Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 135 of 153
Found at i:42458495 original size:50 final size:53
Alignment explanation
Indices: 42458417--42458721 Score: 379
Period size: 56 Copynumber: 5.7 Consensus size: 53
42458407 TTTTCTGTAC
* * ** *
42458417 TGCCAATACCATGTCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACTCAGA
* * * **
42458467 TGCCCATGCCATGTCCCAAACATTGTCTTACGGGGGACCTCTCAT--CTCAG-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACTCAGA
* *
42458517 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAA-CTC-A-GA
42458573 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAA-CTC-A-GA
42458629 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAA-CTC-A-GA
42458685 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
42458722 TCTCATTCCC
Statistics
Matches: 229, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
50 76 0.33
51 1 0.00
53 3 0.01
54 1 0.00
55 1 0.00
56 147 0.64
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (53 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACTCAGA
Found at i:42458593 original size:56 final size:56
Alignment explanation
Indices: 42458467--42458721 Score: 405
Period size: 56 Copynumber: 4.7 Consensus size: 56
42458457 CTCATATCGG
* * * **
42458467 TGCCCATGCCATGTCCCAAACATTGTCTTACGGGGGACCTCTCAT---CTC-A-G-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
* *
42458517 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
42458573 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
42458629 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
42458685 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
42458722 TCTCATTCCC
Statistics
Matches: 190, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
50 38 0.20
53 3 0.02
54 1 0.01
55 1 0.01
56 147 0.77
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (56 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
Found at i:42461383 original size:50 final size:50
Alignment explanation
Indices: 42461310--42461503 Score: 217
Period size: 50 Copynumber: 3.8 Consensus size: 50
42461300 ATGTACTACT
* * * * **
42461310 AATGCCATATCCAAGATATGGTCTTCCATGGGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
* ** * *
42461360 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
42461410 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG-TGCC
* *
42461466 AATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42461504 TTACCCAAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
50 77 0.64
53 2 0.02
55 1 0.01
56 40 0.33
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
Found at i:42472207 original size:87 final size:88
Alignment explanation
Indices: 42472043--42472221 Score: 306
Period size: 87 Copynumber: 2.0 Consensus size: 88
42472033 CTTTCTTAAC
* * * * *
42472043 TAAAAATTAATTTTTTCATAGTACATAATTCGGATAATACTCTCGTTTATTTCTTTTGAAAATGG
1 TAAAAACTAATTATTTCATAGTACAGAATTCGGATAATACGCTCGTTTATTTCTTTTGAAAATAG
42472108 ACTCATTCAGGATTCTAAAAATA
66 ACTCATTCAGGATTCTAAAAATA
42472131 TAAAAACTAATTATTTCATAGTACAGAATTCGGATAATA-GCTCGTTTATTTCTTTTGAAAATAG
1 TAAAAACTAATTATTTCATAGTACAGAATTCGGATAATACGCTCGTTTATTTCTTTTGAAAATAG
42472195 ACTCATTCAGGATTCTAAAAATA
66 ACTCATTCAGGATTCTAAAAATA
42472218 TAAA
1 TAAA
42472222 TTTTATCTCA
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
87 50 0.58
88 36 0.42
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (88 bp):
TAAAAACTAATTATTTCATAGTACAGAATTCGGATAATACGCTCGTTTATTTCTTTTGAAAATAG
ACTCATTCAGGATTCTAAAAATA
Found at i:42472752 original size:45 final size:44
Alignment explanation
Indices: 42472690--42472845 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 44
42472680 AGCACATAGC
* * *
42472690 ACCACCCTTATAGTCAATGATACTCGGTGGAATCA-ACACATAGA
1 ACCACCTTTATAATCAATGATACTCGGTGGAATCACACACA-ACA
* * * *
42472734 ACCCACCTTCATAATCAAT-AGTACCCAGTGGAGTCAGCACACAACA
1 A-CCACCTTTATAATCAATGA-TACTCGGTGGAATCA-CACACAACA
* * *
42472780 ACCACCTTTATAATCAATGATACTTGGTGTAATCAGCAGACAACA
1 ACCACCTTTATAATCAATGATACTCGGTGGAATCA-CACACAACA
42472825 ACCACCTTTATAATCAATGAT
1 ACCACCTTTATAATCAATGAT
42472846 TCTTAGTACA
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
44 2 0.02
45 82 0.88
46 4 0.04
47 5 0.05
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (44 bp):
ACCACCTTTATAATCAATGATACTCGGTGGAATCACACACAACA
Found at i:42472863 original size:45 final size:45
Alignment explanation
Indices: 42472767--42472855 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
42472757 CCCAGTGGAG
* * **
42472767 TCAGCACACAACAACCACCTTTATAATCAATGATACTTGGTGTAA
1 TCAGCAGACAACAACCACCTTTATAATCAATGATACTTAGTACAA
*
42472812 TCAGCAGACAACAACCACCTTTATAATCAATGATTCTTAGTACA
1 TCAGCAGACAACAACCACCTTTATAATCAATGATACTTAGTACA
42472856 CGTAGCAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (45 bp):
TCAGCAGACAACAACCACCTTTATAATCAATGATACTTAGTACAA
Found at i:42477398 original size:80 final size:79
Alignment explanation
Indices: 42477314--42477485 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
42477304 GGACTAAGAT
*
42477314 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
42477378 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
42477394 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
42477459 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
42477473 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42477486 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:42477465 original size:39 final size:39
Alignment explanation
Indices: 42477261--42477483 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
42477251 TTGAATGCTG
* * * * *
42477261 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
42477301 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
42477340 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
42477381 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
42477421 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
42477460 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42477484 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:42477503 original size:79 final size:80
Alignment explanation
Indices: 42477341--42477518 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
42477331 AGATACAAAT
* * * *
42477341 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
42477406 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
42477421 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42477485 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
42477500 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42477519 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:42488047 original size:10 final size:10
Alignment explanation
Indices: 42488032--42488058 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42488022 ATTTATTAAC
42488032 AAACACATTT
1 AAACACATTT
42488042 AAACACATTT
1 AAACACATTT
42488052 AAACACA
1 AAACACA
42488059 CTAAACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (10 bp):
AAACACATTT
Found at i:42491268 original size:49 final size:49
Alignment explanation
Indices: 42491194--42491375 Score: 197
Period size: 49 Copynumber: 3.7 Consensus size: 49
42491184 GATAATAACA
* *
42491194 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGACGCTTCTTGCAT
1 TGCCAATGCCATATCCCAGACATGGTATTACATGGGACGCTTCTTGCAT
* * * * * **
42491243 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGA-G-TTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTATTACATGGGACGCTTCT--T-GCAT
* *
42491293 TGCCCATGCCATGTCCCAGACATGGTATTACATGGGACGCTTCTTGCAT
1 TGCCAATGCCATATCCCAGACATGGTATTACATGGGACGCTTCTTGCAT
* * *
42491342 TGCCAATGCCATATCCTAGATATGGTCTTACATG
1 TGCCAATGCCATATCCCAGACATGGTATTACATG
42491376 AGAGTTCTCA
Statistics
Matches: 105, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
47 4 0.04
48 1 0.01
49 62 0.59
50 33 0.31
51 1 0.01
52 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGACATGGTATTACATGGGACGCTTCTTGCAT
Found at i:42491318 original size:50 final size:50
Alignment explanation
Indices: 42491194--42491534 Score: 257
Period size: 50 Copynumber: 6.7 Consensus size: 50
42491184 GATAATAACA
* * * **
42491194 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGACGCTTCT--TGCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GCTTCTCATTCGG
* * * *
42491243 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGAG-TTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTTCTCAT-TCGG
* * * **
42491293 TGCCCATGCCATGTCCCAGACATGGTATTACATGGGACGCTTCT--TGCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GCTTCTCATTCGG
* * * *
42491342 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGAG-TTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTTCTCAT-TCGG
* * *
42491392 TGCCCATGCCATGTCCCAGACATGGTCTT--ATGGGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCT-TCTCAT-TCGG
* * * * * **
42491442 TGCCAACGCCATGTCCCAAACATGGTCTTACATTGGACCTCTCATAATCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCT-TC-TCAT-TC---GG
*
42491498 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
42491535 TCTCTTTACC
Statistics
Matches: 228, Mismatches: 48, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
47 8 0.04
48 7 0.03
49 66 0.29
50 95 0.42
51 1 0.00
52 12 0.05
53 6 0.03
56 33 0.14
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTTCTCATTCGG
Found at i:42491372 original size:99 final size:99
Alignment explanation
Indices: 42491201--42491417 Score: 434
Period size: 99 Copynumber: 2.2 Consensus size: 99
42491191 ACATGCCAAA
42491201 GCCATGTCCCAGACATGGTATTACATGGGACGCTTCTTGCATTGCCAATGCCATATCCTAGATAT
1 GCCATGTCCCAGACATGGTATTACATGGGACGCTTCTTGCATTGCCAATGCCATATCCTAGATAT
42491266 GGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
66 GGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
42491300 GCCATGTCCCAGACATGGTATTACATGGGACGCTTCTTGCATTGCCAATGCCATATCCTAGATAT
1 GCCATGTCCCAGACATGGTATTACATGGGACGCTTCTTGCATTGCCAATGCCATATCCTAGATAT
42491365 GGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
66 GGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
42491399 GCCATGTCCCAGACATGGT
1 GCCATGTCCCAGACATGGT
42491418 CTTATGGGGG
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 118 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTATTACATGGGACGCTTCTTGCATTGCCAATGCCATATCCTAGATAT
GGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
Found at i:42496749 original size:17 final size:18
Alignment explanation
Indices: 42496718--42496753 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42496708 TCCACATACT
42496718 CGTGTGGGCCAACATGCC
1 CGTGTGGGCCAACATGCC
*
42496736 CGTGT-GGCCCACATGCC
1 CGTGTGGGCCAACATGCC
42496753 C
1 C
42496754 AAATTGGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (18 bp):
CGTGTGGGCCAACATGCC
Found at i:42501392 original size:56 final size:50
Alignment explanation
Indices: 42501320--42501460 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 50
42501310 GAGATCCCTT
**
42501320 GTAAGACCATGTTTGGGACATGGCATAGGCATTATTGAGGTTATGAGAGGTCCCAC
1 GTAAGACCATGTTTGGGACATGGCATAGGC---ACCGA-G--ATGAGAGGTCCCAC
* * *
42501376 GTAAGACCATGTTTGGGACTTGGCATTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTTTGGGACATGGCATAGGCACCGAGATGAGAGGTCCCAC
* * * *
42501426 GTAAGACTATGTCTGGGACATGGCATGGGAACCGA
1 GTAAGACCATGTTTGGGACATGGCATAGGCACCGA
42501461 TATGTGAACT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 43 0.57
52 1 0.01
53 3 0.04
56 28 0.37
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTTTGGGACATGGCATAGGCACCGAGATGAGAGGTCCCAC
Found at i:42501416 original size:50 final size:50
Alignment explanation
Indices: 42501362--42501493 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
42501352 TATTGAGGTT
* * * *
42501362 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACTTGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGAACCGAG
* * *
42501412 ATGAGAGGTCCCCCGTAAGACTATGTCTGGGACATGGCATGGGAACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGAACCGAG
* ** * * *
42501462 ATGTGAACTCTCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
42501494 TATGACGTTG
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGAACCGAG
Found at i:42502346 original size:17 final size:19
Alignment explanation
Indices: 42502324--42502360 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
42502314 AGGCAAATAA
42502324 ATTTT-ATATTA-TGAGAT
1 ATTTTAATATTAGTGAGAT
*
42502341 ATTTTAATTTTAGTGAGAT
1 ATTTTAATATTAGTGAGAT
42502360 A
1 A
42502361 GGGTCAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (19 bp):
ATTTTAATATTAGTGAGAT
Found at i:42528857 original size:22 final size:22
Alignment explanation
Indices: 42528829--42528873 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
42528819 ACCTTAGAAA
42528829 TTTGTAGGATAAAAATGACATG
1 TTTGTAGGATAAAAATGACATG
42528851 TTTGTAGGATAAAAATGACATG
1 TTTGTAGGATAAAAATGACATG
42528873 T
1 T
42528874 CATTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (22 bp):
TTTGTAGGATAAAAATGACATG
Found at i:42557932 original size:21 final size:22
Alignment explanation
Indices: 42557896--42557936 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
42557886 GGAAAGCCTA
42557896 CTTCGCCAAATCTGGTGAACAG
1 CTTCGCCAAATCTGGTGAACAG
*
42557918 CTTCGCC-ATTCTGGTGAAC
1 CTTCGCCAAATCTGGTGAAC
42557937 TTACCTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
CTTCGCCAAATCTGGTGAACAG
Found at i:42559358 original size:57 final size:58
Alignment explanation
Indices: 42559287--42559438 Score: 162
Period size: 58 Copynumber: 2.6 Consensus size: 58
42559277 CAGAGGCTTA
* * * ** * * **
42559287 CCACAAAAGTGTCCTTTTAACAAAGTTTTCCA-TAAGGCATTCATTTAACTGAGATAG
1 CCACAAAGGCGTCCTTTTAACAAAGATAGCCACAAAGACATTCATTTAACAAAGATAG
* * *
42559344 CCACAAAGGGGTCCTTTTAACTAAGATAGCCACAAAGACATTCTTTTAACAAAGATAG
1 CCACAAAGGCGTCCTTTTAACAAAGATAGCCACAAAGACATTCATTTAACAAAGATAG
* * *
42559402 CCAAAAAGGCTTCCTTTTAACAGAGATAGCCACAAAG
1 CCACAAAGGCGTCCTTTTAACAAAGATAGCCACAAAG
42559439 GCTTTCTGTA
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
57 26 0.33
58 52 0.67
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (58 bp):
CCACAAAGGCGTCCTTTTAACAAAGATAGCCACAAAGACATTCATTTAACAAAGATAG
Found at i:42559362 original size:29 final size:29
Alignment explanation
Indices: 42559298--42559440 Score: 135
Period size: 29 Copynumber: 5.0 Consensus size: 29
42559288 CACAAAAGTG
* ** *
42559298 TCCTTTTAACAAAGTTTTCCA-TAAGGCA
1 TCCTTTTAACAAAGATAGCCACAAAGGCA
* * ** **
42559326 TTCATTTAACTGAGATAGCCACAAAGGGG
1 TCCTTTTAACAAAGATAGCCACAAAGGCA
* *
42559355 TCCTTTTAACTAAGATAGCCACAAAGACA
1 TCCTTTTAACAAAGATAGCCACAAAGGCA
* * *
42559384 TTCTTTTAACAAAGATAGCCAAAAAGGCT
1 TCCTTTTAACAAAGATAGCCACAAAGGCA
*
42559413 TCCTTTTAACAGAGATAGCCACAAAGGC
1 TCCTTTTAACAAAGATAGCCACAAAGGC
42559441 TTTCTGTAAC
Statistics
Matches: 90, Mismatches: 24, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 14 0.16
29 76 0.84
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (29 bp):
TCCTTTTAACAAAGATAGCCACAAAGGCA
Found at i:42559441 original size:29 final size:29
Alignment explanation
Indices: 42559330--42559442 Score: 140
Period size: 29 Copynumber: 3.9 Consensus size: 29
42559320 AAGGCATTCA
* **
42559330 TTTAACTGAGATAGCCACAAAGGGGTCCT
1 TTTAACAGAGATAGCCACAAAGGCTTCCT
*
42559359 TTTAACTA-AGATAGCCACAAAGACATT-CT
1 TTTAAC-AGAGATAGCCACAAAGGC-TTCCT
* *
42559388 TTTAACAAAGATAGCCAAAAAGGCTTCCT
1 TTTAACAGAGATAGCCACAAAGGCTTCCT
42559417 TTTAACAGAGATAGCCACAAAGGCTT
1 TTTAACAGAGATAGCCACAAAGGCTT
42559443 TCTGTAACAC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.04
29 68 0.94
30 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAGGCTTCCT
Found at i:42567322 original size:20 final size:19
Alignment explanation
Indices: 42567277--42567314 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42567267 CATCAAAATG
42567277 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
42567296 CCAGAAAAGTATATCATTT
1 CCAGAAAAGTAAATCATTT
42567315 TCTAGAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:42568917 original size:50 final size:50
Alignment explanation
Indices: 42568812--42568933 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 50
42568802 TTATTAGGGT
* * * *
42568812 TATGAGAAGTCCGACGTAAGACAATGCCTGAGACATGGCGTTGGTACCGA
1 TATGAGAAGTCCCACGTAAGACAATGCCTGAGACATGGCATGGGCACCGA
* * * * ** *
42568862 GATGAGAGGTCCCCCGTAAGACCATGTTTGAGACATGGCATGGGCACTGA
1 TATGAGAAGTCCCACGTAAGACAATGCCTGAGACATGGCATGGGCACCGA
* * *
42568912 TATGAGAACTCTCATGTAAGAC
1 TATGAGAAGTCCCACGTAAGAC
42568934 CATATCTGGG
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (50 bp):
TATGAGAAGTCCCACGTAAGACAATGCCTGAGACATGGCATGGGCACCGA
Found at i:42569132 original size:25 final size:25
Alignment explanation
Indices: 42569097--42569153 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
42569087 CACATGAAAC
*
42569097 TTCAGGCAAAAGCATAATAAATAAA
1 TTCAGGTAAAAGCATAATAAATAAA
42569122 TTCAGGTAAAAGCATAATAAATAAA
1 TTCAGGTAAAAGCATAATAAATAAA
42569147 TTCAGGT
1 TTCAGGT
42569154 GAGTTATAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (25 bp):
TTCAGGTAAAAGCATAATAAATAAA
Found at i:42569265 original size:20 final size:20
Alignment explanation
Indices: 42569240--42569278 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
42569230 TGAGTTATTT
42569240 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
42569260 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
42569279 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:42570075 original size:12 final size:12
Alignment explanation
Indices: 42570058--42570084 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
42570048 GGAGACCTTA
42570058 ACGAAAAAATTT
1 ACGAAAAAATTT
42570070 ACGAAAAAATTT
1 ACGAAAAAATTT
42570082 ACG
1 ACG
42570085 GATCTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (12 bp):
ACGAAAAAATTT
Found at i:42577167 original size:43 final size:42
Alignment explanation
Indices: 42577120--42577210 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
42577110 AGACGTGGTG
* * *
42577120 TTACATGTAATCAAATAACGATGCCACTATCCCAGACAGGGTC
1 TTACACGTAATCAAAT-ACGACGCCAATATCCCAGACAGGGTC
* * *
42577163 TTACACGTAATCATATACGACGCCAATGTCCCAGACATGGTC
1 TTACACGTAATCAAATACGACGCCAATATCCCAGACAGGGTC
42577205 TTACAC
1 TTACAC
42577211 ATAAATCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
TTACACGTAATCAAATACGACGCCAATATCCCAGACAGGGTC
Found at i:42577205 original size:42 final size:42
Alignment explanation
Indices: 42577097--42577255 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
42577087 AACTCGTACA
* * * * *
42577097 ATGCCAACGTCCTAGACGTGGTGTTACATGTAATCAAATAACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCATAT-ACG
* *
42577140 ATGCC-ACTATCCCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCATATACG
* * * * *
42577182 ACGCCAATGTCCCAGACATGGTCTTACACATAAATCTTAAACCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCATATA-CG
*
42577226 ATGCCAACGTCCCAGACATGGTTTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
42577256 ATATCACATT
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 29 0.31
43 37 0.39
44 28 0.30
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCATATACG
Found at i:42578363 original size:13 final size:13
Alignment explanation
Indices: 42578345--42578371 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42578335 CACAAACAAT
42578345 AAAATTTTCACAC
1 AAAATTTTCACAC
42578358 AAAATTTTCACAC
1 AAAATTTTCACAC
42578371 A
1 A
42578372 TATAAGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:42583016 original size:30 final size:30
Alignment explanation
Indices: 42582959--42583018 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
42582949 GCTTTTTGAA
** * *
42582959 AATATTTACAAAAAGAGGTATCTAATTTTT
1 AATATTTACAAAAAGAGCAACCAAATTTTT
42582989 AATATTTACAAAAAGAGCAACCAAATTTTT
1 AATATTTACAAAAAGAGCAACCAAATTTTT
42583019 TAAAAATAAT
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:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCAACCAAATTTTT
Found at i:42593119 original size:89 final size:89
Alignment explanation
Indices: 42592968--42593149 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 89
42592958 AAATTGATTT
42592968 ATTTGATAACTCTTCTTCTCTTATATTATTTCTTCTTTTGATCATCACTTTAACACTTTATTCTC
1 ATTTGATAACTCTTCTTCTCTTATATTATTTCTTCTTTTGATCATCACTTTAACACTTTATTCTC
42593033 TTCTTGTTGTCAAATCCTAATATC
66 TTCTTGTTGTCAAATCCTAATATC
*
42593057 ATTTGATAGCTCTTCTTCTCTTATATTATTTCTTCTTTTGATCATCACTTTAACACTTTATTCTC
1 ATTTGATAACTCTTCTTCTCTTATATTATTTCTTCTTTTGATCATCACTTTAACACTTTATTCTC
42593122 TTCTTGTTGTCAAATCCTAATATC
66 TTCTTGTTGTCAAATCCTAATATC
42593146 ATTT
1 ATTT
42593150 TGGGGTGTTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.22, C:0.21, G:0.05, T:0.52
Consensus pattern (89 bp):
ATTTGATAACTCTTCTTCTCTTATATTATTTCTTCTTTTGATCATCACTTTAACACTTTATTCTC
TTCTTGTTGTCAAATCCTAATATC
Found at i:42606673 original size:27 final size:26
Alignment explanation
Indices: 42606656--42606725 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
42606646 ATATTAAGTC
42606656 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
42606683 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
42606711 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
42606726 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:42606719 original size:28 final size:28
Alignment explanation
Indices: 42606656--42606750 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
42606646 ATATTAAGTC
*
42606656 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
42606683 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42606711 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
42606740 CGCACACTTAG
1 CGCACACTTAG
42606751 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42614528 original size:29 final size:27
Alignment explanation
Indices: 42614510--42614579 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
42614500 ATATTAAGTC
42614510 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
42614537 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
42614565 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
42614580 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:42614573 original size:28 final size:28
Alignment explanation
Indices: 42614510--42614607 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
42614500 ATATTAAGTC
*
42614510 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
42614537 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42614565 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
42614594 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42614608 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42620818 original size:34 final size:34
Alignment explanation
Indices: 42620775--42620840 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
42620765 GAATGAAACC
**
42620775 CCAGTCCAACAACTCTTGTAACTGATGCTTCACT
1 CCAGTCCAACAACTCTTCCAACTGATGCTTCACT
42620809 CCAGTCCAACAACTCTTCCAACTGATGCTTCA
1 CCAGTCCAACAACTCTTCCAACTGATGCTTCA
42620841 ACTTGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (34 bp):
CCAGTCCAACAACTCTTCCAACTGATGCTTCACT
Found at i:42627602 original size:40 final size:39
Alignment explanation
Indices: 42627546--42627757 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 39
42627536 TATAGTTTAT
*
42627546 ATAAGTGAAATCAGGGGTACCAATGTACAAACAGGGGCAC
1 ATAAGTGCAATCAGGGGTACCAA-GTACAAACAGGGGCAC
* * * *
42627586 ATAAGTGTAATTAGGGGTACCGAAGTACAAACCGAGGCAC
1 ATAAGTGCAATCAGGGGTACC-AAGTACAAACAGGGGCAC
* **
42627626 GTAAGTGCAATCAGGGGTACCAAAGTACAAACAAAGGCAC
1 ATAAGTGCAATCAGGGGTACC-AAGTACAAACAGGGGCAC
* *
42627666 ATAAGTGCAATCACGGGTATCGAAGTACAAACAGGGGCAC
1 ATAAGTGCAATCAGGGGTA-CCAAGTACAAACAGGGGCAC
* *
42627706 ATAAGTGCAATCA-GTGTACCAAAGTATAAACAGGGGCAC
1 ATAAGTGCAATCAGGGGTACC-AAGTACAAACAGGGGCAC
42627745 ATAAGTGCAATCA
1 ATAAGTGCAATCA
42627758 TTAAGTAATT
Statistics
Matches: 151, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.23
40 113 0.75
41 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (39 bp):
ATAAGTGCAATCAGGGGTACCAAGTACAAACAGGGGCAC
Found at i:42627684 original size:80 final size:80
Alignment explanation
Indices: 42627546--42627757 Score: 300
Period size: 80 Copynumber: 2.7 Consensus size: 80
42627536 TATAGTTTAT
* * * * *
42627546 ATAAGTGAAATCAGGGGTACCAATGTACAAACAGGGGCACATAAGTGTAATTAGGGGTACCGAAG
1 ATAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGCAATCACGGGTACCGAAG
*
42627611 TACAAACCGAGGCAC
66 TACAAACAGAGGCAC
* ** *
42627626 GTAAGTGCAATCAGGGGTACCAAAGTACAAACAAAGGCACATAAGTGCAATCACGGGTATCGAAG
1 ATAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGCAATCACGGGTACCGAAG
*
42627691 TACAAACAGGGGCAC
66 TACAAACAGAGGCAC
* *
42627706 ATAAGTGCAATCA-GTGTACCAAAGTATAAACAGGGGCACATAAGTGCAATCA
1 ATAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGCAATCA
42627758 TTAAGTAATT
Statistics
Matches: 116, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 35 0.30
80 81 0.70
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (80 bp):
ATAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGCAATCACGGGTACCGAAG
TACAAACAGAGGCAC
Found at i:42628032 original size:9 final size:9
Alignment explanation
Indices: 42627979--42628031 Score: 81
Period size: 9 Copynumber: 6.0 Consensus size: 9
42627969 AGTAAAACCA
42627979 ATTCATTTT
1 ATTCATTTT
42627988 ATTCATTTT
1 ATTCATTTT
42627997 ATTCATTTT
1 ATTCATTTT
*
42628006 ATTCAATTT
1 ATTCATTTT
42628015 ATTC-TTTT
1 ATTCATTTT
*
42628023 TTTCATTTT
1 ATTCATTTT
42628032 TACAAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
8 6 0.15
9 34 0.85
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTCATTTT
Found at i:42628033 original size:27 final size:27
Alignment explanation
Indices: 42627979--42628031 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
42627969 AGTAAAACCA
*
42627979 ATTCATTTTATTCATTTTATTCATTTT
1 ATTCAATTTATTCATTTTATTCATTTT
*
42628006 ATTCAATTTATTC-TTTTTTTCATTTT
1 ATTCAATTTATTCATTTTATTCATTTT
42628032 TACAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (27 bp):
ATTCAATTTATTCATTTTATTCATTTT
Found at i:42635918 original size:10 final size:10
Alignment explanation
Indices: 42635905--42635929 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42635895 AAATTACTTA
42635905 GAATTTACAT
1 GAATTTACAT
42635915 GAATTTACAT
1 GAATTTACAT
42635925 GAATT
1 GAATT
42635930 CATGTTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (10 bp):
GAATTTACAT
Found at i:42637613 original size:22 final size:22
Alignment explanation
Indices: 42637588--42637634 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
42637578 CTAAGAGCCG
* *
42637588 TAAACAGGATAGCTATAAGCAA
1 TAAACAGAATAGCTACAAGCAA
* *
42637610 TAAACAGAATGGCTACAAGCCA
1 TAAACAGAATAGCTACAAGCAA
42637632 TAA
1 TAA
42637635 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCAA
Found at i:42637687 original size:32 final size:32
Alignment explanation
Indices: 42637626--42637825 Score: 208
Period size: 32 Copynumber: 6.3 Consensus size: 32
42637616 GAATGGCTAC
* * *
42637626 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
42637657 AAGCCATCATTACTAGTATTATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
42637689 CAA-CCATCAATAATAGTAGTATGATCGGTACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
42637721 AAGCCATCAATAGTAGTAATATGATCAGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
42637753 CAA-CCATCAGTAATGGTAATATGATCGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* ** *
42637785 CAGTTATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
42637817 AAGCCATCA
1 AAGCCATCA
42637826 ATAGCATCGC
Statistics
Matches: 140, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
31 12 0.09
32 124 0.89
33 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:42637745 original size:64 final size:64
Alignment explanation
Indices: 42637639--42637828 Score: 229
Period size: 64 Copynumber: 3.0 Consensus size: 64
42637629 CCATAAGTAC
* * * *
42637639 AGTAATATGATTGGCACAAAGCCATCATTACTAGTATTATGATCGGCACACAACCATCAATAAT
1 AGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCGGCACACAACCATCAATAAT
* * * * *
42637703 AGTAGTATGATCGGTACAAAGCCATCAATAGTAGTAATATGATCAGCACACAACCATCAGTAAT
1 AGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCGGCACACAACCATCAATAAT
* * ** * *
42637767 GGTAATATGATCGGCACACAGTTATCAGTAATGGTAATATGATCGGCACA-AAGCCATCAATA
1 AGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCGGCACACAA-CCATCAATA
42637829 GCATCGCAGC
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
63 2 0.02
64 104 0.98
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (64 bp):
AGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCGGCACACAACCATCAATAAT
Found at i:42637808 original size:96 final size:96
Alignment explanation
Indices: 42637639--42637829 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 96
42637629 CCATAAGTAC
** * * *
42637639 AGTAATATGATTGGCACAAAGCCATCATTACTAGTATTATGATCGGCACACAACCATCAATAATA
1 AGTAATATGATCAGCACAAAGCCATCAGTAATAGTAATATGATCGGCACACAACCATCAATAATA
* *
42637704 GTAGTATGATCGGTACAAAGCCATCAATAGT
66 GTAATATGATCGGCACAAAGCCATCAATAGT
* *** *
42637735 AGTAATATGATCAGCACACAA-CCATCAGTAATGGTAATATGATCGGCACACAGTTATCAGTAAT
1 AGTAATATGATCAGCACA-AAGCCATCAGTAATAGTAATATGATCGGCACACAACCATCAATAAT
*
42637799 GGTAATATGATCGGCACAAAGCCATCAATAG
65 AGTAATATGATCGGCACAAAGCCATCAATAG
42637830 CATCGCAGCA
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 79 0.98
97 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (96 bp):
AGTAATATGATCAGCACAAAGCCATCAGTAATAGTAATATGATCGGCACACAACCATCAATAATA
GTAATATGATCGGCACAAAGCCATCAATAGT
Found at i:42637901 original size:27 final size:27
Alignment explanation
Indices: 42637866--42637918 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
42637856 TATGACAACA
*
42637866 AAGCTACCAGTAACAGT-ATATGTGGCC
1 AAGCGACCAGTAACAGTGAT-TGTGGCC
42637893 AAGCGACCAGTAACAGTGATTGTGGC
1 AAGCGACCAGTAACAGTGATTGTGGC
42637919 AGAGCCACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (27 bp):
AAGCGACCAGTAACAGTGATTGTGGCC
Found at i:42637931 original size:27 final size:27
Alignment explanation
Indices: 42637866--42637931 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
42637856 TATGACAACA
*
42637866 AAGCTACCAGTAACAGTATATGTGGCC
1 AAGCCACCAGTAACAGTATATGTGGCC
*
42637893 AAGCGACCAGTAACAGTGAT-TGTGG-C
1 AAGCCACCAGTAACAGT-ATATGTGGCC
*
42637919 AGAGCCACTAGTA
1 A-AGCCACCAGTA
42637932 TAGTACTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.06
27 30 0.88
28 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
AAGCCACCAGTAACAGTATATGTGGCC
Found at i:42638027 original size:24 final size:24
Alignment explanation
Indices: 42638012--42638113 Score: 123
Period size: 24 Copynumber: 4.2 Consensus size: 24
42638002 TCGGTCATAC
* *
42638012 AAATCAGAGACAAATCAATCATTT
1 AAATCACAGACAAATCAGTCATTT
*
42638036 AAATCACAGACAAATTAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
42638060 AAATCACAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
* * * * *
42638084 ACATCTCGGACAAGTCATTCATTT
1 AAATCACAGACAAATCAGTCATTT
*
42638108 ACATCA
1 AAATCA
42638114 TAGGAAAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (24 bp):
AAATCACAGACAAATCAGTCATTT
Found at i:42638129 original size:24 final size:24
Alignment explanation
Indices: 42638012--42638133 Score: 120
Period size: 24 Copynumber: 5.1 Consensus size: 24
42638002 TCGGTCATAC
*
42638012 AAATCAGAGACAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTT
* *
42638036 AAATCACAGACAAATTAGTCATTT
1 AAATCACAGACAAATCAATCATTT
*
42638060 AAATCACAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* * * * *
42638084 ACATCTCGGACAAGTCATTCATTT
1 AAATCACAGACAAATCAATCATTT
* * *
42638108 ACATCATAGGA-AAATTAATCATTT
1 AAATCACA-GACAAATCAATCATTT
42638132 AA
1 AA
42638134 TCCCGAAAGG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
24 79 0.98
25 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:42638182 original size:27 final size:27
Alignment explanation
Indices: 42638152--42638217 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
42638142 GGTAAAATAG
* *
42638152 TCATTTTACCCTACAGGGGCATTACGA
1 TCATTTTACCCTACAAGGGCATTACAA
42638179 TCATTTTACCCTACAAGGGCATTACAA
1 TCATTTTACCCTACAAGGGCATTACAA
42638206 TCATTTTACCCT
1 TCATTTTACCCT
42638218 TTGAGGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (27 bp):
TCATTTTACCCTACAAGGGCATTACAA
Found at i:42638224 original size:27 final size:27
Alignment explanation
Indices: 42638152--42638251 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
42638142 GGTAAAATAG
* *
42638152 TCATTTTACCCTAC-AGGGGCATTACGA
1 TCATTTTACCCTTCGA-GGGCATTACAA
* *
42638179 TCATTTTACCCTACAAGGGCATTACAA
1 TCATTTTACCCTTCGAGGGCATTACAA
* * **
42638206 TCATTTTACCCTTTGAGGGTATTTTAA
1 TCATTTTACCCTTCGAGGGCATTACAA
*
42638233 TAATTTTACCCTTCGAGGG
1 TCATTTTACCCTTCGAGGG
42638252 TATTCTAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 62 0.98
28 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGCATTACAA
Found at i:42638252 original size:27 final size:27
Alignment explanation
Indices: 42638181--42638268 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
42638171 CATTACGATC
* * * * *
42638181 ATTTTACCCTACAAGGGCATTACAATC
1 ATTTTACCCTTCGAGGGTATTATAATA
* *
42638208 ATTTTACCCTTTGAGGGTATTTTAATA
1 ATTTTACCCTTCGAGGGTATTATAATA
* *
42638235 ATTTTACCCTTCGAGGGTATTCTAGTA
1 ATTTTACCCTTCGAGGGTATTATAATA
42638262 ATTTTAC
1 ATTTTAC
42638269 AATCTTTTCG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTATAATA
Found at i:42639495 original size:33 final size:33
Alignment explanation
Indices: 42639453--42639517 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
42639443 CTAAAGCAAA
42639453 CATAATTTTGTAAAAAGTTTCCAAACCGTTAAT
1 CATAATTTTGTAAAAAGTTTCCAAACCGTTAAT
42639486 CATAATTTTGTAAAAAGTTTCCAAACCGTTAA
1 CATAATTTTGTAAAAAGTTTCCAAACCGTTAA
42639518 CTTGCTCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (33 bp):
CATAATTTTGTAAAAAGTTTCCAAACCGTTAAT
Found at i:42641015 original size:32 final size:32
Alignment explanation
Indices: 42640964--42641163 Score: 231
Period size: 32 Copynumber: 6.3 Consensus size: 32
42640954 AAATGGCTAC
* * *
42640964 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
42640995 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
42641027 TAGCCATCAGCAATAGTAGTATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
42641059 AAGCCATTAGTAGTAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
42641091 CAGCCATCAGTAATGGTAATATGATCGACATA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* ** *
42641123 CAGCCATCTCTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
42641155 AAGCCATCA
1 AAGCCATCA
42641164 ATAGCATCGC
Statistics
Matches: 141, Mismatches: 27, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
31 10 0.07
32 131 0.93
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:42641096 original size:96 final size:95
Alignment explanation
Indices: 42640964--42641161 Score: 272
Period size: 96 Copynumber: 2.1 Consensus size: 95
42640954 AAATGGCTAC
* * *
42640964 AAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACATA
1 AAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATCAGTAATAGTAATATGATCGACACACA
*
42641029 GCCATCAGC-AATAGTAGTATGATCGGCACA
66 GCCATC-GCTAATAGTAATATGATCGGCACA
* * * * *
42641059 AAGCCATTAGTAGTAGTAATATGATTGGCACACAGCCATCAGTAATGGTAATATGATCGACATAC
1 AAGCCATAAGTA-CAGTAATATGATTGGCACAAAGCCATCAGTAATAGTAATATGATCGACACAC
* *
42641124 AGCCATCTCTAATGGTAATATGATCGGCACA
65 AGCCATCGCTAATAGTAATATGATCGGCACA
42641155 AAGCCAT
1 AAGCCAT
42641162 CAATAGCATC
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
95 12 0.13
96 78 0.87
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (95 bp):
AAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATCAGTAATAGTAATATGATCGACACACA
GCCATCGCTAATAGTAATATGATCGGCACA
Found at i:42641191 original size:26 final size:26
Alignment explanation
Indices: 42641157--42641213 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
42641147 TCGGCACAAA
* *
42641157 GCCATCAATAGCATCGCAGGAAAGTT
1 GCCAGCAATAGCATCGCAGGAAAGCT
* *
42641183 GCCAGCAATAGTATCGCAGTAAAGCT
1 GCCAGCAATAGCATCGCAGGAAAGCT
42641209 GCCAG
1 GCCAG
42641214 TAACAGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (26 bp):
GCCAGCAATAGCATCGCAGGAAAGCT
Found at i:42641221 original size:26 final size:26
Alignment explanation
Indices: 42641169--42641222 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
42641159 CATCAATAGC
* *
42641169 ATCGCAGGAAAGTTGCCAGCAATAGT
1 ATCGCAGGAAAGCTGCCAGCAACAGT
* *
42641195 ATCGCAGTAAAGCTGCCAGTAACAGT
1 ATCGCAGGAAAGCTGCCAGCAACAGT
42641221 AT
1 AT
42641223 ATGTGGCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
ATCGCAGGAAAGCTGCCAGCAACAGT
Found at i:42641425 original size:13 final size:13
Alignment explanation
Indices: 42641335--42641425 Score: 59
Period size: 13 Copynumber: 7.5 Consensus size: 13
42641325 GCCATGCACG
*
42641335 AAATCAGTCATAC
1 AAATCAGTCATAT
* *
42641348 AAATCA--CAGAC
1 AAATCAGTCATAT
*
42641359 AAATCAGTCATTT
1 AAATCAGTCATAT
* *
42641372 AAATCA--CAGAC
1 AAATCAGTCATAT
42641383 AAATCAGTCATAT
1 AAATCAGTCATAT
* *
42641396 AAATCA-T-AGAC
1 AAATCAGTCATAT
*
42641407 AAATCAGTCATTT
1 AAATCAGTCATAT
42641420 AAATCA
1 AAATCA
42641426 CAGACAAATT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
11 26 0.45
12 2 0.03
13 30 0.52
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
AAATCAGTCATAT
Found at i:42641490 original size:24 final size:24
Alignment explanation
Indices: 42641335--42641493 Score: 196
Period size: 24 Copynumber: 6.6 Consensus size: 24
42641325 GCCATGCACG
**
42641335 AAATCAGTCATACAAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
42641359 AAATCAGTCATTTAAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
* *
42641383 AAATCAGTCATATAAATCATAGAC
1 AAATCAGTCATTTAAATCACAGAC
42641407 AAATCAGTCATTTAAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
* *
42641431 AAATTAGTCATTTACAAGT--TAGAC
1 AAATCAGTCATTTA-AA-TCACAGAC
* * *
42641455 AAATCATTCATTTACATCACAGGC
1 AAATCAGTCATTTAAATCACAGAC
*
42641479 AAATCAATCATTTAA
1 AAATCAGTCATTTAA
42641494 CCTCGAGGGG
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 111 0.96
25 2 0.02
26 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.26
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:42641585 original size:27 final size:27
Alignment explanation
Indices: 42641514--42641588 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
42641504 TAAAATAGTC
* * * *
42641514 ATTTTACCCTACAAGGGCATTACGGTC
1 ATTTTACCCTTCGAGGGTATTACGGTA
* * **
42641541 ATTTTACCTTTTGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTACGGTA
42641568 ATTTTACCCTTCGAGGGTATT
1 ATTTTACCCTTCGAGGGTATT
42641589 CTAGCAATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTACGGTA
Found at i:42641597 original size:27 final size:27
Alignment explanation
Indices: 42641541--42641601 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
42641531 CATTACGGTC
* * * * *
42641541 ATTTTACCTTTTGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTCTAGCA
42641568 ATTTTACCCTTCGAGGGTATTCTAGCA
1 ATTTTACCCTTCGAGGGTATTCTAGCA
42641595 ATTTTAC
1 ATTTTAC
42641602 AACCTTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTCTAGCA
Found at i:42644796 original size:39 final size:40
Alignment explanation
Indices: 42644701--42644962 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
42644691 TTGAATGATG
*
42644701 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
42644739 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
42644780 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
42644819 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
42644858 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
42644897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
42644936 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42644963 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42646528 original size:112 final size:112
Alignment explanation
Indices: 42646331--42646555 Score: 450
Period size: 112 Copynumber: 2.0 Consensus size: 112
42646321 CTATCAGTTT
42646331 ATATCAAACTAAATAAGTAAAAACCCCAATTTAAAGTTTATAACTTTAAAGAGGCATTTTTACAT
1 ATATCAAACTAAATAAGTAAAAACCCCAATTTAAAGTTTATAACTTTAAAGAGGCATTTTTACAT
42646396 AAAAATACCCAAATTTAGTTTCTTATAAATCAAAAGCTAAAAGCGAA
66 AAAAATACCCAAATTTAGTTTCTTATAAATCAAAAGCTAAAAGCGAA
42646443 ATATCAAACTAAATAAGTAAAAACCCCAATTTAAAGTTTATAACTTTAAAGAGGCATTTTTACAT
1 ATATCAAACTAAATAAGTAAAAACCCCAATTTAAAGTTTATAACTTTAAAGAGGCATTTTTACAT
42646508 AAAAATACCCAAATTTAGTTTCTTATAAATCAAAAGCTAAAAGCGAA
66 AAAAATACCCAAATTTAGTTTCTTATAAATCAAAAGCTAAAAGCGAA
42646555 A
1 A
42646556 GCTGATGCAG
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.29
Consensus pattern (112 bp):
ATATCAAACTAAATAAGTAAAAACCCCAATTTAAAGTTTATAACTTTAAAGAGGCATTTTTACAT
AAAAATACCCAAATTTAGTTTCTTATAAATCAAAAGCTAAAAGCGAA
Found at i:42647008 original size:32 final size:32
Alignment explanation
Indices: 42646988--42647144 Score: 183
Period size: 32 Copynumber: 4.9 Consensus size: 32
42646978 TGGCATAAAG
* * *
42646988 CCATCAATAGTAGTAATATGATTGACACACAA
1 CCATCAGTAGTAGTAATATGATCGGCACACAA
* * *
42647020 CCATCTGTAATAGTAGTATGATCGGCACA-AA
1 CCATCAGTAGTAGTAATATGATCGGCACACAA
* *
42647051 GCCATCAGTAGTAGTAATACGATCGTCACACAA
1 -CCATCAGTAGTAGTAATATGATCGGCACACAA
*
42647084 CCATCAGTAACT-GTAATATGATCGGCACACAA
1 CCATCAGT-AGTAGTAATATGATCGGCACACAA
* *
42647116 CCATCAGTAATGGTAATATGATCGGCACA
1 CCATCAGTAGTAGTAATATGATCGGCACA
42647145 AAGCAATCAA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
31 4 0.04
32 98 0.92
33 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (32 bp):
CCATCAGTAGTAGTAATATGATCGGCACACAA
Found at i:42647081 original size:64 final size:64
Alignment explanation
Indices: 42646970--42647144 Score: 219
Period size: 64 Copynumber: 2.7 Consensus size: 64
42646960 GGTACTAATC
* * * * *
42646970 AGTATGATTGGCATAAAGCCATCAATAGTAGTAATATGATTGACACACAACCATCTGTAA-TAGT
1 AGTATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAACCATCAGTAACT-GT
* *
42647034 AGTATGATCGGCACAAAGCCATCAGTAGTAGTAATACGATCGTCACACAACCATCAGTAACTGT
1 AGTATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAACCATCAGTAACTGT
* * * *
42647098 AATATGATCGGCACACAA-CCATCAGTAATGGTAATATGATCGGCACA
1 AGTATGATCGGCACA-AAGCCATCAGTAGTAGTAATATGATCGACACA
42647145 AAGCAATCAA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
64 94 0.97
65 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (64 bp):
AGTATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAACCATCAGTAACTGT
Found at i:42647187 original size:25 final size:26
Alignment explanation
Indices: 42647159--42647211 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
42647149 AATCAATAGC
*
42647159 ATCGCAG-GAAGCTGCCAGTAACAGT
1 ATCGCAGCAAAGCTGCCAGTAACAGT
*
42647184 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGTAACAGT
42647210 AT
1 AT
42647212 ATGTGACCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTAACAGT
Found at i:42647327 original size:24 final size:24
Alignment explanation
Indices: 42647295--42647452 Score: 190
Period size: 24 Copynumber: 6.6 Consensus size: 24
42647285 TCATGCACGG
**
42647295 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
42647319 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
42647343 AATCAGTCATTTAAATCATAGACA
1 AATCAGTCATTTAAATCACAGACA
* *
42647367 AATCAATCATTTAAATCATAGACA
1 AATCAGTCATTTAAATCACAGACA
* * *
42647391 AATCAGTCATTTACATCTCAAACA
1 AATCAGTCATTTAAATCACAGACA
* * * * *
42647415 AATCATTTAGTTACATCACAGGCA
1 AATCAGTCATTTAAATCACAGACA
*
42647439 AATCAATCATTTAA
1 AATCAGTCATTTAA
42647453 CCCCGAGGGG
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 115 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:42647530 original size:27 final size:27
Alignment explanation
Indices: 42647500--42647587 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
42647490 CATTACGGTT
42647500 ATTTTACCTTTCGAGGGTATTTCAGTA
1 ATTTTACCTTTCGAGGGTATTTCAGTA
* *
42647527 ATTTTACCCTTCGAGGGTATTT-TGATA
1 ATTTTACCTTTCGAGGGTATTTCAG-TA
* * *
42647554 ATTTTACCCTTT-AAAGGTATTCCAGTA
1 ATTTTA-CCTTTCGAGGGTATTTCAGTA
42647581 ATTTTAC
1 ATTTTAC
42647588 AACCTTCTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.04
27 44 0.86
28 5 0.10
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (27 bp):
ATTTTACCTTTCGAGGGTATTTCAGTA
Found at i:42648749 original size:31 final size:31
Alignment explanation
Indices: 42648711--42648769 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
42648701 TATCATCCAT
*
42648711 TTTAAATACTTAATGTAATCATATACAACTC
1 TTTAAATACTTAATGTAATCACATACAACTC
42648742 TTTAAATACTTAATGTAATCACATACAA
1 TTTAAATACTTAATGTAATCACATACAA
42648770 GTATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.37
Consensus pattern (31 bp):
TTTAAATACTTAATGTAATCACATACAACTC
Found at i:42651299 original size:21 final size:22
Alignment explanation
Indices: 42651275--42651318 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
42651265 TTATTAACCC
*
42651275 AAATTAATTGGA-TATAAATTA
1 AAATTAATTAGATTATAAATTA
*
42651296 AAATTAATTATATTATAAATTA
1 AAATTAATTAGATTATAAATTA
42651318 A
1 A
42651319 TACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
AAATTAATTAGATTATAAATTA
Found at i:42662129 original size:56 final size:51
Alignment explanation
Indices: 42662060--42662256 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 51
42662050 TTAAGGGAAT
* *
42662060 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAAGTTGTGA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACTG-AG--ATGA
*
42662116 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGC-ACTGAGATGA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACTGAGATGA
* * * * * *
42662166 GAGGTCCCCCGTAAGACGATGTTTGGGACATGGCATGGGC-ACCGATATGA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACTGAGATGA
** * * * * *
42662216 GAACTCCCATGTAAGACGATATATGGGATATGGCATTGGCA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
42662257 GTACATGAAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 78 0.64
52 2 0.02
53 3 0.02
56 39 0.32
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (51 bp):
GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACTGAGATGA
Found at i:42662298 original size:49 final size:49
Alignment explanation
Indices: 42662120--42662305 Score: 160
Period size: 50 Copynumber: 3.8 Consensus size: 49
42662110 TTGTGAGAGG
* * * * **
42662120 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCAC-GACATGAGAAC
** * * *
42662170 TCCCCCGTAAGACGATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-CGACATGAGAAC
* * * *
42662220 TCCCATGTAAGACGATATATGGGATATGGCATTGGCA-GTACATGA-AAC
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACG-ACATGAGAAC
* * *
42662268 ATCCCATGTAAGGCCATGTTTGGCACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
42662306 TGTTATTATC
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 4 0.04
49 35 0.32
50 71 0.64
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACGACATGAGAAC
Found at i:42665525 original size:20 final size:20
Alignment explanation
Indices: 42665497--42665546 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
42665487 TCGAGTAGGA
*
42665497 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
42665517 ATATTGATACCTTAAGAAAT
1 ATATCGATACCTTAAGAAAT
* *
42665537 TTATCAATAC
1 ATATCGATAC
42665547 TGACTTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:42667767 original size:20 final size:21
Alignment explanation
Indices: 42667718--42667767 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
42667708 TATTGATGAA
* *
42667718 GTATCGATA-ATTTTCTTAAT
1 GTATCGATATATTTTCCTAAG
42667738 GTATCGATATA-TTTCCTAAG
1 GTATCGATATATTTTCCTAAG
42667758 GTATCGATAT
1 GTATCGATAT
42667768 TCTTGCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (21 bp):
GTATCGATATATTTTCCTAAG
Found at i:42669290 original size:137 final size:137
Alignment explanation
Indices: 42669094--42669357 Score: 438
Period size: 137 Copynumber: 1.9 Consensus size: 137
42669084 CTATTTTAGA
* *
42669094 TACCTTGTGTATTCGGCTAGACTCAAATTTGGGTAAAAATGGTTAATTTGCATGTTTTGGGCTCA
1 TACCTTGAGTATTCGGCTAGACTCAAATTTGGGTAAAAATGGTTAATTTGCATGGTTTGGGCTCA
* * * *
42669159 GGGATTAAATTGAATAAAAGTAAAAGTTTAGGGGAAATTTTATAAAAATGTGAAAAATGACTCAA
66 GGGATTAAATTAAATAAAAGTAAAACTTTAGGGGAAATTTTATAAAAATATAAAAAATGACTCAA
42669224 TTTTGGG
131 TTTTGGG
* *
42669231 TACCTTGAGTATTCGGGTAGACTCAATTTTGGGTAAAAATGGTTAATTTGCATGGTTTGGGCTCA
1 TACCTTGAGTATTCGGCTAGACTCAAATTTGGGTAAAAATGGTTAATTTGCATGGTTTGGGCTCA
* *
42669296 GGGATTAAATTAAATAAAAGTAAAACTTTAGGGGCAATTTTGTAAAAATATAAAAAATGACT
66 GGGATTAAATTAAATAAAAGTAAAACTTTAGGGGAAATTTTATAAAAATATAAAAAATGACT
42669358 AGATTGCATA
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
137 117 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (137 bp):
TACCTTGAGTATTCGGCTAGACTCAAATTTGGGTAAAAATGGTTAATTTGCATGGTTTGGGCTCA
GGGATTAAATTAAATAAAAGTAAAACTTTAGGGGAAATTTTATAAAAATATAAAAAATGACTCAA
TTTTGGG
Found at i:42672570 original size:28 final size:28
Alignment explanation
Indices: 42672509--42672603 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
42672499 ATTATGTCCA
*
42672509 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
42672536 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* * *
42672564 CACACTTAGTGCTACATAGTCAAGCTCG
1 CACACTTAGTGCTATATAATCAAACTCG
42672592 CACACTTAGTGC
1 CACACTTAGTGC
42672604 CGCATGGTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 20 0.32
28 43 0.68
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:42672613 original size:28 final size:27
Alignment explanation
Indices: 42672509--42672667 Score: 167
Period size: 27 Copynumber: 5.8 Consensus size: 27
42672499 ATTATGTCCA
* * *
42672509 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAACTCG
* *
42672536 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTACATAGTC-AACTCG
42672564 CACACTTAGTGCTACATAGTCAAGCTCG
1 CACACTTAGTGCTACATAGTCAA-CTCG
** * *
42672592 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAACTCG
* **
42672619 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAGTCAACTCG
*
42672646 CACACTTAGTGCAACATAGTCA
1 CACACTTAGTGCTACATAGTCA
42672668 GAGCTTAATC
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
27 66 0.57
28 50 0.43
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAACTCG
Found at i:42672620 original size:55 final size:55
Alignment explanation
Indices: 42672509--42672663 Score: 161
Period size: 55 Copynumber: 2.8 Consensus size: 55
42672499 ATTATGTCCA
* * * *
42672509 CACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAACTCG
* * ** *
42672564 CACACTTAGTGCTACATAGTCAAGCTCGCACACTTAGTGCCGCATGGTC-AATTCG
1 CACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCCACATAATCAAACTCG
* ** *
42672619 CACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATA
1 CACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATA
42672664 GTCAGAGCTT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
54 19 0.23
55 44 0.53
56 20 0.24
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (55 bp):
CACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAACTCG
Found at i:42675890 original size:50 final size:49
Alignment explanation
Indices: 42675810--42675951 Score: 212
Period size: 50 Copynumber: 2.8 Consensus size: 49
42675800 CAAAATACCA
* * *
42675810 TTTGTAGACAAGCCACCACTAGTTTCCAGATAAACTGCCACTGATAACAC
1 TTTGTAGACAAGCCACCACTA-TATGCAGATATACTGCCACTGATAACAC
*
42675860 TTTGTAGACAAGCCACCACTGATATGCAGATATACTGGCACTGATAACAC
1 TTTGTAGACAAGCCACCACT-ATATGCAGATATACTGCCACTGATAACAC
*
42675910 TTTGTAGACAAGCCACCACTAATATGCAGATATATTGCCACT
1 TTTGTAGACAAGCCACCACT-ATATGCAGATATACTGCCACT
42675952 TACTTCCTCC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 83 0.99
51 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (49 bp):
TTTGTAGACAAGCCACCACTATATGCAGATATACTGCCACTGATAACAC
Found at i:42678727 original size:11 final size:11
Alignment explanation
Indices: 42678710--42678754 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
42678700 TTCATTAACA
42678710 TTATTATTAAT
1 TTATTATTAAT
*
42678721 CTATTATTATTAT
1 TTATTATTA--AT
42678734 ATTATTATTAAT
1 -TTATTATTAAT
42678746 TTATTATTA
1 TTATTATTA
42678755 TTATTACCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 17 0.59
12 2 0.07
13 2 0.07
14 8 0.28
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTATTAAT
Found at i:42678728 original size:14 final size:13
Alignment explanation
Indices: 42678709--42678760 Score: 68
Period size: 14 Copynumber: 3.8 Consensus size: 13
42678699 ATTCATTAAC
42678709 ATTATTATTAATCT
1 ATTATTATTAAT-T
42678723 ATTATTATTATATT
1 ATTATTATTA-ATT
*
42678737 ATTATTAATTTATT
1 ATTATT-ATTAATT
42678751 ATTATTATTA
1 ATTATTATTA
42678761 CCACCGCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 3 0.09
14 26 0.76
15 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTATTAATT
Found at i:42678741 original size:25 final size:25
Alignment explanation
Indices: 42678709--42678758 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
42678699 ATTCATTAAC
42678709 ATTATTATTAATCTATTATTATTAT
1 ATTATTATTAATCTATTATTATTAT
*
42678734 ATTATTATTAATTTATTATTATTAT
1 ATTATTATTAATCTATTATTATTAT
42678759 TACCACCGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTATTATTAATCTATTATTATTAT
Found at i:42678775 original size:3 final size:3
Alignment explanation
Indices: 42678709--42678760 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
42678699 ATTCATTAAC
*
42678709 ATT ATT ATT AATCT ATT ATT ATT A-T ATT ATT ATT AAT -TT ATT ATT
1 ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
42678754 ATT ATT A
1 ATT ATT A
42678761 CCACCGCTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 35 0.81
4 4 0.09
5 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:42707804 original size:21 final size:20
Alignment explanation
Indices: 42707763--42707806 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
42707753 ACCCCTGCAA
*
42707763 TTTGAAAAATTCTAATTTTT
1 TTTGAAAAATTCTAATGTTT
42707783 TTTGAAAAAATTC-ATATGTTT
1 TTTG-AAAAATTCTA-ATGTTT
42707804 TTT
1 TTT
42707807 ATTCAGTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTGAAAAATTCTAATGTTT
Found at i:42712095 original size:22 final size:23
Alignment explanation
Indices: 42712053--42712100 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
42712043 CAAATCAGAG
42712053 TTCAAGCTTCAGCATATTGTTCT
1 TTCAAGCTTCAGCATATTGTTCT
* *
42712076 TTCAAGTTTCA-CGTATTGTTCT
1 TTCAAGCTTCAGCATATTGTTCT
42712098 TTC
1 TTC
42712101 CAACCTAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (23 bp):
TTCAAGCTTCAGCATATTGTTCT
Found at i:42716913 original size:31 final size:30
Alignment explanation
Indices: 42716864--42716922 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
42716854 TACTCCATAG
42716864 TTTTTTATTTGAATTTTTATGAACTTTTATA
1 TTTTTTATTTGAATTTTTAT-AACTTTTATA
* *
42716895 TTTTTTAATTTTAA-TTTTATAATTTTTA
1 TTTTTT-ATTTGAATTTTTATAACTTTTA
42716923 AATTATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 12 0.48
32 6 0.24
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (30 bp):
TTTTTTATTTGAATTTTTATAACTTTTATA
Found at i:42716917 original size:14 final size:15
Alignment explanation
Indices: 42716878--42716920 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
42716868 TTATTTGAAT
42716878 TTTTATGAACTTTTATA
1 TTTTAT-AA-TTTTATA
*
42716895 TTTTTTAATTTTA-A
1 TTTTATAATTTTATA
42716909 TTTTATAATTTT
1 TTTTATAATTTT
42716921 TAAATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 5 0.21
16 2 0.08
17 5 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTATAATTTTATA
Found at i:42717759 original size:18 final size:19
Alignment explanation
Indices: 42717720--42717762 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
42717710 AGTGAGTAAG
*
42717720 TATGATAATTGAATATATT
1 TATGATAATAGAATATATT
42717739 TATGA-AATAGAATATGA-T
1 TATGATAATAGAATAT-ATT
42717757 TATGAT
1 TATGAT
42717763 TATTGAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (19 bp):
TATGATAATAGAATATATT
Found at i:42719914 original size:24 final size:26
Alignment explanation
Indices: 42719884--42719952 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 26
42719874 TTATTATTTG
*
42719884 AACAATATTAGAGTTAATTATTAC-T
1 AACAATATTAGAGTTAATTATGACTT
42719909 AA-AATATT----TTAATTATGACTT
1 AACAATATTAGAGTTAATTATGACTT
42719930 AACTAATATTAGAGTTAATTATG
1 AAC-AATATTAGAGTTAATTATG
42719953 TTAATTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
20 10 0.28
21 3 0.08
23 6 0.17
24 6 0.17
25 2 0.06
27 9 0.25
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (26 bp):
AACAATATTAGAGTTAATTATGACTT
Found at i:42719966 original size:16 final size:17
Alignment explanation
Indices: 42719947--42719995 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
42719937 ATTAGAGTTA
*
42719947 ATTATGTTA-ATTAATT
1 ATTATTTTACATTAATT
*
42719963 ATTATTTTAGA-TAA-T
1 ATTATTTTACATTAATT
42719978 ATTATTTTACATTAATT
1 ATTATTTTACATTAATT
42719995 A
1 A
42719996 CATAAAGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 11 0.39
16 14 0.50
17 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTATTTTACATTAATT
Found at i:42720076 original size:23 final size:21
Alignment explanation
Indices: 42720035--42720077 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
42720025 TGTGTAAAAT
*
42720035 ATTTTTAATTATTATTTGAAA
1 ATTTTTAATTATTACTTGAAA
42720056 ATTTTTAATTATAATACTTGAA
1 ATTTTTAATTAT--TACTTGAA
42720078 TTAATAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTTTAATTATTACTTGAAA
Found at i:42728667 original size:19 final size:20
Alignment explanation
Indices: 42728643--42728683 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
42728633 GCCCAAGCTC
*
42728643 CTAATGCAATGA-TAAAATG
1 CTAATGAAATGACTAAAATG
42728662 CTAATGAAATGACCTAAAATG
1 CTAATGAAATGA-CTAAAATG
42728683 C
1 C
42728684 CACTAACTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
CTAATGAAATGACTAAAATG
Found at i:42729764 original size:14 final size:14
Alignment explanation
Indices: 42729730--42729758 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42729720 AACAAATTTA
42729730 ACTATACTAAAATG
1 ACTATACTAAAATG
42729744 ACTATACTAAAATG
1 ACTATACTAAAATG
42729758 A
1 A
42729759 TCATACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATACTAAAATG
Found at i:42735128 original size:14 final size:14
Alignment explanation
Indices: 42735094--42735122 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42735084 AACAAATTTA
42735094 ACTATACTAAAATG
1 ACTATACTAAAATG
42735108 ACTATACTAAAATG
1 ACTATACTAAAATG
42735122 A
1 A
42735123 TCATACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATACTAAAATG
Found at i:42742187 original size:11 final size:11
Alignment explanation
Indices: 42742171--42742197 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
42742161 ATCGCCGAAG
42742171 AACTTCTAACA
1 AACTTCTAACA
42742182 AACTTCTAACA
1 AACTTCTAACA
42742193 AACTT
1 AACTT
42742198 GCCTCTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (11 bp):
AACTTCTAACA
Found at i:42745927 original size:24 final size:24
Alignment explanation
Indices: 42745900--42745963 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
42745890 ATTAGAAAAA
*
42745900 ATATATAAATATATAAATGTACAT
1 ATATATAAATATATAAATATACAT
*
42745924 ATATA-AAA-AAATAATTATATACAT
1 ATATATAAATATATAA--ATATACAT
*
42745948 ATATATAGAT-TATAAA
1 ATATATAAATATATAAA
42745964 AAAGATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
22 5 0.16
23 4 0.12
24 17 0.53
25 6 0.19
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (24 bp):
ATATATAAATATATAAATATACAT
Found at i:42746235 original size:15 final size:15
Alignment explanation
Indices: 42746215--42746280 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
42746205 TGTAGGTACA
42746215 ATAATAAT-ATATAAT
1 ATAATAATAAT-TAAT
42746230 ATAATAATAATTAAT
1 ATAATAATAATTAAT
* * *
42746245 ACAATAAGAA-T-GT
1 ATAATAATAATTAAT
42746258 A-AA-AATAATTAAT
1 ATAATAATAATTAAT
*
42746271 TTAATAATAA
1 ATAATAATAA
42746281 ATAACTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.10
12 3 0.08
13 3 0.08
14 3 0.08
15 25 0.62
16 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAATAATAATTAAT
Found at i:42747899 original size:175 final size:175
Alignment explanation
Indices: 42747608--42747955 Score: 518
Period size: 175 Copynumber: 2.0 Consensus size: 175
42747598 AGATTTTCCA
* **
42747608 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGCTCCGATGCAACTTAGGGAGGC
1 TCCACTACAGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGCTCCGATGCAACCCAGGGAGGC
**
42747673 AAGGCTGGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
66 AAGGCTGGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
* *
42747738 GCTCCGCTGCCA-TCGAGGGAGGCAAGGCGAGTGTCTTCGATCTAC
131 ACTCCGCTGCAACTC-AGGGAGGCAAGGCGAGTGTCTTCGATCTAC
* *
42747783 TCCACTACAGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGT
1 TCCACTACAGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGCTCCGATGCAACCCAGGGAGGC
** ** * * *
42747848 AAGGCTGGTGTCTTTGATCTGCTTTGCTGCCGGTACAGGAAGGTAAGATCTGCTATTTTTAACCT
66 AAGGCTGGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
* *
42747913 ACTCCGCTGTAACTCAGGGAGGCAAGGCTAGTGTCTTCGATCT
131 ACTCCGCTGCAACTCAGGGAGGCAAGGCGAGTGTCTTCGATCT
42747956 GCTTCGCTGT
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
175 152 0.99
176 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (175 bp):
TCCACTACAGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGCTCCGATGCAACCCAGGGAGGC
AAGGCTGGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
ACTCCGCTGCAACTCAGGGAGGCAAGGCGAGTGTCTTCGATCTAC
Found at i:42747921 original size:88 final size:88
Alignment explanation
Indices: 42747629--42748338 Score: 635
Period size: 88 Copynumber: 8.2 Consensus size: 88
42747619 TTAGGGAGAT
* ** *
42747629 AAGATCTG-TAATTTTCAACCTGCTCCGATGCAACTTAGGGAGGCAAGGCTGGTGTCTTCAATCT
1 AAGATCTGCT-ATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* **
42747693 GCTTCACTGTTAGTACAGGAAGGC
65 GCTTCGCTGCCAGTACAGGAAGGC
* * *
42747717 AAGATCTGCTATCTTT-AACCTGCTCCGCTGCCATCGAGGGAGGCAAGGC-GAGTGTCTTCGATC
1 AAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTG-GTGTCTTCGATC
* * * * * * **
42747780 TACTCCACT-ACAGCT-TAGGGAGAT
64 TGCTTCGCTGCCAG-TACAGGAAGGC
* *
42747804 AAGATCTG-TAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCT-ATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * *
42747868 GCTTTGCTGCCGGTACAGGAAGGT
65 GCTTCGCTGCCAGTACAGGAAGGC
* * * * *
42747892 AAGATCTGCTATTTTTAACCTACTCCGCTGTAACTCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
** *
42747957 CTTCGCTGTTAGTACAGGAAGAC
66 CTTCGCTGCCAGTACAGGAAGGC
* *** * * * *
42747980 AAGATCTGCTATCTTCAGTTTGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGT-TTCGATATG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
** *
42748044 CTTCGCTATCAGTACAGGAAGGT
66 CTTCGCTGCCAGTACAGGAAGGC
* * * *
42748067 AAGATCTG----------CCTGCTCCACTGCAACCCAGGGAAGCAAGGCTGGTTTCTTTGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
42748122 CTTTGCTGCCGGTACAGGAAGGC
66 CTTCGCTGCCAGTACAGGAAGGC
* *** ** * * * *
42748145 AAGATCTGCTATCTTCGGTCTGCTCTACTGCAACCTAGGGAGGCAAGACTGGTGTTTTCGAACTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
42748210 CTTCACTGTCAGTACAGGAAGGC
66 CTTCGCTGCCAGTACAGGAAGGC
* * * **
42748233 AAGATCTGCTATTTTCAACCTGATCTGCTGCAACCCAGGGAGGCAAGGCTGGTGCCTTTTATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * *
42748298 CTTCGCTACCGGTACAAGAAGGC
66 CTTCGCTGCCAGTACAGGAAGGC
*
42748321 AAGATCTGCTATCTTCAA
1 AAGATCTGCTATTTTCAA
42748339 TGATATTTTC
Statistics
Matches: 498, Mismatches: 103, Indels: 42
0.77 0.16 0.07
Matches are distributed among these distances:
77 31 0.06
78 33 0.07
86 4 0.01
87 99 0.20
88 326 0.65
89 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.27
Consensus pattern (88 bp):
AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
CTTCGCTGCCAGTACAGGAAGGC
Found at i:42748187 original size:253 final size:252
Alignment explanation
Indices: 42747629--42748329 Score: 739
Period size: 253 Copynumber: 2.7 Consensus size: 252
42747619 TTAGGGAGAT
* * * *
42747629 AAGATCTG-TAATTTTCAACCTGCTCCGA-TGCAACTTAGGGAGGCAAGGCTGGTGTCTTCAATC
1 AAGATCTGCT-ATCTTCAACCTACTCC-ACTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATC
* * * *
42747692 TGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCATCGAGGG
64 TGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGG
* * * * * *
42747757 AGGCAAGGC-GAGTGTCTTCGATCTACTCCACTACAGCT-TAGGGAGATAAGATCTGTAATTTTC
129 AGGCAAGGCTG-GTGT-TTCGATCTGCTTCGCTACAG-TACAGGAAGGTAAGATCTG--------
* * *
42747820 AACCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTTGATCTGCTTTGCTGCCGGTACA
183 --CCTGCTCCACTGCAACCCAGGGAAGCAAGGCTGGTGTCTTTGATCTGCTTTGCTGCCGGTACA
*
42747885 GGAAGGT
246 GGAAGGC
* * * * *
42747892 AAGATCTGCTATTTTTAACCTACTCCGCTGTAA-CTCAGGGAGGCAAGGCTAGTGTCTTCGATCT
1 AAGATCTGCTATCTTCAACCTACTCCACTGCAACCT-AGGGAGGCAAGGCTGGTGTCTTCGATCT
* * *** * *
42747956 GCTTCGCTGTTAGTACAGGAAGACAAGATCTGCTATCTTCAGTTTGCTCCACTGCAACCTAGGGA
65 GCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGA
* *
42748021 GGCAAGACTGGTGTTTCGATATGCTTCGCTATCAGTACAGGAAGGTAAGATCTGCCTGCTCCACT
130 GGCAAGGCTGGTGTTTCGATCTGCTTCGCTA-CAGTACAGGAAGGTAAGATCTGCCTGCTCCACT
*
42748086 GCAACCCAGGGAAGCAAGGCTGGTTTCTTTGATCTGCTTTGCTGCCGGTACAGGAAGGC
194 GCAACCCAGGGAAGCAAGGCTGGTGTCTTTGATCTGCTTTGCTGCCGGTACAGGAAGGC
*** * * * * *
42748145 AAGATCTGCTATCTTCGGTCTGCTCTACTGCAACCTAGGGAGGCAAGACTGGTGTTTTCGAACTG
1 AAGATCTGCTATCTTCAACCTACTCCACTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * * *
42748210 CTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGATCTGCTGCAACCCAGGGAG
66 CTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAG
* * * *
42748275 GCAAGGCTGGTGCCTTT-TATCTGCTTCGCTACCGGTACAAGAAGGCAAGATCTGC
131 GCAAGGCTGGTG--TTTCGATCTGCTTCGCTA-CAGTACAGGAAGGTAAGATCTGC
42748330 TATCTTCAAT
Statistics
Matches: 368, Mismatches: 61, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
253 179 0.49
254 34 0.09
255 3 0.01
262 15 0.04
263 135 0.37
264 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (252 bp):
AAGATCTGCTATCTTCAACCTACTCCACTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTG
CTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAG
GCAAGGCTGGTGTTTCGATCTGCTTCGCTACAGTACAGGAAGGTAAGATCTGCCTGCTCCACTGC
AACCCAGGGAAGCAAGGCTGGTGTCTTTGATCTGCTTTGCTGCCGGTACAGGAAGGC
Found at i:42749648 original size:14 final size:15
Alignment explanation
Indices: 42749625--42749657 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
42749615 ATCGACGCTT
42749625 TTCCAAATAAGGT-C
1 TTCCAAATAAGGTCC
*
42749639 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
42749654 TTCC
1 TTCC
42749658 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:42755427 original size:4 final size:4
Alignment explanation
Indices: 42755408--42755447 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
42755398 AATTGCATAG
*
42755408 AAAT AATAT GAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
42755448 AATGACATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:42755846 original size:31 final size:33
Alignment explanation
Indices: 42755789--42755884 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 33
42755779 AAAGATATTC
* * *
42755789 ATTAGAAAAAATATATAAATATATACATGTACAT-
1 ATTATAAAAAA-A-ATAATTATATACATATACATA
*
42755823 A-TATAAAAAAAATAATTATATACATATATATA
1 ATTATAAAAAAAATAATTATATACATATACATA
* * *
42755855 GATTATAAAAAAGATAATTACATATATATA
1 -ATTATAAAAAAAATAATTATATACATATA
42755885 TAAACAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
31 17 0.33
32 1 0.02
33 9 0.17
34 25 0.48
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (33 bp):
ATTATAAAAAAAATAATTATATACATATACATA
Found at i:42755902 original size:30 final size:28
Alignment explanation
Indices: 42755821--42755911 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 28
42755811 ATACATGTAC
*
42755821 ATATATAAAAAAAATAATTATATACATAT
1 ATATATAAAAAAAATAATAAT-TACATAT
* *
42755850 ATATAGATTATAAAAAA-GATAATTACATAT
1 ATAT--A-TAAAAAAAATAATAATTACATAT
42755880 ATATATAAACAAATAATAATAATTACATAT
1 ATATATAAA-AAA-AATAATAATTACATAT
42755910 AT
1 AT
42755912 TGAAATTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
27 3 0.06
28 4 0.08
29 6 0.12
30 25 0.49
31 5 0.10
32 8 0.16
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.34
Consensus pattern (28 bp):
ATATATAAAAAAAATAATAATTACATAT
Found at i:42756168 original size:18 final size:18
Alignment explanation
Indices: 42756145--42756192 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
42756135 TGTAGGTACA
42756145 ATAATAATAAT-ATATAAT
1 ATAATAATAATGAT-TAAT
42756163 ATAATAATAATGATTAAT
1 ATAATAATAATGATTAAT
* *
42756181 AGAATAAGAATG
1 ATAATAATAATG
42756193 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATAATAATAATGATTAAT
Found at i:42756187 original size:21 final size:17
Alignment explanation
Indices: 42756144--42756227 Score: 55
Period size: 18 Copynumber: 4.6 Consensus size: 17
42756134 ATGTAGGTAC
42756144 AATAATAATAATATATA
1 AATAATAATAATATATA
42756161 ATATAATAATAATGAT-TA
1 A-ATAATAATAAT-ATATA
* * * *
42756179 ATAGAATAAGAATGTAAA
1 A-ATAATAATAATATATA
42756197 AATAATTAATTTAATA-ATA
1 AATAA-TAA--TAATATATA
42756216 AATAACTAATAA
1 AATAA-TAATAA
42756228 CAAATAAAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
17 8 0.15
18 29 0.56
19 12 0.23
20 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (17 bp):
AATAATAATAATATATA
Found at i:42762921 original size:27 final size:27
Alignment explanation
Indices: 42762853--42763062 Score: 210
Period size: 27 Copynumber: 7.8 Consensus size: 27
42762843 TTACCCTATG
* * ** *
42762853 GGGTATTTTGGTAATTTTACCTTTC-G
1 GGGTATTTCGATAATTTTACCCATCAA
*
42762879 GGGTATTTC-AGTAATTTTACCCATCGA
1 GGGTATTTCGA-TAATTTTACCCATCAA
* *
42762906 GGGCATTTCGATAATTTTACCCTTCAA
1 GGGTATTTCGATAATTTTACCCATCAA
* *
42762933 GGGTATTTTTG-TAATTTTACTCATCAA
1 GGGTA-TTTCGATAATTTTACCCATCAA
* * ** **
42762960 GGGTATTTCGGTAATCTTACCTTTTGA
1 GGGTATTTCGATAATTTTACCCATCAA
*
42762987 GGGTATTTTGATAATTTTACCCATCAA
1 GGGTATTTCGATAATTTTACCCATCAA
42763014 GGGTATTTCGATAATTTTACCCATCAA
1 GGGTATTTCGATAATTTTACCCATCAA
* *
42763041 GTGTATTTCGGTAATTTTACCC
1 GGGTATTTCGATAATTTTACCC
42763063 TTCAGGTATA
Statistics
Matches: 150, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
26 24 0.16
27 121 0.81
28 5 0.03
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCAA
Found at i:42762947 original size:54 final size:54
Alignment explanation
Indices: 42762853--42763062 Score: 244
Period size: 54 Copynumber: 3.9 Consensus size: 54
42762843 TTACCCTATG
* * * * * *
42762853 GGGTATTTTGGTAATTTTACCTTTC-GGGGTATTTCAGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCTTCAAGGGTATTTCTGTAATTTTACCCATCAA
* * *
42762906 GGGCATTTCGATAATTTTACCCTTCAAGGGTATTTTTGTAATTTTACTCATCAA
1 GGGTATTTCGATAATTTTACCCTTCAAGGGTATTTCTGTAATTTTACCCATCAA
* * * **
42762960 GGGTATTTCGGTAATCTTACCTTTTGAGGGTATTT-TGATAATTTTACCCATCAA
1 GGGTATTTCGATAATTTTACCCTTCAAGGGTATTTCTG-TAATTTTACCCATCAA
* * *
42763014 GGGTATTTCGATAATTTTACCCATCAAGTGTATTTCGGTAATTTTACCC
1 GGGTATTTCGATAATTTTACCCTTCAAGGGTATTTCTGTAATTTTACCC
42763063 TTCAGGTATA
Statistics
Matches: 130, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 23 0.18
54 106 0.82
55 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACCCTTCAAGGGTATTTCTGTAATTTTACCCATCAA
Found at i:42763074 original size:27 final size:28
Alignment explanation
Indices: 42762855--42763087 Score: 196
Period size: 27 Copynumber: 8.6 Consensus size: 28
42762845 ACCCTATGGG
* ** *
42762855 GTATTTTGGTAATTTTACCTTTC--GGG
1 GTATTTCGGTAATTTTACCCATCAAGGT
* *
42762881 GTATTTCAGTAATTTTACCCATCGAGG-
1 GTATTTCGGTAATTTTACCCATCAAGGT
* * *
42762908 GCATTTCGATAATTTTACCCTTCAAGG-
1 GTATTTCGGTAATTTTACCCATCAAGGT
** *
42762935 GTATTTTTGTAATTTTACTCATCAAGG-
1 GTATTTCGGTAATTTTACCCATCAAGGT
* ** **
42762962 GTATTTCGGTAATCTTACCTTTTGAGG-
1 GTATTTCGGTAATTTTACCCATCAAGGT
* *
42762989 GTATTTTGATAATTTTACCCATCAAGG-
1 GTATTTCGGTAATTTTACCCATCAAGGT
*
42763016 GTATTTCGATAATTTTACCCATCAA-GT
1 GTATTTCGGTAATTTTACCCATCAAGGT
*
42763043 GTATTTCGGTAATTTTACCCTTC-AGGT
1 GTATTTCGGTAATTTTACCCATCAAGGT
* *
42763070 ATATTTCGGTAATCTTAC
1 GTATTTCGGTAATTTTAC
42763088 AACCTTTTTG
Statistics
Matches: 168, Mismatches: 35, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.12
27 145 0.86
28 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (28 bp):
GTATTTCGGTAATTTTACCCATCAAGGT
Found at i:42763075 original size:54 final size:54
Alignment explanation
Indices: 42762853--42763087 Score: 231
Period size: 54 Copynumber: 4.4 Consensus size: 54
42762843 TTACCCTATG
* * * * * * *
42762853 GGGTATTTTGGTAATTTTACCTTTC-GGGGTATTTCAGTAATTTTACCCATCGA
1 GGGTATTTCGATAATCTTACCCTTCAAGGGTATTTCGGTAATTTTACCCATCAA
* * ** *
42762906 GGGCATTTCGATAATTTTACCCTTCAAGGGTATTTTTGTAATTTTACTCATCAA
1 GGGTATTTCGATAATCTTACCCTTCAAGGGTATTTCGGTAATTTTACCCATCAA
* * ** * *
42762960 GGGTATTTCGGTAATCTTACCTTTTGAGGGTATTTTGATAATTTTACCCATCAA
1 GGGTATTTCGATAATCTTACCCTTCAAGGGTATTTCGGTAATTTTACCCATCAA
* * * *
42763014 GGGTATTTCGATAATTTTACCCATCAAGTGTATTTCGGTAATTTTACCCTTC-A
1 GGGTATTTCGATAATCTTACCCTTCAAGGGTATTTCGGTAATTTTACCCATCAA
* *
42763067 GGTATATTTCGGTAATCTTAC
1 GG-GTATTTCGATAATCTTAC
42763088 AACCTTTTTG
Statistics
Matches: 149, Mismatches: 31, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 24 0.16
54 125 0.84
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (54 bp):
GGGTATTTCGATAATCTTACCCTTCAAGGGTATTTCGGTAATTTTACCCATCAA
Found at i:42763075 original size:81 final size:80
Alignment explanation
Indices: 42762853--42763087 Score: 258
Period size: 81 Copynumber: 2.9 Consensus size: 80
42762843 TTACCCTATG
* ** * * * *
42762853 GGGTATTTTGGTAATTTTACCTTTC-GGGGTATTTCAGTAATTTTACCCATCGAGGGCATTTCGA
1 GGGTATTTTCGTAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCTTC-AGGGTATTTCGA
*
42762917 TAATTTTACCCTTCAA
65 TAATTTTACCCATCAA
* * * * * *
42762933 GGGTATTTTTGTAATTTTACTCATCAAGGGTATTTCGGTAATCTTACCTTTTGAGGGTATTTTGA
1 GGGTATTTTCGTAATTTTACCCATCAAGGGTATTTCGGTAATTTTACC-CTTCAGGGTATTTCGA
42762998 TAATTTTACCCATCAA
65 TAATTTTACCCATCAA
* *
42763014 GGGTA-TTTCGATAATTTTACCCATCAAGTGTATTTCGGTAATTTTACCCTTCAGGTATATTTCG
1 GGGTATTTTCG-TAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCTTCAGG-GTATTTCG
* *
42763078 GTAATCTTAC
64 ATAATTTTAC
42763088 AACCTTTTTG
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
80 30 0.23
81 97 0.76
82 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (80 bp):
GGGTATTTTCGTAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCTTCAGGGTATTTCGAT
AATTTTACCCATCAA
Found at i:42767633 original size:54 final size:54
Alignment explanation
Indices: 42767585--42767782 Score: 245
Period size: 54 Copynumber: 3.7 Consensus size: 54
42767575 GGTATTCTGA
* * *
42767585 TAATTTTACCCTTTGGGGGTATTTTGGTAATTTTACCCATCAAGGGTATTTTAG
1 TAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTAAG
* * * * *
42767639 TAATTTTACCTTTTAGGGGTATTTCGATAATTTTATCTATCGAGGGTATTTCAA-
1 TAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCCATCAAGGGTATTT-AAG
* * *
42767693 TAATTTTACCTTTTGGGGGTATTTCGATAATTTTACCCATTAAGGGTATTTCAG
1 TAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTAAG
* * * *
42767747 TAGTTTTACCCTTCGGGTGTATTTCGATAATCTTAC
1 TAATTTTACCCTTTGGGGGTATTTCGATAATTTTAC
42767783 AACCTTTCTG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (54 bp):
TAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTAAG
Found at i:42767782 original size:27 final size:26
Alignment explanation
Indices: 42767560--42767782 Score: 150
Period size: 27 Copynumber: 8.3 Consensus size: 26
42767550 TATAACAGTC
42767560 ATTTTACCC-TCTGGAGGTA-TTCTGATA
1 ATTTTACCCTTC-GG-GGTATTTC-GATA
* * *
42767587 ATTTTACCCTTTGGGGGTATTTTGGTA
1 ATTTTACCC-TTCGGGGTATTTCGATA
* * *
42767614 ATTTTACCCATCAAGGGTATTT-TAGTA
1 ATTTTACCCTTC-GGGGTATTTCGA-TA
* *
42767641 ATTTTACCTTTTAGGGGTATTTCGATA
1 ATTTTACC-CTTCGGGGTATTTCGATA
* *
42767668 ATTTTA-TCTATCGAGGGTATTTCAATA
1 ATTTTACCCT-TCG-GGGTATTTCGATA
* *
42767695 ATTTTACCTTTTGGGGGTATTTCGATA
1 ATTTTACC-CTTCGGGGTATTTCGATA
**
42767722 ATTTTACCCATTAAGGGTATTTC-AGTA
1 ATTTTACCC-TTCGGGGTATTTCGA-TA
*
42767749 GTTTTACCCTTCGGGTGTATTTCGATA
1 ATTTTACCCTTCGGG-GTATTTCGATA
*
42767776 ATCTTAC
1 ATTTTAC
42767783 AACCTTTCTG
Statistics
Matches: 152, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
25 1 0.01
26 8 0.05
27 132 0.87
28 9 0.06
29 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTCGGGGTATTTCGATA
Found at i:42773672 original size:50 final size:50
Alignment explanation
Indices: 42773618--42773723 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
42773608 ACATGAGAGT
* * * * *
42773618 TCTCATGTCGGTGCCCATGCCAAGTCCTAGACAT-GATCTTACGGGGGACC
1 TCTCATCTCGGTGCCAACGCCAAGTCCCAGACATAG-TCTTACAGGGGACC
* * *
42773668 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACT
1 TCTCATCTCGGTGCCAACGCCAAGTCCCAGACATAGTCTTACAGGGGACC
42773718 TCTCAT
1 TCTCAT
42773724 ACCCTTAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TCTCATCTCGGTGCCAACGCCAAGTCCCAGACATAGTCTTACAGGGGACC
Found at i:42779334 original size:15 final size:16
Alignment explanation
Indices: 42779301--42779334 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42779291 TAAGTTAGAC
* *
42779301 AAAATTAACGAAACAA
1 AAAAATAACAAAACAA
42779317 AAAAATAACAAAACAA
1 AAAAATAACAAAACAA
42779333 AA
1 AA
42779335 TTTTTCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.12, G:0.03, T:0.09
Consensus pattern (16 bp):
AAAAATAACAAAACAA
Found at i:42784083 original size:53 final size:54
Alignment explanation
Indices: 42784010--42784153 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 54
42784000 ACCCTGACGT
* * * *
42784010 GATATAGTCTCCTTCCCATATGATACCATAACCCACCAA-TTACGATCTTACAC
1 GATATGGTCTTCTTTCCATATGATGCCATAACCCACCAATTTACGATCTTACAC
* *
42784063 GATATGGTCTTCTTTCCATATCATGGCATAACCCA-CAATTTACGATCTTACAC
1 GATATGGTCTTCTTTCCATATGATGCCATAACCCACCAATTTACGATCTTACAC
42784116 GATATGGTCTT-TTTCCCATATGATGCCATAACCCACCA
1 GATATGGTCTTCTTT-CCATATGATGCCATAACCCACCA
42784154 GTTATGGTCT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 6 0.08
53 72 0.90
54 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (54 bp):
GATATGGTCTTCTTTCCATATGATGCCATAACCCACCAATTTACGATCTTACAC
Found at i:42794585 original size:21 final size:20
Alignment explanation
Indices: 42794561--42794613 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
42794551 TCATATTTAG
*
42794561 CAACTTCTTCTTCTTTAGCAA
1 CAACTTCTTCTT-TTAAGCAA
* *
42794582 CAACTTCCTCTTTTAAGCAG
1 CAACTTCTTCTTTTAAGCAA
42794602 CAACTTTCTTCT
1 CAAC-TTCTTCT
42794614 CAACAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.23, C:0.30, G:0.06, T:0.42
Consensus pattern (20 bp):
CAACTTCTTCTTTTAAGCAA
Found at i:42794588 original size:18 final size:18
Alignment explanation
Indices: 42794556--42794613 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
42794546 CTTTTTCATA
**
42794556 TTTAGCAACTTCTTCTTC
1 TTTAGCAACAACTTCTTC
*
42794574 TTTAGCAACAACTTCCTC
1 TTTAGCAACAACTTCTTC
*
42794592 TTTTAAGCAGCAACTTTCTTC
1 -TTT-AGCAACAAC-TTCTTC
42794613 T
1 T
42794614 CAACAACAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 15 0.47
19 3 0.09
20 9 0.28
21 5 0.16
ACGTcount: A:0.22, C:0.28, G:0.07, T:0.43
Consensus pattern (18 bp):
TTTAGCAACAACTTCTTC
Found at i:42796766 original size:40 final size:39
Alignment explanation
Indices: 42796668--42796930 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
42796658 TCCTCGTTCA
* * * *
42796668 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
42796707 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
42796746 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
42796786 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
42796826 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
42796866 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
42796907 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42796931 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Done.