Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 168 of 345
Found at i:47107343 original size:40 final size:40
Alignment explanation
Indices: 47107298--47107505 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
47107288 CGGAATACAT
* *
47107298 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
47107338 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
47107378 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* *** *
47107418 CCGGATGTGGTCACTTGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAAT-GCCTTCGGGTCTTAGC
** * * * *
47107458 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
47107498 CCGGATAT
1 CCGGATAT
47107506 CATTCAATTG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 135 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47113228 original size:40 final size:40
Alignment explanation
Indices: 47113173--47113382 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
47113163 AACATTGGAA
47113173 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47113213 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47113253 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
47113293 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
47113332 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
47113373 CTATATCCGG
1 ATATATCCGG
47113383 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:47126638 original size:40 final size:40
Alignment explanation
Indices: 47126593--47126759 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
47126583 CGGAATATAA
47126593 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
47126633 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
47126673 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47126713 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47126752 CCGGATAT
1 CCGGATAT
47126760 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47126743 original size:80 final size:79
Alignment explanation
Indices: 47126593--47126759 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
47126583 CGGAATATAA
* *
47126593 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
47126658 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
47126673 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
47126735 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
47126752 CCGGATAT
1 CCGGATAT
47126760 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:47127608 original size:17 final size:19
Alignment explanation
Indices: 47127585--47127630 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
47127575 AAGAAGCATG
47127585 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
47127603 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
47127621 AATCATGCTC
1 AATCATGCTC
47127631 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:47128578 original size:26 final size:26
Alignment explanation
Indices: 47128549--47128601 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
47128539 TCAAACATGC
47128549 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
47128575 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
47128601 A
1 A
47128602 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:47129864 original size:12 final size:12
Alignment explanation
Indices: 47129847--47129941 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 12
47129837 GCCAACTCCT
*
47129847 GCTCCTTGATCA
1 GCTCCTTAATCA
* *
47129859 GCTCCTAAATCT
1 GCTCCTTAATCA
* *
47129871 TCTCCTTTATCA
1 GCTCCTTAATCA
* *
47129883 GCTCCTAAATCC
1 GCTCCTTAATCA
*
47129895 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
* *
47129907 GCTCCTAAATCT
1 GCTCCTTAATCA
*
47129919 TCTCTCTT-ATCA
1 GCTC-CTTAATCA
*
47129931 GCTCCTAAATC
1 GCTCCTTAATC
47129942 TTCTCCTGAC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 5 0.09
12 47 0.82
13 5 0.09
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.37
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:47129882 original size:24 final size:24
Alignment explanation
Indices: 47129848--47129948 Score: 159
Period size: 24 Copynumber: 4.2 Consensus size: 24
47129838 CCAACTCCTG
*
47129848 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
*
47129872 CTCCTTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
*
47129896 CTCCCTTATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
47129920 CT-CTCTTATCAGCTCCTAAATCTT
1 CTCCT-TTATCAGCTCCTAAATCTT
47129944 CTCCT
1 CTCCT
47129949 GACAGCCTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 67 0.96
25 2 0.03
ACGTcount: A:0.20, C:0.37, G:0.05, T:0.39
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:47130450 original size:42 final size:42
Alignment explanation
Indices: 47130391--47130482 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
47130381 TAGTCTCCCC
* ** *
47130391 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
47130433 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
47130475 AATTGGGC
1 AAATGGGC
47130483 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:47136645 original size:46 final size:47
Alignment explanation
Indices: 47136590--47136705 Score: 155
Period size: 46 Copynumber: 2.5 Consensus size: 47
47136580 AGTCGATACG
* * *
47136590 TGTCCCAGACATGTCTTACACTAGC-TTACGTCTCGAGGCTGAT-CCA
1 TGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAGGCCGATGCCA
* *
47136636 TGTCCCAGACATGTCTTACATTAGCACTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATGCCA
47136683 TGTCCCAGACATGGTCTTACACT
1 TGTCCCAGACAT-GTCTTACACT
47136706 TGCTCTCATA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 36 0.59
47 16 0.26
48 9 0.15
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATGCCA
Found at i:47145983 original size:46 final size:46
Alignment explanation
Indices: 47145912--47146075 Score: 183
Period size: 46 Copynumber: 3.5 Consensus size: 46
47145902 TAACCCGCCC
47145912 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
* *
47145958 ATAAGTGAACTCGGACTCAAGTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCT
* * * * * *
47146008 CT---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
47146051 ATAAGTGAACTCGGACTCAACTCAA
1 ATAAGTGAACTCGGACTCAACTCAA
47146076 TGAGTTTGGA
Statistics
Matches: 97, Mismatches: 12, Indels: 18
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
46 52 0.54
47 26 0.27
48 1 0.01
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
Found at i:47146031 original size:93 final size:93
Alignment explanation
Indices: 47145918--47146089 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
47145908 GCCCATAAGT
* * * *
47145918 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCAAGTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47145983 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
47146011 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* * *
47146076 TGAGTTTGGATGCC
66 CGAGCTCGGATGCC
47146090 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47148527 original size:30 final size:30
Alignment explanation
Indices: 47148483--47148571 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
47148473 CAAAGATAAC
47148483 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
47148512 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
47148542 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
47148572 TGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:47148531 original size:15 final size:15
Alignment explanation
Indices: 47148483--47148562 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
47148473 CAAAGATAAC
*
47148483 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47148497 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47148512 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
47148527 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47148542 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47148557 AAGAAA
1 AAGAAA
47148563 CCCAAGATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47148571 original size:15 final size:15
Alignment explanation
Indices: 47148494--47148571 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
47148484 AGAAAACCGA
47148494 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
47148509 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
47148523 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47148538 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47148554 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47148569 ATA
1 ATA
47148572 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47150922 original size:47 final size:47
Alignment explanation
Indices: 47150853--47151290 Score: 696
Period size: 47 Copynumber: 9.3 Consensus size: 47
47150843 CCCTTCGGGA
* * * * * *
47150853 CTTATCACATTTATACACTTTCACATCCATCGCATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47150900 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47150947 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47150994 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47151041 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47151088 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47151135 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47151182 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47151229 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47151276 CTTATCACATATATA
1 CTTATCACATATATA
47151291 TATCTCATAC
Statistics
Matches: 362, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 362 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47150931 original size:25 final size:25
Alignment explanation
Indices: 47150903--47150981 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
47150893 ACTCGGCCTT
*
47150903 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
47150928 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
47150950 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
47150975 ATCACAT
1 ATCACAT
47150982 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:47154667 original size:40 final size:40
Alignment explanation
Indices: 47154623--47154939 Score: 254
Period size: 40 Copynumber: 8.0 Consensus size: 40
47154613 GAATACACGT
* * * *
47154623 CACCAGCATGATTTCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
47154663 CACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* ** *
47154703 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATGCAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
47154743 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
** * * * **
47154783 CCACTTGCAC-AAGGC-CTTCGGGTCTTAGCCCGGACATGGT
1 -CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-AA
* ** * *
47154823 CACTAGCATAAATGC-CTTCGGGACTTAGCTCGGATATAG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
47154862 CAACTC-GCACGAATGC-CTTC-GGATCTTAGTCCGGTTATAGT
1 C-AC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATATA-A
* * *
47154903 CACTTAGCACAAAAGC-CTTCGGGACTTAGCCC-GATAT
1 CAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
47154940 CATTCGGATA
Statistics
Matches: 229, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
39 31 0.14
40 167 0.73
41 28 0.12
42 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:47154734 original size:80 final size:78
Alignment explanation
Indices: 47154639--47154939 Score: 311
Period size: 80 Copynumber: 3.8 Consensus size: 78
47154629 CATGATTTCT
* * * * * *
47154639 CTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATATC
1 CTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGC-CTTCGGGACTTAGCCCGGATATACC
47154704 ACTAGCACGAATGC
65 ACTAGCACGAATGC
** *
47154718 TCTTCGGGACTTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 -CTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGC-CTTCGGGACTTAGCCCGGATAT-A
* *
47154783 CCACTTGCAC-AAGGC
63 CCACTAGCACGAATGC
* * * * *
47154798 CTTCGGGTCTTAGCCCGGACATGGTCACTAGCATAAATGCCTTCGGGACTTAGCTCGGATATAGC
1 CTTCGGGACTTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA-C
* *
47154863 AACTCGCACGAATGC
64 CACTAGCACGAATGC
* * *
47154878 CTTC-GGATCTTAGTCCGGTTATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCC-GATAT
1 CTTCGGGA-CTTAGCCCGGATATA-TCAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
47154940 CATTCGGATA
Statistics
Matches: 186, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 49 0.26
80 102 0.55
81 34 0.18
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATACCA
CTAGCACGAATGC
Found at i:47154740 original size:23 final size:23
Alignment explanation
Indices: 47154714--47154778 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 23
47154704 ACTAGCACGA
47154714 ATGCTCTTCGGGACTTAGCCCGG
1 ATGCTCTTCGGGACTTAGCCCGG
* * *
47154737 ATG--CATC---AC-TAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGG
47154754 ATGCTCTTCGGGACTTAGCCCGG
1 ATGCTCTTCGGGACTTAGCCCGG
47154777 AT
1 AT
47154779 ATAACCACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 11 0.37
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.25
Consensus pattern (23 bp):
ATGCTCTTCGGGACTTAGCCCGG
Found at i:47154890 original size:119 final size:119
Alignment explanation
Indices: 47154637--47154935 Score: 327
Period size: 119 Copynumber: 2.5 Consensus size: 119
47154627 AGCATGATTT
* ** * * * *
47154637 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATA
1 CTCTTCGGGACTTAGCCCGGATATAACACTTGCACAAAAGC-CTTCGGGACTTAGCCCGGACATA
* * *
47154702 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATGCATCACTAGCACGAATG
65 TCACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAGCACTAGCACGAATG
* *
47154757 CTCTTCGGGACTTAGCCCGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGACATG
1 CTCTTCGGGACTTAGCCCGGATATAA-CACTTGCACAAAAGCCTTCGGGACTTAGCCCGGACAT-
* * * * *
47154821 GTCACTAGCATAAATGC-CTTCGGGACTTAGCTCGGATATAGCAACTCGCACGAATG
64 ATCACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAGC-ACTAGCACGAATG
* * *
47154877 C-CTTC-GGATCTTAGTCCGGTTATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CTCTTCGGGA-CTTAGCCCGGATATA-ACACTT-GCACAAAAGCCTTCGGGACTTAGCCCG
47154936 ATATCATTCG
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.02
119 63 0.41
120 60 0.39
121 27 0.18
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (119 bp):
CTCTTCGGGACTTAGCCCGGATATAACACTTGCACAAAAGCCTTCGGGACTTAGCCCGGACATAT
CACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAGCACTAGCACGAATG
Found at i:47157246 original size:47 final size:47
Alignment explanation
Indices: 47157177--47157613 Score: 696
Period size: 47 Copynumber: 9.3 Consensus size: 47
47157167 CCCTTCGGGA
* * * * * *
47157177 CTTATCACATTTATACACTTTCACATCCATCGCATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47157224 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47157271 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47157318 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47157365 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47157412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47157459 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47157505 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47157552 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47157599 CTTATCACATATATA
1 CTTATCACATATATA
47157614 TATCTCATAC
Statistics
Matches: 362, Mismatches: 27, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 42 0.12
47 320 0.88
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47157255 original size:25 final size:25
Alignment explanation
Indices: 47157227--47157305 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
47157217 ACTCGGCCTT
*
47157227 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
47157252 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
47157274 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
47157299 ATCACAT
1 ATCACAT
47157306 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:47160994 original size:40 final size:40
Alignment explanation
Indices: 47160950--47161267 Score: 263
Period size: 40 Copynumber: 8.0 Consensus size: 40
47160940 GAATACACGT
* * * *
47160950 CACCAGCATGATTTCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
47160990 CACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* ** *
47161030 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATGCAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
47161070 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
** * * * **
47161110 CCACTTGCAC-AAGGC-CTTCGGGTCTTAGCCCGGACATGGT
1 -CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-AA
* ** * *
47161150 CACTAGCATAAATGC-CTTCGGGACTTAGCTCGGATATAG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
47161189 CAACTC-GCACGAATGC-CTTC-GGATCTTAGTCCGGTTATAGT
1 C-AC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATATA-A
* * *
47161230 CACTTAGCACAAAAGC-CTTCGGGACTTAGCCCGGATAT
1 CAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
47161268 CATTCGGATA
Statistics
Matches: 230, Mismatches: 39, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
39 31 0.13
40 163 0.71
41 33 0.14
42 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:47161061 original size:80 final size:78
Alignment explanation
Indices: 47160966--47161267 Score: 320
Period size: 80 Copynumber: 3.8 Consensus size: 78
47160956 CATGATTTCT
* * * * * *
47160966 CTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATATC
1 CTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGC-CTTCGGGACTTAGCCCGGATATACC
47161031 ACTAGCACGAATGC
65 ACTAGCACGAATGC
** *
47161045 TCTTCGGGACTTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 -CTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGC-CTTCGGGACTTAGCCCGGATAT-A
* *
47161110 CCACTTGCAC-AAGGC
63 CCACTAGCACGAATGC
* * * * *
47161125 CTTCGGGTCTTAGCCCGGACATGGTCACTAGCATAAATGCCTTCGGGACTTAGCTCGGATATAGC
1 CTTCGGGACTTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA-C
* *
47161190 AACTCGCACGAATGC
64 CACTAGCACGAATGC
* * *
47161205 CTTC-GGATCTTAGTCCGGTTATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAGCCCGGATATA-TCAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
47161268 CATTCGGATA
Statistics
Matches: 187, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 49 0.26
80 97 0.52
81 40 0.21
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATACCA
CTAGCACGAATGC
Found at i:47161067 original size:23 final size:23
Alignment explanation
Indices: 47161041--47161105 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 23
47161031 ACTAGCACGA
47161041 ATGCTCTTCGGGACTTAGCCCGG
1 ATGCTCTTCGGGACTTAGCCCGG
* * *
47161064 ATG--CATC---AC-TAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGG
47161081 ATGCTCTTCGGGACTTAGCCCGG
1 ATGCTCTTCGGGACTTAGCCCGG
47161104 AT
1 AT
47161106 ATAACCACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 11 0.37
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.25
Consensus pattern (23 bp):
ATGCTCTTCGGGACTTAGCCCGG
Found at i:47161217 original size:119 final size:119
Alignment explanation
Indices: 47160964--47161264 Score: 331
Period size: 119 Copynumber: 2.5 Consensus size: 119
47160954 AGCATGATTT
* ** * * * *
47160964 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATA
1 CTCTTCGGGACTTAGCCCGGATATAACACTTGCACAAAAGC-CTTCGGGACTTAGCCCGGACATA
* * *
47161029 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATGCATCACTAGCACGAATG
65 TCACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAGCACTAGCACGAATG
* *
47161084 CTCTTCGGGACTTAGCCCGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGACATG
1 CTCTTCGGGACTTAGCCCGGATATAA-CACTTGCACAAAAGCCTTCGGGACTTAGCCCGGACAT-
* * * * *
47161148 GTCACTAGCATAAATGC-CTTCGGGACTTAGCTCGGATATAGCAACTCGCACGAATG
64 ATCACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAGC-ACTAGCACGAATG
* * *
47161204 C-CTTC-GGATCTTAGTCCGGTTATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTCTTCGGGA-CTTAGCCCGGATATA-ACACTT-GCACAAAAGCCTTCGGGACTTAGCCCGGA
47161265 TATCATTCGG
Statistics
Matches: 155, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.02
119 63 0.41
120 60 0.39
121 29 0.19
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (119 bp):
CTCTTCGGGACTTAGCCCGGATATAACACTTGCACAAAAGCCTTCGGGACTTAGCCCGGACATAT
CACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAGCACTAGCACGAATG
Found at i:47163577 original size:47 final size:47
Alignment explanation
Indices: 47163508--47163944 Score: 678
Period size: 47 Copynumber: 9.3 Consensus size: 47
47163498 CCCTTCGGGA
* * * * * *
47163508 CTTATCACATTTATACACTTTCACATCCATCGCATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47163555 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47163602 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47163649 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47163696 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47163743 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47163790 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47163837 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47163884 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47163930 CTTATCATATATATA
1 CTTATCACATATATA
47163945 TATCTCATAC
Statistics
Matches: 359, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 44 0.12
47 315 0.88
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47163586 original size:25 final size:25
Alignment explanation
Indices: 47163558--47163636 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
47163548 ACTCGGCCTT
*
47163558 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
47163583 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
47163605 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
47163630 ATCACAT
1 ATCACAT
47163637 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:47169798 original size:37 final size:37
Alignment explanation
Indices: 47169747--47169822 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
47169737 TTCAAAAAAT
*
47169747 AATATTATTTTAATAGT-TTATTATTAAATTAA-ATTA
1 AATATTATCTTAATAGTATT-TTATTAAATTAATATTA
*
47169783 AATATTTATCTTAATAGTATTTTATTAATTTAATATTA
1 AATA-TTATCTTAATAGTATTTTATTAAATTAATATTA
47169821 AA
1 AA
47169823 GTGCTTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 4 0.11
37 23 0.66
38 8 0.23
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (37 bp):
AATATTATCTTAATAGTATTTTATTAAATTAATATTA
Found at i:47172852 original size:2 final size:2
Alignment explanation
Indices: 47172845--47172879 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47172835 ATGATTTGTG
47172845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47172880 AGTTAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47174785 original size:42 final size:42
Alignment explanation
Indices: 47174738--47174853 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
47174728 TGTTATCGTA
* * ***
47174738 TAAGACCATATCCGGGACGTTGGCATTGTATTTGATTTTGTG
1 TAAGACCATGTCTGGGACGTTGGCATTGTATTTGATTACATG
* **
47174780 TAAGACCCTGTCTGGGACTGTT-GCATCAATATTTGATTACATG
1 TAAGACCATGTCTGGGAC-GTTGGCAT-TGTATTTGATTACATG
*
47174823 TAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TAAGACCATGTCTGGGACGTTGGCATTGTAT
47174854 GAGATTTTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACGTTGGCATTGTATTTGATTACATG
Found at i:47177840 original size:43 final size:42
Alignment explanation
Indices: 47177778--47177907 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 42
47177768 TACATAAGTT
* * *
47177778 CATAAAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCA
* * *
47177819 CATATCGAA-GCCACTGTCCCAGACATGGACTTACATGTAATGTCA
1 CATA-C-AATGCCAATGTCCCAGACATGGTCTTACATGT--TATCA
* * *
47177864 -ATACAATGCCAATGTCCTAGACATGGTCTTACATATAATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCA
47177905 CAT
1 CAT
47177908 CTCGGTAACC
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
41 7 0.10
42 7 0.10
43 49 0.70
44 3 0.04
45 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (42 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCA
Found at i:47178419 original size:30 final size:31
Alignment explanation
Indices: 47178361--47178419 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
47178351 CCCCTAGCAG
*
47178361 CCCATATTTCACATTTATTCACACTTTAAAC
1 CCCATATTTCACATTTATTCACAATTTAAAC
*
47178392 CCCATATTT-TCATCTT-TTCACAATTTAA
1 CCCATATTTCACAT-TTATTCACAATTTAA
47178420 TCCCTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (31 bp):
CCCATATTTCACATTTATTCACAATTTAAAC
Found at i:47180904 original size:39 final size:39
Alignment explanation
Indices: 47180850--47180928 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
47180840 GCCATGGAGG
47180850 TAGCTCATTTTGGAAGTGTGATTTGTGGTATATTTTTCT
1 TAGCTCATTTTGGAAGTGTGATTTGTGGTATATTTTTCT
47180889 TAGCTCATTTTGGAAGTGTGATTTGTGGTATATTTTTCT
1 TAGCTCATTTTGGAAGTGTGATTTGTGGTATATTTTTCT
47180928 T
1 T
47180929 TGTGGTTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.18, C:0.08, G:0.23, T:0.52
Consensus pattern (39 bp):
TAGCTCATTTTGGAAGTGTGATTTGTGGTATATTTTTCT
Found at i:47182182 original size:49 final size:49
Alignment explanation
Indices: 47182122--47182571 Score: 711
Period size: 49 Copynumber: 9.1 Consensus size: 49
47182112 GTATGAGATA
47182122 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
47182171 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
47182220 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
47182269 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
47182318 TACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
47182367 TATATATGTGATGAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
47182416 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
47182465 TATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAATGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGTG
* * *
47182516 TATATATGTGATAAGGCCTAACGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
47182565 TATATAT
1 TATATAT
47182572 ATGTGGTAAA
Statistics
Matches: 374, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
49 326 0.87
50 6 0.02
51 42 0.11
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:47182695 original size:37 final size:36
Alignment explanation
Indices: 47182640--47182725 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
47182630 AACTTGGAAA
47182640 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
47182678 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
47182715 TATGT-CGGGTA
1 TATGTCCGGGTA
47182726 AGACTTCGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 7 0.15
37 36 0.77
38 4 0.09
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.27
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:47184678 original size:40 final size:40
Alignment explanation
Indices: 47184619--47184699 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
47184609 GAGAGTGATA
* *
47184619 TATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGACG
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTAGTGACG
* * *
47184659 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGACG
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTAGTGACG
47184699 T
1 T
47184700 GTATTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGACTAAGTCCCGAAGAGCAATCATGCTAGTGACG
Found at i:47184901 original size:25 final size:25
Alignment explanation
Indices: 47184859--47184913 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
47184849 TGTGTAATAA
*
47184859 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGACACTATGTGTG
*
47184884 CGAATGAAT-TGAGACACTGTGTGTG
1 CGAATGAATAT-AGACACTATGTGTG
47184909 CGAAT
1 CGAAT
47184914 TCTTTAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGACACTATGTGTG
Found at i:47184937 original size:28 final size:28
Alignment explanation
Indices: 47184898--47184995 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
47184888 TGAATTGAGA
*
47184898 CACTGTGTGTGCGAATTCTTTAACCGGG
1 CACTATGTGTGCGAATTCTTTAACCGGG
** * ** *
47184926 CACTATGTGTGCGAGA-TCGGTCAGTGGA
1 CACTATGTGTGCGA-ATTCTTTAACCGGG
* * *
47184954 CACTGTGTGTGCGAATTCTTTAATCGAG
1 CACTATGTGTGCGAATTCTTTAACCGGG
47184982 CACTATGTGTGCGA
1 CACTATGTGTGCGA
47184996 GATCGGTCAG
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
27 1 0.02
28 50 0.96
29 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (28 bp):
CACTATGTGTGCGAATTCTTTAACCGGG
Found at i:47184967 original size:56 final size:56
Alignment explanation
Indices: 47184896--47185022 Score: 227
Period size: 56 Copynumber: 2.3 Consensus size: 56
47184886 AATGAATTGA
*
47184896 GACACTGTGTGTGCGAATTCTTTAACCGGGCACTATGTGTGCGAGATCGGTCAGTG
1 GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
*
47184952 GACACTGTGTGTGCGAATTCTTTAATCGAGCACTATGTGTGCGAGATCGGTCAGTG
1 GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
*
47185008 GGCACTGTGTGTGCG
1 GACACTGTGTGTGCG
47185023 GATTTCGTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (56 bp):
GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
Found at i:47185012 original size:28 final size:28
Alignment explanation
Indices: 47184923--47185022 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
47184913 TTCTTTAACC
47184923 GGGCACTATGTGTGCGAGATCGGTCAGT
1 GGGCACTATGTGTGCGAGATCGGTCAGT
* * * * *
47184951 GGACACTGTGTGTGCGA-ATTC-TTTAAT
1 GGGCACTATGTGTGCGAGA-TCGGTCAGT
*
47184978 CGAGCACTATGTGTGCGAGATCGGTCAGT
1 -GGGCACTATGTGTGCGAGATCGGTCAGT
*
47185007 GGGCACTGTGTGTGCG
1 GGGCACTATGTGTGCG
47185023 GATTTCGTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
27 4 0.07
28 47 0.85
29 4 0.07
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (28 bp):
GGGCACTATGTGTGCGAGATCGGTCAGT
Found at i:47185536 original size:40 final size:41
Alignment explanation
Indices: 47185480--47185584 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
47185470 TTCGAATGGT
* ** * *
47185480 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-A
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
47185520 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
*
47185561 A-CCGGGCT-ATGTCCCGAAGACAAT
1 ATCCGGGCTAAT-TCCCGAAGGCAAT
47185585 CGAGCAAGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.04
40 53 0.93
41 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
Found at i:47188710 original size:49 final size:49
Alignment explanation
Indices: 47188650--47189050 Score: 640
Period size: 49 Copynumber: 8.1 Consensus size: 49
47188640 GTATGAGATA
47188650 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
47188699 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
47188748 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
47188797 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
47188846 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
47188895 TATATATGTGATGAGGCCTAATGGCTGATGTAATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
47188944 TATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAATGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGTG
* * *
47188995 TATATATGTGATAAGGCCTAACGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
47189044 TATATAT
1 TATATAT
47189051 ATGTGGTAAA
Statistics
Matches: 327, Mismatches: 23, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
49 279 0.85
50 6 0.02
51 42 0.13
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:47189174 original size:37 final size:36
Alignment explanation
Indices: 47189119--47189205 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
47189109 AACTTGGAAA
47189119 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
47189157 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
47189194 TATGTCCGGGTA
1 TATGTCCGGGTA
47189206 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:47206494 original size:46 final size:44
Alignment explanation
Indices: 47206442--47206616 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 44
47206432 TGGTTGAGCA
47206442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* * * *
47206488 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAA-T--G
* *
47206533 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* * *
47206581 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
47206617 GGCGGGTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 58 0.55
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAATG
Found at i:47206598 original size:93 final size:93
Alignment explanation
Indices: 47206439--47206609 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
47206429 GGATGGTTGA
* **
47206439 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
47206504 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
47206532 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
47206597 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
47206610 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47214060 original size:46 final size:44
Alignment explanation
Indices: 47214008--47214182 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 44
47213998 TGGTTGAGCA
*
47214008 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* * * * * *
47214054 TTCGAACTTGTTGAGTTTAGTCCGAGTTC-GTGA-GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAA-T--G
*
47214099 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* * *
47214147 CCCGAGCACGTTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
47214183 GGCGGGTTAC
Statistics
Matches: 103, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.54
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAATG
Found at i:47214169 original size:93 final size:93
Alignment explanation
Indices: 47214005--47214175 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
47213995 GGATGGTTGA
* ** **
47214005 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAATGTTCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCCCGAACACGTTGAGT
*
47214070 TTAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
47214098 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCACGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCCCGAACACGTTGAGT
47214163 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47214176 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCCCGAACACGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47230049 original size:29 final size:28
Alignment explanation
Indices: 47230017--47230119 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
47230007 GTGACGAGAT
* *
47230017 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
47230046 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
47230075 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
47230104 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47230120 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:47237850 original size:29 final size:28
Alignment explanation
Indices: 47237818--47237920 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
47237808 GTGACGAGAT
* *
47237818 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
47237847 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
47237876 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
47237905 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47237921 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:47239548 original size:30 final size:30
Alignment explanation
Indices: 47239512--47239612 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
47239502 GACAAGATTG
* * *
47239512 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
47239542 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
47239570 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
47239599 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47239613 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:47239624 original size:29 final size:28
Alignment explanation
Indices: 47239541--47239616 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
47239531 AAAATTGTAC
* *
47239541 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
47239569 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
47239598 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
47239617 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:47247413 original size:30 final size:30
Alignment explanation
Indices: 47247377--47247477 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
47247367 GACAAGATTG
* * *
47247377 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
47247407 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
47247435 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
47247464 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47247478 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:47247489 original size:29 final size:28
Alignment explanation
Indices: 47247406--47247481 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
47247396 AAAATTGTAC
* *
47247406 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
47247434 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
47247463 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
47247482 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:47254761 original size:40 final size:38
Alignment explanation
Indices: 47254708--47254846 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 38
47254698 GGATATAACG
*
47254708 ACTCGCTCAAATGCCTTCGGGATAACGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGATAA-GCCCGGTT-TAGTA
*
47254748 ACTCGCACGAATGCCTTCGGGATTTAA-CCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGA--TAAGCCCGG-TTTAGTA
* * * *
47254788 ACTCGCACAAATGCCTTCGGGCTTAGCCCGAATTTATTA
1 ACTCGCACAAATGCCTTCGGGATAAGCCCG-GTTTAGTA
**
47254827 ACTCGCATGAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
47254847 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.02
39 28 0.33
40 50 0.59
41 2 0.02
42 3 0.04
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (38 bp):
ACTCGCACAAATGCCTTCGGGATAAGCCCGGTTTAGTA
Found at i:47254829 original size:79 final size:79
Alignment explanation
Indices: 47254708--47254897 Score: 215
Period size: 79 Copynumber: 2.4 Consensus size: 79
47254698 GGATATAACG
* * * *
47254708 ACTCGCTCAAATGCCTTCGGGATAACGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGGAT-T
1 ACTCGCACAAATGCCTTCGGGCTTA-GCCCGATTATAGTAACTCGCACGAATGCCTTC-GGATCT
*
47254772 TAACCCGGATTTAGTA
64 TAACCCGGATATAGTA
* *
47254788 ACTCGCACAAATGCCTTCGGGCTTAGCCCGAATT-TATTAACTCGCATGAATGCCTTCGGATCTT
1 ACTCGCACAAATGCCTTCGGGCTTAGCCCG-ATTATAGTAACTCGCACGAATGCCTTCGGATCTT
** *
47254852 AGTCCGGATATAGTC
65 AACCCGGATATAGTA
*
47254867 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 AC-TCGCACAAATGCCTTCGGG-CTTAGCCCG
47254898 GACATCATTC
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 4 0.04
79 50 0.53
80 41 0.43
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGCTTAGCCCGATTATAGTAACTCGCACGAATGCCTTCGGATCTTA
ACCCGGATATAGTA
Found at i:47254840 original size:39 final size:40
Alignment explanation
Indices: 47254743--47254846 Score: 147
Period size: 39 Copynumber: 2.6 Consensus size: 40
47254733 CGCCCGGTTA
* *
47254743 TAGTAACTCGCACGAATGCCTTCGGGATTTAACCCGGATT
1 TAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGAATT
* *
47254783 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAATT
1 TAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGAATT
* *
47254822 TATTAACTCGCATGAATGCCTTCGG
1 TAGTAACTCGCACGAATGCCTTCGG
47254847 ATCTTAGTCC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 32 0.56
40 25 0.44
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGAATT
Found at i:47261366 original size:49 final size:50
Alignment explanation
Indices: 47261297--47261480 Score: 178
Period size: 50 Copynumber: 3.7 Consensus size: 50
47261287 ATCTATTGTG
* *
47261297 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATTATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * * * * *
47261347 -GGTCGCATGTGTAGTACTAAATGTAGGCTACTATGCGTACCCG-ATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAA-TT
* * * * **
47261397 CGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATC-AGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATT
47261447 AGG-CAACGTGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTC-ACGTGTGTAGTACTAAGTGCAGGCTACTA
47261481 TGCATACCAT
Statistics
Matches: 106, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
49 36 0.34
50 37 0.35
51 33 0.31
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
Found at i:47266840 original size:50 final size:49
Alignment explanation
Indices: 47266664--47266908 Score: 247
Period size: 49 Copynumber: 4.9 Consensus size: 49
47266654 TCTATTGTGA
* * * *
47266664 GGTCACGTGTGTAGTACTAAGTGTAGGCTATTACGTGTACCAAATTATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** * ** * *
47266713 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTTTGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
47266763 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* **
47266813 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
47266863 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47266909 GCTTTGGCTA
Statistics
Matches: 154, Mismatches: 40, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
49 74 0.48
50 45 0.29
51 35 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:47266907 original size:99 final size:101
Alignment explanation
Indices: 47266720--47266907 Score: 236
Period size: 99 Copynumber: 1.9 Consensus size: 101
47266710 ATTGGTTGCA
** * *
47266720 TGTGTAGTACTAAGTGCAGGCTACTTTGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATCACATGTGTAGTACTAAG
* * *
47266785 TGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGCAAGCTACTACACGTACCAGATGGTTAGGTCACG
* ** * *
47266821 TGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAA-TT-GGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATCACATGTGTAGTACTAAG
**
47266884 TGCAAGCTACTATGCGTACCAGAT
66 TGCAAGCTACTACACGTACCAGAT
47266908 AGCTTTGGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 37 0.51
100 2 0.03
101 34 0.47
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATCACATGTGTAGTACTAAG
TGCAAGCTACTACACGTACCAGATGGTTAGGTCACG
Found at i:47271019 original size:50 final size:49
Alignment explanation
Indices: 47270898--47271086 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 49
47270888 TGAGGTCGCA
** * *
47270898 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GGTCACG
* * **
47270949 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
** *
47270999 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *
47271048 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
47271087 GCTTTGGCTA
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 41 0.34
50 46 0.38
51 33 0.28
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:47276053 original size:40 final size:39
Alignment explanation
Indices: 47276003--47276185 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
47275993 GCTACTCGTT
* * *
47276003 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
* *
47276043 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTTAGTAACTCGCA
*
47276083 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAACTCGCA
* * * *
47276123 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
47276164 CAAA-GCCTTCGGGACTTA-CCCG
1 CAAATGCCTTCGGGACTTAGCCCG
47276186 AACATCATTC
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
39 7 0.06
40 105 0.83
41 14 0.11
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:47276907 original size:2 final size:2
Alignment explanation
Indices: 47276900--47276927 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47276890 ATGTGCAAAC
47276900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47276928 GTGCAAGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47281195 original size:29 final size:28
Alignment explanation
Indices: 47281163--47281265 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
47281153 GTGACGAGAT
* *
47281163 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
47281192 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
47281221 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
47281250 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47281266 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:47285218 original size:46 final size:45
Alignment explanation
Indices: 47285160--47285286 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 45
47285150 ATTTGGGCAT
* *
47285160 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTC-GAGTTCACTTATGGATGCGAACGC
* *
47285206 CTGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGC
*
47285252 CCGAGCTCGTTGAGTTGAGTCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGG
47285287 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
45 15 0.21
46 57 0.78
47 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGC
Found at i:47299111 original size:27 final size:27
Alignment explanation
Indices: 47299081--47299133 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
47299071 ACCCCTAACC
47299081 GATAAAATGACT-ATTATGCCCCTATGT
1 GATAAAATGACTGA-TATGCCCCTATGT
*
47299108 GATAAATTGACTGATATGCCCCTATG
1 GATAAAATGACTGATATGCCCCTATG
47299134 AGAAGTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (27 bp):
GATAAAATGACTGATATGCCCCTATGT
Found at i:47306099 original size:42 final size:43
Alignment explanation
Indices: 47306042--47306163 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 43
47306032 ACAATGCCAA
47306042 CGTCCCAGACGTGGTCTTACATTAAATCA-A-ATACGATGCCGAT
1 CGTCCCAGACGTGGTCTTACATTAAATCACAGAT-CGATG-CGAT
* * * *
47306085 -GTCCCAGACATGGTCTTACACGTAAATCACAGGTCGATGCTAT
1 CGTCCCAGACGTGGTCTTACA-TTAAATCACAGATCGATGCGAT
* * *
47306128 CGTCCCAGACGTGGTCTTACATGAAAACACATATCG
1 CGTCCCAGACGTGGTCTTACATTAAATCACAGATCG
47306164 GAATCCTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 19 0.29
43 20 0.31
44 25 0.38
45 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
CGTCCCAGACGTGGTCTTACATTAAATCACAGATCGATGCGAT
Found at i:47310561 original size:28 final size:28
Alignment explanation
Indices: 47310492--47310592 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
47310482 GACAAGATTG
* * * *
47310492 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
47310522 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47310550 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
47310579 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47310593 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47318515 original size:28 final size:28
Alignment explanation
Indices: 47318446--47318546 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
47318436 GACAAGATTG
* * * *
47318446 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
47318476 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47318504 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
47318533 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47318547 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47320428 original size:40 final size:40
Alignment explanation
Indices: 47320384--47320524 Score: 230
Period size: 40 Copynumber: 3.5 Consensus size: 40
47320374 TTTGCACAAT
47320384 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
47320424 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
* **
47320464 TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAA
*
47320504 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
47320525 GTATCATTCA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 95 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:47328459 original size:40 final size:40
Alignment explanation
Indices: 47328415--47328554 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
47328405 TTTGCACAAT
47328415 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
47328455 TGCCTTCGGGTCTTAG-CCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
* **
47328494 TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAA
*
47328534 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
47328555 GTATCATTCA
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 39 0.41
40 54 0.57
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:47337453 original size:9 final size:9
Alignment explanation
Indices: 47337441--47337497 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
47337431 TTTGATAAAC
47337441 ATGATATGT
1 ATGATATGT
*
47337450 ATGATATGCAC
1 ATGATATG--T
*
47337461 ATGACATGT
1 ATGATATGT
*
47337470 ATGATATGCAC
1 ATGATATG--T
47337481 ATGATATGT
1 ATGATATGT
47337490 ATGATATG
1 ATGATATG
47337498 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:47337464 original size:20 final size:20
Alignment explanation
Indices: 47337439--47337509 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
47337429 ATTTTGATAA
47337439 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47337459 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
47337479 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47337499 ACATGAGATGT
1 ACATGATATGT
47337510 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47337486 original size:11 final size:11
Alignment explanation
Indices: 47337450--47337504 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
47337440 CATGATATGT
47337450 ATGATATGCAC
1 ATGATATGCAC
* *
47337461 ATGACATG--T
1 ATGATATGCAC
47337470 ATGATATGCAC
1 ATGATATGCAC
*
47337481 ATGATATG--T
1 ATGATATGCAC
47337490 ATGATATGCAC
1 ATGATATGCAC
47337501 ATGA
1 ATGA
47337505 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47337586 original size:23 final size:23
Alignment explanation
Indices: 47337556--47337745 Score: 299
Period size: 23 Copynumber: 8.1 Consensus size: 23
47337546 AGGAAGTGCA
47337556 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
47337579 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
47337602 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
47337626 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
47337650 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
47337673 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
47337697 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
47337720 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
47337743 AAA
1 AAA
47337746 AGAGGCAAGG
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
23 90 0.58
24 66 0.42
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:47337647 original size:47 final size:47
Alignment explanation
Indices: 47337554--47337747 Score: 318
Period size: 47 Copynumber: 4.1 Consensus size: 47
47337544 GGAGGAAGTG
47337554 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
47337601 -TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
47337648 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
47337695 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
47337742 TAAAAG
1 CAAAAG
47337748 AGGCAAGGCC
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 22 0.16
47 92 0.68
48 22 0.16
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:47337996 original size:31 final size:31
Alignment explanation
Indices: 47337958--47338052 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
47337948 CGTTTACAGT
*
47337958 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47337989 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
47338020 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47338051 AA
1 AA
47338053 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:47339600 original size:2 final size:2
Alignment explanation
Indices: 47339593--47339635 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
47339583 ATACAATAAC
47339593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47339635 A
1 A
47339636 ACAATTTGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47340703 original size:44 final size:43
Alignment explanation
Indices: 47340611--47340740 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 43
47340601 AGCTTGTACA
** * * *
47340611 ATGCCAACGTCCCAGATGTGGTCTTACATGAAATCAAATAT-G
1 ATGCCAACGTCCCAGACATCGTCTTACACGAAATCACATATCG
* * *
47340653 ATGCCAATGTCCTAGACATCGTCTTACACGTAAATCACAGATCG
1 ATGCCAACGTCCCAGACATCGTCTTACACG-AAATCACATATCG
* * * *
47340697 ATGCCAACGTCCCAGACGTGGTCTTGCACGAAAACACATATCG
1 ATGCCAACGTCCCAGACATCGTCTTACACGAAATCACATATCG
47340740 A
1 A
47340741 AATCCTATGT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 24 0.34
43 21 0.30
44 26 0.37
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATCGTCTTACACGAAATCACATATCG
Found at i:47342635 original size:27 final size:27
Alignment explanation
Indices: 47342605--47342662 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
47342595 CGACATTCCC
* **
47342605 TTCAAAATTTACCACCAAGGCTTTTCT
1 TTCAAAATTTACCACAAAGGAATTTCT
** *
47342632 TTCATGATTTTCCACAAAGGAATTTCT
1 TTCAAAATTTACCACAAAGGAATTTCT
47342659 TTCA
1 TTCA
47342663 TGATTCGCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TTCAAAATTTACCACAAAGGAATTTCT
Found at i:47342663 original size:27 final size:27
Alignment explanation
Indices: 47342627--47342745 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
47342617 CACCAAGGCT
**
47342627 TTTCTTTCATGATTTTCCACAAAGGAA
1 TTTCTTTCATGATTCGCCACAAAGGAA
* * *
47342654 TTTCTTTCATGATTCGCCATAAAAGCA
1 TTTCTTTCATGATTCGCCACAAAGGAA
* * ** *
47342681 CTTCTTTCGTGATTTTCCACAAAAGGCA
1 TTTCTTTCATGATTCGCCAC-AAAGGAA
47342709 TTTCTTTCATGATTCGCCACAAA-GACA
1 TTTCTTTCATGATTCGCCACAAAGGA-A
47342736 TTTCTTTCAT
1 TTTCTTTCAT
47342746 TGCGTGTTTA
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 51 0.69
28 22 0.30
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (27 bp):
TTTCTTTCATGATTCGCCACAAAGGAA
Found at i:47342741 original size:55 final size:54
Alignment explanation
Indices: 47342627--47342745 Score: 177
Period size: 55 Copynumber: 2.2 Consensus size: 54
47342617 CACCAAGGCT
*
47342627 TTTCTTTCATGATTTTCCACAAAGGAATTTCTTTCATGATTCGCCATAAAAGCA
1 TTTCTTTCATGATTTTCCACAAAGGAATTTCTTTCATGATTCGCCACAAAAGCA
* * *
47342681 CTTCTTTCGTGATTTTCCACAAAAGGCATTTCTTTCATGATTCGCCAC-AAAGACA
1 TTTCTTTCATGATTTTCCAC-AAAGGAATTTCTTTCATGATTCGCCACAAAAG-CA
47342736 TTTCTTTCAT
1 TTTCTTTCAT
47342746 TGCGTGTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 22 0.39
55 35 0.61
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (54 bp):
TTTCTTTCATGATTTTCCACAAAGGAATTTCTTTCATGATTCGCCACAAAAGCA
Found at i:47349175 original size:27 final size:28
Alignment explanation
Indices: 47349145--47349209 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
47349135 TTTAAAACCC
47349145 TAGGGAT-ATATCGGTAATTTTGCTCTT
1 TAGGGATAATATCGGTAATTTTGCTCTT
* *
47349172 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGATAATATCGGTAATTTTGCTCTT
*
47349200 TAGGGGTAAT
1 TAGGGATAAT
47349210 TTCGTGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGATAATATCGGTAATTTTGCTCTT
Found at i:47349191 original size:28 final size:28
Alignment explanation
Indices: 47349155--47349213 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
47349145 TAGGGATATA
47349155 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
47349183 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
47349211 TCG
1 TCG
47349214 TGATTTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:47349918 original size:54 final size:54
Alignment explanation
Indices: 47349851--47350001 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
47349841 TACCCTACAA
* *
47349851 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
47349905 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
47349959 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
47350002 CTATAAATTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:47350017 original size:27 final size:27
Alignment explanation
Indices: 47349848--47350008 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
47349838 TTCTACCCTA
*
47349848 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
47349875 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
47349902 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
47349929 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
47349956 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
47349983 CAAGGGTATTTTGGTAATTCTATAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
47350009 TTAAAGGTAA
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:47350025 original size:27 final size:27
Alignment explanation
Indices: 47349994--47350244 Score: 303
Period size: 27 Copynumber: 9.3 Consensus size: 27
47349984 AAGGGTATTT
* * * *
47349994 TGGTAATTCTATAAATTAAAGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
*
47350021 CGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
* *
47350048 CGGTAATTCTATAAA-TCGAGGGTAAAA
1 TGGTAATTCTGTAAACT-GAGGGTAAAA
*
47350075 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
*
47350102 TGGTAATTCTGTAAA-TCGAGGATAAAA
1 TGGTAATTCTGTAAACT-GAGGGTAAAA
* *
47350129 TAGTAATTCTGTAAACTCAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
**
47350156 CAGTAATTCTGTAAA-TCGAGGGTAAAA
1 TGGTAATTCTGTAAACT-GAGGGTAAAA
**
47350183 CAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
47350210 TGGTAATTCTGTAAA-TCGAGGGTAAAA
1 TGGTAATTCTGTAAACT-GAGGGTAAAA
47350237 TGGTAATT
1 TGGTAATT
47350245 TTACAAGTCG
Statistics
Matches: 199, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.02
27 192 0.96
28 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
TGGTAATTCTGTAAACTGAGGGTAAAA
Found at i:47350027 original size:81 final size:81
Alignment explanation
Indices: 47349859--47350028 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 81
47349849 AAGGGTATTT
* * * *
47349859 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
* ***
47349924 TAAACCAAGGGTATTT
66 TAAACCAAAGGTAAAA
** * * * * *
47349940 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTA
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
**
47350005 TAAATTAAAGGTAAAA
66 TAAACCAAAGGTAAAA
47350021 CGGTAATT
1 CGGTAATT
47350029 CTGTAAACTG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
TAAACCAAAGGTAAAA
Found at i:47350258 original size:54 final size:54
Alignment explanation
Indices: 47349994--47350244 Score: 376
Period size: 54 Copynumber: 4.6 Consensus size: 54
47349984 AAGGGTATTT
* ** * **
47349994 TGGTAATTCTATAAATTAAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
47350048 CGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
47350102 TGGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTCAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
** *
47350156 CAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
47350210 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
47350245 TTACAAGTCG
Statistics
Matches: 178, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 178 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:47350258 original size:81 final size:81
Alignment explanation
Indices: 47349996--47350244 Score: 342
Period size: 81 Copynumber: 3.1 Consensus size: 81
47349986 GGGTATTTTG
* ** * * *
47349996 GTAATTCTATAAATTAAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTA
47350061 AATCGAGGGTAAAATA
66 AATCGAGGGTAAAATA
* * *
47350077 GTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGATAAAATAGTAATTCTG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAACT-GAGGGTAAAATGGTAATTCTG
*
47350140 TAAACTC-AGGGTAAAACA
64 TAAA-TCGAGGGTAAAATA
*
47350158 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTA
*
47350223 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATA
47350239 GTAATT
1 GTAATT
47350245 TTACAAGTCG
Statistics
Matches: 146, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.02
81 139 0.95
82 4 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTA
AATCGAGGGTAAAATA
Found at i:47353483 original size:27 final size:28
Alignment explanation
Indices: 47353453--47353517 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
47353443 TTTAAAACCC
47353453 TAGGGAT-ATATCGGTAATTTTGCTCTT
1 TAGGGATAATATCGGTAATTTTGCTCTT
* *
47353480 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGATAATATCGGTAATTTTGCTCTT
*
47353508 TAGGGGTAAT
1 TAGGGATAAT
47353518 TTCGTGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGATAATATCGGTAATTTTGCTCTT
Found at i:47353499 original size:28 final size:28
Alignment explanation
Indices: 47353463--47353521 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
47353453 TAGGGATATA
47353463 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
47353491 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
47353519 TCG
1 TCG
47353522 TGATTTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:47354187 original size:27 final size:27
Alignment explanation
Indices: 47354156--47354316 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
47354146 TTCTACCCTA
*
47354156 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
47354183 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
47354210 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
47354237 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
47354264 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
47354291 CAAGGGTATTTTGGTAATTCTATAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
47354317 TTGAAGGTAA
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:47354226 original size:54 final size:54
Alignment explanation
Indices: 47354159--47354309 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
47354149 TACCCTACAA
* *
47354159 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
47354213 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
47354267 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
47354310 CTATAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:47354335 original size:81 final size:81
Alignment explanation
Indices: 47354167--47354350 Score: 190
Period size: 81 Copynumber: 2.3 Consensus size: 81
47354157 AAGGGTATTT
* * * * *
47354167 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
***
47354232 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * *
47354248 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTA
1 CGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
**
47354313 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
*
47354329 CGGTAATTCTATAAACTGAGGG
1 CGGTAATTTTATAAACT-AGGG
47354351 TAAAACGGTA
Statistics
Matches: 81, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 75 0.93
82 6 0.07
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (81 bp):
CGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
TAAACCAAGGGTAAAA
Found at i:47354566 original size:27 final size:27
Alignment explanation
Indices: 47354302--47354552 Score: 321
Period size: 27 Copynumber: 9.3 Consensus size: 27
47354292 AAGGGTATTT
* * *
47354302 TGGTAATTCTATAAATTGAAGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* *
47354329 CGGTAATTCTATAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
* *
47354356 CGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
47354383 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
*
47354410 TGGTAATTCTGTAAATCGAGGATAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
47354437 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
*
47354464 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
**
47354491 CAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
47354518 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
47354545 TGGTAATT
1 TGGTAATT
47354553 TTACAAGTCG
Statistics
Matches: 201, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
26 3 0.01
27 194 0.97
28 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:47354566 original size:54 final size:54
Alignment explanation
Indices: 47354302--47354552 Score: 394
Period size: 54 Copynumber: 4.6 Consensus size: 54
47354292 AAGGGTATTT
* * * ** *
47354302 TGGTAATTCTATAAATTGAAGGTAAAACGGTAATTCTATAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
47354356 CGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
47354410 TGGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
47354464 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
47354518 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
47354553 TTACAAGTCG
Statistics
Matches: 182, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 182 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:47361442 original size:15 final size:15
Alignment explanation
Indices: 47361422--47361450 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47361412 TAGAATAGTT
47361422 CCATAAAATTATAAA
1 CCATAAAATTATAAA
47361437 CCATAAAATTATAA
1 CCATAAAATTATAA
47361451 TAAAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
CCATAAAATTATAAA
Found at i:47362712 original size:34 final size:34
Alignment explanation
Indices: 47362632--47362714 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
47362622 GTAACAGTTA
* * *
47362632 GGGCCTTAGCCCATTTCAATAATAGTAGCAATCT
1 GGGCCTAAGCCCGTTTCAATAACAGTAGCAATCT
* * * * *
47362666 AGGCCTGAGCCCGTTTCAGTAACAGTAGTAGTCT
1 GGGCCTAAGCCCGTTTCAATAACAGTAGCAATCT
47362700 GGGCCTAAGCCCGTT
1 GGGCCTAAGCCCGTT
47362715 AACATATCAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (34 bp):
GGGCCTAAGCCCGTTTCAATAACAGTAGCAATCT
Found at i:47365106 original size:29 final size:29
Alignment explanation
Indices: 47365064--47365124 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
47365054 TCTTTAGTTA
47365064 TTCACCTTCTCCTTAATTGATAATGTTTT
1 TTCACCTTCTCCTTAATTGATAATGTTTT
47365093 TTCACCTTCTCCTTAATTGATAATGTTTT
1 TTCACCTTCTCCTTAATTGATAATGTTTT
47365122 TTC
1 TTC
47365125 TTAATTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.20, C:0.21, G:0.07, T:0.52
Consensus pattern (29 bp):
TTCACCTTCTCCTTAATTGATAATGTTTT
Found at i:47365949 original size:33 final size:32
Alignment explanation
Indices: 47365911--47365972 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
47365901 TATAATTTTT
*
47365911 TTTAAAATTTAATTATGATTTAATAAAATATAA
1 TTTAAAAATTAA-TATGATTTAATAAAATATAA
* * *
47365944 TTTAAAAATTCATATTATTTAATCAAATA
1 TTTAAAAATTAATATGATTTAATAAAATA
47365973 GATTATTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 15 0.60
33 10 0.40
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (32 bp):
TTTAAAAATTAATATGATTTAATAAAATATAA
Found at i:47368259 original size:17 final size:17
Alignment explanation
Indices: 47368204--47368259 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
47368194 TTCCTGATTG
* *
47368204 GTTTATTGATTTAAGTT
1 GTTTATTTATTTTAGTT
* **
47368221 GTTTGTTTATTTTTCTT
1 GTTTATTTATTTTAGTT
47368238 GTTTATTTATTTTAGTT
1 GTTTATTTATTTTAGTT
*
47368255 CTTTA
1 GTTTA
47368260 AGTTATCTTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.16, C:0.04, G:0.12, T:0.68
Consensus pattern (17 bp):
GTTTATTTATTTTAGTT
Found at i:47371423 original size:23 final size:21
Alignment explanation
Indices: 47371397--47371458 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
47371387 CTTTGTGGTG
47371397 CATTCTATATAGCCTTTGTAACA
1 CATTCTATATAGCCTTTGT--CA
* * *
47371420 CATTCTGTATGGCCTTTGTGA
1 CATTCTATATAGCCTTTGTCA
*
47371441 CATTCTAT-TAACCTTTGT
1 CATTCTATATAGCCTTTGT
47371459 GGTGTATCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.24
21 8 0.24
23 17 0.52
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (21 bp):
CATTCTATATAGCCTTTGTCA
Found at i:47374655 original size:93 final size:93
Alignment explanation
Indices: 47374496--47374667 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
47374486 AGGATATTTG
* *
47374496 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCCAACTCATTGAG
47374561 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
* *
47374589 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCCAAGCTCATTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCCAA-CTCATTGA
47374653 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
47374668 TCTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCCAACTCATTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:47374675 original size:46 final size:46
Alignment explanation
Indices: 47374504--47374675 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
47374494 TGGGCATCCG
* * *
47374504 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCGA
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCCA
* *
47374551 A-CTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGT-AACTAGGCATCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC--CCA
47374597 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCA
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCA
* *
47374643 AGCTCATTGAGTTGAGTCCGAGTTCTCTTATGG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47374676 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 3 0.03
46 59 0.56
47 25 0.24
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCA
Found at i:47377679 original size:47 final size:47
Alignment explanation
Indices: 47377625--47377818 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
47377615 TTAGGATTTT
** *
47377625 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
47377672 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * *
47377719 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * * * *
47377766 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
47377813 ATGTGA
1 ATGTGA
47377819 AAGATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:47377774 original size:25 final size:25
Alignment explanation
Indices: 47377701--47377774 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
47377691 GCATATATGA
*
47377701 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
47377726 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
47377748 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
47377773 GA
1 GA
47377775 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:47377945 original size:98 final size:96
Alignment explanation
Indices: 47377789--47377972 Score: 289
Period size: 98 Copynumber: 1.9 Consensus size: 96
47377779 GAACATGCAT
*
47377789 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAGATGTATGACATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAGATATATGACATATGTATATGTGGTAAAGCCGA
*
47377854 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTAAAATATGTATGAGATATGC
* *
47377885 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AGATATATGACATATGTATATGTGGTAAAGC
*
47377949 CGAATGGCTAGTGTAAAATATGTA
63 CGAATGGCTAATGTAAAATATGTA
47377973 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.34
97 2 0.03
98 50 0.62
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAGATATATGACATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTAAAATATGTATGAGATATGC
Found at i:47377948 original size:50 final size:48
Alignment explanation
Indices: 47377788--47377972 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
47377778 TGAACATGCA
* *
47377788 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAGATGTATGACATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
47377836 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
47377884 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
47377934 TATATGTGGTAAAGCCGAATGGCTAGTGTAAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47377973 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:47378227 original size:37 final size:37
Alignment explanation
Indices: 47378121--47378227 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
47378111 AAATATATTT
*
47378121 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
47378158 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
47378195 CGGGTAAGACCCGATAACTTCTTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
47378228 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:47386962 original size:40 final size:40
Alignment explanation
Indices: 47386882--47387100 Score: 329
Period size: 40 Copynumber: 5.5 Consensus size: 40
47386872 ACCCAAGTTT
* * * *
47386882 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
47386921 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
47386961 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
47387001 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
47387041 CTTCGGGTCTTA-CCCGGATATAACAACT-GCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
47387079 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
47387101 CATTCAAATG
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 22 0.13
39 35 0.21
40 109 0.66
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:47398879 original size:27 final size:28
Alignment explanation
Indices: 47398849--47398918 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
47398839 ATAGTGAATC
*
47398849 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
47398876 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
47398904 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47398919 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:47398992 original size:42 final size:42
Alignment explanation
Indices: 47398926--47399032 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
47398916 GCTGTACAAT
* * *
47398926 TTTAAACCCGCACACGTAGAGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47398968 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47399010 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
47399033 GAGACCAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:47402307 original size:40 final size:40
Alignment explanation
Indices: 47402252--47402501 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
47402242 AACATTGGAA
47402252 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47402292 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47402332 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47402372 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
47402412 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
47402451 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
47402492 CTATATCCGG
1 ATATATCCGG
47402502 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:47410170 original size:40 final size:40
Alignment explanation
Indices: 47410115--47410364 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
47410105 AACATTGGAA
47410115 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47410155 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47410195 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47410235 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
47410275 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
47410314 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
47410355 CTATATCCGG
1 ATATATCCGG
47410365 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:47419100 original size:40 final size:40
Alignment explanation
Indices: 47419045--47419293 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
47419035 AACATTGGAA
47419045 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47419085 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47419125 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
47419164 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
47419204 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
47419243 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
47419284 CTATATCCGG
1 ATATATCCGG
47419294 TTAAATCCCG
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 41 0.22
40 148 0.78
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:47419177 original size:79 final size:80
Alignment explanation
Indices: 47419045--47419293 Score: 376
Period size: 79 Copynumber: 3.1 Consensus size: 80
47419035 AACATTGGAA
47419045 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
47419110 CATTCGTGCGAGTTG
66 CATTCGTGCGAGTTG
47419125 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
47419189 CATTCGTGCGAGTTG
66 CATTCGTGCGAGTTG
* * * * * * * *
47419204 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCGAAG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAG
* *
47419268 GCAATCGTGCGAGTCG
65 GCATTCGTGCGAGTTG
*
47419284 CTATATCCGG
1 ATATATCCGG
47419294 TTAAATCCCG
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
79 81 0.52
80 75 0.48
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CATTCGTGCGAGTTG
Found at i:47419305 original size:119 final size:119
Alignment explanation
Indices: 47419045--47419293 Score: 374
Period size: 119 Copynumber: 2.1 Consensus size: 119
47419035 AACATTGGAA
47419045 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * * * *
47419110 CATTCGTGCGAGTTGATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
66 CATTCGTGCAAGTTCACAAATCCGGGCTAAGACCGAAGGCAATCGTGCGAGTCG
47419164 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * *
47419229 CCTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
66 CATTCGTGCAAGTTCA-CAAATCCGGGCTAAGA-CCGAAGGCAATCGTGCGAGTCG
*
47419284 CTATATCCGG
1 ATATATCCGG
47419294 TTAAATCCCG
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
118 2 0.02
119 86 0.74
120 29 0.25
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (119 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CATTCGTGCAAGTTCACAAATCCGGGCTAAGACCGAAGGCAATCGTGCGAGTCG
Found at i:47434745 original size:21 final size:20
Alignment explanation
Indices: 47434720--47434769 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
47434710 TTTGTACGGT
* *
47434720 CTTTGTGGCATTTTATATCAC
1 CTTTGTGGCATTCTAT-TAAC
* *
47434741 TTTTGTGACATTCTATTAAC
1 CTTTGTGGCATTCTATTAAC
47434761 CTTTGTGGC
1 CTTTGTGGC
47434770 GTATATGGTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (20 bp):
CTTTGTGGCATTCTATTAAC
Done.