Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 140 of 325
Found at i:43897998 original size:40 final size:40
Alignment explanation
Indices: 43897870--43898052 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
43897860 CCAGCATGAT
* * *
43897870 TGCTCTTCGGGATTTAGCACGGATATA-TCACTAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AA
* * *
43897910 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAA
* * *
43897950 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAA
* *
43897991 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAA
1 TGCTCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAA
*
43898031 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
43898053 CATCATTCGA
Statistics
Matches: 118, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 19 0.16
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
Found at i:43898397 original size:29 final size:30
Alignment explanation
Indices: 43898358--43898437 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
43898348 CTTAATAATC
*
43898358 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCACTTTCA
* *
43898388 AACTCGCACACTTAGTGCCATGCATTTTCA
1 AACCCGCACACTTAGTGCCATGCACTTTCA
*
43898418 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43898438 ATCTCACAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 22 0.50
30 22 0.50
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGCACTTTCA
Found at i:43898535 original size:43 final size:43
Alignment explanation
Indices: 43898419--43898567 Score: 262
Period size: 43 Copynumber: 3.4 Consensus size: 43
43898409 GCATTTTCAA
43898419 GCCCGCACACTTAGTGCCAATCTCACAAACCGTGAACACTTATTT
1 GCCCGCACACTTAGTGCCAATCTCAC-AACCGTGAACACTTA-TT
*
43898464 GCCCGCCACGCTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCG-CACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43898508 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43898551 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
43898568 TGAAAACCAA
Statistics
Matches: 101, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
43 54 0.53
44 7 0.07
45 20 0.20
46 20 0.20
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:43900473 original size:37 final size:37
Alignment explanation
Indices: 43900423--43900501 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43900413 TTATTACGAA
* *
43900423 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
43900460 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
43900497 GTCTT
1 GTCTT
43900502 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:43900768 original size:47 final size:47
Alignment explanation
Indices: 43900618--43901043 Score: 683
Period size: 47 Copynumber: 9.1 Consensus size: 47
43900608 CCCTTCGGGA
* * * * * * *
43900618 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43900665 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43900711 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43900758 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43900805 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43900852 CTTATCACACATATACACTTTCACATTCATTACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43900899 CTTATCATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43900946 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43900993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43901040 CTTA
1 CTTA
43901044 CTATCATTTC
Statistics
Matches: 355, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.11
47 315 0.89
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43904555 original size:79 final size:81
Alignment explanation
Indices: 43904419--43904603 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43904409 TTGAATGATG
* *
43904419 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
43904483 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
43904498 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43904560 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
43904578 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43904604 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:43904617 original size:40 final size:40
Alignment explanation
Indices: 43904420--43904603 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
43904410 TGAATGATGT
* * * *
43904420 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
43904460 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
43904500 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
43904538 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43904579 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43904604 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43904625 original size:79 final size:79
Alignment explanation
Indices: 43904472--43904626 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
43904462 GGACTAAGAT
* * **
43904472 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
43904537 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
43904551 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
43904614 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
43904627 ATTCCAAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:43916580 original size:34 final size:35
Alignment explanation
Indices: 43916529--43916594 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
43916519 ATTCTGTAAT
*
43916529 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
*
43916563 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGA
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGA
43916595 TTGTAGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 15 0.54
35 7 0.25
ACGTcount: A:0.44, C:0.11, G:0.26, T:0.20
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:43919379 original size:47 final size:47
Alignment explanation
Indices: 43919308--43919564 Score: 222
Period size: 47 Copynumber: 5.5 Consensus size: 47
43919298 GGCTAGTTCT
* * *
43919308 AGACATGGTCTTACACTGGTTCATATCCCAAGTCGATGCCATGTCCT
1 AGACATGGTCTTACACTGGCTCATATCCGAAGTCGATGCCATGTCCC
*
43919355 AGACATGGTCTTACACTGGCTCATATCCTAAGTCGATGCCATGTCCCCC
1 AGACATGGTCTTACACTGGCTCATATCCGAAGTCGATGCCATGT--CCC
* * * *
43919404 AGACATGGTCTTACGCTGACT-ATCATCTCGTAGCCGATG-CATGTCCC
1 AGACATGGTCTTACACTGGCTCAT-ATC-CGAAGTCGATGCCATGTCCC
* * * ** *
43919451 AAACAT-GTCTTACACTAGCTTACGTCTCGAGGTCGATG-CATGTCCC
1 AGACATGGTCTTACACTGGCTCATATC-CGAAGTCGATGCCATGTCCC
* * * * * *
43919497 AAACAT-TTCTTACACTAGAACTCGTCT-CGATGTCGATGCCATGT-CC
1 AGACATGGTCTTACACT-G-GCTCATATCCGAAGTCGATGCCATGTCCC
43919543 AGACATGGTCTTACACTGGCTC
1 AGACATGGTCTTACACTGGCTC
43919565 TCATAATGTG
Statistics
Matches: 173, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.02
46 63 0.36
47 65 0.38
48 5 0.03
49 29 0.17
50 8 0.05
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
AGACATGGTCTTACACTGGCTCATATCCGAAGTCGATGCCATGTCCC
Found at i:43919479 original size:46 final size:45
Alignment explanation
Indices: 43919436--43919608 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
43919426 TCATCTCGTA
43919436 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTT-CGTCTCGAG
* * *
43919482 GTCGATGCATGTCCCAAACATTTCTTACACTAGAAC-TCGTCTCGAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAG--CTTCGTCTCGAG
* * * * * *
43919528 GTCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCT-TCGT-CTCGAG
*
43919575 GCCGATG-ATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCT
43919609 CACATTTACC
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
45 18 0.17
46 61 0.57
47 26 0.24
48 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTTCGTCTCGAG
Found at i:43924324 original size:3 final size:3
Alignment explanation
Indices: 43924316--43924341 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43924306 TGAGGATCTC
43924316 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
43924342 CCTACAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:43926951 original size:40 final size:40
Alignment explanation
Indices: 43926890--43927031 Score: 194
Period size: 40 Copynumber: 3.5 Consensus size: 40
43926880 CGATATCTCA
* *
43926890 CACACTAAGTGCCGTACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
43926930 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
* * * **
43926970 CACACTAAGTGCCATATATAGTCGAACCTATCTTGATCTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATC-TCAAATCG
* *
43927011 CACACTAAATGCCACATATAG
1 CACACTAAGTGCCATATATAG
43927032 TTGATTTGTC
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 68 0.74
41 24 0.26
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
Found at i:43962911 original size:14 final size:14
Alignment explanation
Indices: 43962894--43962940 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
43962884 AAAGATTTAG
43962894 AAGAGAAGAAAGAA
1 AAGAGAAGAAAGAA
*
43962908 AAGAGAA-ATATG-A
1 AAGAGAAGA-AAGAA
43962921 AAG-GAAGAAAGAA
1 AAGAGAAGAAAGAA
43962934 AAGAGAA
1 AAGAGAA
43962941 ATATGTTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
14 12 0.44
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (14 bp):
AAGAGAAGAAAGAA
Found at i:43964604 original size:39 final size:39
Alignment explanation
Indices: 43964561--43964637 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
43964551 TCAAAACATG
43964561 ATTACTCAG-CTTTGGAGTCTATTTAATATCTCTTTCAAT
1 ATTACT-AGACTTTGGAGTCTATTTAATATCTCTTTCAAT
43964600 ATTACTAGACTTTGGAGTCTATTTAATATCTCTTTCAA
1 ATTACTAGACTTTGGAGTCTATTTAATATCTCTTTCAA
43964638 ACCTTTTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 2 0.05
39 35 0.95
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.45
Consensus pattern (39 bp):
ATTACTAGACTTTGGAGTCTATTTAATATCTCTTTCAAT
Found at i:43971373 original size:30 final size:30
Alignment explanation
Indices: 43971339--43971401 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
43971329 ACTTATTTTA
43971339 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
43971369 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
43971399 TTG
1 TTG
43971402 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:43973478 original size:33 final size:33
Alignment explanation
Indices: 43973441--43973508 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
43973431 CTGACGGACA
43973441 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
1 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
43973474 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
1 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
43973507 TT
1 TT
43973509 TTATACGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (33 bp):
TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
Found at i:43977651 original size:40 final size:40
Alignment explanation
Indices: 43977596--43977677 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
43977586 ATAAACCAAT
43977596 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
1 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
43977636 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
1 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
43977676 GT
1 GT
43977678 GCTCTTTGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (40 bp):
GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
Found at i:43979795 original size:23 final size:24
Alignment explanation
Indices: 43979759--43979818 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
43979749 TTATTAGGAT
*
43979759 TTTTATGATATTATTTACATTTAA-
1 TTTTA-GATTTTATTTACATTTAAC
**
43979783 TTTTAGATTTTATTTTTATTTAAC
1 TTTTAGATTTTATTTACATTTAAC
*
43979807 TTTTAGAGTTTA
1 TTTTAGATTTTA
43979819 AATAGGAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTTAGATTTTATTTACATTTAAC
Found at i:43982325 original size:9 final size:9
Alignment explanation
Indices: 43982313--43982346 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
43982303 TTAATTTTAT
43982313 TATTATTAC
1 TATTATTAC
43982322 TATTATTAC
1 TATTATTAC
* *
43982331 TATTACTAT
1 TATTATTAC
43982340 TATTATT
1 TATTATT
43982347 CTCTAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATTAC
Found at i:43982469 original size:3 final size:3
Alignment explanation
Indices: 43982454--43982488 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
43982444 AAAAGCTTAG
* *
43982454 ATT ATT ATC ATT ATT ATT ATT TTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
43982489 CCTTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:43982681 original size:24 final size:22
Alignment explanation
Indices: 43982646--43982693 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
43982636 TTCGTCTTTA
43982646 TTATTGTCATTCATATTAATGCAT
1 TTATTGTCATTC-TATT-ATGCAT
* *
43982670 TTATTGTTATTCTGTTATGCAT
1 TTATTGTCATTCTATTATGCAT
43982692 TT
1 TT
43982694 TAATGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (22 bp):
TTATTGTCATTCTATTATGCAT
Found at i:43984916 original size:3 final size:3
Alignment explanation
Indices: 43984903--43984984 Score: 80
Period size: 3 Copynumber: 27.7 Consensus size: 3
43984893 CCCTTTTTGG
*
43984903 TTA TT- TTA TTA TTA -AA TTAA TTAA TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TTA TTA TTA TTA
* * * *
43984947 TTA TTA TTA CTA TTA TTA CTA TTA CTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
43984985 CTCTAAATGG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 5 0.08
3 53 0.82
4 7 0.11
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:43985313 original size:24 final size:22
Alignment explanation
Indices: 43985280--43985327 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
43985270 TTCGTCTTTA
*
43985280 TTATTTTTATTCATATTAATGCAT
1 TTATTGTTATTC-TATT-ATGCAT
*
43985304 TTATTGTTATTCTGTTATGCAT
1 TTATTGTTATTCTATTATGCAT
43985326 TT
1 TT
43985328 TAATGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (22 bp):
TTATTGTTATTCTATTATGCAT
Found at i:43998685 original size:44 final size:44
Alignment explanation
Indices: 43998544--43998836 Score: 182
Period size: 44 Copynumber: 6.6 Consensus size: 44
43998534 TACGAGTTAA
* * * * ** * * *
43998544 AAATTTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAGATAGC
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-T
*
43998589 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTAT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
* * * * *
43998633 AAACCTTATCTCTATGAAGTTGCAGTAGAGTAGGTTGAAA-TTAT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT-AAAGCTAT
* * * * * ** *
43998677 GAGTCTTATCTCTCTGAAATTACAGT-GAGCGGATCGAAGATA-
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
* * *
43998719 ACCAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCTAC
1 A--AATCTTATCTCTCTGAAGTTGCAGTAG-AGCAGATTAAAGCTAT
* * * * * ** *
43998765 AAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAGGGAC
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
*
43998809 AAATCATATAC-CTCTGAAGTTGCAGTAG
1 AAATCTTAT-CTCTCTGAAGTTGCAGTAG
43998837 GTGGGATTAA
Statistics
Matches: 197, Mismatches: 43, Indels: 17
0.77 0.17 0.07
Matches are distributed among these distances:
42 2 0.01
43 7 0.04
44 134 0.68
45 53 0.27
46 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
Found at i:43998791 original size:88 final size:87
Alignment explanation
Indices: 43998549--43998799 Score: 233
Period size: 88 Copynumber: 2.8 Consensus size: 87
43998539 GTTAAAAATT
*
43998549 TTATCTCCCTAAAGTTGCAGTGGAA-TAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAGATA-CAAATCTTATCTCTCTAAAGTTGCA
* *
43998613 GTAGAGCAGATTAAAGCTATAAACC
64 GT-GAGCAGATCAAAGATATAAACC
** * ** * *
43998638 TTATCTCTATGAAGTTGCAGT-AGAGTAGGTTGAA-ATTATGAGTCTTATCTCTCTGAAA-TTAC
1 TTATCTCCCTGAAGTTGCAGTGA-AGTAGATTGAAGA-TACAAATCTTATCTCTCT-AAAGTTGC
* * *
43998700 AGTGAGCGGATCGAAGATA-ACCAATC
63 AGTGAGCAGATCAAAGATATA--AACC
* * * *
43998726 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAAATCCTATCTCCCTAAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATACAAATCTTATCTCTCTAAAGTTGCAGT
43998791 GGAGCAGAT
66 -GAGCAGAT
43998800 TCAAGGGACA
Statistics
Matches: 127, Mismatches: 25, Indels: 20
0.74 0.15 0.12
Matches are distributed among these distances:
86 1 0.01
87 16 0.13
88 71 0.56
89 39 0.31
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (87 bp):
TTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATACAAATCTTATCTCTCTAAAGTTGCAGT
GAGCAGATCAAAGATATAAACC
Found at i:44000501 original size:4 final size:4
Alignment explanation
Indices: 44000484--44000521 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
44000474 ATTTTAAACT
* *
44000484 TTTA TTTG TTTA TTTA TTTA TTTA TTTA GTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
44000522 TTATTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:44007732 original size:22 final size:22
Alignment explanation
Indices: 44007707--44007750 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
44007697 TTTAGTTAAT
44007707 TATGCAATATTCCAATTTTGCC
1 TATGCAATATTCCAATTTTGCC
44007729 TATGCAATATTCCAATTTTGCC
1 TATGCAATATTCCAATTTTGCC
44007751 CTTAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (22 bp):
TATGCAATATTCCAATTTTGCC
Found at i:44009413 original size:18 final size:18
Alignment explanation
Indices: 44009378--44009416 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44009368 AATAATCCCC
*
44009378 TAAAATAATAAAATAAAA
1 TAAAATAATAAAACAAAA
44009396 TAAAATAA-ATAAACAAAA
1 TAAAATAATA-AAACAAAA
44009414 TAA
1 TAA
44009417 GACCAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAATAATAAAACAAAA
Found at i:44021979 original size:47 final size:47
Alignment explanation
Indices: 44021927--44022093 Score: 235
Period size: 47 Copynumber: 3.6 Consensus size: 47
44021917 GATAATTGTG
* *
44021927 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44021974 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
44022021 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44022068 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
44022094 TCCCGAAGGG
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 106 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44026078 original size:81 final size:79
Alignment explanation
Indices: 44025904--44026123 Score: 228
Period size: 81 Copynumber: 2.7 Consensus size: 79
44025894 ACTTAAATCA
* * * * * *
44025904 AAATAAAATCTATTAAATAGTGGGAATATATCCCGAAACAGAATCATTTGA-TTAAGTCATTTCA
1 AAATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAG-AT--TTT-ATTTAATTC-TAT--
*
44025968 TTTGGAAATAAAATCAAAATG
59 TTTGGAAAAAAAATCAAAATG
* **
44025989 AAATAAAATCTGTTAATTGGCGGGAATAAATCTTGAAACAGATTTTCAATTTAATTCTATTTTGG
1 AAATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTT--ATTTAATTCTATTTTGG
*
44026054 AAAAAAAATTAAAATCG
64 AAAAAAAATCAAAAT-G
*
44026071 -AATAAAATCTGTTAAATGGCGGGGATAAATCCCGAAACAGATTTTATTTAATT
1 AAATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATT
44026124 TTAATTTCTA
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
79 8 0.07
81 59 0.51
82 4 0.03
83 3 0.03
84 8 0.07
85 34 0.29
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (79 bp):
AAATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTCTATTTTGGAA
AAAAAATCAAAATG
Found at i:44026448 original size:88 final size:86
Alignment explanation
Indices: 44025968--44026449 Score: 433
Period size: 87 Copynumber: 5.6 Consensus size: 86
44025958 AGTCATTTCA
* * * **
44025968 TTTGGAAATAAAATCAAAATGAAATAAAATCTGTT-AATTGGCGGGAATAAATCTTGAAACAGA-
1 TTTGGAAATAAAATCAAAATGGAATAAAATCCGTTGAA-TGACGGGAATAAATCCCGAAACAGAT
*
44026031 -TT-TTCAA-TTTAATTCT-AT
65 TTTATTTAATTTTAATTCTCAT
* * * * * * *
44026049 TTTGGAAAAAAAATTAAAATCGAATAAAATCTGTTAAATGGCGGGGATAAATCCCGAAACAGATT
1 TTTGGAAATAAAATCAAAATGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGATT
44026114 TTATTTAATTTTAATT-TCTAGT
66 TTATTTAATTTTAATTCTC-A-T
* * * * * * * *
44026136 TTTGGCAACAAAATAAGAAATGTAATAAAATCCATTGAACGATGGGAATAAATCCCGAAACAGGT
1 TTTGGAAATAAAATCA-AAATGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGAT
* *
44026201 TTTATTTAACTTTAATTTCTC-G
65 TTTATTTAATTTTAA-TTCTCAT
* * * * *
44026223 TTTGGAAATAAAATAAAAATGGAATAAAATACGTTGAATGATGGGAATAAATACCAAAACAGATT
1 TTTGGAAATAAAATCAAAATGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGATT
* * **
44026288 TTATTTTAATTTGAATACTTGT
66 TTA-TTTAATTTTAATTCTCAT
* * * * * * * * * *
44026310 TTTGGAAA-AAAATCTAAATTAGAATAAAGTTCGTTGAAAGGCGGGAATAAATCTCTAAATAAAT
1 TTTGGAAATAAAATC-AAAATGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGAT
44026374 TTTATCTTAATTTTAATTCTCAT
65 TTTAT-TTAATTTTAATTCTCAT
*
44026397 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGAAATAAAT
1 TTTGGAAATAAAATCAAAA-TGGAATAAAATCCGTTGAATGACGGGAATAAAT
44026450 AATAACTTCC
Statistics
Matches: 323, Mismatches: 61, Indels: 27
0.79 0.15 0.07
Matches are distributed among these distances:
81 53 0.16
82 2 0.01
83 2 0.01
84 5 0.02
85 7 0.02
86 55 0.17
87 110 0.34
88 85 0.26
89 2 0.01
90 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (86 bp):
TTTGGAAATAAAATCAAAATGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGATT
TTATTTAATTTTAATTCTCAT
Found at i:44026709 original size:22 final size:23
Alignment explanation
Indices: 44026682--44026725 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
44026672 TTAGTGAACA
44026682 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
44026704 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
44026726 ATATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:44026727 original size:20 final size:21
Alignment explanation
Indices: 44026681--44026734 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
44026671 TTTAGTGAAC
44026681 AAAATATATAAATATAAATAA
1 AAAATATATAAATATAAATAA
* * *
44026702 ACAAATATTTATATATAAA-AT
1 A-AAATATATAAATATAAATAA
44026723 AAAATATA-AAAT
1 AAAATATATAAAT
44026735 TGAATAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 6 0.22
21 3 0.11
22 15 0.56
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATATAAATATAAATAA
Found at i:44029039 original size:79 final size:81
Alignment explanation
Indices: 44028903--44029087 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
44028893 TTGAATGATG
*
44028903 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
44028967 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
44028982 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
44029044 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
44029062 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44029088 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:44029101 original size:40 final size:40
Alignment explanation
Indices: 44028904--44029087 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
44028894 TGAATGATGT
* * * *
44028904 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
44028944 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
44028984 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44029022 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44029063 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44029088 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44029109 original size:79 final size:79
Alignment explanation
Indices: 44028956--44029110 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
44028946 GGACTAAGAT
* **
44028956 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
44029021 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
44029035 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
44029098 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
44029111 ATTCCAAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:44031570 original size:17 final size:17
Alignment explanation
Indices: 44031548--44031581 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44031538 CAAAATTTGA
44031548 TTAAAAAGCT-TTAAAAC
1 TTAAAAA-CTCTTAAAAC
44031565 TTAAAAACTCTTAAAAC
1 TTAAAAACTCTTAAAAC
44031582 ACTCGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAAAACTCTTAAAAC
Found at i:44033522 original size:14 final size:14
Alignment explanation
Indices: 44033503--44033531 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44033493 TGTACAACTG
44033503 TATGTATGACTTTT
1 TATGTATGACTTTT
44033517 TATGTATGACTTTT
1 TATGTATGACTTTT
44033531 T
1 T
44033532 GTGGGGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (14 bp):
TATGTATGACTTTT
Found at i:44040161 original size:34 final size:34
Alignment explanation
Indices: 44040123--44040233 Score: 125
Period size: 34 Copynumber: 3.3 Consensus size: 34
44040113 ATAAATGTAT
* *
44040123 ATATATATTCACCTTCGGTTATGTCAAACCTTAC
1 ATATATATTCACCTTCGATTATGACAAACCTTAC
* * *
44040157 ATATATATTCACTTTCGATTAT-ACCAAGCTATAC
1 ATATATATTCACCTTCGATTATGACAAACCT-TAC
* * * *
44040191 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATGACAAACCTTAC
44040225 ATATATATT
1 ATATATATT
44040234 TATGTACTTC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
33 5 0.08
34 54 0.87
35 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATGACAAACCTTAC
Found at i:44047349 original size:34 final size:34
Alignment explanation
Indices: 44047310--44047420 Score: 159
Period size: 34 Copynumber: 3.3 Consensus size: 34
44047300 ATAAATGTAT
* * *
44047310 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
44047344 ATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
44047378 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
44047412 ATATATATT
1 ATATATATT
44047421 TATCTACTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:44048690 original size:30 final size:30
Alignment explanation
Indices: 44048655--44048715 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
44048645 TTGTGGGAGA
44048655 ACACAAGAACGAAATCCTTATAGTAAATCT
1 ACACAAGAACGAAATCCTTATAGTAAATCT
44048685 ACACAAGAACGAAATCCTTATAGTAAATCT
1 ACACAAGAACGAAATCCTTATAGTAAATCT
44048715 A
1 A
44048716 AGGGTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.23
Consensus pattern (30 bp):
ACACAAGAACGAAATCCTTATAGTAAATCT
Found at i:44049990 original size:42 final size:41
Alignment explanation
Indices: 44049920--44050006 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
44049910 GACCAAAACT
* * *
44049920 CTAGTAGGTTTAGTGCCGGTGAATTGAATCAGGCCATTGAGC
1 CTAGCAGGCTTAGTGCCGGTGAATTGAATCAAG-CATTGAGC
*
44049962 CTAGCAGGCTTAGTGCCGGTGGAA-TGAATCAAGCTTTGAGC
1 CTAGCAGGCTTAGTGCCGGT-GAATTGAATCAAGCATTGAGC
44050003 CTAG
1 CTAG
44050007 AAGTCTTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 11 0.28
42 26 0.65
43 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAGTGCCGGTGAATTGAATCAAGCATTGAGC
Found at i:44050036 original size:41 final size:41
Alignment explanation
Indices: 44049920--44050043 Score: 99
Period size: 41 Copynumber: 3.0 Consensus size: 41
44049910 GACCAAAACT
* * * * *
44049920 CTAGTAGGTTTAGTGCCGGT-GAATTGAATCAGGCCATTGAGC
1 CTAGAAGGCTTAGTGCCGATGGAA-TGAATCAAG-CTTTGAGC
* *
44049962 CTAGCAGGCTTAGTGCCGGTGGAATGAATCAAGCTTTGAGC
1 CTAGAAGGCTTAGTGCCGATGGAATGAATCAAGCTTTGAGC
* * * * *
44050003 CTAGAAGTCTTCGTGTCGATGGATTGTAA-CAAGCTTCGAGC
1 CTAGAAGGCTTAGTGCCGATGGAATG-AATCAAGCTTTGAGC
44050044 TTAGCAAGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 38 0.55
42 28 0.41
43 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (41 bp):
CTAGAAGGCTTAGTGCCGATGGAATGAATCAAGCTTTGAGC
Found at i:44060737 original size:21 final size:21
Alignment explanation
Indices: 44060681--44060737 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
44060671 CATTTTTTCT
* *
44060681 TCCTAAATTCTCAATTTTCAA
1 TCCTCAATCCTCAATTTTCAA
**
44060702 TTTTCAATCTC-CAATTTTCAA
1 TCCTCAATC-CTCAATTTTCAA
44060723 TCCTCAATCCTCAAT
1 TCCTCAATCCTCAAT
44060738 CTATAAATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (21 bp):
TCCTCAATCCTCAATTTTCAA
Found at i:44061277 original size:15 final size:15
Alignment explanation
Indices: 44061270--44061302 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
44061260 TATTTTTTTT
44061270 AATTTTATTCTCTTC
1 AATTTTATTCTCTTC
44061285 AATTTTATTCTCTTC
1 AATTTTATTCTCTTC
44061300 AAT
1 AAT
44061303 CCTCAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTTTATTCTCTTC
Found at i:44063148 original size:93 final size:93
Alignment explanation
Indices: 44063033--44063204 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44063023 CGCCCATAAG
*
44063033 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
44063098 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
44063126 CGAACTCGGACTCAACTCAACGATCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
44063191 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
44063205 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:44063201 original size:46 final size:46
Alignment explanation
Indices: 44063026--44063201 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44063016 TGTAACCCGC
* *
44063026 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
44063072 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
44063118 ACATCTCTCGAACTCGGACTCAACTCAACGATCTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
44063165 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44063202 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 66 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:44073435 original size:40 final size:40
Alignment explanation
Indices: 44073391--44073486 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
44073381 ACTGTGTTCG
44073391 GCACTAAGTGTGCGATTTGAAATAACTTCGACTATA-AATA
1 GCACTAAGTGTGCGATTTGAAATAACTTCGACTATATAA-A
* * * * *
44073431 GCACTAAGTGTGCAGA-TTGGAATAGCTTTGGCTATATAAG
1 GCACTAAGTGTGC-GATTTGAAATAACTTCGACTATATAAA
44073471 GCACTAAGTGTGCGAT
1 GCACTAAGTGTGCGAT
44073487 ACCGAGATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 2 0.04
40 42 0.88
41 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (40 bp):
GCACTAAGTGTGCGATTTGAAATAACTTCGACTATATAAA
Found at i:44074212 original size:12 final size:12
Alignment explanation
Indices: 44074195--44074223 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44074185 TTGGTATAAT
44074195 TTTGGCTTATGA
1 TTTGGCTTATGA
44074207 TTTGGCTTATGA
1 TTTGGCTTATGA
44074219 TTTGG
1 TTTGG
44074224 TATTTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.52
Consensus pattern (12 bp):
TTTGGCTTATGA
Found at i:44074859 original size:14 final size:16
Alignment explanation
Indices: 44074831--44074867 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
44074821 GAATGGACTT
44074831 TGTATGA-ATGTTTGA
1 TGTATGATATGTTTGA
44074846 T-TATGATATG-TTGA
1 TGTATGATATGTTTGA
44074860 TGTATGAT
1 TGTATGAT
44074868 TTTTATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
TGTATGATATGTTTGA
Found at i:44078400 original size:38 final size:38
Alignment explanation
Indices: 44078344--44078423 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
44078334 GATGTGTATT
* * *
44078344 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
44078382 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
44078420 CGGG
1 CGGG
44078424 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:44078470 original size:43 final size:43
Alignment explanation
Indices: 44078395--44078583 Score: 276
Period size: 43 Copynumber: 4.4 Consensus size: 43
44078385 GATAAATCCC
* * *
44078395 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
44078436 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
**
44078479 GCAGGCTTAGTGCCGGTGATGTGTATTTAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
44078522 GCAAGCTTCA-TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTT-AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
44078565 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
44078584 AATGATATGT
Statistics
Matches: 134, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
41 15 0.11
42 3 0.02
43 115 0.86
44 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:44083453 original size:69 final size:70
Alignment explanation
Indices: 44083321--44083453 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
44083311 TAGTTTATTA
* * * * *
44083321 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
44083386 CTTAG
66 CTTAG
44083391 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
44083454 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:44084894 original size:47 final size:47
Alignment explanation
Indices: 44084840--44085338 Score: 872
Period size: 47 Copynumber: 10.6 Consensus size: 47
44084830 TATTTGAATA
44084840 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44084887 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44084934 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44084983 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44085030 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44085077 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44085124 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44085171 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44085218 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
44085265 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44085312 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44085339 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 387 0.90
49 45 0.10
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44091709 original size:19 final size:19
Alignment explanation
Indices: 44091693--44091739 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
44091683 CACATATACA
44091693 TTCAACTAGTTCATATAAC
1 TTCAACTAGTTCATATAAC
*
44091712 TTCATCTAGTTCATATAAC
1 TTCAACTAGTTCATATAAC
44091731 TTCATACTA
1 TTCA-ACTA
44091740 CCACATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.40
Consensus pattern (19 bp):
TTCAACTAGTTCATATAAC
Found at i:44091968 original size:43 final size:43
Alignment explanation
Indices: 44091915--44092017 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 43
44091905 GCCATATCCT
* *
44091915 AGATATGGTCTTACATGTTA-TCATATAACGATGCCATTGTCCC
1 AGATATGGTCTTACATGTTAGTCATAT-ACGATGCCAATGTCAC
* * *
44091958 AGATAGGGTCTTATACG--AGTCATATACGATGCCAATGTCAC
1 AGATATGGTCTTACATGTTAGTCATATACGATGCCAATGTCAC
*
44091999 AGACATGGTCTTACATGTT
1 AGATATGGTCTTACATGTT
44092018 TTATCACTTC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
41 28 0.58
42 6 0.12
43 14 0.29
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (43 bp):
AGATATGGTCTTACATGTTAGTCATATACGATGCCAATGTCAC
Found at i:44098707 original size:41 final size:42
Alignment explanation
Indices: 44098639--44098717 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
44098629 TTACATGTTA
* *
44098639 TCATATATCAATGCCACTTTCCGAGACAGGGTCTTACACGAG
1 TCATATATCAATGCCAATGTCCGAGACAGGGTCTTACACGAG
* * *
44098681 TCATATA-CAATGCTAATGTCCTAGACATGGTCTTACA
1 TCATATATCAATGCCAATGTCCGAGACAGGGTCTTACA
44098718 TGAATTCACA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 25 0.78
42 7 0.22
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
TCATATATCAATGCCAATGTCCGAGACAGGGTCTTACACGAG
Found at i:44110483 original size:43 final size:43
Alignment explanation
Indices: 44110400--44110549 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 43
44110390 TATCCCAAAT
* * * *
44110400 ATGGTCTTACATGTTATCTCATATCGATGCCAATAG-CCCAG-C
1 ATGGTCTTACACGTAATCACATAACGATGCCAAT-GTCCCAGAC
*
44110442 TATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGAC
1 -ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
*
44110486 ATGGTTTTACACGTAATCACAATTAA--ATGCCAATGT-CCAGAC
1 ATGGTCTTACACGTAATCAC-A-TAACGATGCCAATGTCCCAGAC
*
44110528 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
44110550 CTCGATAATC
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 25 0.27
43 62 0.66
44 2 0.02
45 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
Found at i:44114881 original size:31 final size:31
Alignment explanation
Indices: 44114843--44114955 Score: 104
Period size: 31 Copynumber: 3.6 Consensus size: 31
44114833 GTTTTATGTT
44114843 CCTTAAAAATTAGAAAAAAAAAATTTAGGTC
1 CCTTAAAAATTAGAAAAAAAAAATTTAGGTC
* * *
44114874 CCTTAAAAATTGGTAAAAAAAAATTTA-GAC
1 CCTTAAAAATTAGAAAAAAAAAATTTAGGTC
* * * *
44114904 CCTTAAAAGCTAAAAAAAGAAAAAATTTGGGGGTC
1 CCTTAAAA-ATTAGAAAA-AAAAAATTT--AGGTC
*
44114939 CCTTAAAAACT-GAAAAA
1 CCTTAAAAATTAGAAAAA
44114956 CAATATTTTG
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
30 10 0.16
31 29 0.46
32 10 0.16
33 4 0.06
35 10 0.16
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (31 bp):
CCTTAAAAATTAGAAAAAAAAAATTTAGGTC
Found at i:44115359 original size:19 final size:19
Alignment explanation
Indices: 44115337--44115401 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
44115327 AGTTAAAATT
*
44115337 TTATAAAATACTAAAAAAA
1 TTATAAAATACTATAAAAA
*
44115356 TTATATAA-ACTTATAAAAA
1 TTATAAAATAC-TATAAAAA
* *
44115375 TCAT-AAATATGTATAAAAA
1 TTATAAAATA-CTATAAAAA
44115394 TTATAAAA
1 TTATAAAA
44115402 CATCCTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
18 4 0.11
19 29 0.81
20 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
TTATAAAATACTATAAAAA
Found at i:44115389 original size:29 final size:28
Alignment explanation
Indices: 44115355--44115484 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 28
44115345 TACTAAAAAA
*
44115355 ATTATATAAACTTATAAAA-ATCATAAAT
1 ATTATA-AAAATTATAAAACATCATAAAT
*
44115383 ATGTATAAAAATTATAAAACATCCTAAAT
1 AT-TATAAAAATTATAAAACATCATAAAT
* * *
44115412 ATTATAAAAA-AATAAAA-TTTATAAAT
1 ATTATAAAAATTATAAAACATCATAAAT
* * * *
44115438 -TTATAAAACGAATAGAAAAAATCATAAAA
1 ATTATAAAA--ATTATAAAACATCATAAAT
44115467 ACTTATAATAAATTATAA
1 A-TTATAA-AAATTATAA
44115485 TGAATTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
25 8 0.10
26 6 0.08
27 7 0.09
28 26 0.32
29 20 0.25
30 5 0.06
31 6 0.08
32 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (28 bp):
ATTATAAAAATTATAAAACATCATAAAT
Found at i:44115417 original size:28 final size:27
Alignment explanation
Indices: 44115355--44115484 Score: 102
Period size: 29 Copynumber: 4.6 Consensus size: 27
44115345 TACTAAAAAA
*
44115355 ATTATATAAACTTATAAAAATCATAAAT
1 ATTATA-AAAATTATAAAAATCATAAAT
*
44115383 ATGTATAAAAATTATAAAACATCCTAAAT
1 AT-TATAAAAATTATAAAA-ATCATAAAT
* * *
44115412 ATTATAAAAA-AATAAAATTTATAAAT
1 ATTATAAAAATTATAAAAATCATAAAT
* * *
44115438 -TTATAAAACGAATAGAAAAAATCATAAAA
1 ATTATAAAA--ATTA-TAAAAATCATAAAT
44115467 ACTTATAATAAATTATAA
1 A-TTATAA-AAATTATAA
44115485 TGAATTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
25 8 0.10
26 6 0.08
27 7 0.09
28 22 0.28
29 26 0.32
30 3 0.04
31 6 0.08
32 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
ATTATAAAAATTATAAAAATCATAAAT
Found at i:44115474 original size:10 final size:10
Alignment explanation
Indices: 44115456--44115505 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
44115446 CGAATAGAAA
*
44115456 AAATCATAA-
1 AAATTATAAT
44115465 AAACTTATAAT
1 AAA-TTATAAT
44115476 AAATTATAAT
1 AAATTATAAT
* *
44115486 GAATTATAAA
1 AAATTATAAT
44115496 AAATTATAAT
1 AAATTATAAT
44115506 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATTATAAT
Found at i:44115484 original size:20 final size:20
Alignment explanation
Indices: 44115453--44115505 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
44115443 AAACGAATAG
*
44115453 AAAAAATCATAA-AAACTTAT
1 AAAAAATTATAATAAA-TTAT
* *
44115473 AATAAATTATAATGAATTAT
1 AAAAAATTATAATAAATTAT
44115493 AAAAAATTATAAT
1 AAAAAATTATAAT
44115506 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAATTATAATAAATTAT
Found at i:44115958 original size:10 final size:9
Alignment explanation
Indices: 44115880--44116091 Score: 110
Period size: 10 Copynumber: 22.7 Consensus size: 9
44115870 TTTATAATTT
44115880 TTTTTATAA
1 TTTTTATAA
*
44115889 TTTATTAGAA
1 TTT-TTATAA
*
44115899 TTTATTATAGC
1 TTT-TTATA-A
*
44115910 TTTTTGT-A
1 TTTTTATAA
* *
44115918 CTTTTATAG
1 TTTTTATAA
*
44115927 TATTTATAA
1 TTTTTATAA
*
44115936 GTTTTTATGA
1 -TTTTTATAA
44115946 TTTTATATAA
1 TTTT-TATAA
44115956 TTTTTATAA
1 TTTTTATAA
* *
44115965 -GTTCAT--
1 TTTTTATAA
*
44115971 TTTTTAAAATA
1 TTTTT-ATA-A
*
44115982 TTTTTATTA
1 TTTTTATAA
*
44115991 TTTTTATTA
1 TTTTTATAA
*
44116000 TTTTCATAA
1 TTTTTATAA
44116009 TTTATTATAA
1 TTT-TTATAA
44116019 TTTATTATAA
1 TTT-TTATAA
44116029 GTTTTTATAA
1 -TTTTTATAA
*
44116039 TATTTATAA
1 TTTTTATAA
*
44116048 GTTTTAT-A
1 TTTTTATAA
*
44116056 TTGGTTATAA
1 TT-TTTATAA
*
44116066 CTTTTATAA
1 TTTTTATAA
*
44116075 CTTTATATAA
1 -TTTTTATAA
44116085 GTTTTTA
1 -TTTTTA
44116092 ATATGAACAT
Statistics
Matches: 153, Mismatches: 35, Indels: 29
0.71 0.16 0.13
Matches are distributed among these distances:
7 2 0.01
8 12 0.08
9 61 0.40
10 67 0.44
11 11 0.07
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44116052 original size:18 final size:18
Alignment explanation
Indices: 44116013--44116095 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 18
44116003 TCATAATTTA
*
44116013 TTATAATTTATTATAAGTTT
1 TTATAATAT-TTATAAG-TT
44116033 TTATAATATTTATAAGTT
1 TTATAATATTTATAAGTT
* ** *
44116051 TTATATTGGTTATAACTT
1 TTATAATATTTATAAGTT
44116069 TTATAACT-TTATATAAGTT
1 TTATAA-TATT-TATAAGTT
44116088 TT-TAATAT
1 TTATAATAT
44116096 GAACATTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.02
18 26 0.50
19 17 0.33
20 8 0.15
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (18 bp):
TTATAATATTTATAAGTT
Found at i:44116366 original size:10 final size:9
Alignment explanation
Indices: 44116240--44116439 Score: 110
Period size: 9 Copynumber: 21.8 Consensus size: 9
44116230 TATTAGAGCT
44116240 TTTTTAT-A
1 TTTTTATAA
*
44116248 CTTTTATAA
1 TTTTTATAA
*
44116257 TATTTATAA
1 TTTTTATAA
*
44116266 GTTTTT-TTA
1 -TTTTTATAA
44116275 -TTTTATATA
1 TTTTTATA-A
44116284 TCTTTTATAA
1 T-TTTTATAA
*
44116294 -GTTTAT-A
1 TTTTTATAA
* *
44116301 TTTTAAAATA
1 TTTTTATA-A
44116311 TTTTTA-ATA
1 TTTTTATA-A
*
44116320 TGTTTTATTA
1 T-TTTTATAA
44116330 TTTTTATAA
1 TTTTTATAA
*
44116339 TTTATTAGAA
1 TTT-TTATAA
44116349 TTTATTATAAA
1 TTT-TTAT-AA
44116360 TTTTTATAA
1 TTTTTATAA
*
44116369 TATTTATAA
1 TTTTTATAA
*
44116378 GTTTTAT-A
1 TTTTTATAA
44116386 TTTTTATAAA
1 TTTTTAT-AA
*
44116396 TTTATATAA
1 TTTTTATAA
44116405 GTTTTTA-ATA
1 -TTTTTATA-A
**
44116415 TTTTTATGG
1 TTTTTATAA
*
44116424 TTTTTATGA
1 TTTTTATAA
44116433 TTTTTAT
1 TTTTTAT
44116440 TAGAAAATAA
Statistics
Matches: 150, Mismatches: 24, Indels: 35
0.72 0.11 0.17
Matches are distributed among these distances:
7 5 0.03
8 22 0.15
9 64 0.43
10 47 0.31
11 12 0.08
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44116748 original size:22 final size:22
Alignment explanation
Indices: 44116701--44116749 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
44116691 ATTTTGAATT
*
44116701 TAAAAAAAAGATATAATTTTAA
1 TAAAAAAAAGATATAATATTAA
*
44116723 -AAAATAAAATATATAA-ATTAA
1 TAAAA-AAAAGATATAATATTAA
44116744 TAAAAA
1 TAAAAA
44116750 GTATAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAAAAAAGATATAATATTAA
Found at i:44116865 original size:15 final size:15
Alignment explanation
Indices: 44116845--44116889 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
44116835 TTGTTTCAAA
**
44116845 ATATTTTATCTTTTT
1 ATATTTTATAATTTT
44116860 ATATTTTATAATTTT
1 ATATTTTATAATTTT
*
44116875 ATAATTTATATATTT
1 ATATTTTATA-ATTT
44116890 CTCAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTTATAATTTT
Found at i:44127693 original size:26 final size:26
Alignment explanation
Indices: 44127664--44127719 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
44127654 CGCATTATTA
44127664 TTCATTCAGCCACTAAACTCTTCGAT
1 TTCATTCAGCCACTAAACTCTTCGAT
* *
44127690 TTCATTCAGCCACTGAACTCTTTGAT
1 TTCATTCAGCCACTAAACTCTTCGAT
44127716 TTCA
1 TTCA
44127720 CACTTTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.38
Consensus pattern (26 bp):
TTCATTCAGCCACTAAACTCTTCGAT
Found at i:44132013 original size:20 final size:19
Alignment explanation
Indices: 44131986--44132027 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
44131976 CTTTCCAAAT
44131986 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
44132005 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
44132025 TTT
1 TTT
44132028 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:44134318 original size:27 final size:27
Alignment explanation
Indices: 44134288--44134394 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 27
44134278 GGCTGCTAGA
* *
44134288 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
44134315 ACAGATAATCGTGGCAGAACCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
44134342 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
44134370 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
44134395 GACACTTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
26 1 0.01
27 54 0.76
28 16 0.23
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:44134375 original size:54 final size:54
Alignment explanation
Indices: 44134285--44134394 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
44134275 CATGGCTGCT
*
44134285 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCACC
1 AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACC
* * * *
44134339 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACC
44134393 AG
1 AG
44134395 GACACTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACC
Found at i:44135844 original size:24 final size:24
Alignment explanation
Indices: 44135812--44135862 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
44135802 CTAGATTTCC
* *
44135812 TCCCTTATCTGCTTCTAAATCTTA
1 TCCCTTATCAGCTTCTAAATCCTA
44135836 TCCCTTATCAGCTTCTAAATCCTA
1 TCCCTTATCAGCTTCTAAATCCTA
44135860 TCC
1 TCC
44135863 TGACAGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.04, T:0.41
Consensus pattern (24 bp):
TCCCTTATCAGCTTCTAAATCCTA
Found at i:44143451 original size:95 final size:95
Alignment explanation
Indices: 44143009--44143452 Score: 462
Period size: 95 Copynumber: 4.7 Consensus size: 95
44142999 CTTGCTAATA
* * * ** * *
44143009 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAATAACCTTCTCTGATTTAGTTGATTC
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAATTTTCTCTGAATTAGTTGATTT
**
44143074 AACATCGTTGTTCCAAACGGCTCGTTGATT
66 AACATCACTGTTCCAAACGGCTCGTTGATT
** * * * *
44143104 TAAGATTACAACCTAAGCTCA-TCAATTTAACATCATCAACAATTTTCTCTGAGTTAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAATTTTCTCTGAATTAGTTGATTT
** * * ***
44143168 AACATTGCTGGTCCAAATGGCTTAATGATT
66 AACATCACTGTTCCAAACGGCTCGTTGATT
* * * * * *
44143198 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACATCATAAACAATCTTCTCTGAGTTAATTGATT
1 TAAGATCGCAACCTAAG-TTCATTCGATTTAACATCATGAACAATTTTCTCTGAATTAGTTGATT
* *
44143262 TAACATCACTGCTCCAAACGGCTCTTTGATT
65 TAACATCACTGTTCCAAACGGCTCGTTGATT
* * *
44143293 TAAGATCGCAACCTAAGTTCATTCGATTTAACTTCATGAACAATTTTCTCT-AAGTAAGCTGATT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAATTTTCTCTGAA-TTAGTTGATT
* * * *
44143357 TAATATCATTGTTCCAAATGGCTCGCTGATT
65 TAACATCACTGTTCCAAACGGCTCGTTGATT
* * * * * *
44143388 TAATATCGCAACCTAAGTTCATTTGATTTAACATCTTGAATAATTTTCTTTGAAATAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAATTTTCTCTGAATTAGTTGATTT
44143453 GCTATCACTA
Statistics
Matches: 289, Mismatches: 55, Indels: 10
0.82 0.16 0.03
Matches are distributed among these distances:
94 78 0.27
95 209 0.72
96 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (95 bp):
TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAATTTTCTCTGAATTAGTTGATTT
AACATCACTGTTCCAAACGGCTCGTTGATT
Found at i:44143452 original size:190 final size:189
Alignment explanation
Indices: 44143009--44143452 Score: 530
Period size: 190 Copynumber: 2.3 Consensus size: 189
44142999 CTTGCTAATA
* ** * * *
44143009 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAATAACCTTCTCTGATTTAGTTGATTC
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATGAATAATCTTCTCTGAATTAGTTGATTT
** * *
44143074 AACATCGTTGTTCCAAACGGCTCGTTGATTTAAGATTACAACCTAAGCTCATCAATTTAACATCA
66 AACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATCA
* * * ** *
44143139 TCAACAATTTTCTCTGAGTTAGTTGATTTAACATTGCTGGTCCAAATGGCTTAATGATT
131 TCAACAATTTTCTCTAAGTAAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* * * * *
44143198 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACATCATAAACAATCTTCTCTGAGTTAATTGATT
1 TAAGATCGCAACCTAAG-TTCATTTGATTTAACATCATGAATAATCTTCTCTGAATTAGTTGATT
* * * * *
44143262 TAACATCACTGCTCCAAACGGCTCTTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAACTT
65 TAACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCA-TCAATTTAACAT
* * * * **
44143327 CATGAACAATTTTCTCTAAGTAAGCTGATTTAATATCATTGTTCCAAATGGCTCGCTGATT
129 CATCAACAATTTTCTCTAAGTAAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* * * * *
44143388 TAATATCGCAACCTAAGTTCATTTGATTTAACATCTTGAATAATTTTCTTTGAAATAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATGAATAATCTTCTCTGAATTAGTTGATTT
44143453 GCTATCACTA
Statistics
Matches: 211, Mismatches: 41, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
189 98 0.46
190 113 0.54
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (189 bp):
TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATGAATAATCTTCTCTGAATTAGTTGATTT
AACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATCA
TCAACAATTTTCTCTAAGTAAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
Found at i:44150014 original size:14 final size:14
Alignment explanation
Indices: 44149995--44150032 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44149985 CCAGAAAAGT
44149995 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
44150009 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
44150023 AAAACATTTT
1 AAATCATTTT
44150033 ACTGCCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:44154197 original size:23 final size:23
Alignment explanation
Indices: 44154154--44154197 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
44154144 ATATCCCCTC
*
44154154 ATGGTGTGTAGGGCTGGATGGAG
1 ATGGTGTGTAGGGCTGAATGGAG
44154177 ATGGTGTGTAGAGGCT-AATGG
1 ATGGTGTGTAG-GGCTGAATGG
44154198 GTAGGACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.20, C:0.05, G:0.48, T:0.27
Consensus pattern (23 bp):
ATGGTGTGTAGGGCTGAATGGAG
Found at i:44160951 original size:31 final size:31
Alignment explanation
Indices: 44160916--44160996 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
44160906 GGCCGTGAGG
* * *
44160916 GCCACAGGGGCGTATGAGCCCACACGAGCAA
1 GCCACATGGGCGTGTGAGCCCACACAAGCAA
* * * *
44160947 GCCACATGGGCATGTGGGCCCACCCAAGCAG
1 GCCACATGGGCGTGTGAGCCCACACAAGCAA
44160978 GCCACATGGGCGTGTGAGC
1 GCCACATGGGCGTGTGAGC
44160997 TCATTTTTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.23, C:0.32, G:0.35, T:0.10
Consensus pattern (31 bp):
GCCACATGGGCGTGTGAGCCCACACAAGCAA
Found at i:44162059 original size:55 final size:55
Alignment explanation
Indices: 44161948--44162073 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
44161938 CCCTTAGCCT
* ** *
44161948 GTGTGCAACACTGACTTTAAAACACGGCCATGGCACACGCCTGTGTGTCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCATGTGTCCTACCC
* *
44162003 GTGTACAACACTGA-TTTAAAGACATGGCCGTGGCACACGCCCATGTCG-CCTACCC
1 GTGTACAACACTGACTTTAAA-ACACGGCCATGGCACACGCCCATGT-GTCCTACCC
* *
44162058 GTGTACAGCAATGACT
1 GTGTACAACACTGACT
44162074 CAAAAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
54 6 0.10
55 52 0.87
56 2 0.03
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCATGTGTCCTACCC
Found at i:44163414 original size:21 final size:21
Alignment explanation
Indices: 44163363--44163405 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
44163353 AGCTTAATAG
44163363 TAAGTGATTCCGAGCTCCGTT
1 TAAGTGATTCCGAGCTCCGTT
*
44163384 TAAGTGATTCCGAGTTCCGTT
1 TAAGTGATTCCGAGCTCCGTT
44163405 T
1 T
44163406 TTAATATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (21 bp):
TAAGTGATTCCGAGCTCCGTT
Found at i:44164266 original size:51 final size:49
Alignment explanation
Indices: 44164136--44164330 Score: 264
Period size: 49 Copynumber: 3.9 Consensus size: 49
44164126 TCTATTGTGA
* * * *
44164136 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
44164185 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * *
44164235 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
44164285 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
44164331 GCTTTGGCTA
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 82 0.65
50 4 0.03
51 41 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:44164313 original size:100 final size:100
Alignment explanation
Indices: 44164138--44164330 Score: 350
Period size: 100 Copynumber: 1.9 Consensus size: 100
44164128 TATTGTGAGG
* *
44164138 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
44164203 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
44164238 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
44164303 AAGTGTAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
44164331 GCTTTGGCTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 89 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:44170638 original size:40 final size:40
Alignment explanation
Indices: 44170601--44170826 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
44170591 GCTACTCGTT
* *
44170601 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
44170641 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
44170681 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
44170721 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
44170761 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44170802 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44170827 CATCATTCAA
Statistics
Matches: 171, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44177347 original size:40 final size:40
Alignment explanation
Indices: 44177294--44177542 Score: 292
Period size: 40 Copynumber: 6.2 Consensus size: 40
44177284 CCTTCAGAAT
**
44177294 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* * *
44177333 ATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
44177373 TTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
44177413 TTAACCCGGATATAGTAACTCGCACAAATGCCTTC-GGATC
1 TTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-C
** * *
44177453 TTAGTCCGGATTTAGTAACTCGCATAAATGCCTTC-GGATC
1 TTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-C
* * * *
44177493 TTAATCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGAC
1 TTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGAC
*
44177533 TTAGCCCGGA
1 TTAACCCGGA
44177543 CATCATTCAA
Statistics
Matches: 183, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 6 0.03
40 167 0.91
41 10 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:44178754 original size:44 final size:44
Alignment explanation
Indices: 44178704--44178952 Score: 164
Period size: 47 Copynumber: 5.5 Consensus size: 44
44178694 GGTGTTACAT
* * *
44178704 GATGCATGTCCTATACATGTTTTACACTAGCACAACTCTTA-GTC
1 GATGCATGTCCCATACATGTCTTACACTAGCAC-ACTCTTACGCC
* * * * *
44178748 GATGCATGTCCCAGT-CACGTCTTACACTGGCTATCATTGTTGAGGCC
1 GATGCATGTCCCA-TACATGTCTTACACTAGC-A-CACTCTT-ACGCC
* * * *
44178795 AATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTCTACGCC
1 GATGCATGTCCCATACATGTCTTACACTAGCACAC-TCT-TACGCC
* * * * * * * *
44178841 GATGTCATGTCCCAAAAATGGTCTTACACTGGCTCTCATAATGT-GGCT
1 GATG-CATGTCCCATACAT-GTCTTACACTAGCACAC-T-CT-TACGCC
44178889 GATGCATGTCCCATACATGTCTTACACTAGCACAACTCTTA-GCC
1 GATGCATGTCCCATACATGTCTTACACTAGCAC-ACTCTTACGCC
*
44178933 GATGCATGTCCCAGACATGT
1 GATGCATGTCCCATACATGT
44178953 TTTGCACTGG
Statistics
Matches: 158, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
44 47 0.30
45 8 0.05
46 26 0.16
47 52 0.33
48 23 0.15
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (44 bp):
GATGCATGTCCCATACATGTCTTACACTAGCACACTCTTACGCC
Found at i:44178986 original size:90 final size:90
Alignment explanation
Indices: 44178703--44178999 Score: 362
Period size: 94 Copynumber: 3.2 Consensus size: 90
44178693 GGGTGTTACA
* * * * * *
44178703 TGATGCATGTCCTATACATGTTTTACACTAGCACAACTCTTAGTCGATGCATGTCCCAGTCACGT
1 TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
** *
44178768 CTTACACTGGCTATCATTGTTGAGGC
66 CTTACACTGGCTATCA-TAATGTGGC
** * * * *
44178794 CAATGCATGTCCTAGACATGTCTTACACTAGCAC-TCATCTCTACGCCGATGTCATGTCCCAAAA
1 TGATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TCT-TA-GCCGATG-CATGTCCCAGAC
*
44178858 ATGGTCTTACACTGGCTCTCATAATGTGGC
62 AT-GTCTTACACTGGCTATCATAATGTGGC
*
44178888 TGATGCATGTCCCATACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
1 TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
* *
44178953 TTTGCACTGGCTATCATAATGTGGC
66 CTTACACTGGCTATCATAATGTGGC
44178978 TGATGCATGTCCCAGACATGTC
1 TGATGCATGTCCCAGACATGTC
44179000 CAAAATGTCT
Statistics
Matches: 175, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
90 46 0.26
91 45 0.26
92 9 0.05
93 8 0.05
94 49 0.28
95 18 0.10
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (90 bp):
TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
CTTACACTGGCTATCATAATGTGGC
Found at i:44180309 original size:18 final size:19
Alignment explanation
Indices: 44180271--44180309 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
44180261 AATCAAAATG
* *
44180271 ACGGTTTTCTTAAATATGA
1 ACGGTTTTCTTAAAGACGA
44180290 ACGGTTTTC-TAAAGACGA
1 ACGGTTTTCTTAAAGACGA
44180308 AC
1 AC
44180310 TTTATCAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (19 bp):
ACGGTTTTCTTAAAGACGA
Found at i:44182575 original size:6 final size:6
Alignment explanation
Indices: 44182564--44182588 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44182554 CATATATCTT
44182564 AATCAA AATCAA AATCAA AATCAA A
1 AATCAA AATCAA AATCAA AATCAA A
44182589 CCAATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AATCAA
Found at i:44186126 original size:34 final size:35
Alignment explanation
Indices: 44186043--44186145 Score: 104
Period size: 34 Copynumber: 3.0 Consensus size: 35
44186033 TCACTAAATT
*
44186043 ATTCGTCGGTTTAT-TCGACTAGTGCTAGGCGCAAC
1 ATTCGTCAGTTTATCT-GACTAGTGCTAGGCGCAAC
* * *
44186078 CTTCATCAGTTTATCTGACTAGTG-TTGG-GCACAC
1 ATTCGTCAGTTTATCTGACTAGTGCTAGGCGCA-AC
* * *
44186112 ATTCGTCAGTTTATCCGACTAGCGCTGGGCGCAA
1 ATTCGTCAGTTTATCTGACTAGTGCTAGGCGCAA
44186146 ATATTGTTGG
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
33 3 0.05
34 25 0.45
35 23 0.42
36 4 0.07
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (35 bp):
ATTCGTCAGTTTATCTGACTAGTGCTAGGCGCAAC
Found at i:44186176 original size:69 final size:71
Alignment explanation
Indices: 44186000--44186209 Score: 174
Period size: 69 Copynumber: 2.9 Consensus size: 71
44185990 TGTTGGACGT
* * *
44186000 AAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAAATTATTCGTCGGTTTATTCGACTAG
1 AAATATCGTTGGTTTATCCAACTAGAGCTGGG--CAC--AATCATTCGTCAGTTTATCCGACTAG
*
44186065 TGCTAGGCGC
62 CGCTAGGCGC
* * ** ** * *
44186075 AACCT-TCATCAGTTTATCTGACTAGTGTTGGGCAC-A-CATTCGTCAGTTTATCCGACTAGCGC
1 AA-ATATCGTTGGTTTATCCAACTAGAGCTGGGCACAATCATTCGTCAGTTTATCCGACTAGCGC
*
44186137 TGGGCGC
65 TAGGCGC
* * * *
44186144 AAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGCCAGTTTATCTGACTAGC
1 AAATATCGTTGGTTTATCCAACTAGAGCTGGG--CAC-AATCATTCGTCAGTTTATCCGACTAGC
44186209 G
63 G
44186210 TTGGGAACAA
Statistics
Matches: 103, Mismatches: 25, Indels: 15
0.72 0.17 0.10
Matches are distributed among these distances:
68 1 0.01
69 49 0.48
70 1 0.01
71 3 0.03
73 4 0.04
74 22 0.21
75 22 0.21
76 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (71 bp):
AAATATCGTTGGTTTATCCAACTAGAGCTGGGCACAATCATTCGTCAGTTTATCCGACTAGCGCT
AGGCGC
Found at i:44187800 original size:15 final size:16
Alignment explanation
Indices: 44187754--44187807 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
44187744 TAAAAATATT
*
44187754 TATATTAATTTAATTTCA
1 TATATTAA--TAATTTTA
44187772 TAT-TTAATAATTTTA
1 TATATTAATAATTTTA
*
44187787 TATATTAA-AATTTTT
1 TATATTAATAATTTTA
44187802 TATATT
1 TATATT
44187808 GTCATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 22 0.67
16 4 0.12
17 4 0.12
18 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTAATAATTTTA
Found at i:44188216 original size:8 final size:8
Alignment explanation
Indices: 44188203--44188242 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
44188193 GTAATACATA
44188203 TTTTTTCT
1 TTTTTTCT
44188211 TTTTTTCT
1 TTTTTTCT
*
44188219 TTTTTCCT
1 TTTTTTCT
*
44188227 TTCTTCTCT
1 TT-TTTTCT
44188236 TTTTTTC
1 TTTTTTC
44188243 CCCCTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCT
Found at i:44188277 original size:15 final size:17
Alignment explanation
Indices: 44188203--44188282 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 17
44188193 GTAATACATA
44188203 TTTT-TTCTTT-TTTTC
1 TTTTATTCTTTCTTTTC
*
44188218 TTTT-TTCCTTTCTTCTC
1 TTTTATT-CTTTCTTTTC
* ***
44188235 TTTTTTTCCCCCTTTT-
1 TTTTATTCTTTCTTTTC
44188251 TTTTATTCTTTCTTTTC
1 TTTTATTCTTTCTTTTC
44188268 TTTTA-T-TTTCTTTTC
1 TTTTATTCTTTCTTTTC
44188283 AATCTTGTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
15 15 0.29
16 17 0.33
17 18 0.35
18 2 0.04
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTCTTTCTTTTC
Found at i:44188594 original size:13 final size:14
Alignment explanation
Indices: 44188576--44188617 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
44188566 GTACAATTTT
44188576 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
44188589 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
44188604 ATTTTAAATAATAT
1 ATTTT-AATAATAT
44188618 TCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:44188602 original size:16 final size:16
Alignment explanation
Indices: 44188580--44188616 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
44188570 AATTTTATTT
44188580 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
44188597 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
44188612 TAATA
1 TAATA
44188617 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:44188701 original size:15 final size:16
Alignment explanation
Indices: 44188652--44188701 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
44188642 TTTAAATTAG
44188652 TATT-TTAATAATAAA
1 TATTATTAATAATAAA
*
44188667 TATTTATTAAAATTATAAA
1 TA-TTATT--AATAATAAA
44188686 TA-TATTAATAATAAA
1 TATTATTAATAATAAA
44188701 T
1 T
44188702 GTTTTGTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 11 0.38
16 2 0.07
17 6 0.21
19 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATTAATAATAAA
Found at i:44188983 original size:27 final size:26
Alignment explanation
Indices: 44188943--44188997 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
44188933 TGAATTTAAC
44188943 AAAATATGACATATTATAATCTAATATA
1 AAAATATGACATATTATAAT-T-ATATA
*
44188971 AAAATATGA-ATATTTTAATTATATA
1 AAAATATGACATATTATAATTATATA
44188996 AA
1 AA
44188998 TATGAGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 1 0.04
27 9 0.35
28 9 0.35
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
AAAATATGACATATTATAATTATATA
Found at i:44195731 original size:27 final size:27
Alignment explanation
Indices: 44195701--44195851 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
44195691 ATATTGAGTC
* * *
44195701 CGCACACTCAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44195728 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44195756 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
44195783 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAGTCAAAT
*
44195810 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44195837 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44195852 GTACAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.04
27 75 0.71
28 23 0.22
29 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44199599 original size:36 final size:36
Alignment explanation
Indices: 44199557--44199638 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
44199547 TTTATCAATA
* * *
44199557 TCATTCAGTAACAATTAATTATTCAGTAGCAATCAG
1 TCATTCAGTAACAATCAATCATTCAGTAACAATCAG
* *
44199593 TTATTCAGTAATAATCAATCATTCAGTAACAATCAG
1 TCATTCAGTAACAATCAATCATTCAGTAACAATCAG
*
44199629 TCATTTAGTA
1 TCATTCAGTA
44199639 GCTTTATTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (36 bp):
TCATTCAGTAACAATCAATCATTCAGTAACAATCAG
Found at i:44199632 original size:18 final size:18
Alignment explanation
Indices: 44199556--44199638 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
44199546 ATTTATCAAT
*
44199556 ATCATTCAGTAACAATTA
1 ATCATTCAGTAACAATCA
* *
44199574 ATTATTCAGTAGCAATCA
1 ATCATTCAGTAACAATCA
* * *
44199592 GTTATTCAGTAATAATCA
1 ATCATTCAGTAACAATCA
44199610 ATCATTCAGTAACAATCA
1 ATCATTCAGTAACAATCA
* *
44199628 GTCATTTAGTA
1 ATCATTCAGTA
44199639 GCTTTATTCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (18 bp):
ATCATTCAGTAACAATCA
Found at i:44199839 original size:44 final size:44
Alignment explanation
Indices: 44199782--44199882 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
44199772 CAGATTAAAC
* * *
44199782 CGAAGTC-ACAGTAACAGTATGACACACATGGTGGCTCATCGACT
1 CGAAGTCGA-AGTAACAGTACGACACACATAGTGCCTCATCGACT
* **
44199826 CGAAGTCGAAGTAATAGTACGACACTTATAGTGCCTCATCGACT
1 CGAAGTCGAAGTAACAGTACGACACACATAGTGCCTCATCGACT
*
44199870 -AAAGGTCGAAGTA
1 CGAA-GTCGAAGTA
44199883 TCCCTGAACA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.04
44 45 0.94
45 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (44 bp):
CGAAGTCGAAGTAACAGTACGACACACATAGTGCCTCATCGACT
Found at i:44200586 original size:12 final size:11
Alignment explanation
Indices: 44200546--44200586 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
44200536 TTAATATTTA
44200546 AATTTCTTATTC
1 AATTTC-TATTC
44200558 AATTTCTATTC
1 AATTTCTATTC
*
44200569 AATTTCTACTTT
1 AATTTCTA-TTC
44200581 AATTTC
1 AATTTC
44200587 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:44201254 original size:19 final size:18
Alignment explanation
Indices: 44201230--44201266 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
44201220 TTATTTATTT
44201230 TATTTAATTAATATAATAA
1 TATTTAATTAA-ATAATAA
*
44201249 TATTTACTTAAATAATAA
1 TATTTAATTAAATAATAA
44201267 GTAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTTAATTAAATAATAA
Found at i:44202375 original size:16 final size:17
Alignment explanation
Indices: 44202354--44202391 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
44202344 TTCTATAGGG
*
44202354 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
44202370 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
44202388 ATTT
1 ATTT
44202392 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:44206276 original size:25 final size:25
Alignment explanation
Indices: 44206242--44206294 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
44206232 TGGCCTCCAA
44206242 GTTTGAGAGAATTTCTTTAAACACT
1 GTTTGAGAGAATTTCTTTAAACACT
44206267 GTTTGAGAGAATTTCTTTAAACACT
1 GTTTGAGAGAATTTCTTTAAACACT
44206292 GTT
1 GTT
44206295 AAGTGTTCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (25 bp):
GTTTGAGAGAATTTCTTTAAACACT
Found at i:44206952 original size:5 final size:5
Alignment explanation
Indices: 44206942--44206981 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
44206932 AACCTTATTC
44206942 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
44206982 GAAGTGTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:44213322 original size:25 final size:25
Alignment explanation
Indices: 44213275--44213329 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
44213265 GGATGAGAAA
* *
44213275 GAAAAAACTAAGTTAGGGGTTTGAG
1 GAAAAAACTAAATTAGGGATTTGAG
* *
44213300 GAAAAAACTAAATTAGGTATTTGGG
1 GAAAAAACTAAATTAGGGATTTGAG
44213325 GAAAA
1 GAAAA
44213330 TGATTTGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.24
Consensus pattern (25 bp):
GAAAAAACTAAATTAGGGATTTGAG
Found at i:44213532 original size:40 final size:43
Alignment explanation
Indices: 44213445--44213535 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 43
44213435 CCCTTAGTGA
*
44213445 CATTTATGACAAAAATGTCGCTATCGCTTTTAACCTTTTATGG
1 CATTTATGACAAAAACGTCGCTATCGCTTTTAACCTTTTATGG
* *
44213488 CATTTATG-CAAAAACGTCGCTATTC-C-TTT-ACCTTTTGTTG
1 CATTTATGACAAAAACGTCGCTA-TCGCTTTTAACCTTTTATGG
44213528 CATTTATG
1 CATTTATG
44213536 GGAAAACTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
40 17 0.39
41 3 0.07
42 14 0.32
43 10 0.23
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (43 bp):
CATTTATGACAAAAACGTCGCTATCGCTTTTAACCTTTTATGG
Found at i:44219177 original size:16 final size:16
Alignment explanation
Indices: 44219156--44219187 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44219146 ATATTAGTAG
44219156 ATAATTCAAACATGTT
1 ATAATTCAAACATGTT
44219172 ATAATTCAAACATGTT
1 ATAATTCAAACATGTT
44219188 CTTAGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ATAATTCAAACATGTT
Found at i:44222515 original size:48 final size:48
Alignment explanation
Indices: 44222439--44222612 Score: 258
Period size: 48 Copynumber: 3.6 Consensus size: 48
44222429 CGTACTAAAA
* ** *
44222439 GTGCTTGTGTAAGACCATAACTGGGACATGGCATCGGTGATGATATAT
1 GTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATAT
* *
44222487 GTGCTAGTGTAAGACCATGTCTGAGACATGGTATCGGTGATGATATGT
1 GTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATAT
* * *
44222535 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATAT
1 GTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATAT
*
44222583 GTGCTAGTGTAAGACCATGTCTAAGACATG
1 GTGCTAGTGTAAGACCATGTCTGAGACATG
44222613 TGTGCCAGTG
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATAT
Found at i:44222617 original size:31 final size:31
Alignment explanation
Indices: 44222582--44222644 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
44222572 CGATGATATA
*
44222582 TGTGCTAGTGTAAGACCATGTCTAAGACATG
1 TGTGCCAGTGTAAGACCATGTCTAAGACATG
**
44222613 TGTGCCAGTGTAAGACCATGTCTGGGACATG
1 TGTGCCAGTGTAAGACCATGTCTAAGACATG
44222644 T
1 T
44222645 CATTGGTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (31 bp):
TGTGCCAGTGTAAGACCATGTCTAAGACATG
Found at i:44238488 original size:7 final size:7
Alignment explanation
Indices: 44238476--44238500 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44238466 CCCTCAATAT
44238476 TAACCCA
1 TAACCCA
44238483 TAACCCA
1 TAACCCA
44238490 TAACCCA
1 TAACCCA
44238497 TAAC
1 TAAC
44238501 TCTTAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:44239095 original size:610 final size:609
Alignment explanation
Indices: 44237918--44239100 Score: 2231
Period size: 610 Copynumber: 1.9 Consensus size: 609
44237908 CATTGAGGGT
44237918 AATGTACATCTTAAGTGTGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTGTCTTATT
1 AATGTACATCTTAAGTGTGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTGTCTTATT
44237983 CTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGTAT
66 CTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGTAT
*
44238048 TGAATTAAAACATAGGCATTTATGCATTGATTGTTTAAACTTTAGGACATTAGGGAATCAAGCAT
131 TGAATTAAAACATAGGCATTTATGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGCAT
44238113 GATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATCTT
196 GATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATCTT
* * * *
44238178 GAGTTGAAATTCATAAGTTTAAACATCAAAAAGCCATAATTTTTTGTAAGATCTTGAGCTTTTAG
261 GAGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTAAGCCTTTAG
*
44238243 AGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTCTA
326 AGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGAGTCAGTATTGATTTGTTATTCTA
*
44238308 GAACTTGCTTGATTATGCATGTCAATACCACACCATTTGATTTGATATGTTAAGATGATAAAGGC
391 GAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAGGC
* *
44238373 ACTTAGGTTTAACCCACTCACTCTACAAAAGCTTACCTTCATAATTAACCCTTAGGGATCCCCTT
456 ACTTAGGTTTAACCCACTCACTCAAAAAAAGCTTACCTTCATAATTAACCCTTAGGGATCCCCTT
*
44238438 TGTGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAACTC
521 TGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAACTC
44238503 TTAGTGATCCCCTATGCGCCTAAC
586 TTAGTGATCCCCTATGCGCCTAAC
*
44238527 AATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTGTCTTAT
1 AATGTACATCTTAAGTGT-GGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTGTCTTAT
*
44238592 TCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGTC
65 TCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGTA
44238657 TTGAATTAAAACATAGGCATTTATGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGCA
130 TTGAATTAAAACATAGGCATTTATGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGCA
*
44238722 TGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAGGTTTAGGTATTATCT
195 TGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATCT
44238787 TGAGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTAAGCCTTTA
260 TGAGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTAAGCCTTTA
44238852 GAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGAGTCAGTATTGATTTGTTATTCT
325 GAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGAGTCAGTATTGATTTGTTATTCT
44238917 AGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAGG
390 AGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAGG
*
44238982 CACTTAGGTTTAACCCACTCACTCAAAAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCCT
455 CACTTAGGTTTAACCCACTCACTCAAAAAAAGCTTACCTTCATAATTAACCCTTAGGGATCCCCT
44239047 TTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCAT
520 TTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCAT
44239101 TATTGTTGAA
Statistics
Matches: 559, Mismatches: 14, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
609 17 0.03
610 542 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (609 bp):
AATGTACATCTTAAGTGTGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTGTCTTATT
CTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGTAT
TGAATTAAAACATAGGCATTTATGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGCAT
GATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATCTT
GAGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTAAGCCTTTAG
AGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGAGTCAGTATTGATTTGTTATTCTA
GAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAGGC
ACTTAGGTTTAACCCACTCACTCAAAAAAAGCTTACCTTCATAATTAACCCTTAGGGATCCCCTT
TGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAACTC
TTAGTGATCCCCTATGCGCCTAAC
Found at i:44246233 original size:32 final size:32
Alignment explanation
Indices: 44246193--44246282 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
44246183 ATGGTACAAT
44246193 TTGAAAAGGTTATGTACACTTTGTGTGCACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGCACAC
*
44246225 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGCACAC
* * *
44246257 TTGGAAAGGTTAGGTATACTTTGTGT
1 TTGAAAAGGTTATGTACACTTTGTGT
44246283 ATACCATATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (32 bp):
TTGAAAAGGTTATGTACACTTTGTGTGCACAC
Found at i:44252634 original size:32 final size:32
Alignment explanation
Indices: 44252594--44252752 Score: 212
Period size: 32 Copynumber: 4.9 Consensus size: 32
44252584 ATGGTACAAT
44252594 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
44252626 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
*
44252658 TTAAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
* * * *
44252690 TTGGAAAGGTTAGGTATACTTTGTGTATAC-C
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
** * *
44252721 ATATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 -T-TGAAAAGGTTATGTACACTTTGTGTGTAC
44252753 CACTCAGAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
31 1 0.01
32 89 0.77
33 25 0.22
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (32 bp):
TTGAAAAGGTTATGTACACTTTGTGTGTACAC
Found at i:44258743 original size:93 final size:93
Alignment explanation
Indices: 44258584--44258754 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
44258574 GGATGGTTGA
* * * *
44258584 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGAGT
44258649 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
44258677 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGAGT
44258742 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44258755 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44258757 original size:46 final size:46
Alignment explanation
Indices: 44258588--44258759 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
44258578 GGTTGAGCAT
* * * *
44258588 CCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
44258634 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
44258679 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
44258727 CCGAGCTCCTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44258760 GGGGCTGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.55
47 28 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:44261588 original size:48 final size:48
Alignment explanation
Indices: 44261528--44261851 Score: 364
Period size: 48 Copynumber: 6.8 Consensus size: 48
44261518 ACCGTACTAA
* * *
44261528 ATGTGCCTATGTAAGACAATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * **
44261576 ATGTGCCAATGTAAGACTATGTCTAGGACATGTCATCAACGATGATAT
1 ATGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * **
44261624 ATTTGCTAATGTAAGACCATGTCTGGGACATGGCATCGGTAATGATAT
1 ATGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
44261672 ATGTGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCAATGATAT
1 ATGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
44261720 ATGTGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACGATGGTAT
1 ATGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * * * *
44261768 GTGTGCCAGTGTAAGACCATGTCCGGGACATGACATCGGTGATGAGAT
1 ATGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
44261816 GTG-GATTC-ATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTG--CCAATGTAAGACCATGTCTGGGACATGGCAT
44261852 TAGTACTTAT
Statistics
Matches: 238, Mismatches: 36, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
47 1 0.00
48 236 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
ATGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Done.