGCTATCTTTTAACATGTTCACCACAAAGGCTTACTTTCGAGAGTTTTTC
1 C-ACAAAGGCTATCCTTTAACAGGTTCGCCACAAAGGCTTCCTTTCCA-AATTTTTG
* * *
71369889 CATAAAGGCTATCCTTTAATAGGTTCGCCA-ACAATGCTTGCCTTTCCAAATTTTTTG
1 CACAAAGGCTATCCTTTAACAGGTTCGCCACA-AAGGCTT-CCTTTCCAAA-TTTTTG
*
71369946 CACAAAGGCTGTCCTTT
1 CACAAAGGCTATCCTTT
71369963 TTCTGGTGTT
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
55 2 0.02
56 42 0.42
57 57 0.56
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (55 bp):
CACAAAGGCTATCCTTTAACAGGTTCGCCACAAAGGCTTCCTTTCCAAATTTTTG
Found at i:71372252 original size:47 final size:46
Alignment explanation
Indices: 71372182--71372404 Score: 188
Period size: 47 Copynumber: 4.8 Consensus size: 46
71372172 GTTATTGTTG
* * * *
71372182 GCTAATGTAAGA-CATGTCCGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTACA-GATGAGA
* ** *
71372228 G-TCAATGTAAGACCATGTCTGGGACATGGCATC-AATATTGAGACT-AGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA--CAGA-TGAGA
*
71372276 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTAC-AGATGAGA
* * ** *
71372322 G-TCAGTGTAAGACCATGTCTGGAACATGGCATCGACTTGAGATGTGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTACAGATGAGA
71372369 GCTAGTGTAAGACCATGTCTGGGACATGCCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATG-CATCGGC
71372405 ACCTTATCCA
Statistics
Matches: 143, Mismatches: 19, Indels: 29
0.75 0.10 0.15
Matches are distributed among these distances:
45 3 0.02
46 31 0.22
47 79 0.55
48 27 0.19
49 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTACAGATGAGA
Found at i:71372349 original size:94 final size:93
Alignment explanation
Indices: 71372182--71372404 Score: 297
Period size: 94 Copynumber: 2.4 Consensus size: 93
71372172 GTTATTGTTG
* * *
71372182 GCTAATGTAAGACATGTCCGGGACATGCATCGGCCACATTATGAGAGTCAATGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGTCAATGTAAGACCATGTC
*
71372247 TGGGACATGGCATCAATATTGAGACT-AGA
66 TGGAACATGGCATCAA-ATTGAGA-TGAGA
* * *
71372276 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGTCAATGTAAGACCATGT
* * *
71372340 CTGGAACATGGCATCGACTTGAGATGTGA
65 CTGGAACATGGCATCAAATTGAGATGAGA
71372369 GCTAGTGTAAGACCATGTCTGGGACATGCCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGC
71372405 ACCTTATCCA
Statistics
Matches: 115, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
92 1 0.01
93 20 0.17
94 86 0.75
95 8 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGTCAATGTAAGACCATGTC
TGGAACATGGCATCAAATTGAGATGAGA
Found at i:71374708 original size:47 final size:45
Alignment explanation
Indices: 71374641--71374851 Score: 160
Period size: 46 Copynumber: 4.5 Consensus size: 45
71374631 ATTATTGGCA
* *
71374641 AGTGTAAGACATGTCCGGGACATGCATCAGCCACATTATGA-GAGA-T
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CA-ATGA-GACGAGACT
71374687 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCAATGAGACGAGA-CT
* * * *
71374735 AGTGTAAGATATGTCTGGGACATGCATCGGC-CTCGAGAC-ATAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCAAT-GAGACGA-GA-CT
* ** * * * * * *
71374781 AGTGTAAGACATGTTTGATACATGCATCTGCTACGAGATGATAGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCAATGAGACGAGACT
71374826 CAGTGTAAGACCATGTCTGGGACATG
1 -AGTGTAAGA-CATGTCTGGGACATG
71374852 GTATCGACTT
Statistics
Matches: 135, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
45 5 0.04
46 72 0.53
47 41 0.30
48 17 0.13
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCAATGAGACGAGACT
Found at i:71374781 original size:46 final size:48
Alignment explanation
Indices: 71374686--71374906 Score: 192
Period size: 47 Copynumber: 4.7 Consensus size: 48
71374676 TTATGAGAGA
* *
71374686 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCAAT-GAGACGA-GAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGAC-ATGAGC
* *
71374734 TAGTGTAAGA-TATGTCTGGGACAT-GCATCGGCCTCGAGACATAAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACATGAGC
* ** * *
71374780 TAGTGTAAGA-CATGTTTGATACAT-GCATCTG-CTACGAGATGAT-AG-
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGA-CATGAGC
* * * *
71374825 TCAGTGTAAGACCATGTCTGGGACATGGTATC-GACTTGAGATATGAGC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACATGAGC
* *
71374873 TAGTGTAGGACCATGTCTGGGATATGGCATCGGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC
71374907 ACCTTACCCA
Statistics
Matches: 142, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
45 5 0.04
46 59 0.42
47 60 0.42
48 18 0.13
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACATGAGC
Found at i:71377882 original size:29 final size:30
Alignment explanation
Indices: 71377836--71377897 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
71377826 CCGGATATCA
71377836 CGATTTGCACAAATGCCTTCGGGTCTTAGCC
1 CGATTTG-ACAAATGCCTTCGGGTCTTAGCC
71377867 CGATTTG-CAAATGCCTTCGGGTCTTAGCC
1 CGATTTGACAAATGCCTTCGGGTCTTAGCC
71377896 CG
1 CG
71377898 GATAGAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 24 0.77
31 7 0.23
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (30 bp):
CGATTTGACAAATGCCTTCGGGTCTTAGCC
Found at i:71377931 original size:40 final size:38
Alignment explanation
Indices: 71377876--71377978 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 38
71377866 CCGATTTGCA
*
71377876 AATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCAC
1 AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTAGCAC
*
71377915 GAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCAC
1 -AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTAGCAC
*
71377955 AATTGCCTTCGGGTCTTAACCCGG
1 AA-TGCCTTCGGGTCTTAGCCCGG
71377979 TTATAATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 52 0.91
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGTCTTAGCCCGGATGAAGCACTAGCAC
Found at i:71393058 original size:80 final size:80
Alignment explanation
Indices: 71392974--71393122 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71392964 TATGGTAACC
* * * *
71392974 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71393038 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71393054 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71393119 CCGG
66 CCGG
71393123 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:71393064 original size:40 final size:38
Alignment explanation
Indices: 71393015--71393122 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71393005 ATCACGATTT
*
71393015 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71393055 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71393095 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71393123 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:71407676 original size:22 final size:22
Alignment explanation
Indices: 71407642--71407683 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
71407632 TATATTCCTA
*
71407642 AATATATGCCTAAAATATATAC
1 AATATATGCCTAAAAGATATAC
**
71407664 AATATATTTCTAAAAGATAT
1 AATATATGCCTAAAAGATAT
71407684 CCCATTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
AATATATGCCTAAAAGATATAC
Found at i:71411682 original size:71 final size:71
Alignment explanation
Indices: 71411594--71411757 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
71411584 CGATTTGTCT
*
71411594 CGTAGCTCTCTTATCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
71411659 CTTTCA
66 CTTTCA
* *
71411665 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
71411730 CTTTCA
66 CTTTCA
71411736 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
71411758 GATACATCTC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:71411795 original size:71 final size:70
Alignment explanation
Indices: 71411594--71411791 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
71411584 CGATTTGTCT
* * * * * *
71411594 CGTAGCTCTCTTATCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
71411659 CTTTCA
65 CTTTCA
* * * *
71411665 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
71411730 CTTTCA
65 CTTTCA
* *
71411736 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
71411792 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 93 0.79
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:71415689 original size:29 final size:28
Alignment explanation
Indices: 71415655--71415757 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
71415645 TACTCAATCA
*
71415655 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
71415684 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
71415713 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
71415742 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
71415758 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:71419384 original size:12 final size:12
Alignment explanation
Indices: 71419367--71419426 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
71419357 AAATATATAT
71419367 AATATATTCCTA
1 AATATATTCCTA
71419379 AATATATTCCTA
1 AATATATTCCTA
*
71419391 AATATATGCCTA
1 AATATATTCCTA
*
71419403 AA-ATA-T-ATA
1 AATATATTCCTA
71419412 CAATATATTCCTA
1 -AATATATTCCTA
71419425 AA
1 AA
71419427 AGATATCCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 2 0.05
10 2 0.05
11 6 0.15
12 28 0.70
13 2 0.05
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (12 bp):
AATATATTCCTA
Found at i:71421362 original size:49 final size:49
Alignment explanation
Indices: 71421283--71421514 Score: 248
Period size: 49 Copynumber: 4.7 Consensus size: 49
71421273 GTTATTGTGA
* *
71421283 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * **
71421332 TGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
71421382 CGATCACGTGTGTAGTGCTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
71421432 AGGTAACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
71421482 GGTCGCATGTGTAGTACTATGTGCGGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
71421515 TGCATACCAG
Statistics
Matches: 147, Mismatches: 34, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
49 67 0.46
50 45 0.31
51 35 0.24
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:71425975 original size:22 final size:22
Alignment explanation
Indices: 71425933--71426075 Score: 153
Period size: 22 Copynumber: 6.4 Consensus size: 22
71425923 ATACCTAGTA
* *
71425933 AGAGCTTACTGTTTCAACTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
*
71425956 GGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
71425978 AGAGCTTACCGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* ** *
71426000 AAAGCTTACCATTCAGCTCATT
1 AGAGCTTACTGTTCAGCTCAAT
* *
71426022 AGATCTTATTGTTTCAGCTCAAT
1 AGAGCTTACTG-TTCAGCTCAAT
*
71426045 AGAGCTTACTATTCAGCTCAA-
1 AGAGCTTACTGTTCAGCTCAAT
71426066 AGGAGCTTAC
1 A-GAGCTTAC
71426076 CAACCATGAC
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
21 1 0.01
22 72 0.71
23 28 0.28
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:71426051 original size:45 final size:45
Alignment explanation
Indices: 71425933--71426075 Score: 173
Period size: 45 Copynumber: 3.2 Consensus size: 45
71425923 ATACCTAGTA
* * * *
71425933 AGAGCTTACTGTTTCAACTCATTGGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAATAGAGCTTACTATTCAGCTCAAT
* * * *
71425978 AGAGCTTACCG-TTCAGCTCAATAAAGCTTACCATTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAATAGAGCTTACTATTCAGCTCAAT
* *
71426022 AGATCTTATTGTTTCAGCTCAATAGAGCTTACTATTCAGCTCAA-
1 AGAGCTTACTGTTTCAGCTCAATAGAGCTTACTATTCAGCTCAAT
71426066 AGGAGCTTAC
1 A-GAGCTTAC
71426076 CAACCATGAC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.44
45 45 0.56
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (45 bp):
AGAGCTTACTGTTTCAGCTCAATAGAGCTTACTATTCAGCTCAAT
Found at i:71428774 original size:29 final size:29
Alignment explanation
Indices: 71428742--71428877 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
71428732 ATACCCTTCG
** * *
71428742 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
71428771 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
71428800 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
71428829 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
71428858 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
71428878 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:71428869 original size:58 final size:58
Alignment explanation
Indices: 71428717--71428876 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
71428707 AATTTAAGCC
* *** * * ** * *
71428717 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
71428775 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
71428833 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
71428877 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:71436549 original size:29 final size:29
Alignment explanation
Indices: 71436517--71436652 Score: 148
Period size: 29 Copynumber: 4.7 Consensus size: 29
71436507 ATACCCTTCG
** * *
71436517 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * ** *
71436546 AGCTTGCACACATAGTGTTATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
71436575 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
71436604 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
71436633 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
71436653 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 91 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:71436644 original size:58 final size:58
Alignment explanation
Indices: 71436492--71436651 Score: 167
Period size: 58 Copynumber: 2.8 Consensus size: 58
71436482 AATTTAAGCC
* *** * * ** * *
71436492 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* ** * * *
71436550 TGCACACATAGTGTTATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
71436608 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
71436652 AATCTCGTCA
Statistics
Matches: 81, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
58 81 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:71437298 original size:142 final size:143
Alignment explanation
Indices: 71437134--71437427 Score: 572
Period size: 143 Copynumber: 2.1 Consensus size: 143
71437124 TATACCCCAT
71437134 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCAC-AAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
71437198 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
71437263 GAAGACAACATGC
131 GAAAACAACATGC
71437276 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
71437341 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
71437406 GAAAACAACATGC
131 GAAAACAACATGC
71437419 ATGGCCGAA
1 ATGGCCGAA
71437428 AGTTAACTCA
Statistics
Matches: 150, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
142 52 0.35
143 98 0.65
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.21
Consensus pattern (143 bp):
ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACATGC
Found at i:71439149 original size:27 final size:27
Alignment explanation
Indices: 71439131--71439408 Score: 267
Period size: 27 Copynumber: 10.1 Consensus size: 27
71439121 AGGCATCCCC
71439131 TTTATAGATCACCACAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
*
71439158 TTTATAGATCACCACAAAGACTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
* * *
71439185 TTTAGAGATCGCCACAAAGGCTTCCTA
1 TTTATAGATCACCACAAAGGCTTCCTT
* *
71439212 TTCATAGATTC-CCACAAAGGCTTCATT
1 TTTATAGA-TCACCACAAAGGCTTCCTT
* *
71439239 TTCATAGATAGCCACACCACAAAGGCTTTCTT
1 TTTATAGAT-----CACCACAAAGGCTTCCTT
** *
71439271 TTTATAGATTGCTACAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
* * *
71439298 TTCA-ATGAT-AGCTATAAAGGCTTCCTT
1 TTTATA-GATCA-CCACAAAGGCTTCCTT
* *
71439325 TTCATAGATCACTACAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
* *
71439352 TTCATTGAT-AGCCACAAAGGCTTCCTT
1 TTTATAGATCA-CCACAAAGGCTTCCTT
* *
71439379 TTCATAGATCACCATAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
71439406 TTT
1 TTT
71439409 TGGCCTATTT
Statistics
Matches: 213, Mismatches: 25, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
26 3 0.01
27 182 0.85
28 5 0.02
31 1 0.00
32 22 0.10
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (27 bp):
TTTATAGATCACCACAAAGGCTTCCTT
Found at i:71439276 original size:113 final size:110
Alignment explanation
Indices: 71439140--71439408 Score: 330
Period size: 113 Copynumber: 2.4 Consensus size: 110
71439130 CTTTATAGAT
* *
71439140 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGACTTCCTTTTTAGA-GATCGCCACAAAG
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTA-ATGATAGCCACAAAG
71439204 GCTTCCTATTCATAGATTC-CCACAAAGGCTTCATTTTCATAGATAG
65 GCTTCCTATTCATAGA-TCACCACAAAGGCTTCATTTTCATAGATAG
* ** * * * *
71439250 CCACACCACAAAGGCTTTCTTTTTATAGATTGCTACAAAGGCTTCCTTTTCAATGATAGCTATAA
1 ---CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAATGATAGCCACAA
* * * *
71439315 AGGCTTCCTTTTCATAGATCACTACAAAGGCTTCCTTTTCATTGATAG
63 AGGCTTCCTATTCATAGATCACCACAAAGGCTTCATTTTCATAGATAG
* *
71439363 --CCACAAAGGCTTCCTTTTCATAGATCACCATAAAGGCTTCCTTTTT
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTT
71439409 TGGCCTATTT
Statistics
Matches: 134, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
108 39 0.29
112 3 0.02
113 92 0.69
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (110 bp):
CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAATGATAGCCACAAAGG
CTTCCTATTCATAGATCACCACAAAGGCTTCATTTTCATAGATAG
Found at i:71444417 original size:40 final size:40
Alignment explanation
Indices: 71444360--71444462 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
71444350 ATCCGGGCTA
71444360 AGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAG-TT
1 AGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAGATT
* * * * *
71444399 AATTCCCGAAGGCATTTGTGCGAGTTCCCAAATCTGGGATT
1 -AGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAGATT
*
71444440 AGTCCCGAAGGCATTTATGCGAG
1 AGTCCCGAAGGCATTTGTGCGAG
71444463 CTATTATAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 53 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAGATT
Found at i:71452419 original size:40 final size:39
Alignment explanation
Indices: 71452318--71452467 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
71452308 TGAATGGTAT
*
71452318 CCGGGCTAAGTCCCGAAGGCATTTGT-CGAGTTACCAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* *
71452356 CCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTCCCAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* * * **
71452395 TCTGGGATT-AGTCCCGAAGGCATTTATGCGAGCTATTATAA
1 -CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AA
* * * *
71452436 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
71452468 CGCTATATCC
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 24 0.27
39 12 0.13
40 50 0.56
41 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
Found at i:71458792 original size:49 final size:51
Alignment explanation
Indices: 71458671--71458798 Score: 179
Period size: 49 Copynumber: 2.5 Consensus size: 51
71458661 ACGGATACCC
* *
71458671 AGTGGCCTGCACATAGTACCACACTTGTGACCAAAGCTATCTTTGTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAA
* *
71458723 AGTGGCCTTCACATAGTACCACACTTGTGACC-AATCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
* *
71458772 AGTGGTCTTCCCATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
71458799 AGTCACTAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
49 32 0.46
51 7 0.10
52 31 0.44
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
Found at i:71461758 original size:20 final size:21
Alignment explanation
Indices: 71461735--71461774 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
71461725 TAAATTATTA
71461735 ATTTTCATAATA-TTTTAATT
1 ATTTTCATAATAGTTTTAATT
**
71461755 ATTTTGTTAATAGTTTTAAT
1 ATTTTCATAATAGTTTTAAT
71461775 CAGATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (21 bp):
ATTTTCATAATAGTTTTAATT
Found at i:71464489 original size:43 final size:43
Alignment explanation
Indices: 71464429--71464856 Score: 500
Period size: 43 Copynumber: 10.0 Consensus size: 43
71464419 TTGAAATGAT
* *
71464429 ATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* * * * * *
71464472 ATATGTGGTTACGTGTAATACCATGTTTGGGACGTTGGCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* * *
71464515 ATATGTAATTACGTGTAAGACCACGTCTGGGACATCGGCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* * * * * *
71464558 ATATCTGATTACATGTAAGACCACGTCTGAGACGTTGGCACCC
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* **
71464601 ATATGTGATTACGTGTAAGTCTGCGTCTGGGACATTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* * * *
71464644 ATATATGATTACATGTAAGACCACGTCTGGAATATTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* * * *
71464687 ATATGTGCTTACGTGTAAGACCACATCTGGGACGTTGGCAACG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* * *
71464730 ATATGTGATTACATGTAAGACC-CTGTCTGGGACAATGACATCG
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGACATTGGCATCG
* * *
71464773 ATATGTGATTACGTGTAAGACC-CTATCTGGGACAATGGCATCT
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGACATTGGCATCG
* *
71464816 ATATGTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
71464857 TGTACAATAT
Statistics
Matches: 324, Mismatches: 59, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
42 1 0.00
43 322 0.99
44 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:71467011 original size:20 final size:23
Alignment explanation
Indices: 71466983--71467028 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
71466973 TTAAATGTTA
*
71466983 ATGTTTTTTA-AAATT-TTAT-T
1 ATGTGTTTTATAAATTATTATGT
71467003 ATGTGTTTTATAAATTATTATGT
1 ATGTGTTTTATAAATTATTATGT
71467026 ATG
1 ATG
71467029 CATTCGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 4 0.18
23 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (23 bp):
ATGTGTTTTATAAATTATTATGT
Found at i:71476777 original size:39 final size:40
Alignment explanation
Indices: 71476719--71476819 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
71476709 AAATTGAATG
* *
71476719 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
71476758 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
71476798 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
71476820 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:71476851 original size:38 final size:38
Alignment explanation
Indices: 71476760--71476868 Score: 139
Period size: 38 Copynumber: 2.8 Consensus size: 38
71476750 CTGAAATTAT
* *
71476760 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTAGCTAA
**
71476800 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAGT-TTTAA
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCAGTAGCTAA
71476838 ATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
71476869 AATCGTGATA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
38 30 0.48
39 8 0.13
40 25 0.40
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCAGTAGCTAA
Found at i:71484873 original size:39 final size:38
Alignment explanation
Indices: 71484815--71484987 Score: 129
Period size: 39 Copynumber: 4.5 Consensus size: 38
71484805 AAATTGAATG
*
71484815 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCT--AATCT
* * * *
71484854 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAAT-CT
* * *
71484893 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGT-T
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAATCT
* * * * *
71484929 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATC-T
* *
71484968 GATATCCGGGTTAAGTCCCG
1 -ATATCCGGGCTAAGACCCG
71484988 TAGGCCTTGG
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
36 28 0.25
37 6 0.05
38 6 0.05
39 58 0.51
40 16 0.14
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATCT
Found at i:71484941 original size:36 final size:36
Alignment explanation
Indices: 71484853--71484961 Score: 148
Period size: 36 Copynumber: 2.9 Consensus size: 36
71484843 ATGCTGAAAT
*
71484853 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGT-C
71484892 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGT-
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAGTC
*
71484928 TTTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
71484962 AATCGTGATA
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
36 30 0.45
37 2 0.03
38 6 0.09
39 28 0.42
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (36 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTC
Found at i:71487942 original size:30 final size:30
Alignment explanation
Indices: 71487897--71487956 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71487887 ATTTAATGCG
* *
71487897 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
71487927 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
71487957 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:71492294 original size:14 final size:14
Alignment explanation
Indices: 71492275--71492341 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
71492265 GTTTACAGGT
*
71492275 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
71492289 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
71492303 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
71492318 AAAATGATTTCTGG
1 AAAATGATTTCTGG
71492332 AAAATGATTT
1 AAAATGATTT
71492342 ACTTTTCTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:71492523 original size:16 final size:16
Alignment explanation
Indices: 71492486--71492533 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
71492476 TTGAGTTTAC
*
71492486 TTTATATA-TATATATA
1 TTTATATATTA-ATAAA
*
71492502 TATATATATTAATAAA
1 TTTATATATTAATAAA
71492518 TTTATATATTAATAAA
1 TTTATATATTAATAAA
71492534 AAATTTCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 26 0.93
17 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATATATTAATAAA
Found at i:71492525 original size:20 final size:19
Alignment explanation
Indices: 71492500--71492539 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71492490 TATATATATA
* *
71492500 TATATATATATTAATAAATT
1 TATATAT-TAATAAAAAATT
71492520 TATATATTAATAAAAAATT
1 TATATATTAATAAAAAATT
71492539 T
1 T
71492540 CCTTCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATTAATAAAAAATT
Found at i:71493228 original size:3 final size:3
Alignment explanation
Indices: 71493220--71493248 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
71493210 TTGAAGAATG
71493220 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
71493249 CTTACCTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:71496708 original size:64 final size:63
Alignment explanation
Indices: 71496634--71496814 Score: 195
Period size: 67 Copynumber: 2.8 Consensus size: 63
71496624 CATTATGATA
* * *
71496634 TAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTCCGGGATATATG-
1 TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA-A-GC
* * * *
71496698 TAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAG
1 TAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGATAAG
71496763 C
63 C
* * * *
71496764 TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
71496815 CGAACTATAT
Statistics
Matches: 97, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 23 0.24
65 1 0.01
66 24 0.25
67 29 0.30
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (63 bp):
TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAGC
Found at i:71502023 original size:16 final size:17
Alignment explanation
Indices: 71502002--71502033 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71501992 ACTATGGTAT
71502002 ATGAAAT-AATGATATA
1 ATGAAATAAATGATATA
71502018 ATGAAATAAATGATAT
1 ATGAAATAAATGATAT
71502034 GTGTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (17 bp):
ATGAAATAAATGATATA
Found at i:71505387 original size:14 final size:13
Alignment explanation
Indices: 71505364--71505396 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
71505354 AGGATATCAA
71505364 AACAAGAATTAAG
1 AACAAGAATTAAG
71505377 AACACAGAATTAAG
1 AACA-AGAATTAAG
71505391 AACAAG
1 AACAAG
71505397 TTAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:71507539 original size:63 final size:63
Alignment explanation
Indices: 71507461--71507587 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
71507451 TGGGCCATAG
71507461 CCCATTATAGTTACAATATCAGTAATGCAACCAAGATCCTAGCCATCCATCCTCTACACTCTA
1 CCCATTATAGTTACAATATCAGTAATGCAACCAAGATCCTAGCCATCCATCCTCTACACTCTA
71507524 CCCATTATAGTTACAATATCAGTAATGCAACCAAGATCCTAGCCATCCATCCTCTACACTCTA
1 CCCATTATAGTTACAATATCAGTAATGCAACCAAGATCCTAGCCATCCATCCTCTACACTCTA
71507587 C
1 C
71507588 TTTGTCCAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.27
Consensus pattern (63 bp):
CCCATTATAGTTACAATATCAGTAATGCAACCAAGATCCTAGCCATCCATCCTCTACACTCTA
Found at i:71517858 original size:48 final size:48
Alignment explanation
Indices: 71517781--71518645 Score: 1480
Period size: 48 Copynumber: 18.0 Consensus size: 48
71517771 AGATAAATAT
* * *
71517781 ATATATATGTGTGGTAAAG-CGAATGGCTAGTGTGATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71517828 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
71517876 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71517924 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71517972 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
71518020 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
71518068 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71518116 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71518164 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
71518212 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
71518260 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71518308 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71518356 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
71518404 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
71518452 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
71518500 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
71518548 ATATGTATATGTGGCAAAGCCGAATGGCTAGTATGAAATATTTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
71518596 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
71518644 AT
1 AT
71518646 GTGTGTATAT
Statistics
Matches: 775, Mismatches: 42, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
47 17 0.02
48 758 0.98
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:71518836 original size:37 final size:37
Alignment explanation
Indices: 71518786--71518888 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
71518776 GGAAATATAT
71518786 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
71518823 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
71518860 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
71518889 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:71529444 original size:27 final size:26
Alignment explanation
Indices: 71529232--71529450 Score: 167
Period size: 27 Copynumber: 8.2 Consensus size: 26
71529222 TTACCCTACA
* *
71529232 GGGGTATTTCGATAATTTTACACTA-T
1 GGGGTATTTCGGTAATTTTACA-AACT
** * *
71529258 AAGGTATTTCGGTAATTTTACACTACA
1 GGGGTATTTCGGTAATTTTACA-AACT
* * **
71529285 AGGTTATTTTAGTAATTTTACAAA-T
1 GGGGTATTTCGGTAATTTTACAAACT
* *
71529310 CGAGGGTATTTCGATAATTTTAAAAACT
1 -G-GGGTATTTCGGTAATTTTACAAACT
* * *
71529338 GGCGATATTTCGATAATTTTATAAA-T
1 GG-GGTATTTCGGTAATTTTACAAACT
*
71529364 CGAGGGTATTTCGGTAATTTTACAAATT
1 -G-GGGTATTTCGGTAATTTTACAAACT
*
71529392 GGGGGTATTTCGGTAATTTTATAAACT
1 -GGGGTATTTCGGTAATTTTACAAACT
71529419 AGGGGTATTGT-GGTAATTTTACAAACT
1 -GGGGTATT-TCGGTAATTTTACAAACT
71529446 GGGGT
1 GGGGT
71529451 CTTAACGACC
Statistics
Matches: 158, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
26 30 0.19
27 123 0.78
28 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGGTATTTCGGTAATTTTACAAACT
Found at i:71529449 original size:54 final size:54
Alignment explanation
Indices: 71529232--71529449 Score: 198
Period size: 54 Copynumber: 4.1 Consensus size: 54
71529222 TTACCCTACA
* * *
71529232 GGGG-TATTTCGATAATTTTACACTATA-A-GGTATTTCGGTAATTTTACACTAC-
1 GGGGATATTTCGATAATTTTATA-AATAGAGGGTATTTCGGTAATTTTACA-AACT
** * * * * * *
71529284 AAGGTTATTT-TAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTAAAAACT
1 GGGGATATTTCGA-TAATTTTATAAATAGAGGGTATTTCGGTAATTTTACAAACT
* * *
71529338 GGCGATATTTCGATAATTTTATAAATCGAGGGTATTTCGGTAATTTTACAAATT
1 GGGGATATTTCGATAATTTTATAAATAGAGGGTATTTCGGTAATTTTACAAACT
* *
71529392 GGGGGTATTTCGGTAATTTTATAAACTAG-GGGTATTGT-GGTAATTTTACAAACT
1 GGGGATATTTCGATAATTTTATAAA-TAGAGGGTATT-TCGGTAATTTTACAAACT
71529446 GGGG
1 GGGG
71529450 TCTTAACGAC
Statistics
Matches: 136, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
52 5 0.04
53 18 0.13
54 109 0.80
55 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGGATATTTCGATAATTTTATAAATAGAGGGTATTTCGGTAATTTTACAAACT
Found at i:71536227 original size:93 final size:92
Alignment explanation
Indices: 71536066--71536235 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
71536056 GCCCCTAAGT
* ** *
71536066 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAGTGAACTCGGACTCAACTCAAC
71536131 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
* *
71536158 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCAT-AGTGAACTCGGACTCAACTCAA
71536223 CGAGTTCGGATGC
65 CGAGTTCGGATGC
71536236 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 36 0.51
93 35 0.49
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:71547358 original size:40 final size:39
Alignment explanation
Indices: 71547302--71547452 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
71547292 GGATATAGCG
* * * **
71547302 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGTT-TGGTA
* * * *
71547342 GCTCGCATAAATGCCTTCGGGAC-TAATCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGG-TTTGGTA
71547381 ACTCGCACAAATGCCTTCGGGA-ATTAACCCGGTTTTGGTA
1 ACTCGCACAAATGCCTTCGGGACA-TAACCCGG-TTTGGTA
* * *
71547421 ACTCGCACAAATACCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACATAACCCGG
71547453 ATACCATTCA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 28 0.31
40 62 0.69
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGTTTGGTA
Found at i:71554560 original size:20 final size:20
Alignment explanation
Indices: 71554535--71554572 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
71554525 CCCTCCAAAC
71554535 CAAGAATAACGTCGAATTAT
1 CAAGAATAACGTCGAATTAT
71554555 CAAGAATAACGTCGAATT
1 CAAGAATAACGTCGAATT
71554573 CATCGAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (20 bp):
CAAGAATAACGTCGAATTAT
Found at i:71557722 original size:80 final size:80
Alignment explanation
Indices: 71557638--71557786 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71557628 TATGGTAACC
* * * *
71557638 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71557702 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71557718 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71557783 CCGG
66 CCGG
71557787 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:71557728 original size:40 final size:38
Alignment explanation
Indices: 71557679--71557786 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71557669 ATCACGATTT
*
71557679 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71557719 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71557759 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71557787 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:71560321 original size:40 final size:40
Alignment explanation
Indices: 71560140--71560337 Score: 251
Period size: 40 Copynumber: 5.0 Consensus size: 40
71560130 AGCCCGGTTA
* * *
71560140 TAGTAGCTCGTACAAATGCCTTTGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCC-TTCGGATCTTAGT-CCGGATT
71560180 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
71560220 TAGTAACTCGCACAAATGCCTTCGGATATTAGACCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
71560260 TAGTAACTCGCACAATTGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
71560300 TAGTAACTTAGCACAGA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
71560338 CATCATTCGA
Statistics
Matches: 142, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 5 0.04
40 127 0.89
41 10 0.07
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:71561050 original size:2 final size:2
Alignment explanation
Indices: 71561043--71561072 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71561033 ATGTGCAAAC
71561043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71561073 GCAAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71570111 original size:29 final size:29
Alignment explanation
Indices: 71570071--71570173 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
71570061 GTTGAGAGAT
*
71570071 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
71570100 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
71570129 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
71570158 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71570174 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:71572425 original size:2 final size:2
Alignment explanation
Indices: 71572418--71572448 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71572408 TCATGACATG
71572418 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71572449 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71583131 original size:40 final size:40
Alignment explanation
Indices: 71583065--71583231 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
71583055 AAATTGAATG
* * *
71583065 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
71583104 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
71583144 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
71583184 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
71583224 ATATCCGG
1 ATATCCGG
71583232 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:71585766 original size:49 final size:50
Alignment explanation
Indices: 71585526--71585758 Score: 240
Period size: 49 Copynumber: 4.7 Consensus size: 50
71585516 ATCTATTGTG
* * *
71585526 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTTCTGAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * * *
71585576 -GGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCG-ATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAA-TT
* * * * * **
71585626 CGATCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATT
* *
71585676 AAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * *
71585726 -GGTCGCATGTGTAGTACAAAGTTCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
71585759 TGCGTACCAG
Statistics
Matches: 148, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
49 65 0.44
50 48 0.32
51 35 0.24
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
Found at i:71589281 original size:54 final size:54
Alignment explanation
Indices: 71589170--71589281 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
71589160 AGCATGGCTG
* * * *
71589170 CCAGAACAGATAATGTGACAGAGTCACTAGATACAGATAATCATGGGAGAGCTA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* ** *
71589224 CCAGAATAGATAAATGTTGA-AGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAT-AATG-TGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
71589278 CCAG
1 CCAG
71589282 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
54 30 0.62
55 15 0.31
56 3 0.06
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:71596989 original size:27 final size:27
Alignment explanation
Indices: 71596959--71597048 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 27
71596949 GGCTACGAGA
* *
71596959 ACAGATAATGTGATAGAGTCACCAGAT
1 ACAGATAATGTGGTAGAGCCACCAGAT
71596986 ACAGATAATTGTGGTAGAGCCACCAGA-
1 ACAGATAA-TGTGGTAGAGCCACCAGAT
*
71597013 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGTAGAGCCACCAGAT
71597041 -CAGATAAT
1 ACAGATAAT
71597049 TATGGCATAG
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
26 2 0.04
27 38 0.67
28 17 0.30
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGATAATGTGGTAGAGCCACCAGAT
Found at i:71604504 original size:16 final size:16
Alignment explanation
Indices: 71604483--71604514 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71604473 GTTGTAACGG
71604483 CCCAAAAACCCCAAAA
1 CCCAAAAACCCCAAAA
*
71604499 CCCAAAAATCCCAAAA
1 CCCAAAAACCCCAAAA
71604515 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.41, G:0.00, T:0.03
Consensus pattern (16 bp):
CCCAAAAACCCCAAAA
Found at i:71606306 original size:26 final size:27
Alignment explanation
Indices: 71606277--71606331 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
71606267 AAAACCGTAA
* * *
71606277 TAAAGG-GAAAATTACCGAAATGCCCC
1 TAAAGGTGAAAATGACCAAAATACCCC
*
71606303 TAAAGGTGGAAATGACCAAAATACCCC
1 TAAAGGTGAAAATGACCAAAATACCCC
71606330 TA
1 TA
71606332 GGTGTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (27 bp):
TAAAGGTGAAAATGACCAAAATACCCC
Found at i:71607083 original size:17 final size:18
Alignment explanation
Indices: 71607050--71607084 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
71607040 TTTTAAGAAG
71607050 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
71607068 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
71607085 TTCAACGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:71609686 original size:42 final size:43
Alignment explanation
Indices: 71609580--71609730 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 43
71609570 TATGTGTTTT
* * * *
71609580 CGTGTAAGACAACGTCTGGGACGTTGGCATCG-ACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGTA-TT-TGATTTA
71609624 CGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTT-
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTA
* * * *
71609666 TGTTTAAGACCCTGTCTGGGACAGTC-ACATCGATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGATTTA
* * *
71609709 CATGTAAGACCACGTCTAGGAC
1 CGTGTAAGACCATGTCTGGGAC
71609731 GTTGGCATTG
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
42 27 0.30
43 31 0.35
44 30 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTA
Found at i:71612636 original size:40 final size:39
Alignment explanation
Indices: 71612592--71612773 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
71612582 GTTCAAAACA
* * ** * *
71612592 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
71612632 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
71612672 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
71612711 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
71612750 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
71612774 CTCGAACATT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Done.