Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 221 of 427
Found at i:62448729 original size:30 final size:30
Alignment explanation
Indices: 62448695--62448755 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62448685 TCCTTAACTC
62448695 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
62448725 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
62448755 A
1 A
62448756 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:62456665 original size:18 final size:18
Alignment explanation
Indices: 62456615--62456665 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
62456605 TGGGCCACGT
*
62456615 TGGGCCAAAATGGGTCGTG
1 TGGGCCAACATGGGTCG-G
*
62456634 TGGGCCCACA-GGGTC-G
1 TGGGCCAACATGGGTCGG
62456650 TGGGCCATACATGGGT
1 TGGGCCA-ACATGGGT
62456666 AAACCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.26
17 3 0.11
18 9 0.33
19 8 0.30
ACGTcount: A:0.18, C:0.22, G:0.41, T:0.20
Consensus pattern (18 bp):
TGGGCCAACATGGGTCGG
Found at i:62457270 original size:34 final size:34
Alignment explanation
Indices: 62457197--62457273 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
62457187 TAATTACATT
* * *
62457197 ACTGTTACTATTACTGTATTGGGCTAAGGCCCAC
1 ACTGATACTAATACTGTAGTGGGCTAAGGCCCAC
* * *
62457231 GCTGATACTAATACTGTAGTGGGCTATGTCCCTA-
1 ACTGATACTAATACTGTAGTGGGCTAAGGCCC-AC
62457265 ACTGATACT
1 ACTGATACT
62457274 GGACTATCAG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (34 bp):
ACTGATACTAATACTGTAGTGGGCTAAGGCCCAC
Found at i:62470642 original size:24 final size:24
Alignment explanation
Indices: 62470610--62470667 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
62470600 GAAATAAATG
62470610 ATGG-ATGCGTATTGAGTTACAAT
1 ATGGAATGCGTATTGAGTTACAAT
62470633 ATGGAATGCGTATTGAGTTACAAT
1 ATGGAATGCGTATTGAGTTACAAT
*
62470657 GTGGAATGCGT
1 ATGGAATGCGT
62470668 TAGTTAGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.33
Consensus pattern (24 bp):
ATGGAATGCGTATTGAGTTACAAT
Found at i:62471477 original size:40 final size:40
Alignment explanation
Indices: 62471422--62471598 Score: 212
Period size: 40 Copynumber: 4.5 Consensus size: 40
62471412 TGAATGATAC
62471422 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
62471462 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * ** *
62471502 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * *
62471542 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* *
62471582 CC-GGCTAAATTCCGAAG
1 CCGGGCTAAGTCCCGAAG
62471599 AGACTCGGTT
Statistics
Matches: 117, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 11 0.09
40 106 0.91
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:62478529 original size:13 final size:13
Alignment explanation
Indices: 62478513--62478538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62478503 TTGATTCCAA
62478513 AAGTGCTATGTTT
1 AAGTGCTATGTTT
62478526 AAGTGCTATGTTT
1 AAGTGCTATGTTT
62478539 TATGCTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AAGTGCTATGTTT
Found at i:62488906 original size:25 final size:24
Alignment explanation
Indices: 62488835--62488920 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 24
62488825 AATCAAAATG
*
62488835 AGAATCAGAATCAGATTCAAGTGAC
1 AGAATCAGAATCAGA-TCAGGTGAC
* *
62488860 AAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAG-ATCAGGTGAC
*
62488885 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAG-ATCAGGTGAC
*
62488910 AGAATTAGAAT
1 AGAATCAGAAT
62488921 TAGAATGTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 51 0.98
26 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGATCAGGTGAC
Found at i:62489073 original size:26 final size:25
Alignment explanation
Indices: 62489044--62489155 Score: 80
Period size: 28 Copynumber: 4.2 Consensus size: 25
62489034 AGCATGGCTG
* **
62489044 CCAGAACAGATATTGTGATAGATTCA
1 CCAGAACAGATATTGTG-GAGAGCCA
* *
62489070 CCAGATACAAATATTGTGGCGAGCCA
1 CCAGA-ACAGATATTGTGGAGAGCCA
**
62489096 CCAGAACAGATATTTGTGGCCTAGCCA
1 CCAGAACAGATA-TTGTGG-AGAGCCA
* *
62489123 CTAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGG-AGAGCCA
62489151 CCAGA
1 CCAGA
62489156 GCATTTCCTC
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.08
26 20 0.28
27 21 0.29
28 25 0.35
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (25 bp):
CCAGAACAGATATTGTGGAGAGCCA
Found at i:62489128 original size:27 final size:28
Alignment explanation
Indices: 62489068--62489155 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
62489058 GTGATAGATT
* * *
62489068 CACCAGATACAAATA-TTGTGG-CGAGC
1 CACCAGAAACAGATATTTGTGGCCTAGC
62489094 CACCAG-AACAGATATTTGTGGCCTAGC
1 CACCAGAAACAGATATTTGTGGCCTAGC
* *
62489121 CACTAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCCTAGC
62489149 CACCAGA
1 CACCAGA
62489156 GCATTTCCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 6 0.11
26 12 0.23
27 9 0.17
28 26 0.49
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCCTAGC
Found at i:62489419 original size:27 final size:27
Alignment explanation
Indices: 62489389--62489459 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
62489379 GTATCTCGGT
62489389 AATTCTACCTTACAGGGGCATTT-CAGC
1 AATTCTACCTTACAGGGGCATTTCCA-C
* *
62489416 AATTCTACCTTACAGGGGTATTTCCAT
1 AATTCTACCTTACAGGGGCATTTCCAC
*
62489443 AATTCTACCCTACAGGG
1 AATTCTACCTTACAGGG
62489460 TATTTCAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 38 0.95
28 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (27 bp):
AATTCTACCTTACAGGGGCATTTCCAC
Found at i:62491785 original size:19 final size:20
Alignment explanation
Indices: 62491743--62491787 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
62491733 TTGGGCCTTT
62491743 CCCATATTAACACAGTTGGG
1 CCCATATTAACACAGTTGGG
* *
62491763 CCCATTTTAATACAGTT-GG
1 CCCATATTAACACAGTTGGG
62491782 CCCATA
1 CCCATA
62491788 ACAAAACAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
CCCATATTAACACAGTTGGG
Found at i:62496595 original size:40 final size:40
Alignment explanation
Indices: 62496535--62496698 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
62496525 CGGGATTCAA
* ** *
62496535 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
62496575 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
*
62496615 CCGGATATAACAACTCACACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
62496655 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
62496695 CCGG
1 CCGG
62496699 GTATCATTCA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 97 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:62498960 original size:24 final size:24
Alignment explanation
Indices: 62498927--62498985 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
62498917 TAATTCTTTA
62498927 ATTTT-TTCTTTCCTTTTGTTATT
1 ATTTTATTCTTTCCTTTTGTTATT
62498950 ATTTTATTCTTTCCTTTTGTTATT
1 ATTTTATTCTTTCCTTTTGTTATT
62498974 ATTTTATTCTTT
1 ATTTTATTCTTT
62498986 ATTCTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.73
Consensus pattern (24 bp):
ATTTTATTCTTTCCTTTTGTTATT
Found at i:62504409 original size:20 final size:20
Alignment explanation
Indices: 62504386--62504430 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
62504376 TTGGGCCTTA
62504386 CCCATATT-AACACAGTTGGG
1 CCCATATTCAACACAGTT-GG
*
62504406 CCCAT-TTCAATACAGTTGG
1 CCCATATTCAACACAGTTGG
62504425 CCCATA
1 CCCATA
62504431 ACAAAACAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (20 bp):
CCCATATTCAACACAGTTGG
Found at i:62504439 original size:19 final size:20
Alignment explanation
Indices: 62504397--62504440 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
62504387 CCATATTAAC
** *
62504397 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
62504417 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
62504436 ACAGT
1 ACAGT
62504441 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:62508435 original size:46 final size:46
Alignment explanation
Indices: 62508368--62508540 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
62508358 AACCCGCCCC
* * *
62508368 TAAGTGAACTCGGACCCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * * * * *
62508414 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
* * * *
62508460 TTTCA-CGATCTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
62508507 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62508541 TGCCCAACCA
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
45 2 0.02
46 64 0.64
47 32 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:62508501 original size:93 final size:93
Alignment explanation
Indices: 62508376--62508544 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
62508366 CCTAAGTGAA
* *
62508376 CTCGGACCCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
1 CTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
62508441 GTTCAGATGCCTAGTTACATTTCACGAT
66 GTTCAGATGCCTAGTTACATTTCACGAT
* *
62508469 CTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
1 CTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
*
62508534 GTTCGGATGCC
66 GTTCAGATGCC
62508545 CAACCATCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
GTTCAGATGCCTAGTTACATTTCACGAT
Found at i:62515970 original size:46 final size:46
Alignment explanation
Indices: 62515903--62516072 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
62515893 AACCCGCCCC
* *
62515903 TAAGTGAACTCAGACCCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
62515949 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * * *
62515997 TCA-CGATCTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
62516042 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC
62516073 AGATGCTCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 56 0.56
47 26 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:62525205 original size:48 final size:48
Alignment explanation
Indices: 62525068--62525296 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 48
62525058 CACATAGTAA
* *
62525068 GATGCCAATGCCATAT-CCACATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * *
62525115 GAAG-C--TG--ATAGCCCA-ACTATGGTCTTACACGATG-TCTCATATC
1 GATGCCAATGCCATATCCCAGA-TATGGTCTTACATG-GGATCACATATC
* *
62525158 GATGCTAATGCCATATCCCAGATATGGTCTTACATGGGATCAAATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * *
62525206 TATGCCAATGCCATGTCTCAAACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * *
62525254 AATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCAC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAC
62525297 CCATAACCCT
Statistics
Matches: 148, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
42 4 0.03
43 26 0.18
44 3 0.02
46 3 0.02
47 4 0.03
48 107 0.72
49 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:62526628 original size:27 final size:26
Alignment explanation
Indices: 62526589--62526639 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
62526579 ACATTCAACA
* * *
62526589 CCTTGGGGTATTTTGGTCATTTTCGC
1 CCTTGGGGCATTTCGGTAATTTTCGC
62526615 CCTTAGGGGCATTTCGGTAATTTTC
1 CCTT-GGGGCATTTCGGTAATTTTC
62526640 TCTTTAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.43
Consensus pattern (26 bp):
CCTTGGGGCATTTCGGTAATTTTCGC
Found at i:62526935 original size:28 final size:29
Alignment explanation
Indices: 62526903--62526979 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
62526893 TACCTACATG
62526903 CATATGGCCCACTTAGCCCCATCTCAT-TT
1 CATATGGCCCACTTAGCCCCAT-TCATATT
* *
62526932 -ATATAGCCCAC-TAGGCCCAATTCATATT
1 CATATGGCCCACTTA-GCCCCATTCATATT
*
62526960 CATATGGCCCA-TTAGGCCCA
1 CATATGGCCCACTTAGCCCCA
62526980 AATCACCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 6 0.15
28 22 0.56
29 11 0.28
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (29 bp):
CATATGGCCCACTTAGCCCCATTCATATT
Found at i:62526975 original size:29 final size:29
Alignment explanation
Indices: 62526903--62526980 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
62526893 TACCTACATG
*
62526903 CATATGGCCCACTTA-GCCCCATCTCATTT
1 CATATGGCCCA-TTAGGCCCAATCTCATTT
* *
62526932 -ATATAGCCCACTAGGCCCAAT-TCATATT
1 CATATGGCCCATTAGGCCCAATCTCAT-TT
62526960 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCATTAGGCCCAA
62526981 ATCACCTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
27 6 0.15
28 17 0.41
29 18 0.44
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATCTCATTT
Found at i:62531477 original size:29 final size:29
Alignment explanation
Indices: 62531440--62531517 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
62531430 AATCTCATCT
62531440 ATATGGCCCATCAGGCCCAATTCATATTC
1 ATATGGCCCATCAGGCCCAATTCATATTC
*
62531469 ATATGGCCCATCAAGCCCAATTCATATTC
1 ATATGGCCCATCAGGCCCAATTCATATTC
*
62531498 ATATGGCCCATTAGGCCCAA
1 ATATGGCCCATCAGGCCCAA
62531518 ATTACCTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAATTCATATTC
Found at i:62532497 original size:22 final size:23
Alignment explanation
Indices: 62532448--62532497 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
62532438 AGAGTAAAAC
**
62532448 AAAAGGGTTTTTGGCTTTTAGGG
1 AAAAGGGTTTACGGCTTTTAGGG
62532471 AAAAGGGTTTACGGCTTTTA-GG
1 AAAAGGGTTTACGGCTTTTAGGG
62532493 AAAAG
1 AAAAG
62532498 ATATTTGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (23 bp):
AAAAGGGTTTACGGCTTTTAGGG
Found at i:62537624 original size:48 final size:48
Alignment explanation
Indices: 62537536--62537742 Score: 215
Period size: 48 Copynumber: 4.3 Consensus size: 48
62537526 ATTATGGCTT
** * *
62537536 GAAGCCAAATCAATG-AAGCTCGCACTTGAAGCGCCAATATCATGCCCC
1 GAAGCCAAATCAATGTAA-CTCGCACCCGAAGTGCCGATATCATGCCCC
**
62537584 GACA-CCAAATCAATGTAACTCGCACCCGAAGTGTTGATATCATAG-CCC
1 GA-AGCCAAATCAATGTAACTCGCACCCGAAGTGCCGATATCAT-GCCCC
*
62537632 GAAGCCAAATCAATGTAACTCGCGCCCGAAGTGCCGATATCAT-CGCCC
1 GAAGCCAAATCAATGTAACTCGCACCCGAAGTGCCGATATCATGC-CCC
* * * * * *
62537680 GAAGCCAAATCAACGTAACTTGCACCCGAAGTGCCAATTTCATGGCTC
1 GAAGCCAAATCAATGTAACTCGCACCCGAAGTGCCGATATCATGCCCC
* *
62537728 GAAGCTAAATTAATG
1 GAAGCCAAATCAATG
62537743 AAATCCTTAA
Statistics
Matches: 133, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 128 0.96
49 4 0.03
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (48 bp):
GAAGCCAAATCAATGTAACTCGCACCCGAAGTGCCGATATCATGCCCC
Found at i:62537731 original size:96 final size:96
Alignment explanation
Indices: 62537507--62537744 Score: 259
Period size: 96 Copynumber: 2.5 Consensus size: 96
62537497 CTCAGGAGTT
* * **
62537507 TTGCACCCTAAGTGCTAATATT-ATGGCTTGAAGCCAAATCAATGAAGCTCGCACTTGAAGCGCC
1 TTGCACCCGAAGTGCTAAT-TTCATGGCTCGAAGCCAAATCAATGAAGCTCGCACCCGAAGCGCC
*
62537571 AATATCATGCCCCGACACCAAATCAATGTAAC
65 AATATCATGCCCCGACACCAAATCAACGTAAC
* * * * * * * *
62537603 TCGCACCCGAAGTGTTGATATCATAGCCCGAAGCCAAATCAATGTAA-CTCGCGCCCGAAGTGCC
1 TTGCACCCGAAGTGCTAATTTCATGGCTCGAAGCCAAATCAATG-AAGCTCGCACCCGAAGCGCC
*
62537667 GATATCAT-CGCCCGA-AGCCAAATCAACGTAAC
65 AATATCATGC-CCCGACA-CCAAATCAACGTAAC
* * *
62537699 TTGCACCCGAAGTGCCAATTTCATGGCTCGAAGCTAAATTAATGAA
1 TTGCACCCGAAGTGCTAATTTCATGGCTCGAAGCCAAATCAATGAA
62537745 ATCCTTAATA
Statistics
Matches: 115, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
95 5 0.04
96 108 0.94
97 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (96 bp):
TTGCACCCGAAGTGCTAATTTCATGGCTCGAAGCCAAATCAATGAAGCTCGCACCCGAAGCGCCA
ATATCATGCCCCGACACCAAATCAACGTAAC
Found at i:62542433 original size:116 final size:116
Alignment explanation
Indices: 62542229--62542452 Score: 421
Period size: 116 Copynumber: 1.9 Consensus size: 116
62542219 CATACAGATA
*
62542229 TACGAATGGGTTGATCCAGGATCAATCAATGGAATCACATTAATGTCGTAAAGAGAAAATGTACC
1 TACGAATGAGTTGATCCAGGATCAATCAATGGAATCACATTAATGTCGTAAAGAGAAAATGTACC
*
62542294 AGTGATAACATCTGGTGATGATGCCTCTTCGCGAGCGTGAATGAGAAAATG
66 AGTGATAACATCAGGTGATGATGCCTCTTCGCGAGCGTGAATGAGAAAATG
*
62542345 TACGAATGAGTTGATCCAGGATCAATCAATGGAATCACATTAATGTCGTAAAGAGAAAATGTACT
1 TACGAATGAGTTGATCCAGGATCAATCAATGGAATCACATTAATGTCGTAAAGAGAAAATGTACC
62542410 AGTGATAACATCAGGTGATGATGCCTCTTCGCGAGCGTGAATG
66 AGTGATAACATCAGGTGATGATGCCTCTTCGCGAGCGTGAATG
62542453 GCATAAGCTC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (116 bp):
TACGAATGAGTTGATCCAGGATCAATCAATGGAATCACATTAATGTCGTAAAGAGAAAATGTACC
AGTGATAACATCAGGTGATGATGCCTCTTCGCGAGCGTGAATGAGAAAATG
Found at i:62544598 original size:39 final size:40
Alignment explanation
Indices: 62544484--62544668 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
62544474 GCTACTCGTT
*
62544484 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
62544524 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
62544564 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
62544603 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
62544644 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62544669 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 79 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:62544652 original size:79 final size:80
Alignment explanation
Indices: 62544484--62544668 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
62544474 GCTACTCGTT
* *
62544484 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
62544548 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* **
62544565 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
62544628 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
62544644 CAAAGCCTTCAGGACTTAGCCCGGA
1 CAAAGCCTTC-GGGCTTAGCCCGGA
62544669 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.63
80 27 0.30
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:62557546 original size:27 final size:26
Alignment explanation
Indices: 62557502--62557553 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62557492 CTCGCTGCAA
*
62557502 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
62557529 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
62557554 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:62557656 original size:27 final size:26
Alignment explanation
Indices: 62557604--62557663 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
62557594 ATATATATAT
*
62557604 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
62557630 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
62557657 ATATCTG
1 ATATCTG
62557664 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:62560510 original size:40 final size:40
Alignment explanation
Indices: 62560465--62560595 Score: 158
Period size: 40 Copynumber: 3.2 Consensus size: 40
62560455 CGGAATACAA
62560465 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
62560505 CCGGATAGAATCGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
62560546 CCGGATGTAGCCTCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62560586 CCGGATATAA
1 CCGGATATAA
62560596 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 2 0.03
40 41 0.53
41 34 0.44
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62568546 original size:40 final size:40
Alignment explanation
Indices: 62568501--62568630 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62568491 CGGAATACAA
62568501 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
62568541 CCGGATAGATCGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
62568581 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62568621 CCGGATATAA
1 CCGGATATAA
62568631 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62572450 original size:48 final size:48
Alignment explanation
Indices: 62572384--62572605 Score: 203
Period size: 48 Copynumber: 4.6 Consensus size: 48
62572374 ACCCTAACTG
* *
62572384 CCAATATCATGTCCCGAAGCCAAATCAATG-AAGCTCACACCCGAAGTA
1 CCAATATCATGGCCCGAAGCCAAATCAATGTAA-CTCGCACCCGAAGTA
** * * * * * *
62572432 CCGTTATCATGGCTCGAAGCCAAATTAAAGTAACACGCACCCGTAGTG
1 CCAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAAGTA
* * * * * * * *
62572480 CCGATATCATAGCCCGAATCCAAATCAAAGTTACTCGCACTCAAAGTT
1 CCAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAAGTA
* * * * * *
62572528 CCAATATAATGACTCGAAGCCAAATCAATGTAACTCGCAGCTGAATTA
1 CCAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAAGTA
*
62572576 TCAATATCATGGCCCGAAGCCAAATCAATG
1 CCAATATCATGGCCCGAAGCCAAATCAATG
62572606 AATTCCCTAA
Statistics
Matches: 134, Mismatches: 39, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
48 132 0.99
49 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (48 bp):
CCAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAAGTA
Found at i:62574274 original size:15 final size:16
Alignment explanation
Indices: 62574245--62574274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62574235 CAAACATGCT
62574245 TTAACACATTATCAAA
1 TTAACACATTATCAAA
62574261 TTAACACA-TATCAA
1 TTAACACATTATCAA
62574275 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:62578509 original size:40 final size:40
Alignment explanation
Indices: 62578447--62578728 Score: 292
Period size: 40 Copynumber: 7.1 Consensus size: 40
62578437 CGCATGATAA
* * *
62578447 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
* * *
62578487 CCGGGCTAAGTCCCGAAGGCATTCGTGTGAGCTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
*
62578527 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
62578567 CCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
62578607 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
62578646 CCGGGCTACGT-CCGAAGGCATTTGTGC-ATGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GCTACTAT-AT
* * **
62578686 -CGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATAT
62578725 CCGG
1 CCGG
62578729 TTAAATTCTG
Statistics
Matches: 211, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.00
38 22 0.10
39 24 0.11
40 159 0.75
41 5 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:62578699 original size:118 final size:120
Alignment explanation
Indices: 62578486--62578707 Score: 317
Period size: 118 Copynumber: 1.9 Consensus size: 120
62578476 AGTGGCTAAT
*
62578486 TCCGGGCTAAGTCCCGAAGGCATTCGTGTGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTC
62578551 GTGCGAGCTACTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACTATA
66 GTGCGAGCTACTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACTATA
* * * * * *
62578606 TCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTAT-ACCGGGCTACGT-CCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTC
* *
62578669 GTGC-ATGTTACTATAAT-CGGGCTATGTCCTGAAGGCATT
66 GTGCGA-GCTACTAT-ATCCGGGCTAAGTCCTGAAGGCATT
62578708 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
117 1 0.01
118 43 0.47
119 13 0.14
120 34 0.37
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGCTACTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACTATA
Found at i:62578723 original size:118 final size:120
Alignment explanation
Indices: 62578443--62578728 Score: 334
Period size: 120 Copynumber: 2.4 Consensus size: 120
62578433 TGTTCGCATG
* * * *
62578443 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAATCGGGCTAAGTCCTGAAG-GCATTTGAGCGAGTAGCTATA-TCCGGGCTAAGTCCCGAAGG
*
62578506 CATTCGTGTGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT
64 CATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT
* *
62578563 AT-ATCCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTA-CTATATCCGGGCTAAGTCCCGAAGG
1 ATAAT-CGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGG
* * * * * * *
62578626 CGTTTGTGCGAGTTATTAT-ACCGGGCTACGT-CCGAAGGCATTTGTGC-ATGTTACT
64 CATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGA-GCTACT
* *
62578681 ATAATCGGGCTATGTCCTGAAGGCATTTGAACGAGTAGCTATATCCGG
1 ATAATCGGGCTAAGTCCTGAAGGCATTTGAGCGAGTAGCTATATCCGG
62578729 TTAAATTCTG
Statistics
Matches: 141, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
117 3 0.02
118 58 0.41
119 14 0.10
120 62 0.44
121 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (120 bp):
ATAATCGGGCTAAGTCCTGAAGGCATTTGAGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT
Found at i:62586096 original size:40 final size:40
Alignment explanation
Indices: 62585779--62586080 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
62585769 CGGATGATAA
* * *
62585779 CCGGGCTAAGTCCCG-AGAGCATTTGTGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTCGTGCGAGCT-ACTATA-T
*
62585819 CCGGGCTAAGTCCCGAAGGCATTCGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
62585859 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
*
62585899 CCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
*
62585939 CCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
* * * *
62585979 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
* * * *
62586018 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
* *
62586058 CCGGGCTATGTCCTGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
62586081 TGAACGAGTA
Statistics
Matches: 242, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 36 0.15
40 202 0.83
41 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
Found at i:62594151 original size:40 final size:39
Alignment explanation
Indices: 62594089--62594331 Score: 285
Period size: 40 Copynumber: 6.1 Consensus size: 39
62594079 CGGATGATAA
* * *
62594089 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTATA-T
*
62594129 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
62594169 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
62594209 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
62594248 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* **
62594288 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
62594328 CCGG
1 CCGG
62594332 TTAAATTCTG
Statistics
Matches: 182, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
39 38 0.21
40 140 0.77
41 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:62594345 original size:79 final size:80
Alignment explanation
Indices: 62594129--62594331 Score: 284
Period size: 79 Copynumber: 2.5 Consensus size: 80
62594119 GTGGCTAATT
*
62594129 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
62594194 TGCGAGCTACTATAT
66 TGCAAGCTACTATAA
* * * *
62594209 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
*
62594273 TGCAAGTTACTATAA
66 TGCAAGCTACTATAA
* **
62594288 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATATCCGG
62594332 TTAAATTCTG
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
78 2 0.02
79 67 0.62
80 39 0.36
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAA
Found at i:62595848 original size:22 final size:22
Alignment explanation
Indices: 62595820--62595870 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
62595810 CACCAATGTT
*
62595820 ATCAGTGACAGTATATCTACAG
1 ATCAGTGACAATATATCTACAG
* *
62595842 ATCAGTGGCAATTTATCTACAG
1 ATCAGTGACAATATATCTACAG
62595864 ATCAGTG
1 ATCAGTG
62595871 GTAGTTTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (22 bp):
ATCAGTGACAATATATCTACAG
Found at i:62595889 original size:22 final size:22
Alignment explanation
Indices: 62595833--62595881 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
62595823 AGTGACAGTA
*
62595833 TATCTACAGATCAGTGGCAATT
1 TATCTACAGATCAGTGGTAATT
*
62595855 TATCTACAGATCAGTGGTAGTT
1 TATCTACAGATCAGTGGTAATT
62595877 TATCT
1 TATCT
62595882 GCAAATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (22 bp):
TATCTACAGATCAGTGGTAATT
Found at i:62595894 original size:22 final size:22
Alignment explanation
Indices: 62595833--62595894 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
62595823 AGTGACAGTA
* * * *
62595833 TATCTACAGATCAGTGGCAATT
1 TATCTACAAATCAATGGTAGTT
* *
62595855 TATCTACAGATCAGTGGTAGTT
1 TATCTACAAATCAATGGTAGTT
*
62595877 TATCTGCAAATCAATGGT
1 TATCTACAAATCAATGGT
62595895 GGCTTGTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (22 bp):
TATCTACAAATCAATGGTAGTT
Found at i:62597653 original size:17 final size:16
Alignment explanation
Indices: 62597631--62597664 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62597621 AGGGATGGCA
62597631 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
62597648 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
62597664 T
1 T
62597665 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:62599498 original size:16 final size:16
Alignment explanation
Indices: 62599477--62599512 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
62599467 GCTTCAGTGG
62599477 TTGTACAAAATTTTTC
1 TTGTACAAAATTTTTC
62599493 TTGTACAAAATTTTTC
1 TTGTACAAAATTTTTC
62599509 TTGT
1 TTGT
62599513 TTGCTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (16 bp):
TTGTACAAAATTTTTC
Found at i:62601423 original size:22 final size:23
Alignment explanation
Indices: 62601398--62601440 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
62601388 TATCAACACA
*
62601398 TGGAGTGTAG-GGCTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
62601420 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
62601441 GTAGGACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.02, G:0.53, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:62602395 original size:40 final size:42
Alignment explanation
Indices: 62602351--62602453 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 42
62602341 ATAATAGCTT
* *
62602351 GCACAAATGCCTTCGGGA-CTTAACCCGGA-TTGGGGAACTC
1 GCACAAATGCCTTCGGAATCTTAACCCAGATTTGGGGAACTC
** *
62602391 GCACAAATGCCTTC-GAATCTTAGTCCAGATTTTGGGAACTC
1 GCACAAATGCCTTCGGAATCTTAACCCAGATTTGGGGAACTC
62602432 GCACAAATGCCTTCGG-ATCTTA
1 GCACAAATGCCTTCGGAATCTTA
62602454 GTCCGGATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
39 2 0.04
40 22 0.40
41 30 0.55
42 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (42 bp):
GCACAAATGCCTTCGGAATCTTAACCCAGATTTGGGGAACTC
Found at i:62602479 original size:41 final size:41
Alignment explanation
Indices: 62602383--62602465 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
62602373 ACCCGGATTG
*
62602383 GGGAACTCGCACAAATGCCTTCGAATCTTAGTCCAGATTTT
1 GGGAACTCGCACAAATGCCTTCGAATCTTAGTCCAGATTAT
* *
62602424 GGGAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA-TAT
1 GGGAACTCGCACAAATGCCTTCGAATCTTAGTCCAGATTAT
62602464 GG
1 GG
62602466 TCTCTCAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 4 0.10
41 35 0.90
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (41 bp):
GGGAACTCGCACAAATGCCTTCGAATCTTAGTCCAGATTAT
Found at i:62605081 original size:40 final size:40
Alignment explanation
Indices: 62605008--62605215 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
62604998 CAATTGAATG
* * ** *
62605008 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
62605048 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
62605088 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
62605128 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
62605168 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
62605208 ATATCCGG
1 ATATCCGG
62605216 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:62605146 original size:80 final size:80
Alignment explanation
Indices: 62605010--62605215 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
62605000 ATTGAATGAT
* * ** * * * *
62605010 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
62605074 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
62605090 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
62605155 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
62605170 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
62605216 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:62612875 original size:40 final size:40
Alignment explanation
Indices: 62612819--62612958 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
62612809 GGATATAGCG
* * * *
62612819 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * **
62612859 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
* ** **
62612899 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTTGGA
1 ACTCGCACAAATGCCTTCGGGA-CATAACCCGGATTTAAGA
62612939 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
62612959 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.04
40 79 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:62612959 original size:40 final size:39
Alignment explanation
Indices: 62612860--62613010 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 39
62612850 GTTATAATAG
* *
62612860 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGATTTTGGAA
*
62612900 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTTGGAA
1 CTCGCACAAATGCCTTCGGA-CTTAGCCCGGATTTTGGAA
* * *
62612940 CTCGCACAAATGCCTTCGGATCTTAGTCCGGA-TATGGTCA
1 CTCGCACAAATGCCTTCGGA-CTTAGCCCGGATTTTGG-AA
*
62612980 CTCAGCACAAA-GCCTTGGGACTTAGCCCGGA
1 CTC-GCACAAATGCCTTCGGACTTAGCCCGGA
62613011 CATCATTCGA
Statistics
Matches: 101, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
39 17 0.17
40 77 0.76
41 7 0.07
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGACTTAGCCCGGATTTTGGAA
Found at i:62617684 original size:24 final size:24
Alignment explanation
Indices: 62617657--62617712 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
62617647 TATTTCAACC
62617657 GGCGCTATCCCTTTCGCGGGAGCA
1 GGCGCTATCCCTTTCGCGGGAGCA
62617681 GGCGCTATCCCTTTCGCGGGAGCA
1 GGCGCTATCCCTTTCGCGGGAGCA
62617705 GGCGCTAT
1 GGCGCTAT
62617713 ACTCTCGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.12, C:0.32, G:0.34, T:0.21
Consensus pattern (24 bp):
GGCGCTATCCCTTTCGCGGGAGCA
Found at i:62618552 original size:40 final size:39
Alignment explanation
Indices: 62618507--62618714 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
62618497 CGGAATACAA
*
62618507 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62618547 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
62618587 CCGGATTTAACAACTTGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
62618627 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
62618667 CCAGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
62618707 CCGGATAT
1 CCGGATAT
62618715 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:62618647 original size:80 final size:80
Alignment explanation
Indices: 62618507--62618713 Score: 215
Period size: 80 Copynumber: 2.6 Consensus size: 80
62618497 CGGAATACAA
* *
62618507 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
62618571 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAGC
* * * *
62618587 CCGGATTTAACAACTTGCACGAATGCCTTTGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAT
* *
62618650 GGCCTTCGGGTCTTAAC
64 GGCCTTCGGGTATTAGC
* ** ** * *
62618667 CCAGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
62618714 TCATTCAATT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 6 0.06
80 98 0.93
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAGC
Found at i:62625525 original size:27 final size:26
Alignment explanation
Indices: 62625495--62625548 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
62625485 TCATTAACAT
* *
62625495 TTGGGTCTCAACCCATCACAGTATCAA
1 TTGGGCCT-AACCCATCACAGAATCAA
* *
62625522 TTGGGCCTAGCCCATCTCAGAATCAA
1 TTGGGCCTAACCCATCACAGAATCAA
62625548 T
1 T
62625549 ATCAGTTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (26 bp):
TTGGGCCTAACCCATCACAGAATCAA
Found at i:62625552 original size:32 final size:32
Alignment explanation
Indices: 62625516--62625579 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
62625506 CCCATCACAG
*
62625516 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAATTGGGCCTAGCCCATATCAGAATCAA
* *
62625548 TATCAGTTGGGCCTAGCCTATATCAGAATCAA
1 TATCAATTGGGCCTAGCCCATATCAGAATCAA
62625580 ACCCATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (32 bp):
TATCAATTGGGCCTAGCCCATATCAGAATCAA
Found at i:62629131 original size:20 final size:20
Alignment explanation
Indices: 62629102--62629146 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
62629092 AACACATGTA
* *
62629102 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
62629122 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
62629142 TTCAT
1 TTCAT
62629147 TTTAGTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:62630411 original size:58 final size:58
Alignment explanation
Indices: 62630316--62630437 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
62630306 TTGTGAAAAT
62630316 GAGAAATTGAGGGGCTAAAATGTGAAATAAATAAAATATGTGGACTTATATGGGTTAA
1 GAGAAATTGAGGGGCTAAAATGTGAAATAAATAAAATATGTGGACTTATATGGGTTAA
*
62630374 GAGAAATTGAGGGGCTAAAATGTGAAATAAATGAAATATGTGGACTTATATGGGTTAA
1 GAGAAATTGAGGGGCTAAAATGTGAAATAAATAAAATATGTGGACTTATATGGGTTAA
62630432 GAGAAA
1 GAGAAA
62630438 ATTTGGCTAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.43, C:0.03, G:0.27, T:0.26
Consensus pattern (58 bp):
GAGAAATTGAGGGGCTAAAATGTGAAATAAATAAAATATGTGGACTTATATGGGTTAA
Found at i:62634195 original size:21 final size:21
Alignment explanation
Indices: 62634152--62634195 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
62634142 TATATCTACT
*
62634152 CAAGGCAATTATAATTCAAAA
1 CAAGGCAATTACAATTCAAAA
*
62634173 CAAGGGAATTACAA-TCAATAA
1 CAAGGCAATTACAATTCAA-AA
62634194 CA
1 CA
62634196 GCAGAACTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.16, G:0.11, T:0.20
Consensus pattern (21 bp):
CAAGGCAATTACAATTCAAAA
Found at i:62650747 original size:47 final size:47
Alignment explanation
Indices: 62650691--62651693 Score: 1713
Period size: 47 Copynumber: 21.4 Consensus size: 47
62650681 ATGTATGAGA
62650691 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62650738 TGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62650785 TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62650832 TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
62650879 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62650926 TGCATATATGAGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62650972 TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651019 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651066 TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
62651113 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62651160 TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62651207 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651254 TGTATATATGAGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651301 TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
62651348 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62651395 TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651442 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651489 TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651536 TGTATATATGTAATAAGGCCTAATGGCCCATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
62651583 TGCATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAG
* * * *
62651630 TGTATATATGTGATAAGGCCCAGTGGCCAATGTGATGGATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62651677 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
62651694 TCCCGAAGGG
Statistics
Matches: 907, Mismatches: 46, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
46 45 0.05
47 861 0.95
48 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:62651605 original size:25 final size:25
Alignment explanation
Indices: 62651577--62651648 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 25
62651567 GTGATGAATG
62651577 TGAAAGTGCATATATGTGATAAGGC
1 TGAAAGTGCATATATGTGATAAGGC
* * *
62651602 TGAATG-GC-CA-ATGTGATGAATG-
1 TGAAAGTGCATATATGTGAT-AAGGC
*
62651624 TGAAAGTGTATATATGTGATAAGGC
1 TGAAAGTGCATATATGTGATAAGGC
62651649 CCAGTGGCCA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
22 12 0.34
23 5 0.14
24 6 0.17
25 12 0.34
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (25 bp):
TGAAAGTGCATATATGTGATAAGGC
Found at i:62653987 original size:120 final size:120
Alignment explanation
Indices: 62653760--62654001 Score: 387
Period size: 120 Copynumber: 2.0 Consensus size: 120
62653750 GAGAATTGAG
*
62653760 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCG
1 AGTGATACATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCG
* **
62653825 AAGAGCATTCGTGCTAGTGATATAACCGGACTAAGTTCCGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATATAACCGGACAAACCTCCGAAGAGCATTCGTGCT
*
62653880 AGTGATACATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
1 AGTGATACATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCG
** * *
62653945 AAGAGCATTCGTGCTAGTGATATATTCGGGCGAAACCT-CGAAGAGCATTTGTGCT
66 AAGAGCATTCGTGCTAGTGATATAACCGGAC-AAACCTCCGAAGAGCATTCGTGCT
62654000 AG
1 AG
62654002 AATTATGAGG
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 109 0.97
121 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (120 bp):
AGTGATACATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCG
AAGAGCATTCGTGCTAGTGATATAACCGGACAAACCTCCGAAGAGCATTCGTGCT
Found at i:62654001 original size:40 final size:40
Alignment explanation
Indices: 62653760--62653969 Score: 393
Period size: 40 Copynumber: 5.2 Consensus size: 40
62653750 GAGAATTGAG
62653760 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
62653800 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
62653840 AGTGATATAACCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
62653880 AGTGATACATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
62653920 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
62653960 AGTGATATAT
1 AGTGATATAT
62653970 TCGGGCGAAA
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:62658646 original size:79 final size:79
Alignment explanation
Indices: 62658563--62658713 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 79
62658553 GGTTATAGTG
* * * *
62658563 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAATGCCTTCGGGCT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGACT
*
62658626 TAGCGCGGATTTATTA
64 TAGCCCGGATTTATTA
** *
62658642 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGACTTA
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGACTTA
62658707 GCCCGGA
66 GCCCGGA
62658714 CATCATTCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.05
79 52 0.84
80 7 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGACTTA
GCCCGGATTTATTA
Found at i:62658655 original size:39 final size:40
Alignment explanation
Indices: 62658536--62658661 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
62658526 CGCTCAAATT
* *
62658536 CCTTCGGGAC-GAAGCCCGG-TTATAGTGACTCGCACGAATG
1 CCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCACGAATG
* * *
62658576 CCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATG
* * *
62658616 CCTTCGGG-CTTAGCGCGGATTTATTAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATG
62658655 CCTTCGG
1 CCTTCGG
62658662 ATCCTAGTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 32 0.43
40 38 0.51
41 4 0.05
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATG
Found at i:62670037 original size:29 final size:29
Alignment explanation
Indices: 62669995--62670155 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
62669985 GTGACGAGAT
62669995 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
62670024 TGGCACTAAGTGTGCGTGCTGGAATTATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
62670053 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
62670082 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
62670111 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
62670140 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62670156 AAATCGAGTA
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.02
29 113 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:62675431 original size:39 final size:39
Alignment explanation
Indices: 62675320--62675463 Score: 180
Period size: 39 Copynumber: 3.6 Consensus size: 39
62675310 GTTCAAAACA
* * ** * *
62675320 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
62675360 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
62675400 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
62675439 CCTTCGGGCTTAGCCCGGATATCAT
1 CCTTCGGGCTTAGCCCGGATATCAT
62675464 TCGAACATTC
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 51 0.56
40 40 0.44
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:62678016 original size:78 final size:79
Alignment explanation
Indices: 62677882--62678027 Score: 190
Period size: 78 Copynumber: 1.9 Consensus size: 79
62677872 GGTTATAGTG
* * *
62677882 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACAAATGCCTTCAGG-CTT
1 ACTCGCACGAATGCCTTCGGGACCTAACCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTT
62677946 AGCGCGATTTATTA
66 AGCGCGATTTATTA
** * *
62677960 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGAC
1 ACTCGCACGAATGCCTTCGGGA-CCTAACCCGGATATAGTAACTT-GCACAAATGCCTTCAGGAC
62678023 TTAGC
64 TTAGC
62678028 CCGGACATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
77 3 0.05
78 42 0.72
79 13 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGGACCTAACCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTT
AGCGCGATTTATTA
Found at i:62678032 original size:40 final size:39
Alignment explanation
Indices: 62677842--62678032 Score: 136
Period size: 40 Copynumber: 4.8 Consensus size: 39
62677832 GGATATAACG
* ** * *
62677842 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
62677882 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
62677922 ACTTGCACAAATGCCTTCAGG-CTTAGCGC-GATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
62677960 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
62678000 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
62678033 CATCATTCGA
Statistics
Matches: 116, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
37 2 0.02
38 20 0.17
39 15 0.13
40 69 0.59
41 10 0.09
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:62679788 original size:47 final size:47
Alignment explanation
Indices: 62679719--62680420 Score: 1172
Period size: 47 Copynumber: 15.0 Consensus size: 47
62679709 GGCTGTCACA
62679719 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
62679766 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * *
62679813 CGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGAGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
62679860 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
62679907 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
62679954 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * ** *
62680001 CGAATGGCCAATGTGATGAATGTGAAAGTACATATATGAGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
62680048 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
62680095 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
62680142 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * *
62680189 CGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGAGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
62680236 GTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
62680283 CTAATGGCCCATGTGATGAATGTGAAAGTGCATATATGTGATAA-GC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
62680329 CAAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * * *
62680376 CGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62680421 TCCCGAAGGG
Statistics
Matches: 613, Mismatches: 41, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
46 43 0.07
47 570 0.93
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:62692554 original size:25 final size:27
Alignment explanation
Indices: 62692514--62692565 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
62692504 CTTAGCTCCG
62692514 GTGAACATCCCAATTAAA-GGCTCTTC
1 GTGAACATCCCAATTAAATGGCTCTTC
*
62692540 GTGAGCATCCC-ATTAAATTGGCTCTT
1 GTGAACATCCCAATTAAA-TGGCTCTT
62692566 TATAAGCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 10 0.43
27 7 0.30
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (27 bp):
GTGAACATCCCAATTAAATGGCTCTTC
Found at i:62692675 original size:24 final size:24
Alignment explanation
Indices: 62692619--62692675 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
62692609 CTATCCAGAG
* *
62692619 CTTCCCAATATGGTTCTTTGTGAA
1 CTTCCCGATAAGGTTCTTTGTGAA
*
62692643 CTTCTCGATAAGGTTCTTTGTGAA
1 CTTCCCGATAAGGTTCTTTGTGAA
62692667 CTTCCCGAT
1 CTTCCCGAT
62692676 TATGGCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (24 bp):
CTTCCCGATAAGGTTCTTTGTGAA
Found at i:62698442 original size:79 final size:81
Alignment explanation
Indices: 62698341--62698525 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
62698331 ACGACTCGCT
** * *
62698341 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
62698404 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
62698421 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
62698485 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
62698501 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62698526 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:62698525 original size:40 final size:39
Alignment explanation
Indices: 62698334--62698525 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
62698324 GGATATAACG
* ** * *
62698334 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
62698374 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
62698414 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
62698453 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
62698493 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
62698526 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:62706501 original size:79 final size:81
Alignment explanation
Indices: 62706400--62706584 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
62706390 ACGACTCGCT
** * *
62706400 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
62706463 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
62706480 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
62706544 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
62706560 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62706585 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:62706584 original size:40 final size:39
Alignment explanation
Indices: 62706393--62706584 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
62706383 GGATATAACG
* ** * *
62706393 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
62706433 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
62706473 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
62706512 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
62706552 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
62706585 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:62713349 original size:39 final size:39
Alignment explanation
Indices: 62713253--62713475 Score: 283
Period size: 39 Copynumber: 5.7 Consensus size: 39
62713243 TCGAATGATG
* *
62713253 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
62713293 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
62713332 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
62713371 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
62713411 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
62713451 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62713476 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.01
39 83 0.51
40 70 0.43
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:62713467 original size:118 final size:119
Alignment explanation
Indices: 62713253--62713475 Score: 310
Period size: 118 Copynumber: 1.9 Consensus size: 119
62713243 TCGAATGATG
* * *
62713253 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
* *
62713318 GTGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* **
62713372 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCAT
*
62713434 TTGTGCGAGTTACTATAACCGGGCTATGT-CCGAAGGCATTTG
64 TTGTGCGAGTTACTA-AACCGGGCTAAGTCCCGAAGGCATTTG
62713476 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
117 1 0.01
118 64 0.70
119 27 0.29
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:62713482 original size:79 final size:78
Alignment explanation
Indices: 62713253--62713508 Score: 313
Period size: 79 Copynumber: 3.3 Consensus size: 78
62713243 TCGAATGATG
* * * *
62713253 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCGAAGGCATT
62713317 TGTGCGAGTTACT-AA
64 TGTGCGAG-TACTAAA
* *
62713332 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAGCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCGAAGGCATTT
62713396 GTGCGAGTCACTAAA
65 GTGCGAGT-ACTAAA
* *
62713411 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTG
** *
62713476 AACGAGTAGCTATA
66 TGCGAGTA-CTAAA
* *
62713490 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62713509 TACGTGATTC
Statistics
Matches: 156, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 37 0.24
79 110 0.71
80 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTG
TGCGAGTACTAAA
Found at i:62721069 original size:40 final size:40
Alignment explanation
Indices: 62721012--62721236 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
62721002 TCGAATGATG
*
62721012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACTAAA
* * *
62721052 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTGACTAAA
* * * *
62721092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAA
* * *
62721132 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAA
* * *
62721171 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTA-AA
*
62721212 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62721237 AACAGTAGCT
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 36 0.22
40 118 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:62721175 original size:79 final size:80
Alignment explanation
Indices: 62721012--62721234 Score: 317
Period size: 79 Copynumber: 2.8 Consensus size: 80
62721002 TCGAATGATG
* * * * *
62721012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
* *
62721076 TGTGCGAGTTACTAAA
65 GGTGCGAGTCACTAAA
62721092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
62721155 GGTGCGAGTCACTAAA
65 GGTGCGAGTCACTAAA
* * *
62721171 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
62721235 TGAACAGTAG
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
79 73 0.56
80 50 0.38
81 7 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTCACTAAA
Found at i:62721235 original size:119 final size:120
Alignment explanation
Indices: 62721012--62721236 Score: 323
Period size: 119 Copynumber: 1.9 Consensus size: 120
62721002 TCGAATGATG
* * *
62721012 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
*
62721077 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* **
62721132 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCAT
*
62721194 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
64 TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTG
62721237 AACAGTAGCT
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
118 1 0.01
119 74 0.79
120 19 0.20
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:62726823 original size:20 final size:20
Alignment explanation
Indices: 62726798--62726841 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
62726788 TGACCATTGT
62726798 CATATTCGGCCATAAGCTAG
1 CATATTCGGCCATAAGCTAG
62726818 CATATTCGGCCATAAGCTAG
1 CATATTCGGCCATAAGCTAG
62726838 CATA
1 CATA
62726842 ATGAGACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
CATATTCGGCCATAAGCTAG
Found at i:62727341 original size:79 final size:78
Alignment explanation
Indices: 62727161--62727379 Score: 300
Period size: 79 Copynumber: 2.8 Consensus size: 78
62727151 TCGAATGATG
* * * * ** *
62727161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACTATAT-CGGACTAAGATCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCATTGG
*
62727224 TGCGAGTTACTAA
66 TGCGAGTCACTAA
62727237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAGCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCATTG
62727301 GTGCGAGTCACTAAA
65 GTGCGAGTCACT-AA
* *
62727316 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCATT
62727380 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
76 21 0.17
77 15 0.12
78 29 0.23
79 49 0.39
80 13 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCATTGG
TGCGAGTCACTAA
Found at i:62727345 original size:40 final size:40
Alignment explanation
Indices: 62727161--62727381 Score: 285
Period size: 39 Copynumber: 5.7 Consensus size: 40
62727151 TCGAATGATG
* * *
62727161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62727200 T-CGGACTAAGAT--CGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62727237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62727277 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62727316 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62727357 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62727382 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
37 10 0.06
38 28 0.18
39 60 0.38
40 58 0.37
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62727403 original size:79 final size:78
Alignment explanation
Indices: 62727161--62727414 Score: 288
Period size: 79 Copynumber: 3.3 Consensus size: 78
62727151 TCGAATGATG
* * * * *
62727161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACTAT-ATCGGACTAAGAT--CGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
62727222 TGTGCGAGTTACTAA
65 TGTGCGAG-TACTAA
*
62727237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
62727300 GGTGCGAGTCACTAAA
65 TGTGCGAGT-ACT-AA
*
62727316 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
**
62727381 GAACGAGTAGCTATA
66 GTGCGAGTA-CTA-A
* *
62727396 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62727415 TACGTGATTC
Statistics
Matches: 153, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
76 20 0.13
77 15 0.10
78 28 0.18
79 65 0.42
80 25 0.16
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAA
Found at i:62734918 original size:40 final size:40
Alignment explanation
Indices: 62734823--62734939 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
62734813 AGTCTTGTAC
* * * * * *
62734823 ATAGCCGAAGCTATCTCAAATCGCAAACTATGTGCCATAT
1 ATAGCCAAAGCTATGTCCAATCACACACTAAGTGCCATAT
**
62734863 ATAGCCGTAGCTATGTCCAATCACACACTAAGTGCCATAT
1 ATAGCCAAAGCTATGTCCAATCACACACTAAGTGCCATAT
* ** *
62734903 ATAGCCAAAGTTATGTCGTATCGCACACTAAGTGCCA
1 ATAGCCAAAGCTATGTCCAATCACACACTAAGTGCCA
62734940 CAAATAACTG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
ATAGCCAAAGCTATGTCCAATCACACACTAAGTGCCATAT
Found at i:62741556 original size:42 final size:42
Alignment explanation
Indices: 62741502--62741623 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
62741492 TTAGGGTTAC
62741502 TGAGATTATGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGACATCGATA
* * * * *
62741544 TGAGACTT-TGTGTATGACCATAGCTGGGCTATTGGCATTGATA
1 TGAGA-TTATGTGTAAGACCATATCTGGGATA-TGACATCGATA
* ** * *
62741587 CGAGATTACATATAAGACCATATTTGGGATATGACAT
1 TGAGATTATGTGTAAGACCATATCTGGGATATGACAT
62741624 TGGTACGGTA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (42 bp):
TGAGATTATGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:62746797 original size:26 final size:27
Alignment explanation
Indices: 62746766--62746843 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
62746756 AGCTGCCAAA
*
62746766 AACAGTAAATGTGGCA-AGCCACCAGT
1 AACAGTAAATGTGGCATAACCACCAGT
* *
62746792 ATCAGTAATTGTGGCATAACCACCAGT
1 AACAGTAAATGTGGCATAACCACCAGT
* * *
62746819 AACAGTGAATGTGACATAATCACCA
1 AACAGTAAATGTGGCATAACCACCA
62746844 ATATATTACA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 14 0.33
27 29 0.67
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (27 bp):
AACAGTAAATGTGGCATAACCACCAGT
Found at i:62747021 original size:27 final size:26
Alignment explanation
Indices: 62746991--62747076 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
62746981 ATAATCGTCT
*
62746991 TTTTACTATATAAGGGTATTACGGTCA
1 TTTTACTCTA-AAGGGTATTACGGTCA
* * *
62747018 TTTTACCCTACAGGGTATTACGATCA
1 TTTTACTCTAAAGGGTATTACGGTCA
* * *
62747044 TTTTACTCTACAGGGGTATTATGGTTA
1 TTTTACTCTA-AAGGGTATTACGGTCA
62747071 TTTTAC
1 TTTTAC
62747077 AAATCGAGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 23 0.48
27 25 0.52
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (26 bp):
TTTTACTCTAAAGGGTATTACGGTCA
Found at i:62747034 original size:26 final size:26
Alignment explanation
Indices: 62747003--62747076 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
62746993 TTACTATATA
62747003 AGGGTATTACGGTCATTTTACCCTAC
1 AGGGTATTACGGTCATTTTACCCTAC
* *
62747029 AGGGTATTACGATCATTTTACTCTAC
1 AGGGTATTACGGTCATTTTACCCTAC
* *
62747055 AGGGGTATTATGGTTATTTTAC
1 A-GGGTATTACGGTCATTTTAC
62747077 AAATCGAGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 25 0.60
27 17 0.40
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
AGGGTATTACGGTCATTTTACCCTAC
Found at i:62747087 original size:27 final size:26
Alignment explanation
Indices: 62747057--62747294 Score: 156
Period size: 27 Copynumber: 8.9 Consensus size: 26
62747047 TACTCTACAG
* * *
62747057 GGGTATTATGGTTATTTTACAAATCGA
1 GGGTATTTTGGTAATTTCACAAAT-GA
*
62747084 GGGTATTTTGGTAATTTCACAAATTA
1 GGGTATTTTGGTAATTTCACAAATGA
* *
62747110 GGGGTATTTCGGTAATTTTACAAATTG-
1 -GGGTATTTTGGTAATTTCACAAA-TGA
*
62747137 GGGTATTTTGGTAATTTCACAAATTA
1 GGGTATTTTGGTAATTTCACAAATGA
* * * **
62747163 GGGATATTTCGATAATTTTACAACCCGA
1 GGG-TATTTTGGTAATTTCACAA-ATGA
* * * * *
62747191 -TGTACTTCGATAATTTCACAAATCA
1 GGGTATTTTGGTAATTTCACAAATGA
* * *
62747216 GGGGTATTTTAGTAATTTTACAAATCA
1 -GGGTATTTTGGTAATTTCACAAATGA
* * * * *
62747243 CGTGTATTTCGATAATTTTACAAATTA
1 -GGGTATTTTGGTAATTTCACAAATGA
*
62747270 GGGGTATTTTGGTAATTTTACAAAT
1 -GGGTATTTTGGTAATTTCACAAAT
62747295 CGGGGACTTA
Statistics
Matches: 166, Mismatches: 38, Indels: 14
0.76 0.17 0.06
Matches are distributed among these distances:
25 2 0.01
26 42 0.25
27 120 0.72
28 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTCACAAATGA
Found at i:62747140 original size:80 final size:79
Alignment explanation
Indices: 62747055--62747299 Score: 267
Period size: 80 Copynumber: 3.1 Consensus size: 79
62747045 TTTACTCTAC
* * * * *
62747055 AGGGGTATTATGGTTATTTTACAAATCGAGGGTATTTTGGTAATTTCACAAATTAGGGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATC-AGGGTATTTCGATAATTTTACAAATTAGGGGTATTTC
62747120 GGTAATTTTACAAAT
65 GGTAATTTTACAAAT
* * * *** ** *
62747135 TGGGGTATTTTGGTAATTTCACAAATTAGGGATATTTCGATAATTTTAC-AACCCGATGTACTTC
1 AGGGGTATTTTGGTAATTTTACAAATCAGGG-TATTTCGATAATTTTACAAATTAGGGGTATTTC
* *
62747199 GATAATTTCACAAAT
65 GGTAATTTTACAAAT
* *
62747214 CAGGGGTATTTTAGTAATTTTACAAATCACGTGTATTTCGATAATTTTACAAATTAGGGGTATTT
1 -AGGGGTATTTTGGTAATTTTACAAATCA-GGGTATTTCGATAATTTTACAAATTAGGGGTATTT
*
62747279 TGGTAATTTTACAAAT
64 CGGTAATTTTACAAAT
*
62747295 CGGGG
1 AGGGG
62747300 ACTTAACTGC
Statistics
Matches: 130, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
79 26 0.20
80 81 0.62
81 23 0.18
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (79 bp):
AGGGGTATTTTGGTAATTTTACAAATCAGGGTATTTCGATAATTTTACAAATTAGGGGTATTTCG
GTAATTTTACAAAT
Found at i:62747156 original size:53 final size:53
Alignment explanation
Indices: 62747055--62747299 Score: 276
Period size: 53 Copynumber: 4.6 Consensus size: 53
62747045 TTTACTCTAC
* * *
62747055 AGGGGTATTAT-GGTTATTTTACAAATCGAGGGTATTTTGGTAATTTCACAAATT
1 AGGGGTATT-TCGGTAATTTTACAAATCG-GGGTATTTCGATAATTTCACAAATT
* * *
62747109 AGGGGTATTTCGGTAATTTTACAAATTGGGGTATTTTGGTAATTTCACAAATT
1 AGGGGTATTTCGGTAATTTTACAAATCGGGGTATTTCGATAATTTCACAAATT
* * ** ** * *
62747162 AGGGATATTTCGATAATTTTACAACCCGATGTACTTCGATAATTTCACAAATC
1 AGGGGTATTTCGGTAATTTTACAAATCGGGGTATTTCGATAATTTCACAAATT
** * * *
62747215 AGGGGTATTTTAGTAATTTTACAAATCACGTGTATTTCGATAATTTTACAAATT
1 AGGGGTATTTCGGTAATTTTACAAATC-GGGGTATTTCGATAATTTCACAAATT
*
62747269 AGGGGTATTTTGGTAATTTTACAAATCGGGG
1 AGGGGTATTTCGGTAATTTTACAAATCGGGG
62747300 ACTTAACTGC
Statistics
Matches: 162, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
53 91 0.56
54 71 0.44
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AGGGGTATTTCGGTAATTTTACAAATCGGGGTATTTCGATAATTTCACAAATT
Found at i:62751124 original size:43 final size:42
Alignment explanation
Indices: 62751023--62751127 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
62751013 CCCAGATATA
* * * * *
62751023 GTCTTACATGTTATAACATACCGATGCCACTATCCCAAACAG
1 GTCTTACATGTAATCACATAACAATGCCAATATCCCAAACAG
* * * *
62751065 GATCTTACAAGAAATCATATAACAATGCCAATGTCCCAAACATG
1 G-TCTTACATGTAATCACATAACAATGCCAATATCCCAAACA-G
62751109 GTCTTACATGTAATCACAT
1 GTCTTACATGTAATCACAT
62751128 CTAGGTAATC
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
42 1 0.02
43 46 0.94
44 2 0.04
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (42 bp):
GTCTTACATGTAATCACATAACAATGCCAATATCCCAAACAG
Found at i:62753860 original size:40 final size:40
Alignment explanation
Indices: 62753797--62753892 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
62753787 ACTCGATATC
* *
62753797 TCGCA-ACTAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* * *
62753836 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
62753876 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
62753893 CAAATAACTG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.10
40 46 0.90
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
Found at i:62757191 original size:40 final size:40
Alignment explanation
Indices: 62757147--62757276 Score: 167
Period size: 40 Copynumber: 3.2 Consensus size: 40
62757137 ACTCATTCAA
*
62757147 ATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAG
1 ATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAG
* *
62757187 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAG
* *
62757227 ATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA-TG
1 ATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAG
62757266 AATGCCTTCGG
1 -ATGCCTTCGG
62757277 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
39 3 0.04
40 73 0.92
41 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAG
Found at i:62765131 original size:40 final size:40
Alignment explanation
Indices: 62765094--62765226 Score: 144
Period size: 40 Copynumber: 3.3 Consensus size: 40
62765084 GCTACTCGTT
*
62765094 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* * *
62765134 CAGATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
62765174 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* *
62765214 CGAATGCTTTCGG
1 CAAATGCCTTCGG
62765227 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.04
40 73 0.92
41 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:62768822 original size:22 final size:22
Alignment explanation
Indices: 62768794--62768839 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
62768784 CCATTTTTGT
62768794 TTCAGCTCTAT-AGAGCTTACCG
1 TTCAGCTCT-TCAGAGCTTACCG
62768816 TTCAGCTCTTCAGAGCTTACCG
1 TTCAGCTCTTCAGAGCTTACCG
62768838 TT
1 TT
62768840 TATCAGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (22 bp):
TTCAGCTCTTCAGAGCTTACCG
Found at i:62786679 original size:22 final size:22
Alignment explanation
Indices: 62786654--62786696 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
62786644 TTTCTGTTTC
62786654 AGCTTTACGAAGCTTACCGTTA
1 AGCTTTACGAAGCTTACCGTTA
* *
62786676 AGCTTTTCGGAGCTTACCGTT
1 AGCTTTACGAAGCTTACCGTT
62786697 TATCAGCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (22 bp):
AGCTTTACGAAGCTTACCGTTA
Found at i:62787670 original size:27 final size:27
Alignment explanation
Indices: 62787640--62787978 Score: 333
Period size: 27 Copynumber: 12.6 Consensus size: 27
62787630 TTAGTTTACC
62787640 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
62787667 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
62787694 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
62787721 AAATTACCAAAATATTCTTGGTTTAAA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
62787748 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
62787775 AAATTA-CTAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
62787801 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
62787828 AAATTACCAAAATACCACTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
62787855 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
62787882 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
62787909 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
62787936 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
62787963 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
62787979 ATTGATTTCC
Statistics
Matches: 260, Mismatches: 49, Indels: 5
0.83 0.16 0.02
Matches are distributed among these distances:
26 25 0.10
27 234 0.90
28 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:62787830 original size:107 final size:108
Alignment explanation
Indices: 62787631--62787888 Score: 376
Period size: 107 Copynumber: 2.4 Consensus size: 108
62787621 TAGAATACTT
** *
62787631 TAGTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAA
1 TAGTTTAAAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAA
* * *
62787696 ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATATTC-T
66 ATCACCAAAATACCCCTGGTTTATAAAATTACCAAAATA-CCAC
* * *
62787739 TGGTTTAAAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTA-AATACCTTTTGTTTATAAA
1 TAGTTTAAAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAA
*
62787803 ATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCAC
66 ATCACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCAC
** *
62787846 TAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTAC
1 TAGTTTAAAAAATTACCAAAATACCCCTAGTTTGTAAAATTAC
62787889 CAAAATATCC
Statistics
Matches: 135, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
106 1 0.01
107 93 0.69
108 41 0.30
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (108 bp):
TAGTTTAAAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAA
ATCACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCAC
Found at i:62788046 original size:27 final size:27
Alignment explanation
Indices: 62788006--62788468 Score: 581
Period size: 27 Copynumber: 17.2 Consensus size: 27
62787996 CCGTTTTACC
*
62788006 ATTACCGAAATACCCTTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
62788033 AATACCGAAATACCTCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* **
62788060 ATTACCGGAATACCTATGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
62788087 ATTACCGGAATACCCTTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
**
62788114 ATTACCGAAATACCCCTAAAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
62788141 TTTACTGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
*
62788168 ATTACCGGAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
62788195 ATTACTGGAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
62788222 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
*
62788249 ATTACCGAAATACCCCTGTATGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * * *
62788276 ATTATCGGAATATCCCTATAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
62788303 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
62788330 ATTATCGCAATA-CCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * **
62788356 ATTATCGCAATACCTATGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
**
62788383 ATTACCGAAATACCTTTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
** * *
62788410 ATTACTAAAATACCCCTATAGGGTGGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * *
62788437 ATTACC-AAGATA-CCTTGTGGGGTAAA
1 ATTACCGAA-ATACCCCTGTAGGGTAGA
62788463 ATTACC
1 ATTACC
62788469 ATTTTGCCCC
Statistics
Matches: 383, Mismatches: 51, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
26 43 0.11
27 340 0.89
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGA
Found at i:62788946 original size:22 final size:22
Alignment explanation
Indices: 62788894--62788958 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
62788884 TTAAAGCCTT
* *
62788894 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
62788916 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
62788938 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
62788959 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:62789172 original size:27 final size:27
Alignment explanation
Indices: 62789142--62789218 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
62789132 TATCTTTTTT
*
62789142 TGGTGGCTATGCCACAAATATCTGT-TC
1 TGGTGGCTATACCAC-AATATCTGTATC
*
62789169 TGGTGGCTCTACCACAATATCTGTATC
1 TGGTGGCTATACCACAATATCTGTATC
* * *
62789196 TGGTGACTCTATCACAATATCTG
1 TGGTGGCTATACCACAATATCTG
62789219 ATAACTGAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.20
27 36 0.80
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
TGGTGGCTATACCACAATATCTGTATC
Found at i:62789398 original size:25 final size:25
Alignment explanation
Indices: 62789368--62789420 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
62789358 CTGATTTTTT
* *
62789368 ATTCTGTTACCTGATACTGATTCTG
1 ATTCTGTCACCTAATACTGATTCTG
*
62789393 ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGTCACCTAATACTGATTCTG
62789418 ATT
1 ATT
62789421 ATGATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (25 bp):
ATTCTGTCACCTAATACTGATTCTG
Found at i:62789446 original size:18 final size:18
Alignment explanation
Indices: 62789406--62789458 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
62789396 CTGTCACCTA
* *
62789406 ATTCTGATTCTGATTATG
1 ATTCTTATTCTGATAATG
62789424 ATTC-TAGTTCTGATAATG
1 ATTCTTA-TTCTGATAATG
*
62789442 TTTCTTATTCTG-TAATG
1 ATTCTTATTCTGATAATG
62789459 GGTTAAAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 6 0.20
18 22 0.73
19 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (18 bp):
ATTCTTATTCTGATAATG
Found at i:62791411 original size:27 final size:27
Alignment explanation
Indices: 62791380--62791673 Score: 286
Period size: 27 Copynumber: 11.0 Consensus size: 27
62791370 TAGAATACTT
**
62791380 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
62791407 TAGTTTGTAAAATTACAAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
62791434 TGGTTTATAAAATCACCAAAATACTCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * **
62791461 TGGTTTGTAAAATTACCAAAATACCAT
1 TAGTTTATAAAATTACCAAAATACCCC
* *
62791488 TAGTTTACAAAATTACAAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
62791515 TAGTTTGTAAAATTACTAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
* *
62791542 TTGTTTATAAAATTACTAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* *
62791569 TGGTTTGT-AAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * **
62791595 TGGTTTGTAAAATTATGAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* *
62791622 TAGTTT-GAAAATTACCAAAATATCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * **
62791648 TAATTTGTGAAATTACTGAAATACCC
1 TAGTTTATAAAATTACCAAAATACCC
62791674 TCGACCTGTA
Statistics
Matches: 220, Mismatches: 45, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 46 0.21
27 174 0.79
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:62791454 original size:54 final size:54
Alignment explanation
Indices: 62791389--62791648 Score: 353
Period size: 54 Copynumber: 4.8 Consensus size: 54
62791379 TTAGTTTACC
*
62791389 AAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *
62791443 AAATCACCAAAATACTCCTGGTTTGTAAAATTACCAAAATACCATTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
62791497 AAATTACAAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
62791551 AAATTACTAAAATACCCCTGGTTTGT-AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
**
62791604 AAATTATGAAAATACCCCTAGTTTG-AAAATTACCAAAATATCCCT
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCT
62791649 AATTTGTGAA
Statistics
Matches: 179, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 59 0.33
54 120 0.67
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:62791728 original size:27 final size:27
Alignment explanation
Indices: 62791519--62791716 Score: 106
Period size: 27 Copynumber: 7.4 Consensus size: 27
62791509 TACCCCTAGT
* * *
62791519 TTGTAAAATTACTAAAATACCCTTTG-T
1 TTGTAAAATTACTGAAATACCC-TCGAC
* * **
62791546 TTATAAAATTACTAAAATACCC-CTGGT
1 TTGTAAAATTACTGAAATACCCTC-GAC
** **
62791573 TTGT-AAATTACCAAAATACCC-CTGGT
1 TTGTAAAATTACTGAAATACCCTC-GAC
* *
62791599 TTGTAAAATTA-TGAAAATACCC-CTAG
1 TTGTAAAATTACTG-AAATACCCTCGAC
** * *
62791625 TT-TGAAAATTACCAAAATATCCCT-AAT
1 TTGT-AAAATTACTGAAATA-CCCTCGAC
*
62791652 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
* *
62791679 CTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
62791706 TTGTAAAATTA
1 TTGTAAAATTA
62791717 TCAAAGTACC
Statistics
Matches: 139, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.01
26 44 0.32
27 93 0.67
28 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:62791800 original size:27 final size:27
Alignment explanation
Indices: 62791770--62792041 Score: 269
Period size: 27 Copynumber: 10.1 Consensus size: 27
62791760 TTACAAAATG
* *
62791770 ACCGAAATACCCTTGTAGGGTAGAAAT
1 ACCGAAATACCCCTGTAGGGTAGAATT
*
62791797 ACCGGAATACCCCTGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* *
62791824 ACCGGAATAACCCTGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
62791851 ACC-AGAATACCCCTGTAGGGTAGAATT
1 ACCGA-AATACCCCTGTAGGGTAGAATT
* *
62791878 ACAGAAATACCCCTATAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * * * *
62791905 ATCGCAATACCCTTGTAAGGTAAAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * *
62791932 ATCGCAATACCCATGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
** **
62791959 ATTGAAATACCCCTGTATTGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
** * *
62791986 ACTAAAATACCCCTATAGGGTGGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * * * *
62792013 ACTGAGATA-CCTTGTGGGGTAAAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
62792039 ACC
1 ACC
62792042 ATTTTGCCCC
Statistics
Matches: 206, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 14 0.07
27 191 0.93
28 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
ACCGAAATACCCCTGTAGGGTAGAATT
Found at i:62792520 original size:22 final size:22
Alignment explanation
Indices: 62792468--62792532 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
62792458 TTAAAGCCTT
*
62792468 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
62792490 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
* *
62792512 TTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
62792533 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:62792721 original size:27 final size:27
Alignment explanation
Indices: 62792691--62792779 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
62792681 ATTCTGTTAA
*
62792691 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
*
62792718 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
* * * *
62792745 GTGGCTCTACCATAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
*
62792772 GTGACTTT
1 GTGGCTTT
62792780 ATCACTGTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 8 0.15
27 37 0.71
28 7 0.13
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:62794587 original size:40 final size:40
Alignment explanation
Indices: 62794490--62794708 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
62794480 CGAATGATGT
* * * * *
62794490 CCGGGCTAAGTCCCGAGGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
62794531 CTGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
62794571 CCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
62794611 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
62794651 CCGGGCTAATTCCCGAAGGCAATTGTGTGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
62794691 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
62794709 ACAATCGAGC
Statistics
Matches: 153, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
40 130 0.85
41 23 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:62794704 original size:120 final size:121
Alignment explanation
Indices: 62794490--62794708 Score: 298
Period size: 120 Copynumber: 1.8 Consensus size: 121
62794480 CGAATGATGT
* * * *
62794490 CCGGGCTAAGTCCCGAGGGCTTTTGTGCTAAGTGACTAAATCTGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
62794555 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACCAAAA
* * *
62794611 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * * *
62794674 TGTGTGAATTACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
62794709 ACAATCGAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
119 1 0.01
120 58 0.69
121 25 0.30
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACCAAAA
Found at i:62799179 original size:2 final size:2
Alignment explanation
Indices: 62799135--62799161 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62799125 CTCATTGTTT
62799135 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
62799162 TGAAGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62799376 original size:12 final size:12
Alignment explanation
Indices: 62799359--62799383 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62799349 ACATTGCTTA
62799359 TTAGATTATTTC
1 TTAGATTATTTC
62799371 TTAGATTATTTC
1 TTAGATTATTTC
62799383 T
1 T
62799384 AATTCACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTAGATTATTTC
Found at i:62800191 original size:19 final size:19
Alignment explanation
Indices: 62800169--62800224 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
62800159 TTTTTATTGA
62800169 TTTTTTTTATCATGAAAGC
1 TTTTTTTTATCATGAAAGC
*
62800188 TTTTGATTTT-T-AT---AGA
1 TTTT--TTTTATCATGAAAGC
62800204 TTTTTTTTATCATGAAAGC
1 TTTTTTTTATCATGAAAGC
62800223 TT
1 TT
62800225 GATTAAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
14 4 0.14
15 1 0.04
16 8 0.29
19 10 0.36
20 1 0.04
21 4 0.14
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTTTTTATCATGAAAGC
Done.